[{"hash":"1820799045516903575","title":"Ubiquitin-Proteasome Regulation in Cell Cycle","description":"The top GO terms cluster around ubiquitination and proteasome-driven protein degradation (polyubiquitination, SCF-dependent proteolysis, ERAD), together with cell division and centromere/chromatin assembly (CENP-A) and microtubule severing, all pointing to tightly coordinated protein turnover during cell cycle progression. A secondary signal of ER-Golgi transport is present but likely reflects broader trafficking coupled to protein quality control. Therefore this cluster represents ubiquitin-mediated regulation coordinating division.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061641","count":9},{"id":"GO:0000209","count":9},{"id":"GO:0006888","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0051260","count":9}]},{"hash":"205067892188555011","title":"Wnt signaling in neural development and synaptic plasticity","description":"This cluster is dominated by GO terms for the Wnt signaling pathway, intracellular signal transduction, cerebellar granule cell differentiation, and regulation of synaptic plasticity via receptor localization to the synapse, which together point to a coherent role of Wnt-driven signaling in neural development and synaptic function. Some terms (mechanical stimulus response, endothelial/heart development) reflect broader or pleiotropic roles of Wnt signaling rather than a separate module.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016055","count":11},{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10}]},{"hash":"1623083056452115382","title":"Unknown","description":"The GO terms for this cluster are highly diverse, spanning mitochondrial autophagy, calcium import into mitochondria, and ROS regulation, but also developmental and behavioral processes (fin regeneration, epithelial differentiation, learning, fear response) and cilium assembly. There is no clear single function or pathway that ties the majority of proteins together, so a precise, cohesive label isn\u2019t supported.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":1},{"id":"GO:1903959","count":1},{"id":"GO:0006820","count":1},{"id":"GO:0001662","count":1},{"id":"GO:0036444","count":1}]},{"hash":"409474326475894208","title":"Small-Molecule Biosynthesis and Catabolism","description":"This cluster shows strong signals for biosynthetic processes across diverse small-molecule pathways (antibiotics, biotin, strigolactones) and several catabolic routes (triglyceride, uracil, phenylpropionate), along with detoxification and response to toxic substances. The combination suggests a broad metabolic module centered on building and breaking down small molecules and managing cellular stress.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0017000","count":11},{"id":"GO:0009636","count":8},{"id":"GO:0009102","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0098869","count":8}]},{"hash":"1223514388005012999","title":"Adipogenesis and Cell Signaling","description":"Rationale: The set is enriched for fat cell differentiation (GO:0045444) and Wnt signaling (GO:0016055), with supporting signals in intracellular signal transduction and cell cycle, pointing to regulation of adipocyte differentiation and associated signaling networks. Protein ubiquitination fits the turnover needed during differentiation, while translation terms are broadly common and less specific to this theme. Overall, adipogenesis-related signaling provides the most coherent theme for the cluster.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0045444","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0046677","count":4}]},{"hash":"322871759143492748","title":"ER-Golgi vesicle trafficking and mitosis","description":"The top GO terms show strong enrichment for ER-Golgi transport (COPII vesicle budding, Golgi\u2013ER and ER\u2013Golgi trafficking) and general protein transmembrane transport, indicating a core function in intracellular trafficking between ER and Golgi. Additional terms pointing to cell division and mitotic processes (mitotic cell cycle, mitotic spindle assembly, cell division) suggest these proteins also participate in or are coordinated with mitotic events. Taken together, the cluster seems to represent a module of vesicle trafficking components that may intersect with cell cycle regulation, hence the combined label.","confidence":"Medium","size":29,"edges":41,"triangles":8,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090114","count":7},{"id":"GO:0006890","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0008283","count":7}]},{"hash":"2268163115395666007","title":"Neuronal Synapse Assembly and Vesicle Regulation","description":"The cluster centers on neuronal synapse formation and vesicle dynamics, with terms for synapse assembly, regulation of synaptic vesicle exocytosis, vesicle maturation, and related dendrite extension, indicating proteins involved in building synapses and controlling vesicle release. Some terms point to unrelated processes (angiogenesis, ribosomal export), but the dominant theme remains neuronal synapse formation and vesicle regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0042989","count":2},{"id":"GO:0016188","count":1},{"id":"GO:1903861","count":1}]},{"hash":"213620821889454763","title":"Cell cycle regulation and chromosomal dynamics","description":"The strongest signals are regulation of the cell cycle, positive regulation of cytokinesis, and regulation of centromeric sister chromatid cohesion, pointing to a core theme of cell division and chromosome dynamics. Additional terms involving nucleus-vacuole junctions and cortical microtubule localization suggest coordination of division with intracellular trafficking and cytoskeletal organization. Some terms related to development and cardiac physiology appear less directly connected and may reflect annotation breadth or pleiotropy, but the dominant pattern aligns with cell cycle control and chromosomal dynamics.","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":7},{"id":"GO:0080034","count":5},{"id":"GO:1904793","count":5},{"id":"GO:0032467","count":5},{"id":"GO:0070602","count":5}]},{"hash":"642198901890281387","title":"ER-Golgi Vesicle Trafficking and Cell Division","description":"This cluster is dominated by COPII vesicle budding and ER-Golgi transport terms, with overlap in mitotic cell cycle and spindle assembly, suggesting a cohesive role in vesicle trafficking coupled to cell division and growth.","confidence":"High","size":29,"edges":238,"triangles":875,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090114","count":10},{"id":"GO:0006890","count":10},{"id":"GO:0006888","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0008283","count":10}]},{"hash":"729908591422412675","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0006626","count":1}]},{"hash":"2189808367222515088","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":5},{"id":"GO:0016032","count":2},{"id":"GO:0071931","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0031145","count":1}]},{"hash":"963912316506235282","title":"Membrane trafficking and localization","description":"The top GO terms are strongly biased toward membrane-associated processes: regulation of ER-to-Golgi/protein exit, protein localization to endosomes, phospholipid translocation, and xenobiotic transmembrane transport. A few terms (cell adhesion, mitotic centrosome separation) are less central but do not override the prevailing theme of intracellular transport and localization across membranes. Overall, the cluster appears enriched for proteins involved in membrane trafficking and localization, with some peripheral roles in cell adhesion and cell division. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0052014","count":2},{"id":"GO:1902769","count":2},{"id":"GO:0036523","count":2}]},{"hash":"829608772597408517","title":"DNA Damage Response and Transcription Regulation","description":"The cluster shows a cohesive theme around transcription control (elongation, transcription-coupled processes) and DNA damage response (p53-mediated pathways, UV-induced regulation, nucleotide-excision repair). Translation regulation also features, suggesting coordination between gene expression and DNA damage signaling. A couple of differentiation terms seem incidental noise rather than core functions. ","confidence":"High","size":29,"edges":36,"triangles":9,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0040015","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0048235","count":1},{"id":"GO:1902164","count":1},{"id":"GO:0006414","count":1}]},{"hash":"1907447909873914909","title":"Protein ubiquitination and signaling regulation","description":"This cluster centers around protein ubiquitination and broad regulation of signaling pathways, including Wnt, innate immune signaling (NOD2, IL-12), endocrine processes (vasopressin secretion, fat cell differentiation), and vesicle trafficking (SNARE). The diversity suggests a general regulatory module rather than a single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":12},{"id":"GO:0033280","count":10},{"id":"GO:0045083","count":9},{"id":"GO:0016055","count":9},{"id":"GO:1904743","count":9}]},{"hash":"435435893039060830","title":"Hedgehog signaling in neural development","description":"This cluster is strongly characterized by neural development terms: smoothened signaling pathway, nervous system development, brain development, neural tube patterning, and interneuron migration, all pointing to Hedgehog signaling roles in neural patterning and brain formation. Although there are a few terms tied to liver development and copper homeostasis, the dominant theme across the top GO terms is Hedgehog-mediated neurodevelopment, making this a coherent label for the cluster.","confidence":"High","size":29,"edges":367,"triangles":2719,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0001889","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0021532","count":4}]},{"hash":"795426836846378746","title":"Unknown","description":"The GO terms are highly diverse (renin-angiotensin signaling, cilium assembly, Hedgehog/SMO signaling, small GTPase signaling, peroxisomal protein import, and even intron homing), with little overlapping function to define a single coherent theme. This makes it hard to assign a specific, representative label.","confidence":"","size":29,"edges":160,"triangles":242,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0002001","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0002019","count":1},{"id":"GO:0002035","count":1}]},{"hash":"1752550308806611691","title":"Ribosome biogenesis and translation","description":"The cluster shows strong signals for ribosome-related processes: cytosolic ribosome assembly, ribosomal large subunit biogenesis, translation, and rRNA processing, which together point to roles in making and assembling ribosomes and translating mRNA. Some other terms (e.g., centrosome duplication, spermatid development) appear as ancillary processes and may reflect broader cell-cycle or developmental contexts in this set, but the dominant theme is ribosome biogenesis and protein synthesis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0051298","count":1},{"id":"GO:0042273","count":1}]},{"hash":"1359395168726868847","title":"Chromatin Remodeling and Histone Modification","description":"This cluster is driven by GO terms centered on chromatin dynamics and histone modifications (chromatin remodeling; histone H2B acetylation; N-terminal peptidyl-lysine acetylation; ADP-ribosylation regulation), which together suggest a core function in regulating gene expression at the chromatin level. While some terms point to broader developmental or metabolic processes, the strongest and most coherent signal across the top terms is chromatin modification and transcriptional regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":5},{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1}]},{"hash":"1837019730779396944","title":"Actin-driven cell migration and protrusion formation","description":"This cluster is enriched for actin cytoskeleton\u2013related processes such as filopodium and lamellipodium assembly and overall cell migration, along with adhesion-dependent spreading. Activation of GTPases aligns with coordinated protrusion and motility, supporting cytoskeletal remodeling as the core function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0016477","count":2},{"id":"GO:2001275","count":2}]},{"hash":"2254025185916573830","title":"Reproductive hormone GPCR signaling","description":"The top GO terms point to hormone-driven signaling and GPCR-mediated pathways (activation of adenylate cyclase, PLC-activating GPCR signaling) with responses to thyroid-releasing hormone, LH, and FSH, as well as development of reproductive tissues (uterus, secondary sexual characteristics). While immune signaling via TLR8 appears, the dominant pattern is hormone signaling linked to reproductive biology. This supports a label centered on reproductive hormone GPCR signaling as representative of the cluster.","confidence":"Medium","size":29,"edges":10,"triangles":0,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":20},{"id":"GO:1905229","count":14},{"id":"GO:0007190","count":14},{"id":"GO:0071373","count":14},{"id":"GO:0034158","count":14}]},{"hash":"2048472727657462219","title":"Synaptic signaling and plasticity regulators","description":"The top GO terms point primarily to neural synapse-related functions: negative regulation of SNARE complex assembly (vesicle fusion), intracellular signal transduction at synapses, regulation of synaptic plasticity by receptor localization to the synapse, cerebellar granule cell differentiation, and Wnt signaling\u2014all highlighting neuronal signaling and synaptic development. While a few terms are peripheral (e.g., immune-related), the dominant theme is synaptic signaling and plasticity. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"1159385397579069320","title":"Unknown","description":"The terms span several biology areas (glutamatergic synaptic activity, adipocyte differentiation, cell cycle regulation, muscle stretch response, cell migration, telomere maintenance/capping, mRNA processing, and transcription regulation) with no clear shared function or pathway. The absence of edges among proteins suggests they are not functionally connected in this cluster, so no coherent label can be assigned beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1758907224842851757","title":"ER-Golgi trafficking and growth signaling","description":"This cluster centers on vesicle transport between the ER and Golgi (including retrograde Golgi-to-ER and ER-to-Golgi routes) and regulation of GTPase activity, suggesting a core role in trafficking. The presence of TORC1 signaling and mRNA transport terms ties these trafficking processes to cellular growth and gene expression control, while cell division and cohesion terms indicate coordination with the cell cycle. Additional hints from RNA methylation and ubiquitin ligase activity point to broader regulatory layers affecting RNA processing and protein turnover in this context. Overall, the proteins likely participate in ER-Golgi transport alongside growth- and division-related regulatory pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006890","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0070262","count":5}]},{"hash":"420876246211309434","title":"Membrane lipid translocation and vesicle trafficking","description":"This cluster prominently features GO terms for phospholipid translocation, endocytosis, and vacuole organization, all core facets of membrane trafficking. The presence of related terms like membrane repolarization and sodium export also suggests a broader theme of membrane dynamics and transport, rather than a single signaling pathway. Overall, the terms point to a cohesive theme around lipid movement and vesicular processing.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":3},{"id":"GO:1903416","count":2},{"id":"GO:0002329","count":2},{"id":"GO:0007033","count":2},{"id":"GO:0086009","count":2}]},{"hash":"1859518005347766185","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":49,"triangles":1,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":3},{"id":"GO:0031247","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0046295","count":2}]},{"hash":"1040126642080507016","title":"Hormone GPCR-cAMP Signaling","description":"The top GO terms are dominated by hormone signaling and GPCR pathways that activate adenylate cyclase and PKA (e.g., TRH, LH, FSH signaling, PLC-activating GPCR signaling), with developmental outcomes related to reproductive characteristics (uterus development, development of secondary male sexual characteristics). A Toll-like receptor 8 signaling term appears less central, but does not outweigh the core hormone- and GPCR-driven theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":29},{"id":"GO:0007190","count":29},{"id":"GO:0071373","count":29},{"id":"GO:0034158","count":29},{"id":"GO:0010738","count":29}]},{"hash":"2074449681311988571","title":"Cortical Actin Dynamics and Cell Polarity","description":"This cluster centers on processes tied to the cell cortex and cytoskeleton, including actin organization, localization of cortical components, polarity establishment, and cytokinesis-related events. The GO terms point to how cells regulate shape, cortical localization, and division machinery, suggesting a cohesive theme around cortical actin dynamics and polarity during cell division.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:2000100","count":1},{"id":"GO:0007118","count":1},{"id":"GO:0071476","count":1},{"id":"GO:0007050","count":1}]},{"hash":"1799206724753313732","title":"Growth, division, and gene expression regulation","description":"The GO terms point to both growth signaling (TORC1 signaling), mitotic processes (spindle orientation, mitotic cell cycle, cytokinesis-related activity), and gene expression/translation-related functions (mRNA transport, RNA Pol II transcription, rRNA maturation, GTPase activity regulation). This pattern suggests a cohesive theme of coordinating cell growth and division with gene expression machinery. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0000278","count":3}]},{"hash":"572485615367947612","title":"Plant Telomere Maintenance and Chromatin Remodeling","description":"This cluster centers on chromatin remodeling and telomere biology in plants, with terms like chromatin remodeling, shelterin complex assembly, repair of replication-born DSBs via SCE, and regulation of telomeric RNA localization. Plant-specific signals such as responses to ethylene and abscisic acid, and regulation of chlorophyll biosynthesis, further support a plant context, but the strongest shared function is telomere maintenance coupled with chromatin regulation.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":4},{"id":"GO:0016049","count":3},{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3}]},{"hash":"66345796015278819","title":"Glycosylation and proteoglycan biosynthesis","description":"The top GO terms are centered on protein glycosylation (O-linked mannose and N-linked via asparagine) and proteoglycan biosynthesis/catabolic processes (heparan sulfate), with some carbohydrate metabolic activity also represented. While a couple lipid biosynthesis terms appear, the strongest signal ties to glycosylation and proteoglycan assembly, justifying this label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006656","count":1},{"id":"GO:0006686","count":1},{"id":"GO:0071931","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0035269","count":1}]},{"hash":"861743112401183272","title":"Notch-regulated developmental differentiation","description":"This cluster shows enrichment for development-related GO terms (ovarian follicle development, imaginal disc-derived leg segmentation, intestinal epithelial cell development, meiotic division) together with clear involvement in regulating Notch signaling (positive and negative regulation). The common thread appears to be developmental fate decisions mediated by Notch pathway modulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007143","count":2},{"id":"GO:0016267","count":2},{"id":"GO:0002315","count":2},{"id":"GO:0001541","count":2},{"id":"GO:0060576","count":2}]},{"hash":"2180399053666270022","title":"Vesicle trafficking and fusion regulation","description":"The cluster\u2019s GO terms cluster around intracellular transport and vesicle dynamics: intracellular protein transport, regulation of vesicle fusion, COPII-coated vesicle cargo loading, and plasma membrane to endosome transport, with Rab signaling and endosomal trafficking as core themes. A few terms (cell cycle, lens fiber morphogenesis) may reflect pleiotropy or tissue-specific roles rather than the primary function, but the vesicle trafficking signal is dominant. This supports labeling the cluster as vesicle trafficking and fusion regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0006886","count":2},{"id":"GO:0032889","count":2},{"id":"GO:0031338","count":2},{"id":"GO:0070309","count":2}]},{"hash":"104792697829234315","title":"LDL receptor trafficking and cholesterol endocytosis","description":"Based on the Top Terms, several entries point to LDL receptor\u2013mediated catabolic/regulated endocytosis and receptor recycling, all linked to cholesterol transport. This suggests a shared function around lipoprotein receptor trafficking and cholesterol homeostasis, even though other terms (embryo axis, sporulation, pheromone maturation) appear unrelated noise that weakens overall cohesion.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0032802","count":1},{"id":"GO:0001920","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0002001","count":1}]},{"hash":"1887842631923298748","title":"Developmental signaling and differentiation","description":"The GO terms point to signaling pathways guiding development and differentiation across tissues: Wnt signaling, cerebellar granule cell differentiation, venous endothelial differentiation, and cardiac morphogenesis. Additional terms about intracellular signal transduction and regulation of synaptic plasticity indicate signaling roles, while immune-related terms and mechanotransduction terms suggest broader regulatory context. The scattered, low-frequency terms imply a general cluster of developmentally oriented signaling rather than a tightly cohesive pathway.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1065300388372602806","title":"Nucleocytoplasmic transport and nuclear pore assembly","description":"This cluster is enriched for GO terms related to moving molecules between the nucleus and cytoplasm, including nuclear pore complex assembly, nuclear import of ribosomal proteins and NLS-bearing proteins, mRNA export, and regulation of transcription by RNA Pol II. A smaller signal for intraciliary transport appears but the dominant theme is nucleocytoplasmic transport and pore assembly.","confidence":"High","size":28,"edges":354,"triangles":2742,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035735","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0006610","count":4}]},{"hash":"265089128318470367","title":"ECM adhesion and tissue development","description":"The top GO terms point to cell-matrix interactions (integrin signaling, calcium-independent adhesion, ECM assembly regulation) and extracellular matrix metabolism (hyaluronan processing), together with developmental processes (brain development, endodermal differentiation) and migratory/remodeling aspects (cellular extravasation). The presence of ubiquitin-dependent protein catabolic process and heterotrimerization suggests coordinated protein turnover and multi-subunit complex assembly that support adhesion and signaling during tissue formation. Some terms like chlorophyll biosynthetic process seem like annotation noise, but the core theme is ECM adhesion linked to development.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":6},{"id":"GO:0006511","count":5},{"id":"GO:0007420","count":4},{"id":"GO:1901202","count":4},{"id":"GO:0007161","count":4}]},{"hash":"1834022241329809934","title":"Chromatin regulation and transcription control","description":"This cluster centers on chromatin-related processes (DNA replication-dependent chromatin assembly, chromatin organization, heterochromatin formation, DNA repair) and transcription regulation (RNA polymerase II transcription and elongation, preinitiation complex assembly). The co-occurrence of these GO terms suggests a cohesive role in maintaining chromatin structure while coordinating transcription. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006335","count":1},{"id":"GO:0034613","count":1},{"id":"GO:0006261","count":1},{"id":"GO:0045899","count":1},{"id":"GO:0006368","count":1}]},{"hash":"55161674672630095","title":"Pigmentation-Linked Vesicle Transport and Ubiquitin Regulation","description":"The GO terms show a core theme of vesicle trafficking between the ER and Golgi (and retrograde transport) along with regulation of ubiquitin ligase activity and proteasomal degradation, plus a pigmentation-related term that often relates to melanosome trafficking. While other development terms appear, the strongest signal is coordinated protein transport and turnover in a cellular context that includes pigmentation. This justifies a label focused on vesicle transport and ubiquitin-mediated regulation with pigmentation relevance.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:1904668","count":2},{"id":"GO:0031146","count":2}]},{"hash":"530134284621933107","title":"Unknown","description":"GO terms span DNA replication and repair, meiotic/mitotic cell cycle regulation, and several signaling/dephosphorylation processes, with additional developmental terms like lymphangiogenesis. The lack of a single dominant theme and the sparse connectivity suggest these proteins do not form a cohesive functional module, so a unified label cannot be confidently assigned.","confidence":"","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070940","count":3},{"id":"GO:0001946","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0035753","count":3},{"id":"GO:0051531","count":3}]},{"hash":"731851179431432619","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms cluster around neuronal signaling and synaptic regulation, including intracellular signal transduction, Wnt signaling, cerebellar granule cell differentiation, and regulation of synaptic plasticity by receptor localization to the synapse, which together point to neural development and synaptic modulation as the core theme. Some terms (e.g., cardiac morphogenesis, IL-12 regulation) are peripheral, but the dominant signal is neuronal signaling and plasticity.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":2},{"id":"GO:0051384","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1}]},{"hash":"2255184442010212704","title":"GPCR-driven neural signaling and plasticity","description":"This cluster centers on GPCR-mediated signaling and downstream kinase regulation, with several terms related to neuronal development (axonogenesis, synaptic plasticity) and neural signaling (G protein-coupled receptor pathways, adenylate cyclase activation). A few terms touch on cardiac SA node action potential, but the dominant pattern is neural signaling and plasticity.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0007190","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007409","count":3}]},{"hash":"1847068260053038182","title":"Cytoskeletal remodeling and cell migration","description":"This cluster is enriched for actin-based motility and migration terms (positive regulation of lamellipodium and podosome assembly, hemocyte migration) with supporting signals related to epithelial\u2013mesenchymal transitions and development (spermatid development, neural tube patterning) and endosomal localization, suggesting proteins coordinating cytoskeletal dynamics with signaling and trafficking during movement and development.","confidence":"Medium","size":28,"edges":26,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010592","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0035099","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0051966","count":4}]},{"hash":"329219534185004267","title":"Telomere Maintenance and RNA Processing","description":"The cluster centers on nuclear functions, with strong signals for mRNA processing and regulation/localization of telomere maintenance, including telomerase regulation and telomere localization to chromosomes; ADP-ribosylation terms (PARP-related) further support a chromatin/DNA repair context. A few signaling terms (Wnt, ephrin) appear but are less representative, suggesting telomere biology and RNA processing as the core theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":6},{"id":"GO:1900383","count":5},{"id":"GO:0016055","count":5},{"id":"GO:1904743","count":5},{"id":"GO:1901187","count":5}]},{"hash":"1175522936024164050","title":"Chromatin Regulation and Genome Stability","description":"The top GO terms point to chromatin-related processes, including subtelomeric heterochromatin formation and histone H3-K4 methylation, as well as dosage compensation, which all reflect regulation of chromatin state and transcription across the genome. While a few terms involve nucleotide biosynthesis and some development-related processes, the strongest signal is chromatin organization and genome regulation, suggesting this cluster centers on chromatin control and genome stability mechanisms. ","confidence":"Medium","size":28,"edges":92,"triangles":35,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":2},{"id":"GO:0048515","count":1},{"id":"GO:0042464","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0006228","count":1}]},{"hash":"973019275959362103","title":"Unknown","description":"The top GO terms span disparate biological contexts: transcriptional regulation and nuclear transport, brain development and visual processes, immune signaling, organ development, apoptosis, and even microbial biofilm formation. There isn't a single cohesive function tying these 28 proteins together in a common pathway or process, suggesting annotation breadth rather than a shared role in one biological theme.","confidence":"","size":28,"edges":221,"triangles":850,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":28},{"id":"GO:0006351","count":28},{"id":"GO:0007601","count":27},{"id":"GO:0071109","count":27},{"id":"GO:0090606","count":27}]},{"hash":"738893906544954803","title":"Rho GTPase Signaling and Redox Balance","description":"This cluster is dominated by terms tied to regulation of Rho GTPase signaling and GTPase activity, suggesting a module around cytoskeletal signaling and small GTPases. It also includes oxidative stress-related terms like removal of superoxide radicals and redox processes, pointing to redox balance functions. Some terms are obsolete or peripheral (aging, mismatch repair, vasodilation), but the core themes of GTPase regulation and ROS handling support a cohesive functional cluster.","confidence":"Medium","size":28,"edges":268,"triangles":1437,"max_degree":24,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001302","count":9},{"id":"GO:0035023","count":5},{"id":"GO:0032425","count":5},{"id":"GO:0043087","count":5},{"id":"GO:0001320","count":5}]},{"hash":"1875077029301664446","title":"Secretory vesicle transport and exocytosis","description":"The GO terms cluster around ER-to-Golgi vesicle transport, Golgi ribbon formation, intracellular protein transport, and exocytotic processes in neurons and immune cells (synaptic vesicle exocytosis, eosinophil and NK cell degranulation, mucus secretion), indicating a cohesive theme of secretory vesicle trafficking and release.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0050766","count":2},{"id":"GO:0043308","count":1},{"id":"GO:0070254","count":1},{"id":"GO:0016079","count":1}]},{"hash":"1135820684939581998","title":"Ubiquitin-Mediated Proteolysis and Signaling","description":"This cluster centers on the ubiquitin-proteasome system: terms for SCF-dependent ubiquitin ligase activity and proteasomal degradation, plus positive regulation of ubiquitin ligase activity. The presence of these terms suggests protein turnover via ubiquitination, which can influence signaling pathways (signal transduction) and related processes like GTPase-regulated trafficking; the other terms are supportive but broader in scope.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0007165","count":2}]},{"hash":"420279338637735275","title":"Chromatin modification and remodeling","description":"Reason: the top GO terms include histone H2B acetylation, N-terminal peptidyl-lysine acetylation, and chromatin remodeling, all pointing to chromatin dynamics and epigenetic regulation. Additional terms mentioning ADP-ribosylation regulation support this theme, while the other terms (uterus development, androgen signaling, sugar metabolism) may reflect downstream regulatory roles or annotation noise, but do not override the core chromatin-related signals.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":2},{"id":"GO:0010835","count":2},{"id":"GO:0018076","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0060765","count":2}]},{"hash":"2075666120160178789","title":"Ribosome Biogenesis and DNA Damage Stress Response","description":"The cluster shows strong representation of translation and ribosome biogenesis terms, paired with DNA damage and stress responses (SOS, nucleotide-excision repair, antibiotic and mercury ion responses), suggesting a group related to core protein synthesis that also engages genome maintenance under stress. Some transport and stem cell proliferation terms appear less central, but do not override the main theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0060702","count":2},{"id":"GO:0046689","count":2}]},{"hash":"2244171820968144131","title":"Unknown","description":"The top terms are a mix of lipid/ endocytosis\u2013related processes (cholesterol transport regulation, LDL receptor catabolic process), neuroendocrine/peptide processing (nerve growth factor production, enkephalin processing, renin secretion), and developmental/sporulation terms, with no coherent common function or interaction pattern. This lack of a unifying theme and zero edges suggests the annotations are heterogeneous or noisy, so there is no reliable single label. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905601","count":3},{"id":"GO:0032902","count":3},{"id":"GO:0010989","count":3},{"id":"GO:0001920","count":3},{"id":"GO:0002001","count":3}]},{"hash":"1333590384325406426","title":"Toll-like receptor signaling cluster","description":"The top GO terms cluster around innate immune sensing and signaling via Toll-like receptors, including TLR4 signaling, the MyD88-independent (TRIF) pathway, and detection of bacterial lipopeptides, as well as endosomal transport related to TLR signaling. This suggests the proteins collectively participate in TLR-mediated immune responses, with a few development-related terms as potential outliers.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"1721473318536999947","title":"Centrosome/Centriole Duplication","description":"Top GO terms emphasize centriole replication, centriole-centriole cohesion, and centrosome duplication, indicating the cluster primarily represents centrosomal/centriole biogenesis related to cell division. Some developmental terms appear incidental but do not shift the main theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007099","count":2},{"id":"GO:0010457","count":2},{"id":"GO:0051298","count":2},{"id":"GO:0002183","count":1},{"id":"GO:0014003","count":1}]},{"hash":"1459900036748384648","title":"Unknown","description":"The GO terms are highly diverse, including membrane localization, TOR signaling, wing disc morphogenesis, signal transduction regulation, RNAi (RISC assembly), Pol I transcription, microsporogenesis, pectin and polysaccharide catabolism. There is no single cohesive function or pathway tying these terms together, so there is no clear theme for this cluster.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903361","count":1},{"id":"GO:0031929","count":1},{"id":"GO:0007472","count":1},{"id":"GO:0009966","count":1},{"id":"GO:0035308","count":1}]},{"hash":"969074625181155897","title":"Developmental chromatin remodeling and signaling","description":"The top GO terms cluster around chromatin-level regulation (chromatin remodeling, histone methylation, sumoylation regulation) with several development-related processes (peripheral nervous system and neural crest development, intestine structure maintenance, stem cell maintenance, Wnt signaling in heart development). This suggests a group of proteins that coordinate gene expression during development through chromatin modification and signaling pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0007422","count":1},{"id":"GO:0035019","count":1},{"id":"GO:0033234","count":1},{"id":"GO:0060729","count":1}]},{"hash":"342817964965371784","title":"Unknown","description":"This cluster shows a mix of GO terms spanning DNA recombination/integration, mechanosensory responses, neuronal differentiation, intracellular signaling, and RNA regulation, with no single dominant function. The lack of a shared, coherent biological theme across most terms suggests the proteins do not converge on one clear process, so a specific label isn\u2019t justifiable.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0071446","count":1}]},{"hash":"1728665195382010135","title":"Neuronal differentiation and synaptic plasticity","description":"This cluster's GO terms cluster around neural development (oligodendrocyte differentiation, cerebellar granule cell differentiation) and synaptic function (regulation of synaptic plasticity by receptor localization to synapse, intracellular signal transduction, Wnt signaling). The calcium import term further links to calcium signaling that underpins activity-dependent differentiation and synaptic modulation. A few items may reflect broader developmental roles, but the central theme is neuronal differentiation with synaptic regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":3},{"id":"GO:0048709","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2}]},{"hash":"1456319985500363622","title":"Gonadotropin signaling and reproductive development","description":"This cluster is dominated by GO terms for hormone signaling pathways (LH, FSH, thyrotropin-releasing hormone), GPCR-mediated signaling activating PLC and adenylate cyclase, and developmental processes tied to reproductive tissues (uterus development and secondary sexual characteristics). While TLR8 signaling appears as an outlier, the predominant theme is GPCR hormone signaling linked to reproductive function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":27},{"id":"GO:0007190","count":27},{"id":"GO:0071373","count":27},{"id":"GO:0034158","count":27},{"id":"GO:0010738","count":27}]},{"hash":"400691256537055955","title":"Developmental Signaling and Differentiation","description":"The top GO terms suggest a core of signaling and developmental processes, including Wnt signaling and intracellular signal transduction, coupled with differentiation events across neural (cerebellar granule cell differentiation), cardiac, and vascular lineages, indicating proteins involved in developmental signaling and lineage specification.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":15},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"1626750630059955099","title":"Nucleotide metabolism and RNA editing","description":"The top GO terms point to pyrimidine metabolism (cytosine/cytidine/uridine) including salvage and catabolic processes, along with tRNA wobble editing, suggesting a functional theme around nucleotide metabolism and RNA modification, despite some unrelated or broad terms and lack of interaction data.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009972","count":1},{"id":"GO:0002100","count":1},{"id":"GO:0019858","count":1},{"id":"GO:0044206","count":1},{"id":"GO:0006147","count":1}]},{"hash":"868198744805566211","title":"Septin-driven cell division and chromosome localization","description":"The top GO terms cluster around septin ring organization/disassembly, sister chromatid biorientation, and establishment of protein localization to chromosomes, all pointing to septin-associated cytoskeletal roles in cell division and chromosome handling. Other terms (signal transduction, P granule assembly) are ancillary, so the core theme centers on septin dynamics guiding chromosome segregation and localization during division.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007165","count":4},{"id":"GO:0032186","count":3},{"id":"GO:0031134","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0090219","count":3}]},{"hash":"1506363153313873758","title":"Unknown","description":"The Top Terms include neural-related processes (cerebellar granule cell differentiation; regulation of synaptic plasticity via receptor localization to synapse) alongside general signaling (intracellular signal transduction; tyrosine phosphorylation of STAT) and unrelated terms (cardiac right atrium morphogenesis; regulation of interleukin-12 production). The mixture does not reveal a single coherent function tying all proteins together, so there isn\u2019t a clear, representative label.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0042517","count":1},{"id":"GO:0051457","count":1},{"id":"GO:0090116","count":1},{"id":"GO:0071260","count":1}]},{"hash":"879218195153209987","title":"Cell growth and metabolism regulation","description":"These proteins cluster around processes that govern how cells grow, divide, and manage energy: telomere maintenance and cell cycle control (telomerase regulation, centrosome separation, CDK activity), alongside metabolic and differentiation signals (glucose metabolism, adipogenesis, muscle stretch response, and mRNA processing). The \u201cresponse to cocaine\u201d term appears as a stress-related signal but does not dominate the theme. Overall, the group seems focused on coordinating growth, genome maintenance, and metabolic state.","confidence":"Medium","size":27,"edges":148,"triangles":520,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032212","count":19},{"id":"GO:0042220","count":18},{"id":"GO:0051973","count":18},{"id":"GO:0007100","count":17},{"id":"GO:0006006","count":17}]},{"hash":"547293849622887315","title":"Membrane Transporters and DNA Damage Response","description":"This cluster combines multiple transmembrane transport functions (amino acid, methionine, monoatomic anion, and even drug-related transport) with classic stress and DNA repair pathways (SOS response and nucleotide-excision repair), plus a regulatory term on endoribonucleases. The most coherent interpretation is a module where transport activities intersect with stress response and genome maintenance, supporting a concise label that reflects both themes.","confidence":"Medium","size":27,"edges":344,"triangles":2758,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":7},{"id":"GO:0046689","count":7},{"id":"GO:0003333","count":7},{"id":"GO:0072089","count":7},{"id":"GO:0099133","count":7}]},{"hash":"1062668399143904228","title":"Neural development and signaling","description":"This cluster features several neural-related terms among the top GO annotations, including myelination in the peripheral nervous system, cell-cell adhesion involved in tissue interactions during development, and a response to morphine, all pointing to neural development and signaling processes. While some terms touch on broader cell cycle and metabolic regulation, the recurring neural development themes suggest the proteins collectively participate in nervous system formation and intercellular communication.","confidence":"Medium","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":27},{"id":"GO:0007498","count":27},{"id":"GO:0005979","count":27},{"id":"GO:0006685","count":27},{"id":"GO:0043278","count":27}]},{"hash":"223817121114211122","title":"Unknown","description":"The cluster shows no GO terms to anchor a function, and the network is very sparse (Edges: 2, Max Degree: 1, Triangles: 0) with a note that 20 proteins were re-added by ReCIPE, offering little functional coherence. Without shared functional annotations, there is no clear theme to label the cluster.","confidence":"","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"204791067876696431","title":"Lipid metabolism and endocannabinoid signaling","description":"This cluster is dominated by lipid-centric metabolic terms: triglyceride catabolic process, monoacylglycerol catabolic process, and phosphatidylserine catabolic process, with an accompanying signal-related term for endocannabinoid signaling regulation. The recurring theme points to lipid metabolism and lipid-derived signaling pathways as a unifying function of the protein set, despite some additional metabolic annotations like carbohydrate phosphorylation. Overall, the lipid metabolism/signaling motif appears representative of the cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0006660","count":3},{"id":"GO:0052651","count":3},{"id":"GO:2000124","count":3}]},{"hash":"454430108886673283","title":"Plant chromatin remodeling and telomere regulation with hormone signaling","description":"This cluster centers on chromatin remodeling and telomere-associated processes (chromatin remodeling, shelterin assembly, telomere-related regulation) and also includes signals tied to plant development and stress hormones (ABA and ethylene) as well as chlorophyll biosynthesis and seed growth, suggesting a theme of chromatin/telomere maintenance linked to hormone-driven development in plants.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":13},{"id":"GO:1990414","count":8},{"id":"GO:1905839","count":8},{"id":"GO:1904792","count":8},{"id":"GO:0010380","count":8}]},{"hash":"663196961519225784","title":"Cartilage and Skeletal Development","description":"This cluster features multiple developmental terms tied to cartilage formation (cartilage condensation), endochondral ossification, skin and basement membrane development, and extracellular matrix processes, pointing to a connective tissue/skeletal development theme. While a few terms relate to unrelated pathways (oxidative stress detection, macrophage differentiation), the dominant pattern is skeletal/connective tissue formation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070208","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0001958","count":3},{"id":"GO:0070994","count":3},{"id":"GO:0045162","count":3}]},{"hash":"1532534991347400607","title":"Chromatin remodeling and transcription regulation with telomere maintenance","description":"The top GO terms cluster around chromatin dynamics (chromatin remodeling, nucleosome assembly, DNA-templated transcription) and telomere-related processes (shelterin assembly, D-loop regulation), suggesting a functional theme of chromatin-based transcription control paired with genome/telomere maintenance. Some plant-specific terms (ethylene response, chlorophyll biosynthesis regulation) imply broader regulatory roles in plants, but the shared signal is chromatin regulation connected to genome stability.","confidence":"Medium","size":27,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006334","count":5},{"id":"GO:0071560","count":4},{"id":"GO:1990414","count":4}]},{"hash":"88428540211617347","title":"TLR-GPCR-IP3 calcium signaling cluster","description":"The top GO terms converge on innate immune signaling (TLR pathways, including MyD88-dependent and TLR7) and GPCR-PLC-driven IP3/calcium signaling, suggesting a cohesive theme around immune sensing and Ca2+ signaling. There are a couple of unrelated terms (mitotic centrosome separation, adhesion) that may reflect incidental annotations, but the dominant pattern points to TLR-mediated signaling linked to PLC/IP3 pathways.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0052014","count":2},{"id":"GO:1902769","count":2},{"id":"GO:0036523","count":2}]},{"hash":"2142069952800082675","title":"Ribosome biogenesis and ubiquitin-mediated turnover","description":"The top GO terms point to ribosome-related processes (translation reinitiation, preinitiation complex formation, ribosome biogenesis) alongside ubiquitin-mediated protein regulation (polyubiquitination, SCF-proteasomal degradation, ERAD, ubiquitin ligase activity, GCN2 signaling). This combination suggests a shared theme of coordinating ribosome assembly and translation control with protein quality control and degradation pathways, reflecting essential protein homeostasis. Some unrelated terms (neuron projection development, prostate gland growth) may be incidental. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0000209","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0030433","count":5}]},{"hash":"1000845304923860490","title":"Neural development and synaptic vesicle trafficking","description":"GO terms cluster around brain development and neural tube patterning, along with regulation of synaptic vesicle exocytosis and glutamatergic transmission, plus endosome localization and general vesicle trafficking. This supports a cohesive theme of neural development coupled with synaptic/vesicular transport processes.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3},{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:2000300","count":2}]},{"hash":"1900202235285824430","title":"Unknown","description":"The top GO terms are highly diverse, covering visual perception and brain development as well as biofilm formation, immune cytokine production, cardiac muscle proliferation, apoptosis, spindle-kinetochore attachment, lung mesenchyme development, sodium transport, and ERBB signaling. This wide range indicates no single cohesive function or pathway tying the cluster together, suggesting the proteins are functionally heterogeneous or that the annotations are too broad to define a common theme.","confidence":"","size":27,"edges":262,"triangles":1260,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":27},{"id":"GO:0071109","count":27},{"id":"GO:0090606","count":27},{"id":"GO:0032762","count":27},{"id":"GO:0060045","count":27}]},{"hash":"1600508512971311659","title":"Neural development and apoptosis","description":"The proteins are enriched for brain development terms (cerebral cortex development; superior temporal gyrus development) and visual perception, along with apoptotic process, suggesting a core theme of neural development and cell fate regulation. Some terms touch on cell division and broader processes, but the dominant signal is neural development with programmed cell death, justifying the label.","confidence":"Medium","size":27,"edges":71,"triangles":30,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":26},{"id":"GO:0021987","count":26},{"id":"GO:0048240","count":26},{"id":"GO:0045793","count":26},{"id":"GO:0007601","count":25}]},{"hash":"954512148291580853","title":"Endosomal Trafficking and Exosome Biogenesis","description":"The terms cluster around vesicle trafficking associated with endosomes and exosomes\u2014exosomal secretion, endosome-to-lysosome transport, multivesicular body assembly, and protein localization to endosome\u2014indicating a shared role in endosomal sorting and vesicle formation. Some neural-related terms may reflect neuron-specific exosome activity but do not alter the core endosomal trafficking theme.","confidence":"High","size":27,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1990182","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0015031","count":3},{"id":"GO:0036258","count":3},{"id":"GO:0051966","count":2}]},{"hash":"570490951680668315","title":"Transcription Regulation and Redox Homeostasis","description":"Most top GO terms are about transcriptional control by RNA polymerase II and DNA binding (negative regulation of RNAP II, DNA-templated transcription, regulation of DNA binding). A secondary theme centers on redox biology (cell redox homeostasis, oxidant detoxification, oxidation\u2013reduction processes, protein repair). A few terms point to viral processes, which may reflect cellular stress responses. Overall, the cluster appears to group nuclear transcription regulators whose activity is linked to redox state and stress responses.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043388","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1812875058043316308","title":"Secretory pathway and endomembrane trafficking","description":"Proteins in this cluster are mainly linked to exocytosis, exocyst localization, Golgi-to-vacuole transport, endocytic recycling, and lysosomal transport, i.e., core steps of the secretory and endomembrane system. While some GO terms touch on development (ectodermal differentiation) and intron homing, these are less central to the core function. Overall, the dominant theme is vesicle trafficking and organelle transport within the cell.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3},{"id":"GO:0006887","count":1},{"id":"GO:0051601","count":1},{"id":"GO:0006896","count":1},{"id":"GO:0032456","count":1}]},{"hash":"309334178101536516","title":"Intracellular Vesicle Transport","description":"The top GO terms cluster around vesicle trafficking between organelles, including ER-to-Golgi and intra-Golgi transport, endosome-to-Golgi movement, and vacuolar targeting pathways, supported by microtubule-based movement and filopodium assembly. A few terms (intron homing, retina development, olfactory learning, striated muscle differentiation) appear less directly related and may reflect broader annotations or cross-species signals. Overall, the dominant theme is intracellular vesicle transport within the secretory and endomembrane systems.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":2},{"id":"GO:0007018","count":2},{"id":"GO:0006314","count":2},{"id":"GO:0032258","count":1},{"id":"GO:0008355","count":1}]},{"hash":"921389557708417989","title":"Skeletal muscle development and regeneration","description":"This cluster is driven by muscle-related GO terms, including skeletal muscle tissue regeneration, muscle cell differentiation, and striated muscle tissue development, which together point to a muscle development/regeneration theme. Some nuclear transport and cytoskeletal terms appear but are secondary to the muscle-focused signals, suggesting a core function in muscle differentiation and regeneration with supporting cellular organization roles.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043403","count":2},{"id":"GO:0042692","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0030517","count":2},{"id":"GO:0014706","count":2}]},{"hash":"578295510400860573","title":"Neuronal stress response and proteostasis","description":"The cluster includes terms tied to handling oxidative stress (negative regulation of ROS biosynthesis, oxidative stress-induced neuron apoptotic signaling), autophagy/quality-control pathways (mitophagy, aggresome assembly, protein monoubiquitination), and signaling and neuronal-specific processes (NF-kappaB signaling, dopamine uptake, neuron survival). Together these point to a cohesive theme of neuronal cellular stress response and proteostasis, balancing survival and death under oxidative damage.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903427","count":1},{"id":"GO:0036205","count":1},{"id":"GO:0060546","count":1},{"id":"GO:1905366","count":1},{"id":"GO:0070842","count":1}]},{"hash":"226847852078272067","title":"TLR-Myd88 innate immune signaling against bacteria","description":"The GO terms cluster around detection of bacteria and LPS, MyD88-dependent TLR signaling, regulation of cytokine production, antibacterial peptide biosynthesis, and xenophagy, all hallmark features of innate immune responses to bacterial components. The inclusion of proteasomal degradation suggests antigen processing aspects that can feed into this pathway as well, reinforcing a bacterial recognition and defense theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016045","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0032715","count":1},{"id":"GO:0034166","count":1},{"id":"GO:0006409","count":1}]},{"hash":"890179766784288273","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA maturation and ribosome-related processes, including ribosome biogenesis, tRNA wobble uridine modification, and mRNA capping, suggesting involvement in RNA processing and assembly of the translation machinery, with some additional metabolic signals present.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0002098","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0071158","count":1}]},{"hash":"373214198591469792","title":"Reproductive Hormone GPCR Signaling","description":"Top GO terms cluster around GPCR-mediated hormone signaling relevant to reproductive biology: luteinizing hormone (LH) and follicle-stimulating hormone (FSH) signaling, thyrotropin-releasing hormone (TRH) response, and related PLC-activating GPCR pathways. These point to coordinated signal transduction governing reproductive development (uterus development, sexual characteristics). An outlier term for TLR8 signaling is present but does not change the overall theme.","confidence":"High","size":27,"edges":21,"triangles":0,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":27},{"id":"GO:0007190","count":27},{"id":"GO:0071373","count":27},{"id":"GO:0034158","count":27},{"id":"GO:0010738","count":27}]},{"hash":"872707744710946892","title":"Mechanosensory signaling and neuronal differentiation","description":"Top terms cluster around responses to mechanical stimuli and neuronal development (cerebellar granule cell differentiation), with supporting signaling and regulatory processes (intracellular signaling, ubiquitination, mRNA processing, protein localization). This combination most coherently points to mechanosensory signaling in neurons.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":15},{"id":"GO:0016567","count":15},{"id":"GO:0071260","count":14},{"id":"GO:0021707","count":14},{"id":"GO:0071446","count":14}]},{"hash":"1968740408056988496","title":"Immune cell development and apoptosis","description":"Top terms point to somatic diversification of immunoglobulins and apoptotic process, suggesting an immune-system\u2013related cluster focused on lymphocyte maturation and cell death. Despite sparse annotations, the combination supports labeling as immune-related. ","confidence":"Medium","size":27,"edges":336,"triangles":2594,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0016445","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1492306654578127014","title":"Unknown","description":"The top GO terms are a mix of neural and germline development (neural plate, cranial ganglion, glial fate, oocyte localization), signaling (Wnt pathway in apoptosis), and other disparate processes (host response to symbiont, autophagy-related vesicle assembly). This spread across distinct biological themes provides no clear unifying function for the protein cluster, so Unknown is the appropriate label.","confidence":"","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0080034","count":1},{"id":"GO:0001840","count":1},{"id":"GO:0071681","count":1},{"id":"GO:0061550","count":1},{"id":"GO:1904793","count":1}]},{"hash":"970936548135624164","title":"Plant chromatin remodeling and telomere regulation","description":"This cluster is dominated by chromatin remodeling and telomere-related processes (chromatin remodeling, shelterin assembly, telomere D-loop regulation, RNA localization to telomeres, and replication-associated DNA repair). The presence of plant hormone signaling terms (cytokinin, ethylene, abscisic acid) and chlorophyll biosynthesis regulation suggests a plant-specific regulatory program linking chromatin state and telomere maintenance with hormonal responses. Overall, chromatin dynamics and telomere maintenance in a plant context best explain the shared functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":7},{"id":"GO:0009736","count":7},{"id":"GO:1990414","count":6},{"id":"GO:1905839","count":6},{"id":"GO:1904792","count":6}]},{"hash":"800259076502208613","title":"Neuronal development and synaptic regulation","description":"The top GO terms highlight neural development (cerebellar granule cell differentiation, Wnt signaling) and synaptic function (intracellular signal transduction, regulation of synaptic plasticity by receptor localization to synapse). While some terms touch on immune or cardiac processes, the strongest and most recurrent signal is involvement in neural development and synaptic regulation, justifying this label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070212","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"1955874291142555357","title":"Neural development and synaptic signaling","description":"Top GO terms emphasize neural development and synaptic regulation (cerebellar granule cell differentiation, Wnt signaling, regulation of synaptic plasticity by receptor localization to synapse) and general intracellular signaling. Auxiliary terms touch mechanotransduction and cell cycle processes (spindle assembly, cellular response to mechanical stimulus), suggesting the proteins participate in developmental signaling with neuron-specific roles rather than a single non-neural function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0051225","count":18},{"id":"GO:0071260","count":16},{"id":"GO:0021707","count":16},{"id":"GO:0035556","count":16},{"id":"GO:1900383","count":16}]},{"hash":"1517523128276491047","title":"Ubiquitin-Proteasome Pathway","description":"The terms are dominated by ubiquitination processes and ubiquitin-dependent protein catabolism, including polyubiquitination, monoubiquitination, and K63-linked ubiquitination, as well as autoubiquitination and ERAD-related degradation. This points to a functional cluster centered on tagging proteins for proteasomal or proteolytic turnover. A few terms about chitin, ethanol, and glucocorticoid regulation appear as minor associations and do not change the primary ubiquitin-degradation theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070534","count":2}]},{"hash":"257347353164865789","title":"RNA Splicing and Processing Proteins","description":"The top GO terms emphasize spliceosomal snRNP assembly and RNA processing, with intron homing suggesting RNA metabolism; overall this cluster is best described as a spliceosome/RNA processing module.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0006396","count":1},{"id":"GO:0006314","count":1}]},{"hash":"2302643723797874141","title":"Unknown","description":"The protein set shows a scattered mix of terms spanning neuronal development (cerebellar granule cell differentiation, Wnt signaling, synaptic plasticity), general signaling, immune and cardiac processes, with at least one obsolete term. There is no clear, shared biological function or pathway linking the majority of proteins, and no interactions (Edges=0). Therefore a single coherent label cannot be assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":3},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1}]},{"hash":"740949818485667144","title":"Lipid Biosynthesis & Oxidative Stress Response","description":"The top GO terms point to lipid metabolism, with sphingomyelin and phosphatidylcholine biosynthesis and broader lipid metabolic process represented, indicating a lipid-centric function for the cluster. There is also a consistent signal for oxidative stress response and detoxification, suggesting a redox-related role alongside lipid pathways. Some terms are obsolete or sporadic, reflecting noise, but the central theme remains lipid biosynthesis with redox considerations.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0018125","count":1},{"id":"GO:0018229","count":1},{"id":"GO:0006686","count":1},{"id":"GO:0006656","count":1}]},{"hash":"1168533086554122332","title":"Telomere maintenance and DNA repair","description":"Most top GO terms map to telomere biology and genome integrity maintenance (replication-born double-strand break repair via sister chromatid exchange, shelterin complex assembly regulation, telomeric D-loop disassembly regulation, and telomere RNA localization). While a few terms (e.g., axonogenesis, hormone responses) seem unrelated and may reflect annotation noise, the dominant theme centers on telomere protection and DNA repair. Therefore this label is a concise, representative description of the cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0007409","count":2},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1}]},{"hash":"283393385575784047","title":"Telomere maintenance and telomere localization","description":"The top terms are dominated by telomere-related processes (telomere maintenance via telomerase, telomere binding, and localization to the telomeric region), with supporting related processes like spindle assembly. ADP-ribosylation terms suggest regulatory modifications, and salicylic acid signaling appears as secondary associations, but the core theme remains telomere maintenance and chromosome telomere localization.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904743","count":10},{"id":"GO:2000031","count":10},{"id":"GO:0010650","count":10},{"id":"GO:0070212","count":10},{"id":"GO:0032212","count":10}]},{"hash":"1875564816655742821","title":"ECM Adhesion and Collagen Glycosylation","description":"The top GO terms point to extracellular matrix-related functions: cell adhesion, collagen fibril organization, and dolichol-linked oligosaccharide biosynthetic process (a key glycosylation step for secreted/membrane proteins). While there are also transcription and protein transport terms, they are less represented, and there are no detected edges, suggesting a broad or dispersed set of roles within this cluster. The adhesion/glycosylation theme is the strongest signal tying the terms together.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0006488","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0007100","count":1},{"id":"GO:0052014","count":1}]},{"hash":"2144154741730732567","title":"Regulatory Signaling Proteins","description":"The top GO terms highlight regulation across diverse pathways (immune signaling, Wnt, SNARE assembly, NOD2 signaling, adipogenesis, vasopressin secretion, plant SA signaling, ubiquitination, cardiac action potential), suggesting these proteins largely act as regulators of multiple signaling and differentiation processes rather than a single, shared function. This makes a concise label like \u201cRegulatory Signaling Proteins\u201d a fitting, representative name, even though the exact pathways vary across the cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":18},{"id":"GO:0016055","count":18},{"id":"GO:1904743","count":18},{"id":"GO:0045444","count":18},{"id":"GO:0030103","count":18}]},{"hash":"395483760023240686","title":"DNA Damage Response and Amino Acid Transport","description":"The top GO terms point to stress responses (to antibiotics and mercury), the SOS response, and nucleotide-excision repair, indicating a DNA damage and general stress response theme. Additional terms for amino acid and methionine transport suggest membrane-associated transport functions co-occurring with stress response components. A negative regulation of endoribonuclease activity hints at RNA processing changes during stress. Overall, the cluster appears to combine DNA damage response with membrane transport of amino acids, reflecting a multifunctional stress-adaptation module.","confidence":"Medium","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0050821","count":4},{"id":"GO:0060702","count":4},{"id":"GO:0046689","count":4},{"id":"GO:0003333","count":4}]},{"hash":"2006018928188310345","title":"Cell Cycle and Ribosome Biogenesis","description":"GO terms emphasize cell division and cell cycle (cell cycle, mitotic sister chromatid cohesion) together with ribosome biogenesis and cytoplasmic translation (ribosome biogenesis, cytoplasmic translation, tRNA modification), plus nuclear import (NLS-bearing protein import into nucleus). This points to a module coordinating growth, protein synthesis, and chromosome segregation during division.","confidence":"High","size":26,"edges":66,"triangles":62,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0032790","count":2},{"id":"GO:0006400","count":2}]},{"hash":"624311690717501580","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":29,"triangles":14,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090084","count":4},{"id":"GO:1900035","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0031204","count":4}]},{"hash":"1714506673069662909","title":"Developmental signaling and tissue differentiation","description":"This cluster\u2019s top GO terms cluster around signaling pathways that drive development and differentiation across tissues: neuronal differentiation (cerebellar granule cells), cardiac morphogenesis, venous endothelial differentiation, and the Wnt signaling pathway, alongside intracellular signal transduction and regulation of synaptic plasticity. While some terms touch on immune processes, the dominant theme is developmental signaling coordinating tissue-specific differentiation and connectivity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"881355431633789966","title":"Regulators of protein quality control and trafficking","description":"The top GO terms cluster around negative regulation of pathways tied to protein handling and membrane trafficking, including ER-associated degradation, autophagosome maturation, clathrin-dependent endocytosis, GPCR internalization, and TLR3 signaling. This pattern suggests the proteins act as regulators of protein homeostasis and intracellular trafficking/degradation, with some terms (e.g., DNA repair or spindle pole body duplication) possibly reflecting broader multifunctionality. ","confidence":"Medium","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":15},{"id":"GO:1901340","count":15},{"id":"GO:0030474","count":15},{"id":"GO:1901097","count":15},{"id":"GO:0006289","count":15}]},{"hash":"385700088926815442","title":"DNA Damage Response and Cell Cycle Regulation","description":"The top GO terms cluster around transcriptional regulation, G1/S cell cycle control, and DNA-damage\u2013induced apoptotic signaling, indicating proteins tied to stress-responsive gene expression and cell fate decisions rather than a single pathway. The developmental terms may reflect broader growth roles, but the dominant signal is DNA-damage response and cell-cycle regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:2000134","count":3},{"id":"GO:0043276","count":2},{"id":"GO:0070345","count":2},{"id":"GO:0008630","count":2}]},{"hash":"163296889690206548","title":"Unknown","description":"The top GO terms span widely disparate biological contexts (nuclear protein export, visual perception, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, spindle\u2013kinetochore attachment, mesenchyme development, and ion transport). There is no obvious shared pathway or function that unites the proteins, so a cohesive, specific label cannot be assigned; this likely reflects a mixed or annotated artifact rather than a single functional module.","confidence":"","size":26,"edges":18,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046827","count":20},{"id":"GO:0007601","count":19},{"id":"GO:0071109","count":19},{"id":"GO:0090606","count":19},{"id":"GO:0032762","count":19}]},{"hash":"1796053993227463606","title":"Synaptic actin dynamics and vesicle exocytosis","description":"These proteins show strong enrichment for actin remodeling processes (actin filament polymerization, formin-nucleated cable, stress fiber assembly) together with neuronal/synaptic functions (regulation of synaptic vesicle exocytosis, dendritic spine morphogenesis and development, Rac signaling, ruffle assembly). The Golgi-to-plasma-membrane transport term further supports a vesicle trafficking role. This combination points to a cohesive theme of actin-driven membrane remodeling and vesicle trafficking at synapses and dendritic spines.","confidence":"High","size":26,"edges":194,"triangles":615,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0090338","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0030838","count":3},{"id":"GO:0045792","count":3}]},{"hash":"366625528376799493","title":"Neuronal differentiation and axonogenesis","description":"Top terms show multiple neuron development processes (midbrain dopaminergic neuron differentiation, peripheral nervous system neuron axonogenesis, cerebellar Purkinje cell differentiation) along with cytoskeletal remodeling and cell-matrix adhesion, pointing to neurite outgrowth and axon guidance. While there are a few unrelated terms, the neuronal development signals dominate, suggesting the cluster reflects neuronal differentiation programs with cytoskeletal regulation.","confidence":"Medium","size":26,"edges":267,"triangles":1676,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0090334","count":4},{"id":"GO:0030579","count":4},{"id":"GO:1904948","count":4},{"id":"GO:0048936","count":3},{"id":"GO:0007160","count":3}]},{"hash":"1621584087660293006","title":"TLR signaling and innate immune response","description":"Dominant presence of Toll-like receptor pathways (TLR3, TLR4, TLR9) and MyD88-independent signaling, along with positive regulation of inflammatory response and defense against Gram-negative bacteria, strongly points to a core role in innate immune sensing and inflammation. Endosomal trafficking terms align with TLR localization and processing, while a single mechanical stimulus term appears as noise. Overall, the cluster reflects TLR-driven innate immunity and inflammatory signaling.","confidence":"High","size":26,"edges":135,"triangles":249,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0034138","count":3},{"id":"GO:0034162","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0002756","count":2},{"id":"GO:1905279","count":2}]},{"hash":"1889187294846380921","title":"ER-Golgi-lysosome vesicle transport","description":"This cluster centers on trafficking between the ER and Golgi, endosomes, lysosomes, and related secretory pathways. Top GO terms include ER-to-Golgi vesicle transport, intracellular transport, Golgi-to-vacuole transport, endocytic recycling, retrograde transport to the Golgi, and lysosomal transport, indicating a cohesive vesicle-trafficking/secretory function; the dense core granule transport regulation terms further support a role in regulated secretion. Overall, the cluster represents intracellular transport along the secretory and endolysosomal pathways.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0006896","count":3},{"id":"GO:0032456","count":3},{"id":"GO:1904810","count":3}]},{"hash":"365675360623960927","title":"Unknown","description":"The GO terms span visual perception, brain development, biofilm formation, cardiac proliferation, apoptosis, spindle\u2013kinetochore attachment, sodium transport, ERBB signaling, NF-kappaB regulation, and pain perception, showing no clear shared function or theme across the cluster.","confidence":"","size":26,"edges":287,"triangles":1799,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":26},{"id":"GO:0071109","count":26},{"id":"GO:0090606","count":26},{"id":"GO:0060045","count":26},{"id":"GO:0006915","count":26}]},{"hash":"18251910308110439","title":"Dynein-driven vesicle transport and autophagy","description":"This set highlights dynein motor activity and assembly (cilia/flagella-related), microtubule-based transport of endosomes/lysosomes, and autophagy-related processes, with ancillary links to spermatid/flagellum development and cytoskeletal roles in immune and platelet functions.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000574","count":4},{"id":"GO:0036159","count":4},{"id":"GO:0007286","count":4},{"id":"GO:0007040","count":2},{"id":"GO:0032510","count":2}]},{"hash":"193668572236556573","title":"DNA Repair and RNA Processing","description":"The cluster centers on core genome maintenance and RNA biosynthesis: transcription-coupled nucleotide-excision repair and UV protection plus DNA incision and replication indicate a DNA-damage response, while terms for rRNA maturation, preribosome assembly, and spliceosome-mediated splicing point to RNA processing and ribosome biogenesis. A few developmental or stress terms are present but the dominant theme ties DNA repair to RNA/RNA-protein processing.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":3},{"id":"GO:0033683","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0000463","count":2}]},{"hash":"985999021672879142","title":"Mitotic spindle and microtubule dynamics with ubiquitin regulation","description":"The cluster\u2019s key GO terms center on mitotic processes and cytoskeletal movement (mitotic spindle orientation, microtubule-based movement, mitotic cell cycle) with supporting signals from ubiquitin-mediated protein turnover (SCF-dependent ubiquitin-protein ligase activity and related catabolic processes) and development-related terms (retina, neuron projection, skeletal system). This coherently points to a theme of cell division and microtubule dynamics during development, hence the label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0007018","count":3},{"id":"GO:0000278","count":3},{"id":"GO:1904668","count":2}]},{"hash":"656664756384148292","title":"Cell Cycle and Migration Signaling","description":"The top GO terms cluster around cell division and cell cycle processes (cell division, exit from mitosis, cell cycle) as well as migration and adhesion (hemocyte migration, regulation of focal adhesion assembly), with ERK cascade regulation supporting a signaling context. Ribosomal large-subunit export and endosome localization appear as ancillary trafficking roles, but the dominant theme links cell cycle control with migration/adhesion signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010458","count":2}]},{"hash":"1145807008845248876","title":"Regulators of signaling and gene expression","description":"The top GO terms point to signal transduction (Wnt signaling) alongside processes that control protein turnover and RNA processing/stability, plus transcriptional regulation. Together, they suggest a set of proteins that coordinate signaling pathways with regulation of gene expression at transcriptional and post-transcriptional levels. Some terms are obsolete or peripheral, but the core theme is regulation of signaling and gene expression.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0006314","count":2},{"id":"GO:0071446","count":2},{"id":"GO:0072660","count":2}]},{"hash":"1660010844074664737","title":"DNA Replication and Chromosome Maintenance","description":"The proteins show strong representation of DNA replication, double-strand break repair via homologous recombination, and chromosome cohesion/condensation processes in mitotic and meiotic cell cycles, indicating a genome maintenance role.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:1903342","count":1},{"id":"GO:0071960","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0051321","count":1}]},{"hash":"1851457631015256675","title":"RNA polymerase II transcription initiation","description":"This cluster\u2019s top GO terms cluster around DNA-templated transcription initiation and RNA polymerase II preinitiation complex assembly, with related references to Notch-regulated transcription. A few terms point to unrelated processes (mitotic spindle orientation, VEGF signaling, mitochondrial inheritance), which may reflect noise or broader functional annotations. Overall, the dominant signal is transcription initiation by RNA Pol II, so this name captures the core function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006352","count":2},{"id":"GO:0051090","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0007221","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1210129300199678155","title":"Mitosis Regulation and Ubiquitin-Dependent Proteolysis","description":"The cluster mainly features processes tied to mitosis and protein degradation, including sister chromatid cohesion, APC/C-dependent catabolic processes, and negative regulation of mitotic events, as well as K11-linked ubiquitination and ubiquitin-dependent protein catabolic pathways. This suggests a cohesive group of proteins involved in controlling cell-cycle progression through ubiquitin-mediated proteolysis, despite a few outliers (e.g., lens differentiation, synaptic plasticity) that may reflect multifunctional annotations. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0032466","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0090344","count":2}]},{"hash":"1547130959802881270","title":"LPS and sugar-nucleotide biosynthesis","description":"The cluster is strongly enriched for lipopolysaccharide biosynthetic processes and related sugar-nucleotide pathways (ADP-L-glycero-beta-D-manno-heptose, dTDP-rhamnose, GDP-mannose, galactose, LPS core biosynthesis), indicating a cohesive function in assembling LPS and producing sugar donors. Some broader or cross-kingdom terms appear (phenylpropanoid, PHB), but the dominant signal ties to bacterial cell-envelope carbohydrate synthesis.","confidence":"High","size":26,"edges":67,"triangles":84,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":10},{"id":"GO:0055114","count":8},{"id":"GO:0006012","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0009244","count":6}]},{"hash":"1482963012984107227","title":"Neural crest and peripheral nervous system development","description":"The top GO terms cluster around neural development, notably neural crest cell migration and peripheral nervous system development, suggesting proteins in this group participate in neural crest\u2013PNS lineage specification and movement. Additional terms imply broader developmental signaling and stem cell maintenance, which fits a development-focused cluster, though a few terms are obsolete. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007422","count":1},{"id":"GO:0035019","count":1},{"id":"GO:0033234","count":1},{"id":"GO:0060729","count":1},{"id":"GO:0010452","count":1}]},{"hash":"970682450123821892","title":"Telomere maintenance and shelterin regulation","description":"This cluster is dominated by telomere-related GO terms: telomere loop formation, shelterin complex assembly, regulation of RNA localization to telomeres, and replication-associated DSB repair related to telomeres. While a few terms touch on plant development signals, the strongest and most coherent signal points to telomere protection and maintenance functions, justifying a focused label on telomere biology and shelterin dynamics.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"224525119879633287","title":"Unknown","description":"The top GO terms show a mix of autophagy-related processes (mitochondrial autophagy, autophagosome assembly, piecemeal autophagy of the nucleus) and unrelated processes like translation, rRNA maturation, nuclear membrane reassembly, and sporulation. Because there is no single cohesive function uniting most proteins, a clear label is not evident.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000463","count":1},{"id":"GO:1903955","count":1}]},{"hash":"1225813942896634273","title":"Proteostasis via autophagy and vesicle trafficking","description":"The GO terms cluster around autophagy-related processes (autophagosome maturation, late endosomal microautophagy, aggresome assembly, intralumenal vesicle formation) and vesicle trafficking (ER-to-Golgi transport, protein import into peroxisome matrix), with ubiquitin-specific protease activity suggesting protein quality control. Additional terms point to cellular stress responses (UV-damage excision repair, trehalose metabolism in heat stress) and mRNA export, but the dominant theme is proteostasis supported by autophagy and vesicle trafficking.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097352","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0070914","count":3},{"id":"GO:0070842","count":3}]},{"hash":"250550491705058592","title":"Endomembrane vesicle trafficking","description":"The top GO terms cluster around transport of vesicles within the secretory and endolysosomal pathways (ER to Golgi, Golgi to lysosome, endosome to melanosome, anterograde synaptic vesicle transport, clathrin-coated vesicle loading, and receptor internalization), indicating a shared role in moving cargo through the endomembrane system. A couple of unrelated regulatory terms exist but do not override the main theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:0035652","count":2},{"id":"GO:0099590","count":2},{"id":"GO:1900126","count":2},{"id":"GO:0051138","count":2}]},{"hash":"1092535723649872783","title":"Secretory vesicle trafficking","description":"Based on the prominent GO terms, the proteins in this cluster are linked to vesicle transport within the secretory pathway, including ER-to-Golgi transport and synaptic vesicle budding. The presence of related terms like cell migration and locomotion suggests vesicle dynamics also tie into motility, but the unifying theme is membrane trafficking.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0016185","count":2},{"id":"GO:0008344","count":2}]},{"hash":"1963856036334650","title":"Innate immune signaling and heat response","description":"This cluster is dominated by terms related to innate immunity and the NOD-like receptor signaling pathway, along with a heat response theme; there are also some glycoprotein modification terms and S-layer-related terms, but the core signal is innate immune sensing and stress responses.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045232","count":2}]},{"hash":"56347278745984672","title":"Galactose-Linked Metabolism and Transcription Regulation","description":"This cluster is dominated by GO terms tied to galactose, including transcriptional regulation induced by galactose and metabolic steps starting from galactose (glycolysis from galactose, galactitol metabolism). While other metabolic processes appear (fucose salvage, IPP pathway, cholesterol biosynthesis), the recurring theme centers on galactose-associated transcriptional control and carbohydrate metabolism, suggesting a sugar-regulated functional theme for these proteins.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":3},{"id":"GO:0046944","count":1},{"id":"GO:0061623","count":1},{"id":"GO:0009088","count":1},{"id":"GO:0042352","count":1}]},{"hash":"835137641620301101","title":"TLR7/8 Antiviral Signaling","description":"The cluster is dominated by GO terms related to toll-like receptor signaling (TLR7/8), MyD88-dependent pathways, innate immune response, and defense against virus with positive regulation of interferon-alpha production, indicating a cohesive antiviral innate immune module; a few unrelated terms (Sertoli development, peripheral nervous system) are present but do not define the cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060009","count":2},{"id":"GO:0034158","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045356","count":2}]},{"hash":"1693395102326130887","title":"Photoreceptor development and neural signaling","description":"The top GO terms center on camera-type eye photoreceptor cell differentiation and visual perception, suggesting a role in photoreceptor development and function. Additional terms point to cell surface receptor signaling, receptor internalization, Notch and NF-kappaB signaling, and paranodal junction assembly, indicating broader neural/retinal signaling involvement. Together these imply a cluster enriched for photoreceptor development with associated signaling pathways.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060219","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0030913","count":1},{"id":"GO:2000680","count":1},{"id":"GO:0045747","count":1}]},{"hash":"872338929564354568","title":"Membrane Trafficking and Lipid Transport","description":"The top terms cluster around intracellular trafficking and membrane-associated processes: positive regulation of ER exit, protein localization to endosome, phospholipid translocation, vacuole organization, and xenobiotic transmembrane transport. This points to a set of proteins involved in vesicle trafficking and membrane lipid movement, with some unrelated terms present due to broad GO annotations. Overall, the theme is membrane trafficking and lipid transport. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":2},{"id":"GO:0070863","count":2},{"id":"GO:0010570","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0006855","count":2}]},{"hash":"945474597495117985","title":"Unknown","description":"The top GO terms span diverse processes from carbohydrate catabolism and immune regulation to intracellular trafficking, DNA repair, mitochondrial respiration, and RNA/tRNA methylation. They do not converge on a single functional theme, making a cohesive, specific label inappropriate.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":1},{"id":"GO:0009253","count":1},{"id":"GO:0050766","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0006284","count":1}]},{"hash":"1066469262415433397","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000389","count":1},{"id":"GO:0000350","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0071033","count":1}]},{"hash":"22799497202857651","title":"Unknown","description":"The GO terms are diverse (meiosis and spermatid differentiation, translation-related processes, neuronal differentiation, and even a viral process), with no clear, unified function tying the set together.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0007060","count":1},{"id":"GO:0002191","count":1},{"id":"GO:0045665","count":1},{"id":"GO:0048515","count":1}]},{"hash":"1198083484022621664","title":"Plant telomere maintenance and chromatin regulation","description":"The top GO terms point to telomere-associated processes such as shelterin complex assembly, telomeric loop formation, and regulation of RNA localization to telomeres, alongside chromatin regulation via histone acetylation. Plant hormone responses (ethylene, ABA) and regulation of chlorophyll biosynthesis/seed growth suggest integration with development, but the core theme appears to be telomere maintenance tied to chromatin state in plants.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"1903179804368702138","title":"Mitotic cell cycle machinery","description":"The cluster shows a strong emphasis on cell division and the mitotic cell cycle (GO:0051301, GO:0051291, GO:0000278), with supporting hints of protein complex formation (GO:0055114) and DNA topology changes (GO:0006265). The presence of endocytic recycling and xenobiotic response terms is minor in comparison and may reflect broader housekeeping roles. Overall, the proteins appear to function together as mitotic machinery and protein complex assemblies essential for cell division.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0090394","count":2}]},{"hash":"1543364502603388070","title":"Vesicle trafficking and membrane transport","description":"Top terms point to intracellular transport, including exocytosis regulation, endosome-to-plasma membrane transport, COPI Golgi vesicle coating, and small GTPase\u2013mediated signaling, suggesting a cohesive vesicle trafficking theme despite some development-related terms that may be noise. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":2},{"id":"GO:1905751","count":1},{"id":"GO:0010227","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0034379","count":1}]},{"hash":"1898443621087373037","title":"Cell signaling and transcription regulation","description":"Based on the top GO terms, this cluster centers on signaling and regulation of gene expression: tyrosine dephosphorylation and threonine phosphorylation regulation point to kinase/phosphatase\u2013driven signaling, while responses to GM-CSF and LPS, along with T cell receptor signaling, indicate immune-related signaling cascades leading to transcriptional changes. Additional terms for DNA-templated transcription and developmental processes (Schwann cell development, myoblast fusion) suggest broader roles in signaling-mediated development and differentiation. Overall, these proteins appear linked by signal transduction that governs transcriptional outcomes across immune and developmental contexts.","confidence":"Medium","size":25,"edges":136,"triangles":414,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035335","count":8},{"id":"GO:0097011","count":8},{"id":"GO:0071222","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0006351","count":8}]},{"hash":"141994992825500464","title":"DNA Replication and Transcription Regulation under Oxidative Stress","description":"The cluster centers on DNA replication and RNA Pol II\u2013driven transcription, with several GO terms for transcriptional regulation, promoter clearance, and DNA repair. It also includes oxidative stress response and redox homeostasis terms, indicating a module focused on genome maintenance and transcription control under oxidative stress. Some terms like MDA-5 signaling and SOS response are ancillary, suggesting broader stress-response links but not changing the core theme.","confidence":"Medium","size":25,"edges":22,"triangles":15,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0034599","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0046826","count":5}]},{"hash":"1134199292847913169","title":"Neural and cardiac developmental signaling","description":"The top GO terms point to developmental and signaling processes in both neural and cardiovascular contexts, including cerebellar neuron differentiation, Wnt signaling, regulation of synaptic plasticity, heart morphogenesis and SA node function, and mechanotransduction. This suggests a coherent theme of developmental signaling coordinating brain and heart differentiation and function, with broader intracellular signaling involvement. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098907","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4}]},{"hash":"1548507406815217315","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019243","count":1},{"id":"GO:0042178","count":1},{"id":"GO:0006559","count":1},{"id":"GO:0006572","count":1},{"id":"GO:0055114","count":1}]},{"hash":"2078689813195178147","title":"Male meiosis and spermatogenesis","description":"Based on the top GO terms, the cluster centers around male meiosis and spermatogenesis (male meiosis chromosome segregation, male meiosis cytokinesis, spermatid differentiation, spermatocyte division). There are also translation-related terms (translation, cap-dependent translational initiation, negative regulation of translation), which may reflect translational control during germ cell development, though several unrelated terms appear as well; overall it most coherently points to germ cell meiosis and differentiation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007060","count":1},{"id":"GO:0002191","count":1},{"id":"GO:0045665","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1182904310919892181","title":"Transcription, RNA Methylation, and Ribosome Biogenesis","description":"The group is dominated by processes tied to gene expression and protein synthesis: DNA-templated transcription, RNA guanine-N7 methylation, ribosome biogenesis, and translation initiation (including IRES-dependent modes), with TORC1 signaling supporting ribosome production and translation. Some transport-related terms appear as outliers, but the core theme is transcription-to-translation regulation and ribosome assembly.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0035948","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0075522","count":3}]},{"hash":"71414687586385840","title":"Ribosome quality control and stress response","description":"Top terms point to ribosome rescue of stalled cytosolic ribosomes and ribosome-associated ubiquitin-dependent protein catabolic processes, indicating a focus on proteostasis during translation. The p53-mediated apoptotic signaling term suggests linkage to stress-induced cell fate decisions, while the nitroglycerin metabolic process is less directly connected but may reflect broader metabolic stress context. Together, these terms support a theme of ribosome-related quality control coupled with cellular stress responses.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072344","count":1},{"id":"GO:1902167","count":1},{"id":"GO:0018937","count":1},{"id":"GO:1990116","count":1}]},{"hash":"550833591357789742","title":"Translation and Developmental Signaling","description":"This cluster is dominated by the translation term (GO:0006412), suggesting a core role in protein synthesis, while the other frequent terms point to broad developmental and signaling processes across tissues (Wnt signaling, neuronal differentiation, cardiac morphogenesis, vascular differentiation, and immune regulation). Together, they imply a group involved in translational machinery intertwined with diverse developmental signaling and differentiation pathways. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4}]},{"hash":"843373181127904119","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0006260","count":2}]},{"hash":"847764940810644993","title":"Plant stress response and chromatin maintenance","description":"This cluster combines plant stress signaling (osmotic stress, ABA, ethylene, seed growth regulation) with chromatin/telomere regulation processes (shelterin assembly, telomeric D-loop regulation, RNA localization to telomeres), suggesting a link between stress responses and genome/chromatin maintenance in plants.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0006970","count":10},{"id":"GO:1990414","count":9},{"id":"GO:1905839","count":9},{"id":"GO:1904792","count":9},{"id":"GO:0010380","count":9}]},{"hash":"1481476452933415984","title":"Ubiquitin-Proteasome and ERAD Regulation","description":"The top GO terms center on protein deubiquitination and sumoylation, signaling a cluster enriched for ubiquitin/SUMO modification processes and their regulation. This is complemented by terms related to ER-associated degradation (ERAD), autophagosome maturation control, and trafficking-related processes like endocytosis and GPCR internalization, all of which are connected to proteostasis and protein turnover. Although some terms (e.g., spindle pole body duplication, nucleotide-excision repair) are seemingly unrelated, they may reflect shared cellular machinery or annotation breadth; overall, the dominant theme ties to ubiquitin/SUMO-mediated quality control and degradation pathways.","confidence":"High","size":25,"edges":218,"triangles":1303,"max_degree":21,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0016579","count":10},{"id":"GO:0016925","count":10},{"id":"GO:1903071","count":7},{"id":"GO:1901340","count":7},{"id":"GO:0030474","count":7}]},{"hash":"559654501156163173","title":"Endosome trafficking and cytokinesis signaling","description":"The top terms cluster around endosome localization and vesicle dynamics (protein localization to endosome, membrane addition at site of cytokinesis, budding cell isotropic bud growth) plus Ras signal transduction modulation, suggesting a shared theme of endocytic/vesicular trafficking coupled to cell division signaling. Some terms like EMT signaling and drug response are broader but may reflect related cellular signaling contexts; overall, the core appears to be endosome trafficking linked to cytokinesis and signaling pathways.","confidence":"Medium","size":25,"edges":21,"triangles":3,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":19},{"id":"GO:0031384","count":19},{"id":"GO:0036010","count":18},{"id":"GO:0007119","count":18},{"id":"GO:0060684","count":18}]},{"hash":"745898066927369547","title":"Unknown","description":"The GO terms are diverse and include several obsolete annotations, with only a single coherent item (synaptic transmission, cholinergic) alongside unrelated processes like potassium transport and responses to ethanol or nutrients. The cluster shows little evidence of a shared, interpretable biological function, and connectivity among proteins is sparse, supporting an Unknown label.","confidence":"","size":25,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1491183158001141834","title":"Unknown","description":"The top GO terms are highly diverse (mitotic chromosome condensation, ER-Golgi transport, melanosome organization, antigen processing, neurotransmitter receptor internalization, gravitropism, etc.) with no single shared function or pathway. The lack of edge connectivity further suggests a mixed, non-cohesive set of proteins, so there isn\u2019t a clear label to assign.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007076","count":1},{"id":"GO:1990019","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0009959","count":1},{"id":"GO:0048007","count":1}]},{"hash":"417406665169828087","title":"Vacuolar amino acid transporters","description":"This cluster is enriched for GO terms describing transmembrane import into the vacuole and export from the vacuole for multiple amino acids (serine, arginine, proline, histidine, lysine, asparagine, glutamine). The pattern suggests a set of vacuolar amino acid transporter proteins that mediate amino acid flux across the vacuolar membrane, with some related transcriptional regulation signals as ancillary context.","confidence":"High","size":25,"edges":20,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090516","count":2},{"id":"GO:2000487","count":2},{"id":"GO:0090518","count":2},{"id":"GO:0015824","count":2},{"id":"GO:0089708","count":2}]},{"hash":"830433045786144324","title":"Unknown","description":"The cluster's top GO terms cover visual perception, neural development (superior temporal gyrus), biofilm formation, immune cytokine production, cardiac muscle proliferation, apoptosis, spindle\u2013kinetochore attachment, lung mesenchyme development, sodium transport, and ERBB signaling. This broad spread indicates no single coherent biological theme tying all proteins together, suggesting the cluster is functionally heterogeneous rather than a single pathway.","confidence":"","size":25,"edges":261,"triangles":1539,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":25},{"id":"GO:0071109","count":25},{"id":"GO:0090606","count":25},{"id":"GO:0032762","count":25},{"id":"GO:0060045","count":25}]},{"hash":"63717674291902986","title":"Unknown","description":"Top terms are scattered across oxidation\u2013reduction, ion transport, nutrient/ethanol response, vascular smooth muscle proliferation, cholinergic synaptic transmission, and apoptotic regulation, with some terms obsolete, and there is no clear shared function or pathway linking these proteins; the lack of edges reinforces the absence of cohesion.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1323686734794725443","title":"Secretory pathway and epithelial polarity regulation","description":"This cluster is driven by vesicle trafficking and membrane organization terms (ER-to-Golgi transport, COPII vesicle coating regulation) and by processes establishing epithelial cell polarity. Additional signals related to cell division and apoptosis are present but the strongest, coherent theme is the regulation of the secretory pathway and epithelial polarity, suggesting proteins functioning in vesicle transport and membrane organization in epithelial contexts.","confidence":"Medium","size":25,"edges":10,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033028","count":3},{"id":"GO:0006888","count":3},{"id":"GO:2000171","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1176118732923948630","title":"MAPK signaling and developmental patterning","description":"The top GO terms point to ERK1/2 cascade regulation and developmental processes such as neural tube patterning and epithelial\u2013mesenchymal signaling, suggesting a core theme around MAPK-driven signaling guiding development and cell fate. Other terms (translation, endosome localization, stress responses) may reflect associated cellular processes common to signaling pathways rather than a single, discrete function, supporting a label centered on signaling in development rather than a narrow niche. Confidence: Medium","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0010032","count":2},{"id":"GO:0036010","count":2}]},{"hash":"2298238800015324218","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":4},{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0038202","count":2}]},{"hash":"64665987564328466","title":"Regulated signaling, transcription, and protein turnover","description":"Proteins in this cluster appear involved in multiple regulatory layers: signaling pathways (TGF-beta response, insulin signaling, GTPase activity), transcriptional control and chromatin remodeling, and protein turnover via ubiquitination and SCF-proteasomal degradation. The inclusion of actin filament capping and neuron projection development hints at links to cytoskeletal dynamics and neuronal differentiation. Overall, they seem to form a regulatory network bridging signaling, gene expression, and proteostasis rather than a single pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0050731","count":2}]},{"hash":"500893685093752119","title":"Unknown","description":"The terms span disparate processes (DNA replication/transcription and meiosis) alongside stress and metabolic pathways (ER unfolded protein response, liver regeneration, metabolism, ribosome dynamics, and oxygen homeostasis) with no single coherent function dominating; the sparse connections suggest no unified cluster function.","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0007129","count":2}]},{"hash":"780862503895206348","title":"G1/S Cell Cycle Transcription Regulation","description":"This cluster is best labeled as G1/S Cell Cycle Transcription Regulation because its top GO term points to positive regulation of transcription during the G1/S transition of the mitotic cell cycle, implying a cohesive role in transcriptional control as cells enter S phase. Although the term is obsolete and only one annotation is present, the cluster\u2019s size and RECIPE re-additions suggest a group of transcriptional regulators associated with the G1/S transition.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"2075177702656856228","title":"Developmental Differentiation and Signaling","description":"The terms point to differentiation across tissues (fat cell, cerebellar granule cell, cardiac morphogenesis) and signaling pathways (Wnt, intracellular signal transduction, receptor localization affecting synaptic plasticity), suggesting a broad theme of developmental processes governed by signaling networks, despite a few outliers related to meiosis and immune regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0007129","count":1},{"id":"GO:0051026","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1}]},{"hash":"696074817899328470","title":"MVB-lysosome trafficking and degradation","description":"This cluster is dominated by GO terms related to endomembrane trafficking and degradation, including intralumenal vesicle formation, MVB-lysosome fusion, ubiquitin-dependent protein sorting to the vacuole, ER targeting, and autophagy regulation. These together indicate a cohesive role in vesicle-mediated protein turnover and lysosomal degradation, even though a few terms (intron homing, chromatin condensation) may be incidental. ","confidence":"Medium","size":25,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:1902187","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0070676","count":1},{"id":"GO:1902902","count":1}]},{"hash":"1623115134792310376","title":"Chromatin modification and remodeling","description":"The top GO terms are dominated by chromatin-related processes\u2014histone H2B acetylation, N-terminal peptidyl-lysine acetylation, and chromatin remodeling\u2014pointing to a shared function in epigenetic regulation. A few terms align with developmental or signaling roles in reproductive tissues, but the strongest signal remains chromatin regulation, justifying a chromatin modification/remodeling label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":2},{"id":"GO:0010835","count":2},{"id":"GO:0018076","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0060765","count":2}]},{"hash":"2132093687265266268","title":"Vacuolar amino acid transport","description":"Most terms describe transmembrane import into vacuole or export from vacuole for several amino acids (serine, arginine, histidine, lysine, proline, asparagine, glutamine). This indicates a cluster of proteins functioning as amino acid transporters at the vacuolar membrane. A lone cell migration term is present but not dominant; overall theme centers on amino acid handling in the vacuole.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0090516","count":2},{"id":"GO:2000487","count":2},{"id":"GO:0090518","count":2},{"id":"GO:0015824","count":2}]},{"hash":"291645710472627598","title":"Proteostasis and autophagy","description":"Based on GO terms, the cluster centers on protein quality control: proteasome regulatory particle assembly, aggresome assembly, and autophagosome maturation indicate degradation and autophagic turnover. Other terms hint at broader cellular stress responses (UV repair, transport, and RNA handling), but the core theme is maintaining protein homeostasis through degradation and autophagy pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0006855","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0006406","count":1}]},{"hash":"2087938829909504781","title":"Metal Ion Transport and Homeostasis","description":"The cluster shows strong representation of metal ion transport (copper, zinc, cadmium) and calcium ion homeostasis, along with dephosphorylation, which points to ion balance and related signaling. Although there are some miscellaneous processes (epoxygenase P450 pathway, stilbene catabolism, testosterone response), the shared theme centers on transport and maintenance of metal ions and calcium, making this a concise, representative label.","confidence":"Medium","size":25,"edges":42,"triangles":44,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0016311","count":8},{"id":"GO:0097755","count":8},{"id":"GO:0006874","count":8},{"id":"GO:0006564","count":8},{"id":"GO:0006825","count":8}]},{"hash":"812197785093803778","title":"Retina and Photoreceptor Development","description":"The cluster is dominated by eye-specific terms, notably retina development and protein localization to photoreceptor outer segments, indicating a shared role in retinal/photoreceptor biology. Additional GO terms point to immune/defense responses and cellular stress, suggesting that some proteins are involved in ocular immune signaling or stress-responsive pathways alongside retinal functions. Overall, the primary theme appears to be retina/photoreceptor development and maintenance, with potential ancillary immune-related roles.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0051607","count":3},{"id":"GO:1903546","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1911422045076105850","title":"Unknown","description":"The top terms show a scattered mix of transcriptional regulation, chromatin modification, intracellular signaling, neuronal differentiation, synaptic plasticity, immune signaling, and cardiac development, with several being obsolete. There is no single cohesive function or pathway linking the proteins, so a unified, specific label cannot be confidently assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061408","count":2},{"id":"GO:0016575","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1}]},{"hash":"1966642570554943564","title":"Nuclear transport and cell cycle regulation","description":"The cluster\u2019s GO terms largely point to nuclear-centered processes: RNA export from the nucleus, protein localization to the nuclear inner membrane, maintenance of chromatin silencing at telomeres, and regulation of the G1/S transition and centrosome separation, all aligning with nuclear transport, chromatin dynamics, and mitosis. Some terms related to SMAD signaling, GTPase regulation, caffeine response, and gluconeogenesis appear peripheral, but they do not override the nucleus/cell-cycle theme. Overall, a coherent focus on nuclear processes and cell cycle control emerges, giving moderate confidence in this labeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035392","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0033132","count":1},{"id":"GO:0046604","count":1},{"id":"GO:1901181","count":1}]},{"hash":"2293471700207168618","title":"Neuronal gene regulation and development","description":"The terms center on neuronal transcription and epigenetic control (DNA-templated transcription, histone methylation, mRNA processing) alongside neuron projection development and ubiquitin-proteasome\u2013mediated protein turnover, with a note of neural behavior. This suggests a cluster tied to neuronal gene expression regulation and neuronal development, possibly involving synaptic remodeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051568","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0035544","count":2},{"id":"GO:0001662","count":2}]},{"hash":"111686459316176843","title":"Muscle development and sarcomere organization","description":"Top terms indicate a clear emphasis on somatic muscle development, sarcomere organization, and muscle attachment, pointing to a cluster focused on muscle structure and formation. While there are also glycosylation and other developmental terms present, the recurring muscle-related functions provide the strongest, cohesive theme for this cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904100","count":4},{"id":"GO:0044845","count":4},{"id":"GO:0045214","count":4},{"id":"GO:0007525","count":4},{"id":"GO:0007385","count":4}]},{"hash":"511260914478693698","title":"Telomere maintenance and shelterin regulation","description":"This cluster is dominated by GO terms related to telomere biology\u2014telomeric loop formation, D-loop dynamics, and shelterin complex assembly\u2014indicating coordinated roles in protecting chromosome ends and maintaining genome stability. While there are a few plant-specific processes (chlorophyll biosynthesis regulation, ethylene/ABA responses) in the mix, the strongest signal across the terms is telomere maintenance and shelterin function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":24},{"id":"GO:1905839","count":24},{"id":"GO:1904792","count":24},{"id":"GO:0010380","count":24},{"id":"GO:0009723","count":24}]},{"hash":"855274680926488101","title":"Developmental Differentiation and Cytoskeletal Regulation","description":"The top GO terms point to developmental and differentiation-related processes (blastocyst development, mammary gland involution, and G1 to G0 transition during differentiation) along with cytoskeletal remodeling (regulation of cytoskeleton organization). Calcium signaling and broader regulatory processes (protein sumoylation, protein autoprocessing) appear as supporting mechanisms but are not exclusive to development. Overall, the cluster seems to reflect cells undergoing development-associated differentiation and structural changes rather than a single cohesive pathway. Hence, a label focused on developmental differentiation and cytoskeletal remodeling is most representative.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000676","count":1},{"id":"GO:0033234","count":1},{"id":"GO:0001824","count":1},{"id":"GO:2001015","count":1},{"id":"GO:0016540","count":1}]},{"hash":"112057137006940536","title":"Signaling Pathways and Neuronal Development","description":"The top GO terms point to diverse signaling roles (NOD2, Wnt, intracellular signal transduction) as well as neuronal development and synaptic regulation (cerebellar granule cell differentiation, regulation of synaptic plasticity). There isn\u2019t a single cohesive function tying all terms together, with immune signaling and developmental processes appearing alongside general signaling. Thus a concise label that captures broad signaling involvement with a neuronal development emphasis seems most representative.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2}]},{"hash":"1063982612020128012","title":"Unknown","description":"The GO terms span a broad mix of translation-related processes, signaling, development, immune regulation, and morphogenesis, with no single dominant function tying the proteins together. Because there is no coherent theme, I cannot assign a meaningful label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:0006435","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0070143","count":1},{"id":"GO:0071260","count":1}]},{"hash":"238537130259187148","title":"Cerebellar Neuronal Signaling and Synaptic Plasticity","description":"Most terms center on neuronal responses to stimuli (mechanical, chemical/pain) and cerebellar granule cell differentiation, along with intracellular signal transduction and regulation of synaptic plasticity and dendrite development. This suggests a cohesive theme of cerebellar neuron signaling and modulation of synaptic strength, despite a few obsolete or immune-related terms likely reflecting noise. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":6},{"id":"GO:0071446","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0050968","count":6}]},{"hash":"768342595102621357","title":"Unknown","description":"Top GO terms span neural development (cerebellar granule cell differentiation, synaptic plasticity regulation), broad signaling (Wnt signaling, intracellular signal transduction), and developmental differentiation in cardiovascular and endothelial lineages (cardiac right atrium morphogenesis, venous endothelial cell differentiation), plus immune regulation and cellular response to mechanical stimuli. The terms reflect diverse processes with no single unifying function across all proteins, so a single coherent label cannot be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":17},{"id":"GO:0021707","count":16},{"id":"GO:0035556","count":16},{"id":"GO:1900383","count":16},{"id":"GO:0045083","count":16}]},{"hash":"703496330721417040","title":"Signaling and Development Pathways","description":"This cluster centers on GO terms for intracellular signaling, mechanotransduction, synaptic regulation, and developmental pathways (Wnt signaling, differentiation, morphogenesis). The terms span signaling cascades across neural, cardiac, and immune contexts, indicating a broad theme of signal transduction guiding development and function rather than a single precise process.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5}]},{"hash":"698933565426662137","title":"Glycosylation-Associated Development and Nervous Signaling","description":"The terms repeatedly point to protein glycosylation (O-GlcNAcylation and O-linked mannose) alongside diverse developmental and neural-related processes (larval cuticle development, CNS development, innervation, basement membrane development, colon epithelial cell migration, and signaling pathway regulation like FGFR and GDNF receptor). This suggests a theme where glycosylation modulates extracellular and signaling contexts to drive development and nervous system connectivity.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0007417","count":1},{"id":"GO:0014846","count":1}]},{"hash":"583089778199623103","title":"Telomere maintenance and genome stability","description":"This cluster\u2019s top GO terms cluster around telomere biology and genome integrity: shelterin complex assembly, telomeric loop formation, regulation of RNA localization to telomeres, and replication-born double-strand break repair via sister chromatid exchange. Together these suggest a shared function in protecting chromosome ends and maintaining chromosomal stability, with a few plant-development-related terms present but likely peripheral. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"1226597803811213259","title":"Ribosome biogenesis and rRNA processing","description":"The dominant GO terms are maturation of LSU rRNA and 5.8S rRNA and overall ribosome biogenesis, indicating these proteins mainly participate in ribosome assembly. Some ubiquitin-proteasome\u2013related terms appear, suggesting a link to proteostasis, but the core theme remains ribosome biogenesis and rRNA maturation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0000466","count":3},{"id":"GO:1904668","count":2}]},{"hash":"1694533388181456261","title":"RNA processing and translation initiation regulation","description":"This cluster is dominated by GO terms for RNA maturation and processing (splicing via spliceosome, mRNA export, stability in stress) and for translation initiation/reinitiation (formation of the translation preinitiation complex, translation reinitiation, viral translation reinitiation) plus ribosome biogenesis (small-subunit processome assembly) and ncRNA-mediated silencing. Together these terms point to a cohesive module coordinating RNA maturation, export, and subsequent translation control, with some overlap into ncRNA regulation. ","confidence":"High","size":24,"edges":140,"triangles":363,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":19},{"id":"GO:0031047","count":19},{"id":"GO:0002188","count":16},{"id":"GO:0001731","count":16},{"id":"GO:1901407","count":16}]},{"hash":"1494754310934190341","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0006314","count":2},{"id":"GO:0051754","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0006458","count":1}]},{"hash":"355702107620375287","title":"ERAD and ubiquitin-mediated protein degradation","description":"The top terms cluster around ubiquitin-dependent degradation and ER-associated degradation (ERAD), including ubiquitination, deubiquitination, and related proteostasis steps. This suggests the proteins function in ubiquitin-mediated quality control of misfolded proteins in the ER, with a few outlier terms that are less central to the core theme.","confidence":"High","size":24,"edges":258,"triangles":1709,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":23},{"id":"GO:0051865","count":22},{"id":"GO:1904378","count":21},{"id":"GO:0021888","count":20},{"id":"GO:1903071","count":20}]},{"hash":"1407793591781164010","title":"MVB-Mediated Ubiquitin-Dependent Protein Sorting","description":"Two top GO terms point to ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway and protein transport to the vacuole through the MVB pathway, suggesting a core function in endosomal sorting and lysosomal/vacuolar degradation. Some terms appear unrelated (e.g., cell cycle, differentiation), but the strongest signal ties to ubiquitin-tagged cargo sorting via MVBs; thus this label captures the likely primary theme of the cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0043328","count":2},{"id":"GO:1904669","count":2},{"id":"GO:0030713","count":2},{"id":"GO:0043162","count":2}]},{"hash":"1897576228659309881","title":"Cytoskeleton Remodeling and Endocytosis","description":"The cluster is dominated by GO terms for actin cytoskeleton organization, filopodium assembly, small GTPase\u2013mediated signaling, clathrin-dependent endocytosis, and synaptic vesicle recycling, all pointing to dynamic cytoskeletal rearrangements that drive membrane trafficking. Additional terms for vesicle trafficking (ER to Golgi ceramide transport) and related signaling support a cohesive theme of cytoskeletal dynamics coordinating endocytosis and vesicle traffic, with a note of muscle differentiation context. Overall, the main signal is cytoskeleton-driven membrane trafficking processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":4},{"id":"GO:0018107","count":3},{"id":"GO:0051146","count":2},{"id":"GO:0035621","count":2},{"id":"GO:0046847","count":2}]},{"hash":"1220654027186930886","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for translation (GO:0006412) and ribosome biogenesis (GO:0042254), indicating a core role in protein synthesis machinery. Additional terms such as protein ubiquitination and cell cycle suggest related proteostasis and regulatory connections, but the strongest signal centers on ribosome assembly and the translation process.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0097284","count":3}]},{"hash":"282762073392369077","title":"Unknown","description":"The top GO terms span several broad processes\u2014cell division and chromosome condensation, ER-Golgi vesicle transport, and other unrelated terms like gravitropism and antigen processing\u2014without a clear, single functional theme tying all proteins together. Because there isn't a cohesive function defining this cluster, a specific label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0006890","count":4}]},{"hash":"640415361538440992","title":"Cellular organization and development","description":"The terms point to a mix of cytoskeletal activities (actin polymerization, sarcomere organization), organelle inheritance (mitochondrion and vacuole inheritance), and tissue development/homeostasis (substantia nigra development, retina homeostasis), with a few chromatin-related processes (heterochromatin formation, histone exchange). This suggests a broad theme of how cells are organized and develop, rather than a single narrow function, giving moderate confidence in the label.","confidence":"Medium","size":24,"edges":23,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":1},{"id":"GO:0051592","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0001895","count":1}]},{"hash":"1255999074004544637","title":"Vesicle trafficking and cytoskeleton remodeling","description":"The dominant GO terms point to vesicle formation and transport (COPII budding, endosome localization, GTPase signaling) combined with cytoskeleton-driven morphogenesis (filopodium assembly, dendrite morphogenesis) and cellular movement. This suggests proteins coordinating membrane trafficking with actin remodeling during cell growth and morphogenesis, with some links to autophagic lipid turnover and mechanical signaling. ","confidence":"Medium","size":24,"edges":39,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0090114","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0061724","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0090334","count":2}]},{"hash":"2181047247958757064","title":"Neuronal axon guidance and nerve morphogenesis","description":"The GO terms cluster around axon guidance and neural projection development (sensory and retinal ganglion axon guidance, sympathetic neuron projection guidance, facial nerve organization, paranodal junction assembly) and regulation of axon extension. These themes indicate a shared role in wiring neurons and organizing nerves, justifying this label. A stray intron homing term appears as noise but does not redefine the cluster\u2019s core function.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3},{"id":"GO:0097374","count":1},{"id":"GO:1904835","count":1},{"id":"GO:0016062","count":1},{"id":"GO:0030913","count":1}]},{"hash":"869434499218004","title":"Chromosome replication, cohesion, and repair","description":"These terms converge on chromosome maintenance during the cell cycle: DNA replication, sister chromatid cohesion and condensation, and homologous recombination\u2013mediated repair of double-strand breaks, in both mitotic and meiotic contexts. The cluster therefore likely comprises proteins involved in coordinating replication with chromatid cohesion and repair to ensure proper chromosome segregation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903342","count":1},{"id":"GO:0071960","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0051321","count":1},{"id":"GO:0000724","count":1}]},{"hash":"126804926244389109","title":"Unknown","description":"The terms span sensory perception, neural development, biofilm formation, cardiac proliferation, apoptosis, spindle-kinetochore attachment, ion transport, ERBB signaling, and NF-kappaB signaling, with no single dominant function. The set is highly heterogeneous and even includes an obsolete term, offering no cohesive theme. Confidence: None","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0071109","count":22},{"id":"GO:0090606","count":22},{"id":"GO:0060045","count":22},{"id":"GO:0006915","count":22}]},{"hash":"1703621919714843577","title":"Developmental differentiation and transcription regulation","description":"The cluster includes terms tied to differentiation of multiple lineages (skeletal muscle, oligodendrocyte, cerebellar granule cells, inner cell mass morphogenesis) alongside transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II) and protein ubiquitination, suggesting a set of proteins involved in guiding development through transcriptional regulation and post-translational modification rather than a single pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0001828","count":3},{"id":"GO:0010452","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0048709","count":2}]},{"hash":"1570977105207577777","title":"DNA transposition and viral integration","description":"The top GO terms cluster around genome mobility and host\u2013pathogen interactions, including DNA transposition, retrotransposition, DNA integration, proviral latency, and viral entry into host nuclei. A few terms touch on host cell processes (mRNA export, cell growth) but the dominant signal is mobile-element\u2013driven genome dynamics and proviral/viral integration.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048820","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075732","count":1},{"id":"GO:0039651","count":1}]},{"hash":"1823248814152176771","title":"Secreted bacterial effectors via Sec and T2SS","description":"The top GO terms focus on protein transport and secretion through the Sec complex and the Type II secretion system, which together point to secreted proteins and secretion machinery in bacteria, with some annotations suggesting host interactions. Other terms like membrane targeting and light signaling appear ancillary, making the central theme secretion-focused. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043952","count":1},{"id":"GO:0052051","count":1},{"id":"GO:0015628","count":1},{"id":"GO:1903237","count":1},{"id":"GO:1901529","count":1}]},{"hash":"1601202703615973123","title":"RNA polymerase assembly and transcription regulation","description":"The dominant GO terms point to assembly of RNA polymerases I, II, and III, core complex assembly, and regulation/elongation of transcription, indicating a cluster of proteins involved in assembling the transcriptional machinery and regulating transcription. Minor terms like tubulin complex assembly and protein folding are present but do not define the main theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":3},{"id":"GO:0006457","count":1},{"id":"GO:0031137","count":1},{"id":"GO:0007021","count":1},{"id":"GO:1990113","count":1}]},{"hash":"267998445737788325","title":"TLR/MyD88 Innate Immune Signaling Proteins","description":"The top GO terms are dominated by toll-like receptor signaling, especially the TLR1 and MyD88-dependent pathways, pointing to innate immune signaling functions as the most coherent theme in this cluster. Other terms appear more divergent (neuron maturation, actin severing, endosome transport, ubiquitination) and there are no edges linking members, suggesting a heterogeneous set rather than a tightly connected module. This label captures the strongest shared function observed, with caveats due to the scattered annotations.","confidence":"Low","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034130","count":1},{"id":"GO:0045842","count":1},{"id":"GO:0002755","count":1},{"id":"GO:1903125","count":1},{"id":"GO:0035751","count":1}]},{"hash":"1132407646932960895","title":"RNA processing and translational regulation","description":"The top GO terms cluster around mRNA metabolism (export, stability, polyadenylation), ribosome biogenesis (small-subunit processome assembly), and diverse aspects of translation control (IRES-dependent initiation, viral termination-reinitiation, miRNA-mediated silencing, mRNA stabilization). These together suggest a functional group focused on processing and regulating mRNA and translation, with a possible tie to RNA localization in cell polarity. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000114","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0034462","count":2}]},{"hash":"414587907402435808","title":"Epigenetic Regulation and Chromatin Remodeling","description":"The top GO terms point to histone acetylation, N-terminal lysine acetylation, and chromatin remodeling, which together indicate epigenetic control of transcription. While other terms touch on development and signaling, the strongest recurring theme is chromatin-state regulation. This label is concise and representative, though the cluster shows functional diversity beyond epigenetics.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019827","count":2},{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1}]},{"hash":"1724738519464059447","title":"Plant chromatin remodeling and telomere maintenance","description":"This cluster centers on chromatin dynamics (chromatin remodeling, histone acetylation) and telomere biology (shelterin assembly, telomeric D-loop regulation, RNA localization to telomeres), pointing to a core role in chromatin regulation and telomere maintenance in plants. The additional plant-development signals (ethylene/ABA responses, seed growth, chlorophyll biosynthesis regulation) likely reflect regulatory context rather than a separate function of the cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":12},{"id":"GO:1990414","count":11},{"id":"GO:1905839","count":11},{"id":"GO:1904792","count":11},{"id":"GO:0010380","count":11}]},{"hash":"2187350869431853811","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006378","count":1},{"id":"GO:0006398","count":1},{"id":"GO:0098789","count":1},{"id":"GO:1904431","count":1}]},{"hash":"1358641804542727228","title":"Plant telomere maintenance and shelterin assembly","description":"The top GO terms cluster around telomere biology\u2014sister chromatid exchange repair, shelterin complex assembly, and telomeric loop formation\u2014indicating a cohesive telomere maintenance module. Some plant-specific processes (ethylene, ABA, chlorophyll biosynthesis, seed growth) appear but do not override the predominant telomere-related theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":23},{"id":"GO:1905839","count":23},{"id":"GO:1904792","count":23},{"id":"GO:0010380","count":23},{"id":"GO:0009723","count":23}]},{"hash":"493379337611912472","title":"Peptide Hormone and Neuropeptide Processing","description":"This cluster shows strong representation of GO terms related to the maturation and processing of peptide hormones and neuropeptides (enkephalin processing, insulin processing, renin secretion, nerve growth factor production, peptide pheromone maturation, dibasic protein processing). While a few terms touch on development or redox regulation, the dominant theme is proteolytic processing that generates active signaling peptides and hormones, justifying this label.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0034230","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0007323","count":2}]},{"hash":"1298599720330109020","title":"Neuronal development and synaptic signaling","description":"Reasoning: The top GO terms are dominated by neuronal-related processes such as cerebellar granule cell differentiation, regulation of synaptic plasticity by receptor localization to the synapse, and the Wnt signaling pathway, all pointing to neural development and signaling. Intracellular signal transduction and ubiquitination further tie into how signaling is regulated. Some non-neural terms are present, but the neural differentiation and synaptic function themes are strongest, justifying this label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":14},{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13}]},{"hash":"912414816277553583","title":"Neurodevelopment with dopaminergic signaling and immune response","description":"The terms cluster around neural development features (axonogenesis, corpus callosum development, synapse assembly) and dopamine-related signaling, indicating a core neural connectivity/dopaminergic function. The presence of immune-related terms (lipopolysaccharide response, dsRNA response, defense against Gram-positive bacteria) suggests additional neuroimmune signaling or dual-role proteins. This combination supports a label that reflects both neural development and immune/dopaminergic signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0061368","count":2}]},{"hash":"2269609377233559199","title":"Vacuolar Amino Acid Transport","description":"This cluster is dominated by GO terms describing import and export of various amino acids across the vacuolar membrane (serine, arginine, proline, histidine, lysine, asparagine, glutamine). The presence of a cell cycle term is likely incidental noise, but the consistent theme of vacuolar amino acid transmembrane transport strongly ties the proteins together.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0090516","count":1},{"id":"GO:2000487","count":1},{"id":"GO:0090518","count":1},{"id":"GO:0015824","count":1}]},{"hash":"1848109982157252102","title":"Chromatin Organization and Genome Maintenance","description":"The top GO terms point to chromatin structure and genome stability: spindle assembly, pericentric heterochromatin formation, and nucleosome-related processes, plus DNA replication regulation and double-strand break repair. These collectively suggest a cohesive role in chromatin organization and genome maintenance during the cell cycle, including centromere/telomere regulation and DNA repair pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:1904908","count":2},{"id":"GO:0030491","count":1},{"id":"GO:0010571","count":1},{"id":"GO:0060303","count":1}]},{"hash":"846113223522523476","title":"Neuronal synaptic signaling and plasticity","description":"The terms cluster around synaptic transmission and neuronal development: negative regulation of SNARE complex assembly and regulation of synaptic plasticity by receptor localization to the synapse point to synaptic function, while cerebellar granule cell differentiation and Wnt signaling relate to neuronal development and signaling pathways. Additional terms like intracellular signal transduction and glucose transmembrane transport fit metabolic and signaling context in neurons, though some terms (cardiac morphogenesis, IL-12 regulation, telomere regulation) are less directly tied, suggesting a broader neuronal/biological context rather than a single, tight function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":3},{"id":"GO:0015758","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2}]},{"hash":"190018917208332401","title":"ER and oxidative stress response","description":"Based on the top GO terms, especially cellular response to oxidative stress, cell redox homeostasis, and response to endoplasmic reticulum stress, the cluster appears centered on managing cellular stress and redox balance, including ER-related protein-folding stress. Some terms are obsolete or peripheral, but the dominant theme is ER/oxidative stress response pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":1},{"id":"GO:0030969","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1}]},{"hash":"1084641243092227016","title":"Nuclear transport and centrosome/mitosis regulation","description":"Top GO terms indicate a strong emphasis on nuclear export and localization (mRNA export from nucleus; ribosomal large subunit export from nucleus; protein localization to nucleus), along with kinetochore-related localization and centrosome duplication regulation. This points to a functional cluster centered on nuclear transport and cell-cycle/mitotic control, particularly involving centrosome and kinetochore dynamics. While there are oxidative stress and xenobiotic response terms as well, the dominant signal aligns with nuclear transport and mitotic regulation.","confidence":"Medium","size":23,"edges":252,"triangles":1750,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":6},{"id":"GO:0046827","count":6},{"id":"GO:0034501","count":6},{"id":"GO:0042493","count":5},{"id":"GO:0034504","count":5}]},{"hash":"892348313440396042","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051083","count":1},{"id":"GO:0006620","count":1},{"id":"GO:1902035","count":1},{"id":"GO:0006919","count":1},{"id":"GO:1901532","count":1}]},{"hash":"1318033806606352463","title":"Synaptic signaling and calcium homeostasis","description":"This cluster is dominated by calcium handling, LTP, and membrane excitability traits, tying together neuronal signaling, calcium regulation, and activity-driven transcription; some muscle-related terms may reflect neuromuscular signaling rather than muscle-specific functions.","confidence":"High","size":23,"edges":196,"triangles":972,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006874","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060291","count":2},{"id":"GO:1903416","count":1},{"id":"GO:0097755","count":1}]},{"hash":"805903721453858466","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000480","count":5},{"id":"GO:0000472","count":5},{"id":"GO:1904668","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0031175","count":4}]},{"hash":"1618428188718353267","title":"Developmental signaling and neural differentiation","description":"The top GO terms point to signaling activity (intracellular signal transduction, Wnt signaling pathway) and neural development/differentiation (cerebellar granule cell differentiation, regulation of synaptic plasticity via receptor localization to synapse). Additional terms touch on heart and vascular development, supporting a broader developmental signaling theme. The mix suggests proteins involved in signaling during development and neural differentiation rather than a single, tight function, though the diverse terms introduce some ambiguity. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"1015052760438201560","title":"Unknown","description":"The terms cover a wide range of processes\u2014from cell division (spindle assembly) to neural differentiation, signaling pathways (Wnt, synaptic receptor localization), immune regulation, and cardiac development\u2014without a dominant, unified function. This makes a single, representative label unreliable.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"1230197182325883781","title":"Developmental signaling and cytoskeletal dynamics","description":"The top GO terms point to actin cytoskeleton organization (actin filament bundle assembly) and broad signaling processes (Wnt signaling, intracellular signal transduction, regulation of synaptic plasticity), with ties to neural development (cerebellar granule cell differentiation) and cardiac morphogenesis, plus some immune-related regulation. This suggests a cohesive theme of signaling-driven cytoskeletal remodeling involved across developmental contexts and tissue types.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":7},{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":6},{"id":"GO:0035556","count":6},{"id":"GO:1900383","count":6}]},{"hash":"736289483145910748","title":"Plant telomere maintenance and chromatin remodeling","description":"Most top GO terms cluster around telomere biology (telomeric loop formation, protection from non-homologous end joining at telomeres, replication-born double-strand break repair via sister chromatid exchange, and regulation of shelterin complex assembly) and chromatin remodeling, suggesting a role in telomere regulation linked with chromatin state in plants. The presence of plant hormone signals (cytokinin signaling, ethylene response) and chlorophyll biosynthesis regulation supports a plant context for these telomere-related processes. Overall, the dominant theme is telomere maintenance with chromatin regulation, in a plant setting.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":10},{"id":"GO:0031627","count":10},{"id":"GO:0031848","count":10},{"id":"GO:0009736","count":10},{"id":"GO:1990414","count":9}]},{"hash":"1278906301574945544","title":"Ribosome biogenesis and RNA processing","description":"The top terms cluster around ribosome biogenesis, cytosolic ribosome and preribosome assembly, rRNA maturation, and RNA base methylation (rRNA and tRNA), with mentions of mitochondrial translation regulation. These collectively define a coherent theme centered on ribosome production and RNA modification, with immune signaling terms appearing more peripheral. ","confidence":"High","size":23,"edges":49,"triangles":37,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0002127","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0070475","count":1}]},{"hash":"1344042595953079950","title":"Neuronal signaling and endosomal trafficking","description":"The cluster combines GO terms centered on glutamatergic synaptic regulation, endosome localization, neural development (neural tube patterning), and signaling processes tied to cell movement and cytokinesis, suggesting a theme where neuronal signaling is linked with intracellular trafficking and morphogenesis. While some terms reflect broader stress or motility responses, the core pattern supports a neuronal signaling plus endosomal trafficking concept.","confidence":"Medium","size":23,"edges":216,"triangles":1162,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":9},{"id":"GO:0036010","count":9},{"id":"GO:0007119","count":9},{"id":"GO:0060684","count":9},{"id":"GO:0021532","count":9}]},{"hash":"1194516034249456262","title":"Neuronal development and intracellular trafficking","description":"The cluster\u2019s top GO terms center on neural development (neural tube patterning, interneuron migration, dendrite growth regulation, bipolar cell growth) and intracellular trafficking (apical localization, ER-to-Golgi transport, protein targeting). This suggests coordination of neuronal morphogenesis with vesicular transport and polarity, despite a few outlier terms. Confidence: Medium","confidence":"Medium","size":23,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021532","count":4},{"id":"GO:0033028","count":4},{"id":"GO:0021830","count":4},{"id":"GO:0045176","count":4},{"id":"GO:0006878","count":4}]},{"hash":"1432769071049766854","title":"Kidney metabolism and water homeostasis","description":"This cluster features kidney-specific GO terms such as renal water homeostasis and inner medullary collecting duct development, along with a range of metabolic processes (sorbitol, arabinose, xylose catabolism, retinol metabolism) and stress/detox pathways, suggesting a renal-centered metabolic cluster integrating osmoregulation with diverse carbohydrate and lipid metabolism.","confidence":"Medium","size":23,"edges":54,"triangles":56,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0044598","count":8},{"id":"GO:0003091","count":8},{"id":"GO:0006061","count":8},{"id":"GO:0072061","count":8}]},{"hash":"958905491489710984","title":"Neural development and circadian regulation","description":"The proteins are enriched for neural development processes (embryonic neurocranium morphogenesis, synaptic vesicle maturation, dendrite extension) and circadian regulation (circadian sleep/wake cycle). Additional terms point to intracellular transport and ribosome export, supporting neuronal protein trafficking, with some vascular development signals (angiogenesis), suggesting a broader neurodevelopmental context that includes circadian aspects. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0042748","count":2},{"id":"GO:0048702","count":2},{"id":"GO:0060982","count":2},{"id":"GO:0016188","count":2}]},{"hash":"612756911290419941","title":"Neuronal Development and Microtubule Dynamics","description":"The terms combine neuronal development (dendrite, hippocampus) with microtubule- and trafficking-related processes (microtubule bundle formation, melanosome transport, endosome localization) and synaptic regulation, indicating a cohesive role in neuronal cytoskeleton remodeling, transport, and neurite/synapse function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016358","count":2},{"id":"GO:0032402","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0001578","count":1},{"id":"GO:0007099","count":1}]},{"hash":"1447860250001969450","title":"Plasma membrane amino acid and chloride transporters","description":"The cluster shows strong enrichment for transmembrane transport and amino acid import (L-lysine, L-arginine, methionine), along with chloride transport and chloride ion homeostasis, indicating a set of plasma membrane transport proteins handling amino acids and chloride. Additional terms related to cell volume homeostasis and, contextually, sensory or inflammatory signaling may reflect broader physiological roles, but the core theme is membrane transport of amino acids and chloride.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0055085","count":4},{"id":"GO:0006884","count":3},{"id":"GO:0040040","count":3},{"id":"GO:0030321","count":3},{"id":"GO:0097639","count":3}]},{"hash":"123181993092783223","title":"Phosphorylation and cyclic nucleotide signaling regulation","description":"The cluster shows enrichment for phosphorylation (GO:0016310) and regulation of cyclic nucleotide pathways (cGMP/cAMP-related terms), suggesting a theme around signaling pathway control. There is also a note of negative regulation of proteasomal degradation, which could tie into signaling component turnover. Several terms are obsolete and a few items (smell, oocyte development) seem less connected, indicating a mixed set with a primary focus on signaling regulation rather than a single, cohesive function.","confidence":"Low","size":23,"edges":9,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0032435","count":1},{"id":"GO:0010754","count":1},{"id":"GO:0010753","count":1}]},{"hash":"2046304849304432260","title":"Cell Cycle and Apoptosis with Polarity","description":"This cluster centers on core cell growth and fate decisions, as shown by enrichment for cell cycle and mitotic cell cycle terms, along with apoptosis-related terms. Additional terms for protein ubiquitination and heterooligomerization suggest regulation of protein complexes, while polarity establishment and response to mechanical stimulus hint at roles in cellular organization and mechanotransduction. Together, these point to a cohesive theme around cell division, programmed cell death, and structural/polarity regulation.","confidence":"Medium","size":23,"edges":27,"triangles":9,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0033028","count":2},{"id":"GO:2000171","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1220410496006678385","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for ribosome biogenesis and translation (translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit export), indicating proteins involved in making ribosomes and carrying out protein synthesis. While there are related terms about cell cycle and division, the core signal is ribosome assembly and mRNA translation, with secondary associations to cell growth processes.","confidence":"High","size":23,"edges":177,"triangles":695,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0042274","count":4}]},{"hash":"1761755189100874385","title":"Cell cycle and intracellular transport","description":"The top GO terms point to cell cycle regulation (regulation of cell cycle, mitotic chromosome condensation) alongside extensive intracellular transport processes (ER to Golgi vesicle transport, nuclear pore complex assembly, ribosomal protein import into the nucleus) and growth signaling (TORC1). Although some terms are more peripheral (detoxification, organelle organization), the core theme centers on coordinating cell proliferation with vesicle trafficking and nuclear/cytosolic transport. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:2000495","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0002318","count":1},{"id":"GO:0006610","count":1}]},{"hash":"1542564173999912586","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000574","count":1},{"id":"GO:0036159","count":1},{"id":"GO:0007286","count":1},{"id":"GO:0006293","count":1},{"id":"GO:0070914","count":1}]},{"hash":"345474239725856746","title":"Calcium-Dependent Exocytosis and Vesicle Trafficking","description":"This cluster is dominated by GO terms tied to Ca2+-dependent exocytosis, SNARE regulation, and vesicle maturation (platelet degranulation, synaptic vesicle maturation, membrane localization). While a few terms like glucose transport and adipogenesis are less central, the overall pattern centers on vesicle trafficking and secretion.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030220","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0015758","count":3},{"id":"GO:0045444","count":2}]},{"hash":"1158156894157273696","title":"Spermatogenesis and meiosis","description":"The most specific, representative terms are spermatid differentiation and male meiosis chromosome segregation, indicating a cluster centered on germ cell development and meiotic events; other terms (proteolysis, immune regulation, viral processes) appear less connected and may reflect broad annotations.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0045959","count":1},{"id":"GO:0010765","count":1},{"id":"GO:0001869","count":1},{"id":"GO:0006314","count":1}]},{"hash":"1100610174301361923","title":"Sugar and Metabolite Transporters","description":"The top GO terms cluster around transport across membranes for various sugars and related metabolites (glucose, fructose, lactose, trehalose, dehydroascorbic acid, urate) and xenobiotics, including sodium-dependent transporters. This suggests a group of transporter proteins with broad substrate specificity focused on sugar and small-molecule transport. A minor term about negative regulation of kinase activity is incidental. Overall, the label reflects a transport-centric cluster of diverse substrates.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042908","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0005989","count":3},{"id":"GO:0015747","count":3},{"id":"GO:0006469","count":2}]},{"hash":"1559159645749187125","title":"Chromatin remodeling and histone modification","description":"This cluster is dominated by GO terms related to chromatin modification, including chromatin remodeling and histone acetylation (notably H2B acetylation and N-terminal lysine acetylation). While there are a few outliers pointing to development and metabolism, the strongest and recurring signals point to chromatin-modifying activity, suggesting these proteins function together in regulating chromatin state and gene expression.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:0022037","count":3},{"id":"GO:0043969","count":2},{"id":"GO:0010835","count":2},{"id":"GO:0018076","count":2}]},{"hash":"1962102790942250835","title":"Nuclear transport and cell cycle regulation","description":"The top GO terms are dominated by nuclear-associated processes: RNA export from the nucleus, protein localization to the nuclear inner membrane, SMAD signaling regulation (involving nuclear translocation), and mitotic cell cycle events like G1/S transition and centrosome separation. Even the chromatin-related term points to nuclear chromatin organization. Together these point to nuclear trafficking/localization and cell cycle control as the core theme, justifying this label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035392","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0033132","count":1},{"id":"GO:0046604","count":1},{"id":"GO:1901181","count":1}]},{"hash":"704764971741680873","title":"Mitotic Spindle Assembly and Cytokinesis","description":"The GO terms are dominated by mitosis, spindle organization, and cytokinesis (cytoplasmic microtubule organization, mitotic spindle midzone assembly, spindle pole body duplication, cell division, FtsZ-dependent cytokinesis), indicating a cohesive function in mitotic progression and cytoskeletal dynamics. A few terms related to translation or signaling are present but appear ancillary to the main mitotic theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031122","count":1},{"id":"GO:1902408","count":1},{"id":"GO:1903087","count":1},{"id":"GO:0051301","count":1},{"id":"GO:2000767","count":1}]},{"hash":"1065248610790255481","title":"Growth and cell-cycle regulation","description":"This cluster is dominated by GO terms related to growth control and the cell cycle, including negative regulation of cell proliferation, regulation of DNA replication, and apoptotic processes, along with Wnt signaling modulation. Despite some outlier terms (visual perception, biofilm formation, etc.), the strongest signals point to cellular growth control and fate decisions. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090090","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0016477","count":4}]},{"hash":"723115648631699542","title":"Vesicle trafficking and endomembrane transport","description":"The top GO terms mostly describe intracellular vesicle trafficking across the secretory and endocytic pathways (anterograde synaptic vesicle transport, clathrin-coated vesicle cargo loading, ER-to-Golgi and Golgi-to-lysosome transport, endosome-to-melanosome transport, and related sorting processes), indicating a cohesive function in vesicle formation, transport, and sorting within the endomembrane system. A couple of outlier terms related to immune regulation appear but do not define the cluster\u2019s core function. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:0035652","count":2},{"id":"GO:0099590","count":2},{"id":"GO:1900126","count":2},{"id":"GO:0051138","count":2}]},{"hash":"1603248520982104173","title":"Mitosis and Nuclear Transport","description":"The top GO terms cluster around cell division activities (cytokinesis, mitosis) and nucleocytoplasmic transport (nuclear pore assembly, ribosomal protein import into nucleus), with related growth signaling (TORC1) and regulatory processes, suggesting a cohesive theme of mitotic control linked to nuclear transport.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032466","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006610","count":1},{"id":"GO:0038202","count":1},{"id":"GO:0051292","count":1}]},{"hash":"1091375896394079719","title":"LDL receptor endocytosis regulation","description":"Most terms point to regulation of LDL receptor\u2013mediated endocytosis and cholesterol transport (negative/positive regulation of LDL receptor catabolic process, negative regulation of receptor recycling, and receptor-mediated endocytosis in cholesterol transport). A few terms appear unrelated (embryo axis formation, sporulation, pheromone maturation) and may be incidental. Overall, the label captures the dominant functional theme in this set.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":1},{"id":"GO:0001920","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0032804","count":1}]},{"hash":"1571157656676109348","title":"Endocrine GPCR Hormone Signaling in Reproduction","description":"This cluster is dominated by GO terms tied to GPCR-mediated hormone signaling and cAMP/PKA pathways (activation of adenylate cyclase, GPCR signaling), including LH and FSH signaling and thyrotropin-releasing hormone response, along with reproductive development terms like uterus development and development of secondary male sexual characteristics, indicating a cohesive theme of endocrine regulation of reproduction (TLR8 signaling appears as a less central/occasional term).","confidence":"High","size":23,"edges":176,"triangles":660,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":23},{"id":"GO:0007190","count":23},{"id":"GO:0071373","count":23},{"id":"GO:0034158","count":23},{"id":"GO:0010738","count":23}]},{"hash":"845211696036992464","title":"Pubertal endocrine signaling","description":"This cluster shows strong enrichment for reproductive hormone pathways and developmental processes: Sertoli cell development, FSH signaling, primary ovarian follicle growth, and development of secondary sexual characteristics, plus related hormonal signaling (thyrotropin-releasing hormone response). While immune signaling terms appear, the dominant pattern points to endocrine regulation of puberty and reproductive development.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":22},{"id":"GO:0002755","count":22},{"id":"GO:0007200","count":22},{"id":"GO:0032962","count":22},{"id":"GO:0034154","count":22}]},{"hash":"362144823433265524","title":"Nuclear RNA processing, surveillance, and decay","description":"These proteins co-cluster around nuclear RNA metabolism: intron homing, nuclear mRNA surveillance, exosome- and poly(A)-dependent decay pathways, rRNA processing/decay (ITS2 cleavage, nonfunctional rRNA decay, histone mRNA decay), and transcription termination linked to RNA turnover. This suggests a cohesive module centered on nuclear RNA quality control and maturation rather than cytosolic functions.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3},{"id":"GO:0071028","count":1},{"id":"GO:0070370","count":1},{"id":"GO:0070651","count":1},{"id":"GO:0000448","count":1}]},{"hash":"225903945055897316","title":"ER-Golgi trafficking and proteostasis","description":"Top GO terms point to vesicle transport between the ER and Golgi (anterograde and retrograde), mRNA transport, GTPase activity regulation, TORC1 signaling, and ubiquitin-mediated protein turnover. Together these indicate a cluster focused on the secretory pathway and protein quality control, with some links to cell division and neuronal projection processes. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051028","count":3}]},{"hash":"298388569566320970","title":"Intracellular signaling and trafficking","description":"The cluster combines signaling pathways (cytokine signaling, STAT regulation, TORC1 signaling) with intracellular transport and organelle-related processes (nuclear import, nuclear pore assembly, ciliary docking, proton transport, vacuolar acidification), suggesting a shared theme of signaling coordinated with intracellular transport and organelle function rather than a single narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019221","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0006610","count":1},{"id":"GO:0038202","count":1}]},{"hash":"1009492968323793401","title":"Auxin transport and signaling in root development","description":"The cluster\u2019s top GO terms cluster around auxin biology\u2014auxin-activated signaling, auxin polar transport, auxin export across the plasma membrane, and transmembrane transport\u2014with associated root development (adventitious root) terms. While transcription-related terms and RNA methylation appear, the dominant signal is auxin transport and signaling tied to root development, suggesting these proteins function together in auxin-mediated growth regulation rather than a general transcriptional module. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009734","count":2},{"id":"GO:0009926","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0010315","count":2},{"id":"GO:0080162","count":2}]},{"hash":"742703664076633545","title":"RNA processing and ribosome biogenesis","description":"The top GO terms point to preribosome assembly (90S), pre-catalytic spliceosome assembly, polyadenylation/cleavage of pre-mRNA, and rRNA processing, all of which center on RNA maturation and ribosome biogenesis in the nucleus. This suggests a cohesive cluster of proteins involved in RNA processing and assembly of ribosomal and spliceosomal machinery. Some terms are labeled obsolete or peripheral (e.g., antisense RNA metabolism, DNA damage checkpoint signaling), but the core signal reflects nucleolar/nuclear RNA processing activity.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034463","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0072423","count":1},{"id":"GO:0000354","count":1},{"id":"GO:0042868","count":1}]},{"hash":"1959412968228477260","title":"Unknown","description":"The top GO terms include transcription initiation and RNA polymerase II preinitiation complex assembly, which hint at nuclear transcription activity, but they are accompanied by a wide mix of unrelated terms (cytokinin signaling, histone acetylation, doxorubicin metabolism, renal water homeostasis, sorbitol biosynthesis, kidney development, and stress responses). This spread suggests no single coherent functional theme for the cluster, so a specific label cannot be confidently assigned. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006352","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0009736","count":1},{"id":"GO:0043966","count":1},{"id":"GO:0044598","count":1}]},{"hash":"197955341146029496","title":"Telomere regulation and plant hormone signaling","description":"The top GO terms point to telomere maintenance and chromatin regulation (shelterin assembly, D-loop disassembly, RNA localization to telomeres, histone acetylation), suggesting a core function in nuclear DNA maintenance and chromatin control. Additionally, multiple terms relate to plant developmental signaling and stress responses (ethylene, ABA, seed growth, chlorophyll biosynthesis), indicating these regulators also participate in hormone-mediated growth processes. Taken together, the cluster seems centered on telomere/chromatin regulation with links to plant hormone\u2013driven development. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0016032","count":6},{"id":"GO:1990414","count":5},{"id":"GO:1905839","count":5},{"id":"GO:1904792","count":5},{"id":"GO:0010380","count":5}]},{"hash":"2246085715297358260","title":"Plant Telomere Maintenance and Shelterin Regulation","description":"This cluster is dominated by telomere-related GO terms: positive regulation of shelterin complex assembly, telomeric loop formation, and regulation of RNA localization to telomeres, plus replication-born double-strand break repair via sister chromatid exchange, indicating a role in chromosomal stability in plants. A few entries pertain to general plant processes (ethylene/ABA responses, chlorophyll biosynthesis, seed growth) that may reflect broader gene regulation but do not diminish the telomere-centered theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":10},{"id":"GO:1905839","count":10},{"id":"GO:1904792","count":10},{"id":"GO:0010380","count":10},{"id":"GO:0009723","count":10}]},{"hash":"1841785697062346856","title":"Regulators of signaling and gene expression","description":"The top GO terms highlight broad regulatory roles, including regulation of mRNA stability, chromatin remodeling, intracellular signaling, and regulation of synaptic plasticity, with additional neural development signals (cerebellar granule cell differentiation). This suggests a cluster of proteins that modulate gene expression and signaling pathways, shaping neuronal function and development, rather than a single, narrow pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":3},{"id":"GO:2001275","count":3},{"id":"GO:1900103","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1325726880829418829","title":"Wnt signaling and neural development","description":"This cluster is dominated by GO terms related to signaling and neural development, including Wnt signaling (GO:0016055), cerebellar granule cell differentiation (GO:0021707), intracellular signal transduction (GO:0035556), and synaptic plasticity regulation (GO:1900383). While there are additional terms touching on cell cycle, immune regulation, and cardiac morphogenesis, the recurring themes center on developmental signaling pathways and neural differentiation, suggesting proteins that participate in signaling networks guiding neural development and synaptic function. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4}]},{"hash":"42349242701845639","title":"Unknown","description":"The top GO terms cover a broad and disparate set of processes (spindle assembly; protein ubiquitination; cellular response to mechanical stimulus; cerebellar granule cell differentiation; intracellular signal transduction; regulation of synaptic plasticity by receptor localization to synapse; IL-12 production regulation; cardiac right atrium morphogenesis; Wnt signaling; obsolete telomeric DNA binding). There is no single clear function or pathway tying these proteins together, and there are zero edges, suggesting a heterogeneous cluster rather than a cohesive module. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2}]},{"hash":"2238894310563566314","title":"Developmental Signaling and Immune Regulation","description":"Most terms point to signaling and differentiation: intracellular signal transduction (GO:0035556), Wnt signaling (GO:0016055), regulation of synaptic plasticity by receptor localization to synapse (GO:1900383), and developmental morphogenesis/differentiation (GO:0021707 cerebellar granule cell differentiation; GO:0003213 cardiac right atrium morphogenesis; GO:0060843 venous endothelial cell differentiation). Immune regulation terms (GO:0045083 negative regulation of IL-12 production; GO:0033028 myeloid cell apoptotic process) suggest signaling roles in immunity as well. The combination suggests a cluster of proteins involved in signaling networks that regulate development across tissues and modulate immune responses, rather than a single organ or pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"1705706982854241641","title":"Unknown","description":"The terms span translation initiation, actin cytoskeleton regulation, ubiquitin-proteasome\u2013mediated degradation, neuronal development, epithelial proliferation, rRNA processing, and mitotic spindle orientation, with no single dominant theme. There isn\u2019t a cohesive function tying all proteins together, so a meaningful, specific label is not apparent.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0006378","count":2},{"id":"GO:0000448","count":2}]},{"hash":"485776077316520","title":"Plant Telomere Maintenance and Chromatin Regulation","description":"This cluster centers on telomere biology and chromatin regulation in plants, with terms for shelterin complex assembly, telomeric loop formation, RNA localization to telomere, and telomere-associated DNA repair, plus histone acetylation regulation. Plant-specific processes such as chlorophyll biosynthesis regulation, ethylene and abscisic acid responses, and seed growth suggest integration of genome maintenance with developmental and stress signaling in a plant context.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"2188508633237509254","title":"Developmental Signaling and Differentiation","description":"The protein set shows broad involvement in signaling and developmental processes, with GO terms spanning intracellular signal transduction, Wnt signaling, and differentiation of neural and cardiovascular lineages (cerebellar granule cells, cardiac/right atrium morphogenesis, venous endothelial differentiation), plus related immune regulation and mechanosensory responses. This pattern suggests a cohesive theme around signaling pathways that drive development and cell fate decisions across multiple tissues, rather than a single narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":12},{"id":"GO:0021707","count":12},{"id":"GO:0035556","count":12},{"id":"GO:1900383","count":12},{"id":"GO:0045083","count":12}]},{"hash":"1925017828033754981","title":"Plant Telomere Maintenance and Shelterin Regulation","description":"The top GO terms point to telomere biology\u2014shelterin assembly, telomeric loop formation, and RNA localization to telomeres\u2014indicating a common function in telomere maintenance. Plant-specific terms for hormone responses and chlorophyll biosynthesis are present but likely reflect broader developmental and stress contexts rather than a separate function of the cluster. Overall, the primary theme appears to be telomere regulation in plants.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0009723","count":2}]},{"hash":"1987377525487223","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (mechanical stimulus response, neural differentiation, intracellular signaling, synaptic regulation, immune modulation, cardiac development, Wnt signaling, telomere regulation, apoptosis, and endothelial differentiation), with no single unifying function emerging for this cluster. The diversity suggests no coherent shared biology among the proteins, hence Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1651661825013270483","title":"Unknown","description":"The top GO terms are highly diverse, spanning circadian rhythm and red/far-red light signaling, transcription regulation, chromatin modification, hormone signaling, development, and metabolism, with only single-term representations. There isn\u2019t a single cohesive function linking all 23 proteins, so a clear, meaningful label can\u2019t be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042753","count":1},{"id":"GO:0009585","count":1},{"id":"GO:0010018","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0043969","count":1}]},{"hash":"723603481584182639","title":"Developmental Signaling and Differentiation","description":"These terms converge on signaling pathways that drive development and tissue differentiation across neural, cardiovascular, and vascular contexts, including neural differentiation, synaptic regulation, Wnt signaling, and mechanotransduction. While some terms reflect broader immune signaling, the dominant theme is cell signaling guiding development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"1098218181023630659","title":"Unknown","description":"The GO terms are highly diverse and span plant development (leaf formation, melatonin biosynthesis), animal-related processes (angiogenesis), bacterial biosynthesis (ectoine, mycothiol), and various protein modifications, with no clear unifying function for these 22 proteins; therefore no cohesive label fits.","confidence":"","size":22,"edges":109,"triangles":370,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":11},{"id":"GO:0030187","count":11},{"id":"GO:2000025","count":11},{"id":"GO:0019491","count":11},{"id":"GO:0061606","count":11}]},{"hash":"1378461388089478939","title":"PNS myelination and neural development","description":"The cluster shows a strong enrichment for nervous system\u2013related terms, especially peripheral nervous system myelination and neural development (myelination in peripheral nervous system; cell\u2013cell adhesion; response to morphine as a neural signaling proxy). While some terms relate to general cell cycle processes, the dominant theme centers on neural development and myelination, with supporting lipid metabolism connections (sphingomyelin catabolic process) typical of myelin biology.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":22},{"id":"GO:0007498","count":22},{"id":"GO:0005979","count":22},{"id":"GO:0006685","count":22},{"id":"GO:0043278","count":22}]},{"hash":"850983188793403013","title":"Biosynthesis and Protein Acetylation","description":"The terms cluster around biosynthetic processes (arginine, melatonin, ectoine, mycothiol) and several N-terminal or protein acetylation events, suggesting a theme of biosynthesis coupled with post-translational modification rather than a single organism-specific pathway.","confidence":"Medium","size":22,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0030187","count":4},{"id":"GO:2000025","count":4},{"id":"GO:0019491","count":4},{"id":"GO:0061606","count":4}]},{"hash":"1362466200410726855","title":"Ribosome Biogenesis and ER Protein Handling","description":"The cluster is enriched for ribosome biogenesis and SSU-rRNA maturation terms, alongside ER-associated processes such as deubiquitination and tail-anchored membrane protein insertion into the ER, suggesting a common theme around ribosome assembly coordinated with ER-focused protein quality control. Some terms (e.g., spindle pole body duplication, GnRH neuron development) may be peripheral or annotation noise, but the dominant signal centers on ribosome assembly and ER-related protein handling.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":18},{"id":"GO:0021888","count":16},{"id":"GO:1903071","count":16},{"id":"GO:0000028","count":16},{"id":"GO:1901340","count":16}]},{"hash":"1567298270201518174","title":"Plant catabolic metabolism and oxidative detoxification","description":"The top GO terms show a clear emphasis on catabolic processes for diverse substrates (uracil, triglyceride, chlorophyll, phosphatidylserine, 3-phenylpropionate) and a general cellular oxidant detoxification process, which together point to protein sets involved in breakdown and oxidative management in plants. Some plant-specific terms (strigolactone biosynthesis, secondary shoot formation) suggest a plant-context functional cluster, reinforcing a broader theme of plant metabolism with a catabolic/detoxification focus. While there is some diversity (including a biosynthetic term), the prevailing pattern is cohesive enough to label as plant catabolic metabolism and detoxification. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0006212","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0097755","count":7},{"id":"GO:0019433","count":7}]},{"hash":"1509888423317476176","title":"Translational initiation and ribosome biogenesis","description":"The cluster is dominated by GO terms tied to translation initiation (formation of the preinitiation complex, reinitiation, regulation) and ribosome biogenesis, including viral IRES-dependent initiation and reinitiation, suggesting a cohesive focus on protein synthesis machinery. Ubiquitin-proteasome related terms appear but seem secondary to the core translational theme; a few outliers (SREBP signaling, neuron projection development) may reflect broader roles in specific contexts rather than primary function of the cluster.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":8},{"id":"GO:1904668","count":6},{"id":"GO:0032933","count":6},{"id":"GO:0042254","count":6}]},{"hash":"1519510548311559421","title":"Detoxification and transcription regulation cluster","description":"Dominant GO terms include cellular oxidant detoxification and transcription-related processes (DNA-templated transcription, negative regulation of transcription by RNA polymerase II, positive regulation of DNA binding). Some metabolic terms (glycerol catabolic, glycerophospholipid metabolism, glycol catabolic) appear but are less central. Overall, the cluster seems to unite proteins involved in oxidative stress response with transcriptional control, suggesting a coordinated stress-response module with a metabolic link.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098869","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0046826","count":4}]},{"hash":"471301164938738984","title":"Yeast ethanol metabolism and chitin stress response","description":"The top GO terms center on fermentation to ethanol and cellular/biochemical responses to ethanol, plus a chitin-related response, which together suggest a fungal/yeast\u2013like cluster focused on metabolism and cell-wall stress. Additional terms (thiamine biosynthesis, chaperone-mediated assembly) fit a broader metabolic/stress context but some terms appear non-specific or plant/human in origin, indicating the core theme is plausible but not exclusively cohesive. The lack of edges supports a functional grouping by shared metabolic/stress roles rather than a defined molecular complex.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":2},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:0010200","count":1},{"id":"GO:0071361","count":1}]},{"hash":"1804510564620577623","title":"Neuroimmune signaling in brain","description":"The cluster combines innate immune terms (response to dsRNA, lipopolysaccharide, interferon-beta production) with neural/sensory terms (visual perception, corpus callosum development, synapse assembly, pain behavior, dopamine response), suggesting proteins involved in neuroimmune interactions affecting brain function and sensory processing. Some terms may reflect broader brain development or expression rather than direct immune roles, so the label is plausible but not definitive.","confidence":"Medium","size":22,"edges":111,"triangles":196,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":21},{"id":"GO:0043330","count":21},{"id":"GO:0014068","count":21},{"id":"GO:0045087","count":21},{"id":"GO:0071222","count":21}]},{"hash":"1833643824248433825","title":"Unknown","description":"The top terms span very diverse processes (actin filament bundle assembly, ribosome disassembly, nitrosylation, lipase and serotonin regulation, sulfate assimilation, endothelial and smooth muscle biology) and include obsolete GO terms, giving no clear shared function across the cluster. Therefore there is no coherent theme to name it; label as Unknown.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0060192","count":1},{"id":"GO:0051612","count":1},{"id":"GO:0000103","count":1}]},{"hash":"1272606047783598035","title":"Unknown","description":"This cluster has no enriched GO terms or interactions to tie the 22 proteins together; with 0 edges/triangles and no top terms, there\u2019s no detectable shared function. As a result, a meaningful label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"39225475767170322","title":"Spermatid flagellum inner dynein arm assembly","description":"The top GO terms are dominated by spermatid development and inner dynein arm assembly, both indicating ciliary/flagellar structures and microtubule motor activity in sperm. While a few other terms appear (endosome localization, lipophagy, mechanical response), the core signal ties to flagellum/dynein machinery and spermatid formation, justifying this focused label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0006314","count":1},{"id":"GO:2000574","count":1},{"id":"GO:0036159","count":1},{"id":"GO:0071260","count":1}]},{"hash":"1180371093732423239","title":"Unknown","description":"This cluster's GO terms span many distinct biological themes (visual perception, brain and lung development, signaling pathways like ERBB, apoptosis, spindle microtubule attachment, ion transport, and even biofilm formation). There isn't a single, cohesive function that ties these proteins together, so a precise, representative name cannot be assigned.","confidence":"","size":22,"edges":203,"triangles":1074,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0071109","count":22},{"id":"GO:0090606","count":22},{"id":"GO:0032762","count":22},{"id":"GO:0060045","count":22}]},{"hash":"1908045792432389247","title":"Unknown","description":"The proteins have a mix of GO terms spanning transcription (DNA-templated), apoptosis (intrinsic signaling in response to DNA damage and anoikis), immune signaling (TLR4 pathway), development (forebrain and lymphangiogenesis), cytokinesis regulation, and mRNA stability, with no clear dominant theme or interaction network (Edges 0). This heterogeneity makes it inappropriate to assign a single, coherent functional label.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0034145","count":2},{"id":"GO:0043276","count":2},{"id":"GO:0070345","count":2},{"id":"GO:0008630","count":2}]},{"hash":"228758751886924595","title":"Ubiquitin-Mediated Regulation of Transcription and Signaling","description":"The top GO terms are dominated by ubiquitination events (K48-linked, polyubiquitination, autoubiquitination) and by negative regulation of transcription by RNA polymerase II, with additional hints of regulation in Toll-like receptor signaling, cell cycle, and necroptosis. This suggests a coherent theme where ubiquitin-dependent mechanisms modulate transcriptional programs and immune/signaling pathways, despite some outlier or obsolete terms. Hence the label focuses on the core function: ubiquitin-driven control of transcription and signaling processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0070936","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0060816","count":1},{"id":"GO:0034121","count":1}]},{"hash":"701925686547230564","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1}]},{"hash":"2067795029556702852","title":"Neural and germline development with ciliary/spindle machinery","description":"This cluster includes terms tied to neural development (positive regulation of neuroblast proliferation, neuronal stem cell population maintenance, ventricular system development) and germline development (female germ-line stem cell asymmetric division, male gonad development), as well as ciliary/flagellar and spindle-related processes (cilium movement, axonemal central apparatus assembly, meiotic spindle assembly/localization). The common theme appears to be developmental programs in neural and reproductive tissues, linked by shared involvement in ciliary structures and spindle apparatus. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002052","count":1},{"id":"GO:0097150","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0030037","count":1},{"id":"GO:0051295","count":1}]},{"hash":"1567835043320087758","title":"Chromatin remodeling and histone acetylation regulators","description":"Top GO terms cluster around histone acetylation and chromatin remodeling, including N-terminal acetylation and chromatin remodeling. Some terms touch on ADP-ribosylation regulation and reproductive development, but the dominant signal is epigenetic regulation of chromatin state.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":3},{"id":"GO:0010835","count":3},{"id":"GO:0018076","count":3},{"id":"GO:0061038","count":3},{"id":"GO:0060765","count":3}]},{"hash":"2016124875991153934","title":"Unknown","description":"The top GO terms are highly disparate (oligodendrocyte differentiation, kinase activation, ribosome biogenesis, endothelial barrier regulation, programmed necrotic cell death, cellulose catabolic process, etc.), and there are no connecting edges among the proteins. This suggests the cluster is a heterogeneous collection without a single, coherent functional theme, so a concise, representative label cannot be determined.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0009405","count":1},{"id":"GO:0036281","count":1}]},{"hash":"801438134888385700","title":"Unknown","description":"The GO terms are diverse and span dendrite morphogenesis, Rho signaling regulation, apoptotic cell engulfment, membrane localization, and even bone resorption or stress responses, with several terms labeled obsolete. There isn\u2019t a single clear biological process tying these terms together, and the cluster has few connections (low edge count, no triangles), suggesting the proteins may be involved in multiple distinct or loosely related roles rather than a cohesive function. Confidence in a specific, representative label is therefore None.","confidence":"","size":22,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0048813","count":1},{"id":"GO:0006972","count":1},{"id":"GO:0000160","count":1},{"id":"GO:0045453","count":1}]},{"hash":"1001764561420576203","title":"Reproductive Hormone Signaling and Development","description":"These proteins are enriched for GO terms tied to reproductive development and hormonal signaling (FSH signaling, Sertoli cell development, primary ovarian follicle growth, and development of secondary male sexual characteristics), indicating a core theme of endocrine control of reproduction. While immune signaling terms (MyD88-dependent TLR signaling and TLR7 signaling) and osteoclast differentiation appear in the list, they may reflect shared signaling pathways or pleiotropic roles rather than a single cohesive function of the cluster. Overall, the most representative label is reproductive hormone signaling and development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":22},{"id":"GO:0002755","count":22},{"id":"GO:0007200","count":22},{"id":"GO:0032962","count":22},{"id":"GO:0034154","count":22}]},{"hash":"860570081344456643","title":"Autophagy and Endosomal-Vesicle Trafficking","description":"Based on the GO terms, the cluster is best characterized by endosomal-lysosomal vesicle trafficking and autophagy regulation, including intralumenal vesicle formation, multivesicular body sorting, MVB-lysosome fusion, and autophagosome assembly modulation. Supporting terms related to intracellular transport and ER targeting reinforce this trafficking theme, while a few terms (mitotic chromosome condensation, follicle cell stalk formation) appear peripheral. Overall, the cluster seems to group proteins involved in vesicle trafficking and autophagy processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902187","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0070676","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0071454","count":1}]},{"hash":"1050812633541251311","title":"Translation initiation and fidelity regulation","description":"The main terms point to protein synthesis and, specifically, how initiation is regulated, including translational fidelity and the negative regulation of preinitiation complex formation. This suggests the cluster's proteins function in controlling translation initiation and the accuracy of initiation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":1},{"id":"GO:1901194","count":1}]},{"hash":"1607009177290271329","title":"Endosomal-lysosomal and synaptic vesicle trafficking","description":"The top GO terms cluster around intracellular vesicle transport and organelle trafficking, including ER-to-Golgi vesicle transport, lysosome targeting, endosome-to-lysosome pathways, and synaptic/vesicle membrane organization. Additional terms for melanosome organization and immune-related vesicle processes (NK degranulation, antigen processing) fit into vesicle dynamics and secretion, supporting a cohesive function in vesicle trafficking and endolysosomal pathways.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:1990019","count":6},{"id":"GO:0048007","count":6},{"id":"GO:0032438","count":6},{"id":"GO:0099590","count":6}]},{"hash":"2221604727428352450","title":"Developmental signaling and differentiation","description":"This cluster's terms center on signaling pathways (intracellular signal transduction, Wnt signaling, receptor localization affecting synaptic plasticity) and tissue differentiation (cerebellar granule cells, venous endothelial cells, cardiac right atrium morphogenesis), suggesting proteins involved in developmental signaling across neural, cardiac, and vascular contexts. Some immune terms appear but fit within broader signaling roles; overall, the set points to developmentally oriented signaling rather than a single tissue-specific function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":22},{"id":"GO:0021707","count":22},{"id":"GO:0035556","count":22},{"id":"GO:1900383","count":22},{"id":"GO:0045083","count":22}]},{"hash":"2208356834875426460","title":"Reproductive Hormone GPCR Signaling","description":"The cluster\u2019s dominant GO terms point to GPCR-triggered hormone signaling pathways (LH/FSH, PLC activation, cAMP/PKA signaling) involved in reproductive development (uterus development, secondary sexual characteristics), suggesting a cohesive theme of endocrine signaling governing reproductive processes; a few terms (like TLR8 signaling) appear as noise or incidental associations.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":22},{"id":"GO:0007190","count":22},{"id":"GO:0071373","count":22},{"id":"GO:0034158","count":22},{"id":"GO:0010738","count":22}]},{"hash":"2243303883186500192","title":"Ubiquitin-Dependent Protein Regulation","description":"The GO terms cluster around ubiquitination and ubiquitin-mediated proteolysis (K33-linked ubiquitination, ubiquitin-dependent protein catabolic process, and regulation of ubiquitination), suggesting a functional group centered on protein turnover and signaling via ubiquitin. Some other terms seem unrelated or noisy, but the dominant pattern supports a ubiquitin-regulated protein metabolism theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009246","count":1},{"id":"GO:1904431","count":1},{"id":"GO:1990390","count":1},{"id":"GO:0070294","count":1},{"id":"GO:0031397","count":1}]},{"hash":"2064528106783484643","title":"Transcription Regulation and ER Stress Response","description":"The cluster is dominated by DNA-templated transcription and RNA polymerase II regulatory region control, with notable signals of redox homeostasis, oxidative detoxification, and ER stress response, suggesting a group of nuclear transcription regulators whose activity is linked to oxidative and ER stress pathways. Although there are few or no interactions, the functional theme centers on transcription control paired with cellular stress responses.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0045454","count":5},{"id":"GO:0055114","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0030091","count":5}]},{"hash":"2093912264169317739","title":"Ribosome biogenesis and RNA processing","description":"This cluster is dominated by GO terms tied to rRNA maturation (SSU/LSU/5.8S), ribosomal large subunit biogenesis, and RNA processing activities (mRNA splicing, RNA methylation). Those recurrent themes point to a set of proteins primarily involved in ribosome assembly and RNA maturation, with a few additional multifunctional annotations likely reflecting broader roles or annotation noise.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0043981","count":2}]},{"hash":"794224767328043853","title":"Reproductive Hormone GPCR Signaling","description":"This cluster is dominated by GO terms for GPCR-mediated signaling triggered by reproductive hormones (LH/FSH) and related hypothalamic hormones (TRH), including cAMP/PKA and PLC pathways, with downstream phenotypes like uterus development and secondary sexual characteristics. A minor outlier term (TLR8 signaling) is present but does not outweigh the core theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":22},{"id":"GO:0007190","count":22},{"id":"GO:0071373","count":22},{"id":"GO:0034158","count":22},{"id":"GO:0010738","count":22}]},{"hash":"969858393596409614","title":"Insect development and glycosylation","description":"Top GO terms cluster around glycosylation and secretion, cytoskeleton organization, and larval cuticle development, all features commonly involved in insect development and cell surface remodeling. While one term about female meiotic division seems less connected, the dominant signals point to developmental processes in insects, especially surface modification and structural changes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007143","count":2},{"id":"GO:0097370","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0009306","count":1}]},{"hash":"1329145815807808746","title":"RNA polymerase assembly and transcription machinery","description":"This cluster is dominated by GO terms for the assembly of RNA polymerase I, II, and III cores and associated transcription regulation and elongation steps, suggesting a cohesive theme around transcription machinery. While there are additional terms related to general protein folding and other cellular processes, they do not outweigh the central signal of RNA polymerase complex assembly.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":1},{"id":"GO:0031137","count":1},{"id":"GO:0007021","count":1},{"id":"GO:1990113","count":1},{"id":"GO:1990115","count":1}]},{"hash":"611505605368996734","title":"Plant telomere maintenance and chromatin regulation","description":"The cluster centers on telomere biology\u2014shelterin assembly, telomere loop formation, and replication-associated repair\u2014indicating a role in genome stability and chromatin regulation. The accompanying plant-development terms (chlorophyll biosynthesis regulation, seed growth, responses to ethylene and ABA) suggest this telomere/chromatin axis operates within a plant growth context, reinforcing a cohesive functional theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4},{"id":"GO:0009723","count":4}]},{"hash":"1614133578705596974","title":"ER protein folding and MHC I antigen presentation","description":"This cluster centers on Endoplasmic Reticulum\u2013associated processes, with GO terms for ER unfolded protein response and protein folding, and the peptide loading/assembly for MHC class I antigens. While there are additional signals related to immune signaling and development, the dominant theme is ER protein quality control and antigen processing/presentation, tying these proteins together.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0033144","count":1},{"id":"GO:1901224","count":1},{"id":"GO:0048488","count":1}]},{"hash":"1001290499000445231","title":"Unknown","description":"The top GO terms span neural development (cerebellar granule cell differentiation) and synaptic regulation, mechanotransduction, and include diverse immune and cardiovascular/developmental processes, with no single unifying function. This lack of a cohesive theme suggests no specific cluster label beyond Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":12},{"id":"GO:0035556","count":12},{"id":"GO:1900383","count":12},{"id":"GO:0045083","count":12}]},{"hash":"1767978451622887966","title":"Developmental signaling and tissue differentiation","description":"Top terms span intracellular signal transduction, Wnt signaling, neural development and synaptic plasticity, and various tissue differentiation processes (heart, cerebellar, endothelium). This mix suggests a cohesive theme of signaling cascades guiding development and morphogenesis across tissues, with mechanotransduction also involved. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0021707","count":11},{"id":"GO:0035556","count":11},{"id":"GO:1900383","count":11},{"id":"GO:0045083","count":11}]},{"hash":"1638882366088386419","title":"Unknown","description":"The cluster provides almost no functional signal: only one obsolete GO term is present, and there are no edges or connections among proteins, making it impossible to derive a coherent, representative function label.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"862872951053585520","title":"Unknown","description":"GO terms span GPCR signaling, mitotic processes, synaptic plasticity, lens differentiation, and ubiquitination; there is no single cohesive function linking these terms, and the network has no edges to clarify relationships. Therefore Unknown with None","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007200","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0032466","count":2},{"id":"GO:0031915","count":2}]},{"hash":"1931873872165736547","title":"Gonadal Hormone Signaling","description":"Most terms point to responses to luteinizing hormone stimulus, FSH signaling, Sertoli cell development, and primary ovarian follicle growth, indicating a cluster centered on gonadal hormone signaling and reproductive development. Some immune signaling terms (TLR pathways) are present but less central.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071373","count":3},{"id":"GO:0045670","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0032962","count":2}]},{"hash":"1703594624659546556","title":"Cytoskeleton remodeling and cell polarity","description":"The cluster is enriched for GO terms tied to actin-based structures (filopodium and ruffle assembly) and small GTPase signaling that regulate cytoskeleton dynamics, polarity, and cell junctions (cell polarity establishment and tight junction assembly), with links to ephrin signaling. This combination points to a cohesive function in cytoskeleton remodeling and cell migration/polarization rather than a single isolated process.","confidence":"High","size":21,"edges":185,"triangles":928,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0048013","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0046847","count":2}]},{"hash":"2152079754371347923","title":"Innate immune signaling with NF-kappaB and ubiquitination","description":"The cluster is enriched for innate immune response and regulation of NF-kappaB transcription factor activity, complemented by multiple ubiquitin-related processes (K48- and K6-linked ubiquitination, autoubiquitination) and protein localization to microtubules. This pattern suggests proteins coordinating antiviral or inflammatory signaling through ubiquitin-mediated regulation of NF-kappaB and TNF pathways, potentially linking proteostasis with immune signaling and intracellular transport of viral material.","confidence":"High","size":21,"edges":28,"triangles":11,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0035372","count":7}]},{"hash":"667294229365176925","title":"Plant telomere maintenance and chromatin regulation","description":"Proteins cluster around telomere biology and chromatin regulation in a plant context. Key terms point to telomere maintenance (shelterin assembly, telomeric D-loop disassembly), DNA repair (SCE-based double-strand break repair), and chromatin modulation (histone acetylation). Additional terms reflect plant development and hormone responses (ethylene, abscisic acid) and regulation of chlorophyll biosynthesis and seed growth, suggesting a broader plant growth program linked to genome maintenance.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4}]},{"hash":"1063858590490897519","title":"Diverse Transmembrane Transport of Ions and Small Molecules","description":"This cluster centers on GO terms describing transmembrane transport of a variety of substrates (nitrate, sugars like galactose and arabinose, sialic acid, sodium, phosphate, xenobiotics) and includes a note on neurotransmitter loading into synaptic vesicles. The unifying theme is movement of small molecules across membranes and into vesicles, rather than metabolic steps, so this label captures the shared function of the proteins in the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1893362441242571902","title":"Developmental signaling and mechanotransduction","description":"This cluster's terms cluster around signaling and development across tissues\u2014intracellular signal transduction, neural differentiation (cerebellar granule cells), cardiac and venous endothelial morphogenesis, and Wnt signaling\u2014with an emphasis on responses to mechanical stimuli. The common theme is signaling mediators that guide development and mechanotransduction rather than a single tissue-specific function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":15},{"id":"GO:0021707","count":15},{"id":"GO:0035556","count":15},{"id":"GO:1900383","count":15},{"id":"GO:0045083","count":15}]},{"hash":"1508012225874834671","title":"Developmental signaling and tissue differentiation","description":"The terms cluster around signaling pathways (notably Wnt and intracellular signal transduction) and differentiation processes across different tissues (neuronal differentiation, endothelial and cardiac morphogenesis), with supporting roles in neural plasticity and immune regulation. This suggests a common theme of development and tissue-specific differentiation governed by signaling networks, rather than a single, narrow function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"2108392452688207530","title":"RNA processing and mRNA regulation","description":"The strongest signals in this cluster come from GO terms related to RNA metabolism, including mRNA processing and regulation of mRNA stability (and an obsolete RNA hydrolysis term), suggesting a shared theme of post-transcriptional control and gene expression regulation. While other terms touch on adipogenesis or stimulus responses, they appear weaker than the RNA processing signals. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":6},{"id":"GO:0071446","count":5},{"id":"GO:0072660","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0050966","count":5}]},{"hash":"429613495014561373","title":"Stress Response and DNA Repair Transporters","description":"The cluster appears enriched for responses to antibiotics and heavy metals (antibiotic and mercury ion), along with DNA damage response and repair processes (SOS response, nucleotide-excision repair). It also includes diverse transmembrane transport activities (amino acids, monoatomic anions, methionine, doxorubicin), suggesting a cohesive module of stress sensing, toxin efflux/uptake, and DNA repair coordination.","confidence":"Medium","size":21,"edges":101,"triangles":178,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0060702","count":2},{"id":"GO:0046689","count":2},{"id":"GO:0003333","count":2},{"id":"GO:0072089","count":2}]},{"hash":"2165242686797141734","title":"Unknown","description":"The top terms span extremely different biological domains (animal development like angiogenesis; plant processes like melatonin biosynthesis and leaf formation; bacterial biosynthetic pathways such as mycothiol and ectoine; various post-translational modifications including N-terminal acetylation/propionylation; and chromatin regulation). There isn\u2019t a single coherent function tying these terms together, so a precise, representative label isn\u2019t feasible.","confidence":"","size":21,"edges":12,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060358","count":11},{"id":"GO:0001525","count":9},{"id":"GO:0030187","count":9},{"id":"GO:2000025","count":9},{"id":"GO:0019491","count":9}]},{"hash":"616774930881822630","title":"Gonadotropin Signaling via GPCR-cAMP Pathways","description":"The top GO terms cluster around hormone signaling driven by gonadotropins (FSH/LH) and related GPCR-cAMP pathways, including activation of adenylate cyclase and downstream PKA signaling. Terms such as cellular response to luteinizing hormone stimulus, FSH signaling, LH signaling, and GPCR-mediated phospholipase C activation point to a cohesive reproductive hormone signaling module. Related items like uterus development and secondary sexual characteristics reinforce the reproductive context. A few terms (e.g., TRH response, TLR8 signaling) are peripheral, but the dominant theme is GPCR-cAMP\u2013based hormone signaling in reproductive tissues.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0071373","count":17},{"id":"GO:0034158","count":17},{"id":"GO:0010738","count":17}]},{"hash":"1590128824479759524","title":"Vesicle trafficking and endocytosis","description":"This cluster is best labeled Vesicle trafficking and endocytosis because several top terms strongly converge on intracellular transport, clathrin-mediated endocytosis, and synaptic vesicle coating, indicating a vesicle trafficking focus; other terms such as ribosome biogenesis and histone modification may be less central or reflect annotation noise.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0016183","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0042254","count":2}]},{"hash":"669759748557531724","title":"Mitosis and cell division machinery","description":"The cluster is enriched for mitotic and cell division processes (mitotic sister chromatid cohesion, APC-dependent catabolic process, mitotic spindle assembly, cell division, etc.), indicating a cohesive module of proteins coordinating chromosome segregation and mitotic progression. Additional terms on cytoskeletal dynamics (actin depolymerization) and nuclear pore localization support mitotic reorganization, with a tissue-specific term like lens fiber differentiation appearing as a peripheral feature. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0090344","count":3},{"id":"GO:0070306","count":3},{"id":"GO:1903461","count":3}]},{"hash":"1958850556990011947","title":"Neuronal development and synaptic transmission","description":"This cluster is dominated by neural-related terms: brain development, neural tube patterning, regulation of synaptic vesicle exocytosis, and regulation of glutamatergic synaptic transmission, along with dendrite development and establishment of epithelial cell polarity, suggesting a cohesive role in neuronal differentiation and synaptic communication. Some terms like cell cycle and apoptotic processes in non-neural contexts appear as broader cellular regulators, and one term (lipoprotein particle assembly) is less connected; overall, the neural development/synaptic function theme is strong, justifying the chosen label.","confidence":"Medium","size":21,"edges":107,"triangles":200,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033028","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0097284","count":5},{"id":"GO:2000171","count":5},{"id":"GO:0090162","count":5}]},{"hash":"989318851666903441","title":"Cytoskeletal remodeling and vesicle trafficking","description":"These terms converge on cytoskeletal remodeling (filopodium and stress fiber assembly, cell spreading) with membrane trafficking (retrograde Golgi-to-ER transport, endocytosis) and signaling pathways (T cell receptor signaling, Wnt). Together, they point to proteins coordinating cell shape changes, trafficking, and signal transduction during immune responses, migration, and division.","confidence":"High","size":21,"edges":7,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":8},{"id":"GO:0051496","count":8},{"id":"GO:0006890","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0007399","count":8}]},{"hash":"1430914183096647018","title":"Intron Homing and Epigenetic Regulation","description":"Most enriched term is intron homing (GO:0006314) with 4 members, pointing to genome mobility. The other terms touch on epigenetic regulation (DNA methylation, histone modification) and a few developmental processes, but many are obsolete or low-frequency. Together they suggest a cluster related to genome dynamics and its epigenetic control, though the signal is strongest for intron homing and weaker for the rest.","confidence":"Medium","size":21,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":4},{"id":"GO:2000791","count":1},{"id":"GO:0010216","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0043972","count":1}]},{"hash":"263935768917714818","title":"Unknown","description":"The GO terms are extremely diverse, spanning neural development (visual perception, superior temporal gyrus development), organ development (lung mesenchyme, cardiac muscle proliferation), signaling (ERBB pathway), apoptosis, ion transport, spindle-kinetochore attachment, and even a biofilm formation term. This lack of a single coherent functional theme across the cluster suggests no clear, representative high-level label can be confidently assigned.","confidence":"","size":21,"edges":21,"triangles":3,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0071109","count":19},{"id":"GO:0090606","count":19},{"id":"GO:0032762","count":19},{"id":"GO:0060045","count":19}]},{"hash":"292088536227087498","title":"Tissue Morphogenesis and Adhesion","description":"These proteins are annotated with GO terms tied to tissue development and shaping (face morphogenesis, labyrinthine layer morphogenesis, odontogenesis) and to cell adhesion, suggesting a cohesive role in morphogenesis and cell\u2013cell interactions during development. Some terms are obsolete, but the overarching theme remains developmental patterning and tissue organization.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0000128","count":1},{"id":"GO:0060325","count":1},{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1}]},{"hash":"693825497038777577","title":"Protein catabolism and metabolic processes","description":"The cluster is dominated by protein catabolic processes (protein catabolic process, hemoglobin catabolic, bradykinin catabolic, insulin catabolic) and metabolic activity (aerobic respiration), pointing to protein turnover and energy metabolism as the shared theme; a few terms like viral process and protein heterooligomerization add some heterogeneity but do not change the overall pattern.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":2},{"id":"GO:0042540","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0016032","count":2},{"id":"GO:1901143","count":2}]},{"hash":"2046999865445981528","title":"Immune Activation and Cytokine Signaling","description":"The cluster includes GO terms tied to immune responses and signaling, notably cellular response to GM-CSF stimulus, cellular response to lipopolysaccharide, T cell receptor signaling, and mast cell cytokine production, indicating an immune activation/inflammatory theme. Some other terms (DNA-templated transcription, apoptosis, brain development) appear as broader regulatory or contextual annotations, but the dominant signal is immune-related.","confidence":"High","size":21,"edges":153,"triangles":601,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":21},{"id":"GO:0071222","count":21},{"id":"GO:0050852","count":21},{"id":"GO:0006351","count":21},{"id":"GO:0007601","count":11}]},{"hash":"1655560180308315355","title":"GPCR-PLC Signaling and Developmental Pathways","description":"The top GO terms highlight signaling (GPCR-PLC pathway, intracellular signal transduction, Wnt signaling) and developmental processes (cerebellar granule cell differentiation, cardiac right atrium morphogenesis), suggesting these proteins participate in signaling networks guiding neural and cardiac development. Some immune-related terms are present, but the dominant pattern points to signal transduction linked to development rather than immune defense.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1}]},{"hash":"1919543807519301502","title":"Endocytic Recycling and PI Signaling","description":"The dominant GO terms cluster around endocytic recycling and receptor recycling, plus phosphoinositide metabolism (PI dephosphorylation and PI3P biosynthesis) and vacuole organization, pointing to vesicle trafficking and lipid signaling as the core theme. Some terms relate to other processes (myelination, cardiac hypertrophy), but the shared pattern centers on endosome recycling and phosphoinositide-driven membrane dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042518","count":1},{"id":"GO:2001135","count":1},{"id":"GO:0046856","count":1},{"id":"GO:0001921","count":1},{"id":"GO:0007033","count":1}]},{"hash":"1222992276489568101","title":"Unknown","description":"The GO annotations include secretion-related terms (Sec complex transport, Type II secretion system\u2013dependent protein secretion), xylan catabolic processes, host interaction and immune regulation terms, membrane targeting, cell adhesion, and unrelated cell-cycle terms. With no cohesive functional theme across all proteins and with only scattered single-term annotations, there isn\u2019t a clear, representative label to assign.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":1},{"id":"GO:0043952","count":1},{"id":"GO:0052051","count":1},{"id":"GO:0015628","count":1},{"id":"GO:1903237","count":1}]},{"hash":"147277251601845033","title":"Ubiquitin-Dependent Protein Turnover and Fate Regulation","description":"This cluster shows strong enrichment for ubiquitination-related processes (autoubiquitination, ubiquitin-dependent proteolysis, polyubiquitination, ERAD) and a connection to histone turnover, plus terms on necroptosis, apoptosis, and cell-cycle regulation, pointing to ubiquitin-mediated proteostasis and control of cell fate.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0085020","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0036205","count":7}]},{"hash":"545779920334655358","title":"Plasma Membrane Amino Acid Transport and Osmoregulation","description":"The GO terms cluster around transmembrane transport of various amino acids (lysine, methionine, D-serine, D-alanine, leucine), and related compounds like carnitine and ammonium, along with osmotic/volume-regulation signals (cell volume homeostasis, hypotonic salinity response). A nitric oxide production term appears as a potential incidental association, but the core theme is plasma membrane transport and osmoregulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006884","count":2},{"id":"GO:0070634","count":2},{"id":"GO:0097639","count":2},{"id":"GO:0071477","count":2},{"id":"GO:0044690","count":2}]},{"hash":"1201788679806437077","title":"Unknown","description":"The top GO terms are highly diverse, including mechanical stimulus response, neuronal differentiation and synaptic signaling, Wnt signaling, cardiac and endothelial development, and immune regulation. There isn\u2019t a single cohesive biological process that ties these functions together, suggesting a mixed set of proteins with varied roles rather than a shared pathway. Therefore, a concise, unified label is not supported.","confidence":"","size":21,"edges":68,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"830847371899108436","title":"Meiotic Recombination and Telomere Maintenance","description":"The terms point to meiotic recombination (heteroduplex formation, chiasma and reciprocal recombination) and telomere maintenance/localization, along with DNA repair and replication, indicating a cluster focused on meiotic genome integrity and telomere biology. Some tRNA aminoacylation terms appear, but the core signal remains meiosis/genome stability.","confidence":"Medium","size":21,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030491","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0051026","count":1},{"id":"GO:0070200","count":1},{"id":"GO:0006430","count":1}]},{"hash":"2256169765908992160","title":"Mitotic spindle assembly and proteostasis","description":"The top GO terms cluster around mitosis and microtubule dynamics (mitotic sister chromatid segregation, mitotic metaphase chromosome alignment, tubulin complex/tubulin organization), suggesting a spindle-related function. Related terms reflect protein homeostasis, including protein folding, chaperone-mediated assembly, and ubiquitin-proteasome\u2013mediated quality control, which are important during cell division for proper protein turnover. A couple of terms are broader (TLR signaling regulation, transcription elongation) but do not override the core mitotic/proteostasis theme. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000070","count":2},{"id":"GO:0007080","count":2},{"id":"GO:0043622","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1}]},{"hash":"758855455975734668","title":"Neuronal axon guidance and nerve morphogenesis","description":"This cluster is dominated by GO terms related to axon guidance and neural development (sensory neuron axon guidance, retinal ganglion cell axon guidance, sympathetic neuron projection guidance, facial nerve organization, paranodal junctions, and regulation of axon extension). While a couple terms are less related (e.g., intron homing, obsolete rhodopsin signaling), the overall pattern points to neuronal pathfinding and nerve patterning across various neuron types.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0097374","count":1},{"id":"GO:1904835","count":1},{"id":"GO:0016062","count":1},{"id":"GO:0030913","count":1}]},{"hash":"2188439265637058550","title":"Plant telomere maintenance and hormone response","description":"This cluster centers on telomere/chromatin\u2013associated processes (shelterin assembly, D-loop disassembly regulation, RNA localization to telomeres) and co-occurring plant growth signals (ethylene and ABA responses, seed growth regulation) along with broader RNA processing and chromatin regulation themes. The mixed GO terms suggest a cohesive, though broad, theme around telomere/chromatin dynamics linked to plant developmental and stress signaling, rather than a single tightly defined function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1}]},{"hash":"2151047597072452928","title":"Plant Hormone Response and Seed Growth Regulation","description":"The top GO terms center on plant hormone signaling (response to abscisic acid, response to ethylene) and growth-related processes (regulation of chlorophyll biosynthetic process, regulation of seed growth), suggesting the cluster mainly reflects hormone-mediated growth and stress responses in plants. Some telomere- and chromatin-related terms appear but are less coherent with the dominant hormone-growth theme, so the core label emphasizes hormone response and seed growth regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1}]},{"hash":"2186142907283839973","title":"Nuclear transport and envelope dynamics","description":"The top GO terms cluster around nuclear import and nuclear envelope processes (ribosomal protein import into nucleus, nuclear pore complex assembly, mitotic nuclear membrane reassembly, obsolete protein import into nucleus), suggesting a shared theme of nuclear transport and envelope remodeling. Some terms related to ciliary docking or signaling appear but do not dominate the cluster\u2019s function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0006388","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0038202","count":1},{"id":"GO:0051292","count":1}]},{"hash":"1205128888491690766","title":"Vesicle trafficking and autophagy","description":"This cluster is enriched for autophagy-related processes and membrane trafficking steps (autophagosome maturation, intralumenal vesicle formation, late endosomal microautophagy, ER-to-Golgi transport, peroxisomal matrix import). It also includes components of dense-core vesicle transport in neurons and cilium movement, pointing to a broader theme of intracellular vesicle trafficking and protein quality control. A couple of terms (mRNA export, UV-damage repair) are less central and may be incidental. Overall, the dominant function appears to be vesicle trafficking coupled with autophagy/quality-control processes.","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0003341","count":2},{"id":"GO:0070914","count":2}]},{"hash":"1781204896399977345","title":"Regulated Signaling and Secretion Pathways","description":"The GO terms cluster around diverse regulatory signaling processes (Wnt, NOD2, IL-12 regulation), vesicle trafficking control (negative regulation of SNARE complex assembly), and secretion-related functions (vasopressin secretion), with ubiquitination as a general regulatory mechanism. Together, they point to proteins involved in controlling signaling and secretion pathways rather than a single specific pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":5},{"id":"GO:0016055","count":5},{"id":"GO:1904743","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0030103","count":5}]},{"hash":"175859749526050955","title":"Hormone GPCR Signaling","description":"The proteins predominantly map to endocrine GPCR signaling pathways, including luteinizing hormone, follicle-stimulating hormone, and thyrotropin-releasing hormone signaling, with downstream effects on adenylate cyclase and PKA/PLC pathways. This aligns with roles in uterus development and sexual characteristic development, suggesting an overall hormone-driven signaling theme; a single immune signaling term (TLR8) appears but does not outweigh the core hormonal connections.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":21},{"id":"GO:0007190","count":21},{"id":"GO:0071373","count":21},{"id":"GO:0034158","count":21},{"id":"GO:0010738","count":21}]},{"hash":"203486208951978720","title":"Nuclear protein import and transport machinery","description":"The top GO terms cluster around import into the nucleus (ribosomal proteins, NLS-bearing proteins, splicing factors) and nuclear pore assembly, with another note on mRNA export; together they indicate a cohesive theme of nuclear import/transport machinery rather than a cytosolic function. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":2},{"id":"GO:0051292","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0042176","count":2}]},{"hash":"1624133354365240967","title":"Sperm flagellum assembly and motility","description":"This cluster centers on sperm/flagellar cilia functions\u2014axoneme assembly, cilium movement, and microtubule regulation\u2014driven by tubulin modifications (polyglycylation and polyglutamylation) and processes like microtubule severing; a couple of extra terms (DNA integration, retrotransposition) are present but do not define the core theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0018094","count":2},{"id":"GO:1905419","count":2},{"id":"GO:0007288","count":2},{"id":"GO:0003353","count":2}]},{"hash":"644406713603950821","title":"DNA Damage Response, Transcription, and Apoptosis","description":"The cluster is enriched for transcription regulation terms (positive/negative regulation of transcription by RNA polymerase II, regulation during G1/S) and an intrinsic apoptotic signaling pathway in response to DNA damage, plus anoikis. Other terms point to development and cell cycle processes, but the prominent links are to DNA damage sensing, transcriptional control, and cell fate decisions via apoptosis. This suggests a cohesive theme around how cells sense DNA damage, adjust transcription, and decide between survival and programmed cell death.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":4},{"id":"GO:0043276","count":2},{"id":"GO:0070345","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0071930","count":2}]},{"hash":"1221174969520835711","title":"Toll-like receptor signaling and innate immunity","description":"This cluster is dominated by GO terms related to Toll-like receptor signaling, including the Toll signaling pathway, TLR4 signaling, and detection of bacterial lipopeptides, plus positive regulation of the inflammatory response, pointing to innate immune sensing and activation. Some terms about angiogenesis or neural guidance appear but are likely background noise; the central theme is TLR-mediated innate immunity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0021972","count":1},{"id":"GO:0008063","count":1}]},{"hash":"406050407809812092","title":"DNA Repair and Transcription Regulation","description":"This cluster centers on DNA-related processes: intron homing, transcription regulation/templated transcription, nucleotide-excision repair, SOS response, and transformation competence. Although a few terms touch on development, the strongest signals are DNA metabolism and transcription control, suggesting a label focused on DNA repair and transcription rather than a single organism-specific function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":6},{"id":"GO:0006355","count":1},{"id":"GO:0019538","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0009432","count":1}]},{"hash":"543400024590429129","title":"TLR Signaling and Inflammatory Cytokine Production","description":"The top GO terms center on toll-like receptor signaling via TLR2 and TLR4, including MyD88-independent pathways, and downstream inflammatory cytokine production (IL-18, TNF, IL-1) with defense against Gram-negative bacteria. This points to a cohesive role in innate immune sensing and inflammatory signaling. Ubiquitin-proteasome\u2013mediated protein turnover and actin filament remodeling are often linked to signaling regulation and immune cell responses, supporting a unified immune activation theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0034142","count":2},{"id":"GO:0050729","count":2}]},{"hash":"2225211062446646539","title":"Nucleobase Transport Across Plasma Membrane","description":"The cluster\u2019s top GO terms are dominated by transport of nucleobases and related metabolites (e.g., hypoxanthine, guanine, adenine, uracil, xanthine, urate) across the plasma membrane, suggesting a shared function in nucleobase uptake or exchange. Some outlier terms (tRNA modification, telomere maintenance) exist but do not define the main theme; the clearest pattern is membrane transport of nucleobases. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":1},{"id":"GO:0070525","count":1},{"id":"GO:0007329","count":1},{"id":"GO:0035344","count":1},{"id":"GO:0098710","count":1}]},{"hash":"569119203218506728","title":"Glycoprotein Processing and ERAD","description":"The cluster centers on glycosylation pathways (O- and N-linked) and ER-associated degradation, including Golgi-based trimming of N-glycans and ubiquitin-dependent ERAD, with a note of cuticle-related glycoproteins in insects. This points to a cohesive theme of glycoprotein maturation and quality control across secretory compartments.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":4},{"id":"GO:0035269","count":4},{"id":"GO:0008363","count":4},{"id":"GO:0036509","count":2},{"id":"GO:0036511","count":2}]},{"hash":"51926041000489735","title":"Immune signaling and reproductive development","description":"The terms point to signaling pathways (TLR/MyD88, TLR7; GPCR-PLC-IP3) as a common theme, with several terms related to reproductive biology (Sertoli cell development, ovarian follicle growth, male sexual characteristics). This suggests a cluster of proteins involved in signaling with roles in both immune responses and reproductive development, though the connections are heterogeneous. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1}]},{"hash":"1226307931091177075","title":"Polysaccharide and O-antigen biosynthesis","description":"This cluster shows GO terms tied to sugar-based biosynthesis and cell-surface components (dTDP-rhamnose biosynthesis, O antigen biosynthesis, extracellular polysaccharide biosynthetic process) and related antibiotic biosynthesis, suggesting a bacterial glycan production theme. Other terms (translation, intron homing, oogenesis) appear more like noise, making the overall signal modest. ","confidence":"Low","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0048477","count":1}]},{"hash":"1437858465095329593","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-focused terms: cerebellar granule cell differentiation, regulation of synaptic plasticity by receptor localization to the synapse, and the Wnt signaling pathway, all pointing to neural development and synaptic function. While there are some immune and cardiac terms present, the neural development and signaling themes are the strongest signal across the top GO terms, suggesting these proteins primarily participate in neural differentiation and synaptic communication.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001275","count":6},{"id":"GO:0071260","count":5},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5}]},{"hash":"2011691397913886047","title":"Developmental signaling and differentiation","description":"The top GO terms center on signaling pathways and development across multiple tissues: Wnt signaling, intracellular signal transduction, neuronal differentiation (cerebellar granule cells), venous endothelial and cardiac morphogenesis, and regulation of synaptic plasticity via receptor localization. While there are some immune-related terms, the dominant theme is signaling cascades that drive development and differentiation in neural, vascular, and cardiac contexts, with synaptic function as a neural-specific facet.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"2117785130822369263","title":"Mechanotransduction signaling cluster","description":"The dominant GO term is cellular response to mechanical stimulus, suggesting these proteins participate in mechanotransduction. Supporting terms span intracellular signal transduction, Wnt signaling, and development/differentiation across neural, cardiac, and vascular contexts, indicating a broad signaling role tied to mechanical cues. Some terms (e.g., myeloid apoptotic process) are less directly connected, but overall the cluster centers on force-responsive signaling pathways.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":21},{"id":"GO:0021707","count":21},{"id":"GO:0035556","count":21},{"id":"GO:1900383","count":21},{"id":"GO:0045083","count":21}]},{"hash":"985441119001714132","title":"Mitochondrial iron homeostasis and respiration","description":"This cluster's GO terms cluster around iron handling in mitochondria (intracellular iron ion homeostasis, response to iron(II) ion, iron incorporation into metallo-sulfur cluster) and mitochondrial respiration (mitochondrial electron transport from succinate to ubiquinone, regulation of cytochrome c release). A few DNA-related terms appear as singleton/obsolete entries and do not define the core theme. The cohesive signal is mitochondrial iron regulation linked to electron transport and cytochrome c dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0071897","count":1},{"id":"GO:0039693","count":1},{"id":"GO:0018283","count":1},{"id":"GO:0010722","count":1}]},{"hash":"1854975491864941359","title":"Unknown","description":"The top terms span mechanotransduction, neural development, signaling, immune regulation, heart/vascular development, and myeloid apoptosis, indicating no single cohesive function or pathway for this cluster. The terms are too diverse to define a common biological theme.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":15},{"id":"GO:0021707","count":15},{"id":"GO:0035556","count":15},{"id":"GO:1900383","count":15},{"id":"GO:0045083","count":15}]},{"hash":"439928558254737043","title":"Unknown","description":"This cluster's top GO terms cover diverse processes across development (cerebellar granule cell differentiation, cardiac right atrium morphogenesis, venous endothelial cell differentiation), signaling (Wnt signaling, intracellular signal transduction, regulation of synaptic plasticity by receptor localization to synapse), immune response (negative regulation of IL-12 production), and mechanical stimulus response, with no evident shared function or connectivity. Therefore there is no cohesive theme to bind the proteins together, yielding Unknown with confidence None. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1763777122083430496","title":"Neural differentiation and synaptic signaling","description":"The top GO terms are dominated by neural development and synaptic regulation concepts (oligodendrocyte and cerebellar granule cell differentiation, Wnt signaling, intracellular signal transduction, and regulation of synaptic plasticity via receptor localization to the synapse). While a few terms touch on immune or cardiac processes, the prevailing theme is neural differentiation and synaptic function, justifying this label as representative of the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":13},{"id":"GO:0071260","count":12},{"id":"GO:0021707","count":12},{"id":"GO:0035556","count":12},{"id":"GO:1900383","count":12}]},{"hash":"1216507302146354031","title":"RNA processing and ribosome biogenesis","description":"The proteins show strong enrichment for RNA processing steps (mRNA splicing via spliceosome, snRNP assembly, tRNA processing, rRNA maturation) and ribosome biogenesis, with supporting terms like nuclear import and P-body assembly. This points to a cohesive RNA metabolism program underpinning both RNA maturation and ribosome production, with a link to mRNA decay pathways in cytoplasmic granules.","confidence":"High","size":20,"edges":159,"triangles":736,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0051170","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0030490","count":3}]},{"hash":"1229081574236180604","title":"Developmental Signaling and Differentiation","description":"The top GO terms point to development and signaling across tissues, including Wnt signaling, neural differentiation (cerebellar granule cells), endothelial and cardiac morphogenesis, and intracellular signal transduction. This suggests the cluster comprises proteins involved in developmental signaling and differentiation processes rather than a single specific function. Although the proteins show no direct interactions in this dataset, the shared emphasis on development and signaling is the most coherent theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0021707","count":8},{"id":"GO:0035556","count":8},{"id":"GO:1900383","count":8},{"id":"GO:0045083","count":8}]},{"hash":"621811961637237104","title":"Diverse substrate catabolism","description":"The cluster shows multiple substrate-specific catabolic GO terms (organic phosphonates, adenine, carbohydrates, N-acetylglucosamine, atrazine, urea), indicating a general theme of catabolic metabolism across diverse substrates, with a few terms related to cytoskeletal organization that may reflect broader cellular roles.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019700","count":4},{"id":"GO:0006146","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0019556","count":3}]},{"hash":"973828987140301145","title":"Membrane Transport and Stress Response Proteins","description":"The cluster features GO terms spanning membrane transport of diverse substrates (amino acids, methionine, monoatomic anions, oligopeptides from mitochondria, doxorubicin transport) and cellular stress responses (SOS response, nucleotide-excision repair, mercury ion response, and regulation of endoribonuclease activity). This suggests proteins involved in adapting to stress via transport and damage-response pathways, rather than a single specific function. Thus, a label focusing on both transport and stress response is appropriate, albeit not perfectly tight. ","confidence":"Medium","size":20,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":2},{"id":"GO:0046689","count":2},{"id":"GO:0003333","count":2},{"id":"GO:0072089","count":2},{"id":"GO:0099133","count":2}]},{"hash":"331883462723918939","title":"Nucleic acid metabolism and protein synthesis machinery","description":"The top GO terms cluster around DNA replication, ribosome biogenesis, chromatin remodeling, mRNA export, and translation, pointing to core genome maintenance and the cellular protein-synthesis apparatus; auxiliary terms like stress responses and insulin signaling appear but do not dominate, so the overall theme is genome information processing and expression.","confidence":"Medium","size":20,"edges":93,"triangles":197,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0009432","count":2}]},{"hash":"1994093040140970603","title":"Neural development and synaptic signaling","description":"The top GO terms include regulation of glutamatergic synaptic transmission and neural tube patterning, pointing to neural development and synaptic signaling. Additional terms about endosome localization and membrane addition during cytokinesis suggest vesicle trafficking roles that can accompany neural processes.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0007119","count":3},{"id":"GO:0060684","count":3},{"id":"GO:0021532","count":3}]},{"hash":"216730369010951848","title":"Proteostasis and Secretory Pathway Maintenance","description":"This cluster is dominated by terms related to protein quality control and handling of misfolded or unfolded proteins (cellular response to unfolded protein, chaperone-related refolding, negative regulation of heat response) and the secretory pathway (SRP-dependent cotranslational targeting to membrane). Additional terms point to oxidative stress responses (response to hydrogen peroxide) and iron-sulfur cluster assembly, both tied to proper protein maturation and cellular homeostasis. While some terms (DNA replication, karyogamy, hematopoietic stem cell differentiation) are broader, the strongest signal centers on proteostasis and protein targeting, justifying the label as a cohesive proteostasis/secretory pathway maintenance cluster.","confidence":"Medium","size":20,"edges":116,"triangles":344,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":5},{"id":"GO:0034620","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0006616","count":3},{"id":"GO:0006880","count":3}]},{"hash":"372863247203002370","title":"Vesicle trafficking and polarity signaling","description":"This cluster is dominated by terms tied to vesicle transport and secretory pathway function (Golgi to transport vesicle transport, synaptic vesicle budding, lipoprotein assembly) and by small GTPase-mediated signaling and epithelial cell polarity establishment. The presence of mechanotransduction and NF-kappaB regulation hints at broader signaling contexts, but the strongest common thread appears to be vesicle trafficking and its role in establishing cell polarity and coordinating signaling with membrane trafficking.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0090162","count":3},{"id":"GO:2000171","count":2},{"id":"GO:0070142","count":2}]},{"hash":"278465454281643129","title":"DNA damage response and transport","description":"Top terms point to a shared emphasis on DNA damage response (SOS response and nucleotide-excision repair) and a broader transport role across membranes (amino acid, methionine, anion, doxorubicin, and oligopeptide transport), suggesting a cluster of proteins coordinating stress response with transport activities.","confidence":"Medium","size":20,"edges":40,"triangles":20,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3},{"id":"GO:0072089","count":3},{"id":"GO:0099133","count":3}]},{"hash":"1277210763579238566","title":"Neuronal MAPK signaling and dendrite morphogenesis","description":"The GO terms point to neuronal signaling pathways (ephrin receptor, ERK/JNK cascades) as well as calcium-dependent exocytosis and actin cytoskeleton changes leading to dendrite morphogenesis and dopamine responsiveness, suggesting a coherent theme of MAPK-regulated neuronal signaling and dendritic remodeling.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":18},{"id":"GO:0048013","count":18},{"id":"GO:0046330","count":18},{"id":"GO:0031532","count":18},{"id":"GO:0070374","count":18}]},{"hash":"835279036484676223","title":"Developmental signaling and differentiation","description":"The cluster's terms cluster around signaling pathways and developmental processes across diverse tissues, including Wnt signaling, intracellular signal transduction, mechanosensitive responses, and differentiation events (cerebellar granule cells, venous endothelium, and cardiac right atrium). Although some immune and apoptotic terms appear, the shared theme appears to be signaling-involved development and cell fate decisions, suggesting a broad developmental signaling/differentiation cluster rather than a single specific function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"1608276443389695384","title":"Ubiquitin Deubiquitination Machinery and Chromatin Regulation","description":"The cluster is dominated by diverse deubiquitination activities (K6, K11, K48, K63 linkages) and protein deubiquitination, with one term touching on negative regulation of ubiquitin ligase activity. Additional terms point to chromatin and transcriptional regulation (histone modifications) and RNA processing (spliceosomal assembly), suggesting a cohesive group of deubiquitinases and chromatin-associated regulators that influence gene expression.","confidence":"High","size":20,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0044313","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0000245","count":1},{"id":"GO:1990108","count":1},{"id":"GO:0070537","count":1}]},{"hash":"790536499263508621","title":"Unknown","description":"The top GO terms span vision, brain development, immunity, cardiac growth, apoptosis, cell division, lung development, ion transport, and ERBB signaling, with no clear shared function. Sparse edges and a single connection suggest a lack of cohesive functional clustering.","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0071109","count":14},{"id":"GO:0090606","count":14},{"id":"GO:0032762","count":14},{"id":"GO:0060045","count":14}]},{"hash":"593017447451500500","title":"Unknown","description":"The listed GO terms cover diverse biological areas: visual perception; neural development in the superior temporal gyrus; microbial biofilm formation; cardiac muscle proliferation; apoptosis; mitotic spindle-kinetochore attachment; sodium ion transport regulation; ERBB signaling; NF-kappaB regulation; and sensory perception of pain. No clear, shared functional theme emerges to tie these 20 proteins into a coherent biological role. Thus the cluster cannot be confidently assigned to a specific process, pathway, or complex.","confidence":"","size":20,"edges":92,"triangles":192,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0071109","count":19},{"id":"GO:0090606","count":19},{"id":"GO:0060045","count":19},{"id":"GO:0006915","count":19}]},{"hash":"1238977685837394684","title":"ER-Golgi vesicle trafficking","description":"The top GO terms highlight intracellular protein transport, ER-to-Golgi vesicle transport, COPII cargo loading, and macroautophagy, suggesting a core theme around vesicle trafficking between the ER and Golgi and related membrane dynamics. Some terms (tRNA modification, intron homing, morphogenesis) are less connected, but the dominant signals point to vesicular transport processes. This makes a label centered on ER-Golgi trafficking a concise and representative choice.","confidence":"Medium","size":20,"edges":29,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0006314","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0060463","count":1}]},{"hash":"902919921876182538","title":"Unknown","description":"The top GO terms span vision, brain development, biofilm formation, cytokine production, cardiac growth, apoptosis, spindle attachment, lung mesenchyme development, sodium transport, and ERBB signaling, with no clear shared function tying them together. This diversity suggests no coherent single theme for a confident label.","confidence":"","size":20,"edges":145,"triangles":536,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0071109","count":20},{"id":"GO:0090606","count":20},{"id":"GO:0032762","count":20},{"id":"GO:0060045","count":20}]},{"hash":"357090351801898275","title":"Ubiquitin-Proteasome System and COP9 Deneddylation","description":"Top GO terms cluster around proteasome-mediated protein degradation, proteasome/deneddylation machinery (COP9 signalosome, deneddylation regulation), and translation initiation regulation, pointing to a cohesive proteostasis module that links protein turnover with initiation control; some trafficking terms are also present, but the dominant theme is protein homeostasis via degradation and deneddylation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043161","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0000338","count":1},{"id":"GO:0010387","count":1},{"id":"GO:1903955","count":1}]},{"hash":"1177649958470231110","title":"Unknown","description":"The GO terms are highly diverse with no single dominant process. Observed terms include pericentriolar material localization, telomerase holoenzyme assembly, root meristem growth, glucocorticoid signaling, hypoxia response, neuroblast polarity, and several obsolete terms, indicating a heterogeneous set with no cohesive functional theme. Therefore, I cannot assign a specific, representative label.","confidence":"","size":20,"edges":39,"triangles":7,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1905793","count":1},{"id":"GO:0080037","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0048642","count":1},{"id":"GO:0010449","count":1}]},{"hash":"838101083822718783","title":"Unknown","description":"The top GO terms span highly diverse biological contexts (vision, brain development, biofilm formation, immune signaling, cardiac growth, apoptosis, meiosis, lung mesenchyme development, ion transport, and ERBB signaling), showing no single shared function that ties the proteins together. This makes a coherent labeling difficult, so Unknown is appropriate.","confidence":"","size":20,"edges":18,"triangles":5,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0071109","count":19},{"id":"GO:0090606","count":19},{"id":"GO:0032762","count":19},{"id":"GO:0060045","count":19}]},{"hash":"2213239366652225757","title":"Unknown","description":"The cluster's top GO terms span DNA replication, repair, and transcription (nuclear processes) but also immune signaling (GM-CSF stimulus, LPS response, T cell receptor signaling) and neural terms (visual perception, superior temporal gyrus development) and even biofilm formation. There isn't a single coherent biological theme linking these functions; the set appears heterogeneous across distinct cellular contexts. Without a unifying function or shared pathway prominence, a concise functional label cannot be confidently assigned.","confidence":"","size":20,"edges":62,"triangles":54,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0006281","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0097011","count":16}]},{"hash":"1562137621673159174","title":"Unknown","description":"The top GO terms are very diverse, spanning cytoskeletal dynamics (filopodium assembly), signaling via small GTPases, regulation of cellular fusion, apoptosis, lipid metabolism, peroxisomal import, affect, cranial skeletal development, and IGF-responsive growth signaling. There isn\u2019t a clear, single biological theme linking these functions, so a coherent, specific label isn\u2019t justifiable.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":1},{"id":"GO:0007264","count":1},{"id":"GO:0032005","count":1},{"id":"GO:0031139","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1218617004092011491","title":"Diverse Signaling and Development Regulators","description":"The top GO terms cluster around intracellular signal transduction and broader signaling pathways (e.g., Wnt), alongside various developmental processes across tissues (cerebellar granule cell differentiation, venous endothelial differentiation, cardiac right atrium morphogenesis). There is a neuronal synaptic plasticity regulation term as well as immune-related regulation, indicating the proteins are linked to signaling roles across multiple biological contexts rather than a single, cohesive pathway. This breadth justifies a high-level label focused on signaling and development rather than a narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"2127411259495946480","title":"Unknown","description":"The GO terms span vision, brain development, biofilm formation, immune signaling, cardiac growth, apoptosis, mitotic spindle attachment, lung mesenchyme, sodium transport, and ERBB signaling, with no single dominant shared function. This lack of a coherent unifying theme across the proteins suggests no meaningful specific label can be assigned.","confidence":"","size":20,"edges":33,"triangles":8,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0071109","count":20},{"id":"GO:0090606","count":20},{"id":"GO:0032762","count":20},{"id":"GO:0060045","count":20}]},{"hash":"742667321818096010","title":"Neuronal signaling and synaptic plasticity","description":"Top GO terms point to neural processes, including detection of chemical stimuli linked to pain, cerebellar granule cell differentiation, intracellular signal transduction, and regulation of synaptic plasticity via receptor localization to the synapse. While a few terms are more general (lipid metabolism, mRNA processing), the prominent neural themes justify a label centered on neuronal signaling and synaptic plasticity.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0071446","count":2},{"id":"GO:0035556","count":2}]},{"hash":"2008835980492925644","title":"Ubiquitin-Proteasome Regulation and Chromatin Remodeling","description":"Dominant terms point to SCF-dependent ubiquitin-mediated proteolysis and histone ubiquitination, indicating a focus on protein degradation and chromatin regulation (including heterochromatin maintenance and meiotic chromosomal dynamics). Additional terms link to DNA damage repair and stress signaling (NF-kappaB and JNK), suggesting a broader role in stress response and transcription regulation.","confidence":"Medium","size":20,"edges":139,"triangles":681,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":17},{"id":"GO:0010390","count":17},{"id":"GO:0070459","count":17},{"id":"GO:0006344","count":17},{"id":"GO:0043123","count":17}]},{"hash":"1471456099952947102","title":"Neural development and energy metabolism","description":"The top GO terms span neural development and signaling (Schwann cell development; excitatory postsynaptic potential; response to cocaine) as well as core metabolism (glycolysis and glycogen catabolism) and cell-cycle related processes (DNA replication; G1/S transition; kinetochore localization). This mix suggests a cluster that touches on neuronal development/signaling alongside fundamental metabolic activity, rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":20,"edges":72,"triangles":129,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0051321","count":5},{"id":"GO:0014044","count":5},{"id":"GO:0034501","count":5},{"id":"GO:0060079","count":5}]},{"hash":"13573105907099585","title":"Unknown","description":"Insufficient GO-term information (no top terms provided) to identify a shared function among the 20 proteins; the network shows modest connectivity (7 edges) and no triangles, making it unclear what common biological process binds this cluster.","confidence":"","size":20,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[]},{"hash":"2185366206466106487","title":"Unknown","description":"The GO terms are scattered across RNA processing (tRNA methylation), oxidation-reduction, ion transport, neural signaling, aging, nutrient response, and vascular/smooth muscle processes, with only single-term representation per protein and no interactions (Edges: 0). There isn't a coherent, shared functional theme to tie the proteins together, so a specific label isn\u2019t justifiable.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002940","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1}]},{"hash":"1102772455747277194","title":"Unknown","description":"This cluster shows no functional connections (no edges or triads) and the only GO term is an obsolete one (C-5 methylation of cytosine), offering no coherent, current functional signal to unify the proteins. Therefore there is no reliable shared theme to name the cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1}]},{"hash":"707990206692687896","title":"Unknown","description":"Unknown due to lack of coherent functional signal. Top terms include floral organ senescence and DNA catabolic process, but with zero edges/triangles and no shared pathway among the 20 proteins; the terms do not converge on a single biological function.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080187","count":2},{"id":"GO:0006308","count":2},{"id":"GO:0090305","count":2}]},{"hash":"1651031045084726649","title":"Ciliary/flagellar axoneme assembly and motility","description":"The cluster is dominated by GO terms tied to cilium/axoneme structure and movement (e.g., sperm axoneme assembly, flagellated sperm motility, epithelial cilium movement, regulation of cilium movement) as well as microtubule post-translational modification (polyglycylation, polyglutamylation) and microtubule severing. This suggests a coherent function in assembling and driving motility of cilia/flagella, particularly sperm flagella, with related trafficking processes. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":1},{"id":"GO:0018094","count":1},{"id":"GO:1905419","count":1},{"id":"GO:0007288","count":1},{"id":"GO:0003353","count":1}]},{"hash":"1424931391580062886","title":"Hormone GPCR Signaling in Reproduction","description":"This cluster centers on GPCR-mediated hormone signaling, including TRH, LH, and FSH signaling, activation of adenylate cyclase and PLC pathways, and downstream effects on reproductive development (uterus and secondary sexual characteristics). While an immune signaling term (TLR8) appears, the dominant pattern is endocrine signaling linked to reproductive processes, justifying a label focused on hormone-driven GPCR signaling in reproduction.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":20},{"id":"GO:0007190","count":20},{"id":"GO:0071373","count":20},{"id":"GO:0034158","count":20},{"id":"GO:0010738","count":20}]},{"hash":"1820401541595390515","title":"Reproductive endocrine signaling","description":"This cluster is dominated by GO terms tied to gonadal development and hormone signaling, including Sertoli cell development, FSH signaling, primary ovarian follicle growth, development of secondary male sexual characteristics, and thyrotropin-releasing hormone response, plus GPCR/PLC signaling that underpins hormonal action. Some terms (osteoclast differentiation, TLR signaling) may reflect shared signaling pathways rather than core function, but the overall signal points to reproductive endocrine processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":20},{"id":"GO:0002755","count":20},{"id":"GO:0007200","count":20},{"id":"GO:0032962","count":20},{"id":"GO:0034154","count":20}]},{"hash":"190917065786236355","title":"GPCR Hormone Signaling in Reproduction","description":"The proteins are enriched for GO terms tied to GPCR-mediated hormone signaling, including TRH, LH, and FSH signaling and downstream PLC/PKA pathways, which aligns with reproductive development terms such as uterus development and secondary sexual characteristics. A Toll-like receptor 8 pathway term appears less central but does not outweigh the dominant hormone-signaling theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":20},{"id":"GO:0007190","count":20},{"id":"GO:0071373","count":20},{"id":"GO:0034158","count":20},{"id":"GO:0010738","count":20}]},{"hash":"101793783972486901","title":"Apoptosis and Epithelial Remodeling","description":"The top GO terms emphasize apoptotic processes in myeloid and hepatocytes, along with epithelial dynamics such as cell polarity, migration, proliferation, and liver regeneration, plus a heat-response. Despite no interactions, the recurring theme ties cell death to epithelial remodeling and tissue regeneration, with hints of glandular proliferation. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0033601","count":2},{"id":"GO:0016477","count":2},{"id":"GO:2001275","count":2}]},{"hash":"1671078979950407962","title":"Intron Homing Endonucleases","description":"The cluster is dominated by GO:0006314 intron homing (7 annotations), suggesting proteins related to intron mobility and endonuclease activity. The other terms are sparse (oxidative stress, detoxification, various catabolic processes) and likely incidental, so the primary theme is DNA mobility via intron-homing enzymes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":7},{"id":"GO:0034599","count":1},{"id":"GO:0006212","count":1},{"id":"GO:0055114","count":1},{"id":"GO:2001039","count":1}]},{"hash":"1404653782333573492","title":"Secretory peptide processing and hormone production","description":"The top GO terms cluster around secretion and processing of signaling molecules, including dense-core granule transport, islet amyloid polypeptide processing, nerve growth factor production, cytokine production, and renin secretion. While a couple of development-related terms (respiratory tube development, hatching behavior) appear, the dominant theme is secretory pathways and peptide signaling, with protein autoprocessing supporting processing steps.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904810","count":1},{"id":"GO:0034231","count":1},{"id":"GO:0032902","count":1},{"id":"GO:0042089","count":1},{"id":"GO:0002001","count":1}]},{"hash":"1173081463786557556","title":"Proteasome-dependent protein degradation and cell cycle regulation","description":"This cluster centers on ubiquitin-proteasome\u2013mediated protein turnover, including SCF-dependent degradation, which ties to cell-cycle control (G1/S transition, replication initiation) and DNA damage checkpoint regulation. The presence of embryonic development and stem cell maintenance terms suggests these degradative processes are linked to developmental growth and progenitor proliferation. Altogether, the proteins appear to coordinate proteolysis with cell-cycle and developmental signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":1},{"id":"GO:0035019","count":1},{"id":"GO:1903467","count":1},{"id":"GO:1900087","count":1},{"id":"GO:0001701","count":1}]},{"hash":"275386099164625647","title":"Telomere dynamics and chromatin regulation in plants","description":"The cluster centers on telomere-related processes: telomeric D-loop disassembly, regulation of shelterin complex assembly, and RNA localization to telomeres, plus regulation of histone acetylation. These point to a core theme of telomere maintenance and chromatin regulation in a plant context. Additional GO terms related to plant hormone responses (ethylene, ABA) and seed growth suggest broader developmental signaling linked to telomere/chromatin regulation, but the strongest signal remains telomere dynamics and chromatin modification. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0061820","count":6},{"id":"GO:1990414","count":5},{"id":"GO:1905839","count":5},{"id":"GO:1904792","count":5},{"id":"GO:0010380","count":5}]},{"hash":"766785162449899499","title":"Developmental signaling and differentiation","description":"The GO terms point to signaling pathways (Wnt signaling, intracellular signal transduction) and developmental processes across multiple tissues, including neural development (cerebellar granule cell differentiation, synaptic plasticity regulation) and organ morphogenesis (heart/right atrium, venous endothelium). While some immune terms appear (IL-12 regulation, myeloid apoptosis), the dominant pattern favors broad developmental signaling and differentiation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"173756211907180274","title":"Protein Catabolism","description":"Based on the Top Terms, there is a recurring theme of protein/peptide degradation: several GO terms explicitly refer to protein catabolic processes (protein catabolic process, hemoglobin catabolic process, insulin catabolic process, bradykinin catabolic process). This suggests the cluster may center on proteolysis or protein turnover, rather than a single specific pathway. Other terms (positive regulation of catalytic activity, viral process, aerobic respiration) are broader or incidental, so Protein Catabolism best captures the dominant signal while acknowledging some noise.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":1},{"id":"GO:0042540","count":1},{"id":"GO:0051291","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1901143","count":1}]},{"hash":"248254931551833596","title":"Post-transcriptional RNA processing and ribosome biogenesis","description":"The top GO terms cluster around mRNA processing and export (mRNA export from nucleus, mRNA stabilization, regulation of mRNA stability in response to stress) and ribosome biogenesis (small-subunit processome assembly). This indicates a shared function in RNA handling and ribosome production, with a few plant-specific terms (chloroplast movement, abscisic acid homeostasis) that may be outliers or annotation noise.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031022","count":1},{"id":"GO:0045035","count":1},{"id":"GO:0009903","count":1},{"id":"GO:1902265","count":1},{"id":"GO:0006406","count":1}]},{"hash":"690906316128926281","title":"Ciliogenesis and Germline Development","description":"This cluster centers on cilia/flagellum-related processes (cilium movement, axonemal central apparatus assembly) and germline/developmental events (female germ-line stem cell division, gonad development, neural-related ventricular system development), suggesting a coordinated theme around ciliogenesis with germline and neural development. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002052","count":1},{"id":"GO:0097150","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0030037","count":1},{"id":"GO:0051295","count":1}]},{"hash":"1280895631249592577","title":"Telomere maintenance and shelterin regulation in plants","description":"The top GO terms cluster around telomere biology\u2014DNA repair linked to telomeres, telomeric loop formation, regulation/assembly of the shelterin complex, and RNA localization to telomeres\u2014pointing to a coherent theme of telomere maintenance. While there are plant development signals (chlorophyll biosynthesis, hormone responses, seed growth) present, they appear secondary to the telomere-focused processes, suggesting this cluster mainly reflects plant telomere/chromatin regulation. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"2107942037780504998","title":"Telomere maintenance and chromatin regulation","description":"The top GO terms cluster around telomere biology and chromatin state (protein poly-ADP-ribosylation, subtelomeric heterochromatin formation, protection from non-homologous end joining at telomeres, and G-quadruplex DNA formation), pointing to genome stability and chromatin remodeling as the core theme. Additional terms like mRNA processing and intracellular signaling suggest supporting nuclear functions, but the strongest signal is telomere maintenance and chromatin regulation. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070212","count":3},{"id":"GO:0035390","count":2},{"id":"GO:0031848","count":2},{"id":"GO:0071919","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1690074377505491497","title":"Unknown","description":"The only GO term associated is an obsolete description of positive regulation of transcription during the G1/S transition of the mitotic cell cycle, seen for only 2 proteins; with 20 proteins and no edges, there is no clear shared function tying the cluster together. Without a coherent theme, this cluster is best labeled Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2}]},{"hash":"1471115354591008498","title":"Meiosis and Chromosome Segregation with Septin Regulation","description":"The top GO terms cluster around meiotic chromosome cohesion and biorientation, centromere-associated localization, and septin ring dynamics (organization and disassembly), plus regulatory processes like protein dephosphorylation and localization control. These together suggest a functional module linking chromosome segregation during meiosis with septin-mediated cytoskeleton regulation and related signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":4},{"id":"GO:0032186","count":3},{"id":"GO:0031134","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0090219","count":3}]},{"hash":"1800863310055140655","title":"Neural progenitor proliferation and brain development","description":"The top GO terms point to neural development and progenitor maintenance, including forebrain neuroblast division, neuronal stem cell population maintenance, and ventricular system development, indicating a focus on neural progenitor proliferation. The presence of centrosome location and cilium movement terms, plus meiotic spindle-related terms, suggests involvement of the cell division machinery that coordinates neural progenitor proliferation and brain formation. Overall, the cluster appears to reflect processes governing neural progenitor growth and brain development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051661","count":2},{"id":"GO:0045769","count":2},{"id":"GO:0021873","count":2},{"id":"GO:0002052","count":1},{"id":"GO:0097150","count":1}]},{"hash":"836983034669398251","title":"Neuronal differentiation and synaptic signaling","description":"The dominant terms point to neural development (cerebellar granule cell differentiation, Wnt signaling) and synaptic regulation (receptor localization to synapse, intracellular signal transduction), suggesting a cluster tied to neuronal differentiation and synaptic function. Some terms (cardiac morphogenesis, myeloid apoptosis, ubiquitination) seem less directly related, but they do not override the main neural theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":12},{"id":"GO:0033280","count":12},{"id":"GO:0071260","count":11},{"id":"GO:0021707","count":11},{"id":"GO:0035556","count":11}]},{"hash":"2019160093063523444","title":"TLR/MyD88 innate immune signaling","description":"The top GO terms show strong enrichment for MyD88-dependent toll-like receptor signaling (GO:0002755) and TLR1 signaling (GO:0034130), plus defense response to Gram-positive bacterium (GO:0050830), indicating innate immune sensing and response. Additional terms like chromatin remodeling and SCF-dependent proteasomal degradation suggest transcriptional control and protein turnover linked to immune signaling. Overall, these proteins appear to participate in TLR-mediated innate immunity rather than a single metabolic or cell-cycle process.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002755","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1601309523064573717","title":"Plant Telomere Maintenance and Shelterin Regulation","description":"Top terms converge on telomere biology (shelterin assembly, telomeric loop formation, D-loop regulation, telomere-related repair), indicating a telomere maintenance/dynamics theme. Plant development signals (ethylene/ABA responses, seed growth, chlorophyll biosynthesis regulation) imply this telomere program is integrated with growth and stress responses in plants. Therefore, the label Plant Telomere Maintenance and Shelterin Regulation captures the core function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0009723","count":2}]},{"hash":"1383280783557641842","title":"Neuronal cytoskeleton and transport","description":"The cluster centers on cytoskeletal regulation and microtubule-based transport, with neural-development terms like neuron projection morphogenesis and nervous system development, plus related processes such as spermatid development. Together these suggest roles in neuronal cell architecture and intracellular transport, justifying a label focused on neural cytoskeleton and transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":4},{"id":"GO:0000278","count":1},{"id":"GO:0048812","count":1},{"id":"GO:0075521","count":1},{"id":"GO:0007286","count":1}]},{"hash":"1303314416286644588","title":"Neuronal development and signaling","description":"This cluster is driven by brain-related terms: striatum development, dendrite morphogenesis, locomotory behavior, and response to amphetamine, suggesting involvement in neuronal development and neural signaling. The remaining terms reflect broader cellular regulation (TOR signaling, chromatin regulation, phosphatase activity, apoptosis) that can also operate in neurons, making this a best-fit label rather than a perfect one. Confidence: Medium.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":3},{"id":"GO:0035562","count":2},{"id":"GO:0032008","count":2},{"id":"GO:0070262","count":2},{"id":"GO:2001241","count":2}]},{"hash":"1086545777728124751","title":"Unknown","description":"The top GO terms include meiotic cell cycle, mesoderm development, glycogen biosynthetic process regulation, sphingomyelin catabolic process, response to morphine, mitotic DNA damage checkpoint signaling, myelination in peripheral nervous system, and cell\u2013cell adhesion. This mix spans development, cell cycle control, metabolism, lipid processing, signaling, and nervous system biology, with no single cohesive function linking all proteins. Therefore a concise, specific label cannot be inferred; assign Unknown.","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":19},{"id":"GO:0007498","count":19},{"id":"GO:0005979","count":19},{"id":"GO:0006685","count":19},{"id":"GO:0043278","count":19}]},{"hash":"1061069562580782886","title":"Peptide Hormone Processing and Secretion","description":"The top GO terms indicate widespread involvement in processing and maturation of peptide hormones and neuropeptides (enkephalin, insulin, islet amyloid polypeptide, renin, nerve growth factor) and in dense core granule transport, all of which feed into secretion. This implies the cluster groups proteins dedicated to peptide signaling and regulated release, with some related terms like embryo axis determination appearing as less connected annotations.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":3},{"id":"GO:0002001","count":3},{"id":"GO:0034230","count":3},{"id":"GO:0007354","count":3},{"id":"GO:0007323","count":3}]},{"hash":"1943510863789620980","title":"COPII-Mediated ER-Golgi Transport","description":"The top GO terms point to COPII-coated vesicle budding and bidirectional ER\u2013Golgi vesicle transport, highlighting a core role in the secretory pathway. While there are related terms touching on translational initiation, the strongest signal is vesicle trafficking between the ER and Golgi, consistent with COPII machinery. Braiding in translation-related terms may reflect broader cellular roles, but the primary theme appears to be ER-to-Golgi transport.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090114","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0002188","count":3}]},{"hash":"314548053913101072","title":"Unknown","description":"The terms are highly diverse, including chromatin modification (histone H2A deubiquitination), neural differentiation (cerebellar granule cell differentiation, synaptic plasticity regulation), signaling (Wnt pathway, intracellular signal transduction), immune regulation (IL-12 production), cardiac morphogenesis, and myeloid apoptosis. There is no single dominating function or pathway linking most proteins, and several terms are obsolete, suggesting annotation noise. Therefore a concise, representative label cannot be assigned beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035522","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1}]},{"hash":"1612411802312361511","title":"Differentiation and mechanotransduction signaling","description":"The top GO terms point to differentiation processes (fat cell differentiation; cerebellar granule cell differentiation) and mechanosensory/response pathways (response to muscle stretch; cellular response to mechanical stimulus; intracellular signal transduction; cell migration). This suggests a functional cluster of proteins involved in development and mechanical cue signaling. Some terms (mRNA processing, telomere maintenance/capping) are broader or ancillary, but the dominant theme is differentiation linked to mechanotransduction. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045444","count":11},{"id":"GO:0035994","count":11},{"id":"GO:0016477","count":11},{"id":"GO:2001275","count":11},{"id":"GO:0032212","count":11}]},{"hash":"1091801524647309380","title":"Unknown","description":"These terms span mechanotransduction, neuronal differentiation, cardiac morphogenesis, endothelial differentiation, signaling pathways, and immune processes, with no single unifying function evident; thus no reliable thematic label beyond Unknown can be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":12},{"id":"GO:0021707","count":12},{"id":"GO:0035556","count":12},{"id":"GO:1900383","count":12},{"id":"GO:0045083","count":12}]},{"hash":"114288708965241227","title":"Metabolic signaling and chromatin remodeling","description":"This cluster includes insulin signaling, glucose-mediated signaling, and sucrose catabolism terms, indicating metabolic signal processing, alongside histone acetylation and chromatin remodeling terms, pointing to epigenetic regulation. The combination suggests a module where metabolic cues influence chromatin state and gene regulation, with some developmental/hormonal terms that can be linked to metabolic regulation of growth. ","confidence":"Medium","size":19,"edges":58,"triangles":32,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:0043969","count":5},{"id":"GO:0010835","count":5},{"id":"GO:0018076","count":5},{"id":"GO:0061038","count":5}]},{"hash":"1155475218903513556","title":"Unknown","description":"The top GO terms span many unrelated processes (cell division and cycle, cell wall organization, ergosterol biosynthesis, redox homeostasis, various developmental terms, photosynthesis, and protein complex formation) with no single cohesive function linking them. This suggests either a mixed cluster or annotation noise, so a specific representative theme cannot be assigned.","confidence":"","size":19,"edges":14,"triangles":1,"max_degree":7,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0007049","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0006696","count":3},{"id":"GO:0045454","count":3}]},{"hash":"2114168771976014590","title":"Signaling and Cell-Cycle Regulation","description":"The cluster shows enrichment for positive regulation of GTPase activity, kinase activity and autophosphorylation, along with processes like mRNA transport, mitotic cell cycle, hypoxia response, proliferation, DNA binding regulation, GPCR signaling, and even visual perception. This pattern suggests proteins involved in signal transduction that modulate cell growth, transcriptional control, and cellular responses, with some sensory-pathway connections. Overall, the theme is signaling-driven regulation of proliferation and gene expression.","confidence":"Medium","size":19,"edges":38,"triangles":14,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0071902","count":8},{"id":"GO:0031954","count":8},{"id":"GO:0051028","count":7},{"id":"GO:0000278","count":7}]},{"hash":"967260544187791867","title":"Unknown","description":"The top GO terms cover lipid/receptor trafficking (negative regulation of LDL clearance, receptor recycling, LDL receptor\u2013related processes) and hormone/peptide processing (nerve growth factor production, enkephalin processing, renin secretion), plus development/sporulation terms (zygotic axis determination, pheromone maturation, cellular spore formation). The ensemble is broad and spans multiple unrelated contexts, with no single cohesive function uniting the cluster, so a single interpretable label isn\u2019t supported.","confidence":"","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905601","count":2},{"id":"GO:0032902","count":2},{"id":"GO:0010989","count":2},{"id":"GO:0001920","count":2},{"id":"GO:0002001","count":2}]},{"hash":"1009302777200584067","title":"DNA replication and developmental signaling regulators","description":"The top GO terms show a strong emphasis on DNA replication, paired with multiple regulatory and developmental signaling processes, including negative regulation of protein kinase activity, mesoderm formation, and smoothened pathway involvement, along with stress/heat response and redox homeostasis. This suggests a cluster of proteins that coordinate core replication with broader regulatory signaling and developmental cues, rather than a single, narrow function.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0090084","count":12},{"id":"GO:1900035","count":12},{"id":"GO:0070389","count":12},{"id":"GO:0031204","count":12}]},{"hash":"846914850676249853","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":132,"triangles":489,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006446","count":2}]},{"hash":"1198354265337993024","title":"Protein ubiquitination and signaling regulation","description":"The proteins show strong enrichment for ubiquitination and multiple regulatory signaling pathways (Wnt, NF-kappaB-related, salicylic acid signaling) along with post-translational modification activities (auto-ADP-ribosylation). This points to a cohesive theme of modulating signaling networks via PTMs, rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":13},{"id":"GO:0045083","count":12},{"id":"GO:0016055","count":12},{"id":"GO:2000031","count":12},{"id":"GO:0007253","count":12}]},{"hash":"1970397145508553187","title":"Neural development and brain function","description":"Most of the top GO terms point to neural development and neuronal function, including dendrite morphogenesis, visual perception, and development of brain regions (e.g., superior temporal gyrus). Potassium ion transport is a key feature of neuronal excitability, supporting the neural theme. While a few terms (e.g., biofilm formation, mast cell cytokine production, apoptotic process) are less brain-specific, the preponderance of neural-related terms suggests the cluster centers on brain development and function.","confidence":"High","size":19,"edges":39,"triangles":12,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":18},{"id":"GO:0043552","count":18},{"id":"GO:0048813","count":18},{"id":"GO:0006351","count":18},{"id":"GO:0007601","count":17}]},{"hash":"222561829934696854","title":"Developmental Signaling and Differentiation","description":"This cluster combines GO terms tied to differentiation (fat cell, cerebellar granule cell, cardiac morphogenesis) with key signaling processes (Wnt pathway, intracellular signal transduction, GTPase activity regulation, and synaptic plasticity modulation). The mix points to developmental signaling guiding differentiation across tissues rather than a single function or tissue, making a broad \u201cdevelopmental signaling and differentiation\u201d label most representative.","confidence":"Medium","size":19,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3}]},{"hash":"402175414539066128","title":"Neuroimmune signaling and axonogenesis","description":"This cluster combines neural development terms (corpus callosum development, axonogenesis) with strong innate immune signals (response to dsRNA, lipopolysaccharide signaling, interferon-beta production, defense against Gram-positive bacteria). The proteins likely participate in brain development processes that are modulated by immune signaling, suggesting a neuroimmune development theme. Confidence: Medium","confidence":"","size":19,"edges":22,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043330","count":15},{"id":"GO:0071222","count":15},{"id":"GO:0022038","count":15},{"id":"GO:1903351","count":15},{"id":"GO:0045359","count":15}]},{"hash":"1519783108782012380","title":"Autophagy and membrane trafficking","description":"The cluster shows enrichment for ribophagy and general protein transmembrane transport, plus regulation of vesicle exocytosis, plus cell polarity and cytokinesis-related terms. This combination points to a core theme of vesicle handling, membrane trafficking, and autophagic quality control rather than a single developmental process. ","confidence":"Medium","size":19,"edges":164,"triangles":858,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0034517","count":2},{"id":"GO:0071806","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2}]},{"hash":"1449690889164574221","title":"Unknown","description":"The cluster\u2019s top GO terms span many distinct biological contexts (visual perception, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, spindle\u2013kinetochore attachment, lung mesenchyme development, sodium transport, ERBB signaling), with no clear shared function. This lack of a cohesive theme leads to labeling as Unknown.","confidence":"","size":19,"edges":167,"triangles":901,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0071109","count":19},{"id":"GO:0090606","count":19},{"id":"GO:0032762","count":19},{"id":"GO:0060045","count":19}]},{"hash":"1876190318279044671","title":"ER\u2013Golgi Vesicle Transport","description":"This cluster strongly emphasizes vesicle trafficking between the endoplasmic reticulum and the Golgi apparatus (GO:0006888 and GO:0006890), with a secondary signal for general protein transport. While there are outlier terms related to transcription, defense, and metabolism, the predominant GO terms point to ER\u2013Golgi trafficking as the core function, making this a cohesive label. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0000132","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0006351","count":2}]},{"hash":"21283962106246185","title":"Cytoskeletal remodeling and membrane dynamics","description":"The cluster is most coherently tied by GO terms pointing to actin-driven protrusions and membrane remodeling: filopodium assembly, plasma membrane tubulation, and small GTPase-mediated signaling are classic indicators of cytoskeletal dynamics and membrane shaping. Additionally, positive regulation of neuron projection development aligns with cytoskeletal changes required for neurite outgrowth. A few other terms (e.g., peroxisome docking, translational initiation, apoptotic process) appear less central to this core theme, but do not override the predominant signal toward cytoskeletal/membrane remodeling functions.","confidence":"Medium","size":19,"edges":107,"triangles":232,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":1},{"id":"GO:0007264","count":1},{"id":"GO:0032005","count":1},{"id":"GO:0031139","count":1},{"id":"GO:0006915","count":1}]},{"hash":"264383949042715106","title":"Unknown","description":"The terms are diverse (histone acetylation/heterochromatin, mushroom body development, TOR/MAPK signaling, amino acid response, and intraciliary transport) with no clear shared function or connectivity, so a single representative label cannot be confidently assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043971","count":1},{"id":"GO:0070868","count":1},{"id":"GO:0044154","count":1},{"id":"GO:0043970","count":1},{"id":"GO:0016319","count":1}]},{"hash":"1016233977837997068","title":"Unknown","description":"The terms are a scattered mix, with a few ubiquitination-related entries but also diverse phenotypes and processes (developmental terms, gravitropism, IgE regulation, renal absorption), giving no coherent shared function for the cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904431","count":1},{"id":"GO:1990390","count":1},{"id":"GO:0070294","count":1},{"id":"GO:0031397","count":1},{"id":"GO:0042787","count":1}]},{"hash":"1029550795483744912","title":"Neuronal mechanotransduction and signaling","description":"This cluster combines terms tied to neural signaling (regulation of glutamatergic synaptic transmission, sensory perception of touch) with signaling cascades (positive regulation of ERK1/2 cascade and phosphorylation) and cytoskeletal/trafficking processes (stress fiber assembly, protein ubiquitination, endosome localization). The mix suggests coordinated signal transduction in mechanosensory neurons, involving cytoskeletal remodeling and vesicular trafficking that underpin mechanotransduction and synaptic modulation.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:1903206","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0050975","count":2},{"id":"GO:0043149","count":2}]},{"hash":"1110209525302915498","title":"Cell Cycle Regulation","description":"The top terms are dominated by cell cycle and cell division, complemented by negative regulation of serine/threonine kinase activity, which points to CDK control; while a few terms touch on signaling or development, the core theme centers on cell cycle progression and division.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0071901","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1}]},{"hash":"434396683168734502","title":"TLR-MyD88 Innate Immunity Signaling","description":"The GO terms prominently point to Toll-like receptor signaling pathways, including the TLR1 pathway and MyD88-dependent TLR signaling, suggesting the cluster centers on innate immune signaling. Other terms in the list are more peripheral or intermediate processes (e.g., actin dynamics, endosome transport), which may reflect broader cellular contexts or annotation noise but do not override the core theme. Therefore, the cluster is best described as a TLR/MyD88 innate immune signaling group.","confidence":"Medium","size":19,"edges":84,"triangles":132,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0034130","count":1},{"id":"GO:0045842","count":1},{"id":"GO:0002755","count":1},{"id":"GO:1903125","count":1},{"id":"GO:0035751","count":1}]},{"hash":"1229306635164771185","title":"Vascular development and angiogenesis signaling","description":"The dominant GO terms point to angiogenesis, angiogenesis regulation, and multicellular development, plus components of the renin-angiotensin system and cell-cell signaling, which together suggest vascular development and angiogenic signaling as the central theme; some immune-related terms appear but are likely secondary. ","confidence":"High","size":19,"edges":18,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007267","count":1},{"id":"GO:0003081","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0019885","count":1},{"id":"GO:0001525","count":1}]},{"hash":"1409897994432934606","title":"Secretory and lipoprotein regulation","description":"The GO terms cluster around processes that control secretion (dense core granule transport, islet peptide processing, renin and cytokine production, nerve growth factor production) and lipoprotein/cholesterol handling (endocytosis related to cholesterol transport, LDL receptor catabolic process, LDL clearance, receptor recycling). This suggests a cohesive theme of modulating secretory pathways together with lipoprotein metabolism and receptor trafficking, with occasional references to neural signaling in model organisms. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904810","count":1},{"id":"GO:0034231","count":1},{"id":"GO:1905601","count":1},{"id":"GO:0032902","count":1},{"id":"GO:0010989","count":1}]},{"hash":"1326951061100294148","title":"Unknown","description":"The top GO terms are diverse and only single entries for each, covering uridine and thymine transport, activation of protein kinase activity, ribosome biogenesis, and a biosynthetic process. There is no clear shared function or pathway connecting these terms, so I cannot assign a meaningful cellular concept to the cluster beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015862","count":1},{"id":"GO:0035364","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0046360","count":1}]},{"hash":"1542132177577805289","title":"Broad Developmental and Mitotic Processes","description":"The cluster shows enrichment in development-related terms across tissues (brain/superior temporal gyrus, lung mesenchyme, heart muscle proliferation) along with cell cycle and mitotic processes (mitotic cell cycle, spindle microtubule attachment) and apoptosis, suggesting a broad developmental program tied to cell division and morphogenesis. Some terms (visual perception, biofilm formation) are less central outliers, but the core signals point to developmental and proliferative activities.","confidence":"Medium","size":19,"edges":115,"triangles":457,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0000902","count":13},{"id":"GO:0071109","count":12},{"id":"GO:0090606","count":12}]},{"hash":"630823520668824500","title":"Unknown","description":"The GO terms are highly diverse, covering sperm capacitation, heavy metal detoxification, calcium-dependent exocytosis, pseudohyphal growth, multiple vertebrate developmental processes (heart, nervous system, skeletal), Rho signaling, and plant auxin signaling/transport. This lack of a single cohesive function suggests no clear common theme tying the proteins together.","confidence":"","size":19,"edges":70,"triangles":91,"max_degree":16,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0048240","count":8},{"id":"GO:0098849","count":6},{"id":"GO:0045956","count":5},{"id":"GO:0007124","count":5},{"id":"GO:0001501","count":5}]},{"hash":"1113767621568659708","title":"Autophagy and selective organelle turnover","description":"The GO terms are dominated by autophagy-related processes: autophagosome assembly, mitophagy, glycophagy, nucleophagy, the Cvt pathway, and related selective autophagy routes, indicating a cohesive cluster of proteins involved in autophagic degradation and organelle turnover. A single term about viral RNA replication appears incidental. Overall, the cluster represents autophagy pathways and selective autophagic turnover.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":1},{"id":"GO:0035096","count":1},{"id":"GO:0061723","count":1},{"id":"GO:0006501","count":1},{"id":"GO:0000045","count":1}]},{"hash":"105318019884013168","title":"Middle ear and skeletal morphogenesis","description":"Based on the GO terms, the cluster predominantly centers on developmental processes related to ear structures and the skeletal system (middle ear morphogenesis, sensory perception of sound, ossification, axial mesoderm development, skeletal system development). A few terms (translation, preribosome assembly, obsolete phosphorylation) seem less connected and likely reflect background noise or misannotations. Thus, the core theme is craniofacial skeleton and ear development, justifying the label.","confidence":"Medium","size":19,"edges":21,"triangles":4,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0034463","count":1},{"id":"GO:0001501","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0007605","count":1}]},{"hash":"1630685785864666101","title":"Unknown","description":"The top GO terms are highly diverse, spanning mechanical stimulus response, neuronal differentiation, intracellular signaling, synaptic plasticity regulation, immune signaling, cardiac and vascular development, Wnt signaling, telomere binding, and apoptosis, with no clear shared function or pathway and no detected interactions. This makes it impossible to assign a cohesive, specific label to the cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"693325364897921099","title":"Unknown","description":"The top terms include telomere maintenance and genome stability (sister chromatid exchange repair, shelterin assembly, telomeric loops) but also plant development signals (ethylene/abscisic acid responses, chlorophyll biosynthesis, seed growth). The functions are not cohesively tied to a single biological theme, so there isn\u2019t a clear unifying label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"1341930108444150236","title":"Detoxification and Substrate Catabolism","description":"The cluster shows GO terms centered on catabolic processes across diverse substrates (triglycerides, chlorophyll, cocaine, glucuronosides, menaquinone, poly-hydroxybutyrate) along with cellular oxidant detoxification and responses to toxic substances. This suggests proteins involved in breaking down varied compounds and detoxification rather than a single specific pathway, despite some obsolete terms. The overall theme points to detoxification-linked catabolism as the common function of this cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0015996","count":1},{"id":"GO:0050784","count":1}]},{"hash":"94842613249577620","title":"Endocytic recycling and PI signaling","description":"The dominated GO terms point to membrane trafficking and lipid signaling: endocytic recycling and receptor recycling regulation, vacuole organization, and phosphoinositide metabolism (PI3P biosynthesis and PI dephosphorylation). These together suggest a shared role in vesicle trafficking and phosphoinositide-dependent signaling; the myelin-related terms may reflect broader neural trafficking connections or annotation noise. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032288","count":2},{"id":"GO:0042518","count":1},{"id":"GO:2001135","count":1},{"id":"GO:0046856","count":1},{"id":"GO:0001921","count":1}]},{"hash":"1043537947344805228","title":"Nuclear Transport and Chromatin Assembly","description":"The cluster prominently features GO terms tied to nuclear import (ribosomal protein import, protein import into nucleus), nuclear pore/ envelope dynamics (nuclear pore complex assembly, mitotic nuclear membrane reassembly), and chromatin assembly during DNA replication, pointing to a cohesive theme around nuclear organization and chromatin maintenance; peripheral signals like TORC1 and STAT regulation may reflect broader cellular growth signaling but do not override the nucleus-centric pattern.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0097711","count":3}]},{"hash":"286736160546168467","title":"Nuclear transport and chromatin regulation","description":"The cluster shows GO terms centered on nuclear processes and transport (nuclear pore complex assembly, ribosomal protein import into nucleus, protein import into nucleus, DNA replication) and chromatin silencing (silent mating-type cassette heterochromatin formation). Additional signals like TORC1 signaling and ciliary basal body docking appear as broader, supportive regulatory contexts in eukaryotic cells, but the core theme is nucleocytoplasmic transport and chromatin maintenance.","confidence":"Medium","size":19,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006610","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0051292","count":2}]},{"hash":"1887125806073716579","title":"Xenobiotic Transmembrane Transport","description":"The top GO term is xenobiotic transmembrane transport (GO:0006855) with a single instance among the 19 proteins, and there are no edges linking proteins in the cluster. This makes the label tentative, but reflects the only recurring functional annotation observed.","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1}]},{"hash":"1032737416775391260","title":"Reproductive hormone signaling and innate immunity","description":"The GO terms show strong signals for reproductive endocrine processes (FSH signaling, Sertoli cell development, primary ovarian follicle growth, development of secondary male sexual characteristics) alongside innate immune signaling (MyD88-dependent TLR signaling, TLR7 signaling). The presence of GPCR and IP3-related pathways suggests these proteins participate in signaling cascades linking hormonal control of reproduction with innate immune responses, potentially reflecting cross-talk in reproductive tissues. ","confidence":"Medium","size":19,"edges":27,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":19},{"id":"GO:0002755","count":19},{"id":"GO:0007200","count":19},{"id":"GO:0032962","count":19},{"id":"GO:0034154","count":19}]},{"hash":"2217651386477896058","title":"Spliceosome and Protein-Targeting Factors","description":"Based on the prominence of spliceosome-related terms (generation of catalytic spliceosome; spliceosomal snRNP assembly) and the SRP-dependent protein targeting to membranes, with additional stress/quality-control terms (unfolded protein response, heat response, apoptotic regulation), the cluster seems to gather proteins involved in RNA processing and cotranslational protein targeting with related stress handling. However, the mix of terms across different cellular processes suggests only partial coherence, hence a cautious medium confidence.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000349","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1}]},{"hash":"1282980583383713813","title":"Vacuolar transport and ion homeostasis","description":"This cluster centers on GO terms for proton transmembrane transport, vacuole organization and acidification, and protein targeting to the vacuole, plus ion homeostasis (copper, sodium). Together they point to proteins involved in vesicular trafficking to the vacuole and maintaining proton/ion gradients, with auxiliary signals like mitochondrial targeting and xenobiotic transport that are less central. Overall, a coherent theme around vacuolar transport and membrane ion homeostasis emerges.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0007033","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0007035","count":3}]},{"hash":"1271216606885734938","title":"Nuclear Transport and DNA Replication","description":"The top terms cluster around processes involving the nucleus and genome maintenance: nuclear import (ribosomal protein import into nucleus), nuclear pore complex assembly, DNA biosynthesis/replication (including viral DNA genome replication) and intron homing. Some terms (TORC1 signaling, ciliary docking) are less central, suggesting the core theme centers on nuclear transport and DNA-related processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0039693","count":2},{"id":"GO:0006314","count":1},{"id":"GO:0006610","count":1}]},{"hash":"308816915015082873","title":"Plant telomere maintenance and chromatin regulation","description":"This cluster is dominated by telomere-associated processes: replication-born double-strand break repair via sister chromatid exchange, negative regulation of telomeric D-loop disassembly, and positive regulation of shelterin complex assembly, plus telomeric loop formation and RNA localization to telomeres. The presence of histone acetylation regulation and plant-development terms (chlorophyll biosynthesis, seed growth, hormone responses) suggests additional chromatin and plant-context connections, but the core signal centers on telomere maintenance and chromatin regulation in plants.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4},{"id":"GO:0009723","count":4}]},{"hash":"2118898828709684973","title":"Cytoskeletal Remodeling During Morphogenesis","description":"Top terms cluster around microtubule dynamics and actin nucleation, plus vesicle targeting and SNARE regulation, with a developmental cue from gastrulation-related regulation. This points to coordinated cytoskeletal remodeling and membrane trafficking driving embryonic morphogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0030953","count":1},{"id":"GO:0006903","count":1}]},{"hash":"2140406176315836441","title":"Developmental Signaling Regulators","description":"The top GO terms point to signaling pathways (Wnt signaling, intracellular signal transduction) and development/differentiation (cerebellar granule cell differentiation, cardiac morphogenesis), with ubiquitination as a regulatory layer and links to synaptic plasticity regulation. Together they suggest a cluster of proteins that broadly regulate signaling during neural and cardiac development and related processes. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0016049","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4}]},{"hash":"599835895345954643","title":"Nuclear transport and RNA export","description":"The proteins show a cohesive pattern around nuclear transport and RNA processing: protein import into the nucleus, mRNA and tRNA export, and nuclear pore complex assembly, plus related RNA tethering at the nuclear periphery. While a couple development terms appear, the dominant signal points to nuclear transport/RNA export machinery as the cluster's common function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":1},{"id":"GO:0034398","count":1},{"id":"GO:0006606","count":1},{"id":"GO:0006409","count":1},{"id":"GO:0051292","count":1}]},{"hash":"106696208493819929","title":"RNA Pol II Transcription Initiation and Regulation","description":"The cluster is dominated by GO terms related to DNA-templated transcription initiation, RNA polymerase II preinitiation complex assembly, and transcription regulation (including Notch target transcription), with supporting hints from chromatin modification processes. This suggests a cohesive theme around transcription initiation and regulation of gene expression, rather than unrelated processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006352","count":1},{"id":"GO:0051090","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0007221","count":1},{"id":"GO:0043966","count":1}]},{"hash":"736850205191916908","title":"Nuclear import and meiotic cell cycle regulation","description":"The top terms cluster around nuclear import (ribosomal and NLS-bearing proteins), meiotic nuclear division (spindle elongation, sister chromatid separation, female meiosis), and meiotic cell cycle regulation, with supporting TORC1 signaling and Pol III transcription. This suggests a cohesive module linking nuclear transport to meiotic progression and growth signaling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0051232","count":3},{"id":"GO:0051306","count":3}]},{"hash":"804959649963627396","title":"Nucleolar RNA processing and ribosome biogenesis","description":"This cluster is dominated by GO terms related to RNA maturation and ribosome assembly, including 90S preribosome assembly, pre-mRNA splicing complex assembly, and rRNA processing steps like ITS1 cleavage and polyadenylation-related events. Together these indicate a group of nuclear proteins focused on assembling and processing ribonucleoprotein complexes in the nucleolus. A few terms (e.g., telomere tethering, DNA damage response) appear as ancillary nuclear processes, but the core signal points to RNA processing and ribosome biogenesis rather than a single signaling or metabolic pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034463","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0072423","count":1},{"id":"GO:0000354","count":1},{"id":"GO:0042868","count":1}]},{"hash":"1337400859741001509","title":"Neuronal differentiation and signaling","description":"The top GO terms point to neural development and synaptic function, including cerebellar granule cell differentiation, regulation of synaptic plasticity via receptor localization to synapse, and the Wnt signaling pathway, along with general intracellular signal transduction. While mRNA processing and a few other terms appear, the dominant theme centers on neural development and neuronal signaling pathways, suggesting this cluster represents proteins involved in neural differentiation and synaptic signaling processes. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":9},{"id":"GO:0032088","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0021707","count":8},{"id":"GO:0035556","count":8}]},{"hash":"2105871065733839605","title":"Innate Immune Signaling","description":"The GO terms show strong enrichment for innate immune processes, including innate immune response, MyD88-independent Toll-like receptor signaling, positive regulation of IL-1 beta production, and type II interferon signaling. While other terms touch on development and chromatin remodeling, the dominant theme is innate immune signaling, so the label focuses on that core function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0071560","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0008286","count":2}]},{"hash":"1256831118368342815","title":"Nuclear ribosome biogenesis and pre-replicative assembly","description":"The cluster\u2019s top GO terms are dominated by ribosome biogenesis and ribosomal large subunit assembly, along with a term for pre-replicative complex assembly involved in nuclear DNA replication, pointing to nuclear/nucleolar roles in ribosome production and replication initiation. Other terms about vesicle fusion and Rab signaling are present but less central, so the strongest shared theme is nuclear ribosome biogenesis and prep for DNA replication.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010197","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0006267","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006886","count":1}]},{"hash":"775521463026181146","title":"Hormone Signaling and Transcription Regulation","description":"The GO terms include hormone-related signaling (response to testosterone, adiponectin-activated signaling) and pathway activity (Wnt signaling), plus processes governing transcription and DNA binding, and phosphorylation. This points to a set of proteins that broadly regulate signaling cascades and gene expression rather than a single pathway, despite sparse connectivity. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033574","count":1},{"id":"GO:0010862","count":1},{"id":"GO:0043537","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0033211","count":1}]},{"hash":"2098894824506556524","title":"TLR signaling and cytokine production cluster","description":"Proteins here are tied to Toll-like receptor signaling (both MyD88-dependent and -independent) and LPS response, with downstream regulation of cytokine, chemokine, interferon-beta production, and dendritic cell cytokine output\u2014indicating a coordinated innate immune activation role.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034166","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0006963","count":2},{"id":"GO:0050707","count":2}]},{"hash":"1583449399643791176","title":"Plant telomere maintenance and hormone signaling","description":"The terms center on telomere biology and genome maintenance (shelterin assembly, telomeric loop formation, RNA localization to telomeres, and double-strand break repair), while also including plant developmental and hormone response processes (ethylene and ABA responses, chlorophyll biosynthesis regulation, and seed growth). This suggests a cluster of plant proteins involved in genome stability with parallel roles in hormonal signaling and development.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"2269206971554133278","title":"Plant telomere maintenance and shelterin regulation","description":"Most top GO terms cluster around telomere biology, including telomeric loop formation, shelterin complex assembly, regulation of telomere disassembly, and RNA localization to telomeres, along with associated DNA repair processes. While hormone response and chlorophyll-related terms appear, the dominant signal points to chromosome-end maintenance and chromatin regulation in plants, suggesting a cohesive telomere-focused cluster with plant context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4},{"id":"GO:0009723","count":4}]},{"hash":"2031523544631709659","title":"Nuclear import/export and kinetochore localization","description":"Dominant themes are nuclear import/export and protein localization to the nucleus, with additional hints at centrosome/kinetochore localization and cell cycle\u2013related regulation, suggesting proteins that shuttle to/from the nucleus and participate in chromosome-spindle related processes. Some terms are obsolete, but the core signal is nuclear transport and kinetochore/centrosome association.","confidence":"Medium","size":18,"edges":44,"triangles":20,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0042493","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0035048","count":1},{"id":"GO:0034504","count":1}]},{"hash":"1973571129476806403","title":"Metal ion transport and diverse metabolism","description":"This cluster includes several clear metal ion transport and homeostasis terms (copper and cadmium transport, calcium ion homeostasis) alongside a mix of disparate metabolic processes (lipopolysaccharide biosynthesis, serine biosynthesis, epoxygenase P450 pathway, stilbene catabolic process, response to testosterone). The strongest common theme is involvement in metal ion handling, with additional heterogeneous metabolic functions, so the label reflects both the prominent signal and the diversity. ","confidence":"Medium","size":18,"edges":76,"triangles":151,"max_degree":16,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0009103","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0097755","count":6},{"id":"GO:0006874","count":6},{"id":"GO:0006564","count":6}]},{"hash":"39836291599924008","title":"Unknown","description":"There are no GO terms provided for this cluster, so no common functional theme can be inferred. Despite the dense connectivity among 18 proteins, without functional annotations there is no basis to assign a specific, representative label.","confidence":"","size":18,"edges":49,"triangles":87,"max_degree":13,"top_function":null,"top_go_terms":[]},{"hash":"2078831967583437966","title":"Developmental Signaling and Neural Plasticity","description":"These proteins cluster around broad signaling and development functions, including Wnt signaling and intracellular signal transduction, plus tissue differentiation events (cerebellar granule cell differentiation, venous endothelial cell differentiation, cardiac right atrium morphogenesis) and a neural plasticity-related term (regulation of synaptic plasticity by receptor localization to synapse. The presence of an immune regulation term suggests additional context-specific roles, but the dominant theme is signaling cascades guiding development and neural connectivity rather than a single pathway.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5},{"id":"GO:0045083","count":5}]},{"hash":"18249150149440297","title":"Developmental and Immune Signaling Pathways","description":"This cluster combines GO terms for intracellular signal transduction with pathways linked to development (Wnt signaling, cerebellar differentiation, cardiac morphogenesis, synaptic regulation) and immune signaling (NOD2 pathway, NF-kappaB regulation, IL-12 production). The shared theme appears to be broadly orchestrated signaling activities that coordinate development and innate immune responses, rather than a single canonical pathway. The absence of edges suggests these proteins may participate in multiple, overlapping signaling processes across tissues.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3}]},{"hash":"619067444519527443","title":"Nuclear import/export machinery","description":"GO terms strongly center on importing proteins into the nucleus, nuclear pore complex assembly, and mRNA export, indicating a cohesive set of nuclear transport components. The intraciliary transport term is a possible related trafficking function, but the dominant theme is nuclear import/export processes.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0035735","count":3},{"id":"GO:0016032","count":2},{"id":"GO:0051292","count":2}]},{"hash":"1899228024125335408","title":"GPCR-Driven cAMP/cGMP Signaling","description":"The top GO terms cluster around GPCR-mediated signaling that activates adenylate cyclase and guanylate cyclase, producing cAMP and cGMP, with inputs from blue-light signaling and hypoxia detection, and downstream transcription regulation, indicating a cohesive second-messenger signaling module.","confidence":"High","size":18,"edges":50,"triangles":92,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":13},{"id":"GO:0035556","count":12},{"id":"GO:0071880","count":12},{"id":"GO:0030828","count":12},{"id":"GO:0009785","count":12}]},{"hash":"249930504174656164","title":"Neuronal development and cytoskeletal organization","description":"The proteins are linked to neurogenesis and neuron remodeling, and include cytoskeletal-related processes (microtubule anchoring at centrosome, spindle orientation) as well as intracellular trafficking (ER-to-Golgi transport) and turnover (autophagy, apoptosis), suggesting a theme of neuronal development with dynamic cytoskeletal organization and cellular remodeling.","confidence":"Medium","size":18,"edges":14,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0051292","count":1},{"id":"GO:0000132","count":1},{"id":"GO:0006914","count":1}]},{"hash":"144791521330449995","title":"Neural crest and glial development","description":"Most of the prominent GO terms center on nervous system development (oligodendrocyte differentiation, peripheral nervous system development, neural crest cell migration), indicating a focus on glial and neural lineage formation. Additional terms about epithelial polarity and tissue maintenance suggest concurrent regulation of tissue organization, but the dominant signal is neural crest and glial development. Therefore, the label Neural crest and glial development.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0007422","count":1},{"id":"GO:0035019","count":1},{"id":"GO:0033234","count":1}]},{"hash":"104315890174235223","title":"Unknown","description":"The top terms are highly diverse, spanning DNA replication/repair and chromosome maintenance (lagging strand elongation, spindle assembly, telomere-related localization, mitochondrial DNA repair) as well as developmental pathways (Wnt signaling, smooth muscle and female gonad development). There is no single cohesive function linking these proteins, so a meaningful specific label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001170","count":1},{"id":"GO:0048745","count":1},{"id":"GO:0008585","count":1},{"id":"GO:0006273","count":1},{"id":"GO:0070198","count":1}]},{"hash":"854110246817407197","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0001707","count":1}]},{"hash":"1681791546119610740","title":"Unknown","description":"The cluster has no edges and virtually no shared, non-obsolete GO annotations among its members; only one obsolete term appears, providing no cohesive functional theme to tie the proteins together.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"1670105716410942590","title":"Potassium Ion Transport and Cholinergic Signaling","description":"GO terms point to potassium ion transport and cholinergic synaptic transmission, with a notable emphasis on regulation of ion transporter activity and neural signaling. While some terms are obsolete or peripheral, the core pattern suggests proteins involved in membrane ion flux and neuronal communication, i.e., excitability and synaptic modulation.","confidence":"Medium","size":18,"edges":43,"triangles":12,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":2},{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1}]},{"hash":"759663863806485715","title":"Developmental signaling and membrane trafficking","description":"These proteins appear linked to signaling pathways (ERK/MAPK cascades, EMT signaling) and to membrane/vesicle dynamics (endosome localization, membrane addition during cytokinesis), with developmental processes like neural tube patterning. The shared themes center on coordinating signaling with trafficking during development and cell division, rather than a single isolated pathway.","confidence":"Medium","size":18,"edges":10,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0036010","count":8},{"id":"GO:0007119","count":8},{"id":"GO:0060684","count":8}]},{"hash":"2017168464384477441","title":"Synaptic vesicle trafficking and lipid metabolism","description":"The cluster shows strong signals for ER-to-Golgi vesicle transport and synaptic vesicle maturation, coupled with neuronal features like dendrite extension and synaptic plasticity regulation. Lipid metabolism terms (sphingolipid biosynthesis regulation and phospholipid catabolism) suggest membrane composition and trafficking are coordinated to support synaptic function and neurite dynamics, making this a coherent neuronal vesicle\u2013lipid regulatory theme.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0016188","count":1},{"id":"GO:1903861","count":1},{"id":"GO:2000203","count":1},{"id":"GO:0043619","count":1}]},{"hash":"1613498693852975633","title":"Cortical neuron development and dendrite morphogenesis","description":"Reason: The top GO terms are dominated by neural development and neuronal morphology signals (visual perception, dendrite morphogenesis, superior temporal gyrus development), suggesting a cortex-focused theme of neuron differentiation and dendrite formation. Other terms related to transcription and cell cycle are present but secondary, reinforcing a cortical development interpretation.","confidence":"High","size":18,"edges":53,"triangles":37,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0097011","count":14},{"id":"GO:0006813","count":14},{"id":"GO:0071222","count":14}]},{"hash":"1319662305932072973","title":"Unknown","description":"The GO terms are highly diverse, spanning vision, brain development, biofilm formation, immune signaling, cardiac growth, apoptosis, mitotic spindle attachment, lung mesenchyme development, ion transport, and ERBB signaling, with no clear unifying function. This lack of a cohesive theme makes a concise, accurate label unreliable.","confidence":"","size":18,"edges":115,"triangles":350,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":18},{"id":"GO:0071109","count":18},{"id":"GO:0090606","count":18},{"id":"GO:0032762","count":18},{"id":"GO:0060045","count":18}]},{"hash":"1585847484852652790","title":"Unknown","description":"GO terms across renin-angiotensin\u2013related secretion and diverse trafficking/signaling processes are only loosely connected, with a single weak edge (max degree 1) and no clear shared function. This lacks a cohesive theme to confidently label the cluster.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002001","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0002019","count":1},{"id":"GO:0002035","count":1}]},{"hash":"2053336872940408955","title":"Meiosis, DNA repair, and spermatid flagellum assembly","description":"Top terms point to meiotic processes (meiotic cell cycle, double-strand break repair via homologous recombination, mitotic/meiotic chromatid cohesion, chromosome condensation) and spermatid biology (inner dynein arm assembly, spermatid development, microtubule motor regulation). This indicates a cluster of proteins involved in meiotic chromosome dynamics and sperm flagellum assembly.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000574","count":1},{"id":"GO:0036159","count":1},{"id":"GO:0007286","count":1},{"id":"GO:1903342","count":1},{"id":"GO:0071960","count":1}]},{"hash":"1774263075924449120","title":"Deubiquitinases and transcription/splicing regulation","description":"The top GO terms are dominated by multiple deubiquitination activities (K6, K11, K48, K63-linked deubiquitination, plus protein linear deubiquitination) and signaling that negatively regulate ubiquitin ligase activity, suggesting a core of deubiquitinases. The presence of terms related to DNA-templated transcription and spliceosomal complex assembly implies these DUBs may influence transcription and RNA processing, linking ubiquitin status to gene expression and splicing. Therefore a concise label focusing on deubiquitinases with transcription/splicing roles fits best.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044313","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0000245","count":1},{"id":"GO:1990108","count":1},{"id":"GO:0070537","count":1}]},{"hash":"757167188997033851","title":"Transcription and ribosome biogenesis","description":"Top GO terms emphasize transcriptional machinery (DNA-templated transcription, Pol II elongation) and ribosome biogenesis/translation initiation (preinitiation complex formation, small subunit biogenesis/export), suggesting a gene-expression cluster. Other terms like growth hormone response or pH response are peripheral. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0010446","count":1},{"id":"GO:0042274","count":1}]},{"hash":"1151703937020731538","title":"Oxidative and ER Stress Response","description":"Most terms point to cellular responses to redox imbalance and endoplasmic reticulum stress (cell redox homeostasis, cellular response to oxidative stress, response to endoplasmic reticulum stress). A few terms suggest transcriptional and nuclear transport regulation, and a viral process term may be incidental noise, but the core motif aligns with stress-response pathways related to redox and ER function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1111959705054974094","title":"NO-cGMP Signaling Components","description":"The cluster centers on signaling pathways that generate or respond to cyclic GMP, including receptor guanylyl cyclase signaling and GPCR-mediated adenosine signaling, along with related oxidant detoxification and transcription regulation. The most coherent theme across the top GO terms is nitric oxide\u2013related signaling leading to cGMP production, with supporting transcriptional regulation. Therefore, NO-cGMP Signaling Components.","confidence":"Medium","size":18,"edges":8,"triangles":3,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0006212","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0019740","count":3},{"id":"GO:0098869","count":3}]},{"hash":"461540567057002405","title":"Translation initiation and ubiquitin-proteasome regulation","description":"Primarily links translation initiation (reinitiation and preinitiation complex formation) with ubiquitin-proteasome\u2013mediated proteolysis (SCF-dependent degradation and ubiquitin ligase regulation), suggesting a functional cluster around coordinated protein synthesis and turnover; other terms hint at development and cell-cycle roles.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:1904668","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0031175","count":2}]},{"hash":"1405684322205359424","title":"Unknown","description":"The Top GO terms describe diverse processes (neural differentiation, heart and endothelial development, signaling pathways, immune regulation, and general intracellular signaling) with no single unifying theme, and there are no strong interconnections among them, so a cohesive, specific function label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"155834677739549714","title":"Unknown","description":"No clear common function ties the top GO terms together (cytoplasmic translation, cellular response to oxidative stress, and negative regulation of ectoderm development), and there are no edges connecting proteins, so the cluster appears functionally diverse or uncharacterized. Confidence: None","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":1},{"id":"GO:0034599","count":1},{"id":"GO:2000384","count":1}]},{"hash":"2258849577456159001","title":"Innate immune sensing and hormone signaling","description":"The top GO terms cluster around innate immunity (response to exogenous dsRNA, innate immune response, cellular response to LPS) and receptor-mediated signaling pathways (insulin receptor signaling, growth hormone receptor signaling), suggesting proteins involved in broad signal transduction that connects immune sensing with endocrine signaling. A few terms like potassium ion transport and sperm capacitation are less central, but do not redefine the core theme. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043330","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0046626","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0048240","count":9}]},{"hash":"1435717231476189772","title":"Vesicle transport and translation initiation","description":"These proteins are annotated with GO terms centered on ER\u2013Golgi vesicle transport (including retrograde Golgi-to-ER) and translation initiation/mRNA export, suggesting a core link between protein trafficking and initiation of protein synthesis. While there are additional terms related to chromatin assembly, ERAD, and microtubule dynamics, the strongest shared theme appears to be vesicle trafficking between the ER and Golgi in concert with translation initiation processes.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0061641","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0051260","count":2}]},{"hash":"650319262563026013","title":"Reproductive endocrine and innate immunity signaling","description":"These GO terms highlight hormone signaling related to ovarian follicle growth and Sertoli cell development, and male/female reproductive characteristics, together with innate immune signaling (MyD88-dependent TLR, TLR7) and GPCR/IP3 pathways. The protein cluster seems to participate in broad signaling cross-talk between endocrine regulation of reproduction and immune responses, rather than a single narrow function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0032962","count":2},{"id":"GO:0034154","count":2}]},{"hash":"971774800298232811","title":"Plant Telomere Maintenance and Hormone Response","description":"This cluster centers on telomere biology (shelterin assembly, telomeric loop formation, D-loop regulation, and replication-associated repair) while also including plant hormone and developmental signals (ethylene and abscisic acid responses, chlorophyll biosynthesis regulation, and seed growth). The strongest signals are telomere-related processes, with plant stress/hormone responses likely reflecting coordinated regulation in this organismal context, justifying a label focused on telomere maintenance with hormone response elements.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":1,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":18},{"id":"GO:1905839","count":18},{"id":"GO:1904792","count":18},{"id":"GO:0010380","count":18},{"id":"GO:0009723","count":18}]},{"hash":"554181715088173071","title":"RNA Polymerase Transcription and Ribosome Biogenesis","description":"This cluster shows enrichment for multiple transcription-related GO terms across RNA polymerases I, II, and III (including transcription by Pol I/II/III, RNA-templated transcription, and Pol II transcription termination) and for ribosome biogenesis, indicating a shared role in transcription-related machinery and ribosome production.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0001172","count":1}]},{"hash":"445454346177802670","title":"Innate antiviral response","description":"The top terms cluster around antiviral and interferon-related functions (cellular response to exogenous dsRNA, cellular response to type I interferon, innate immune response, negative regulation of defense response to virus by host), suggesting a coherent theme of antiviral innate immunity. A few terms (e.g., regulation of GPCR signaling, chlorophyll biosynthesis, telomere\u2013related processes, DNA repair) appear incidental or cross-species annotations and do not undermine the core antiviral signal.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008277","count":1},{"id":"GO:0071360","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0071357","count":1},{"id":"GO:0045087","count":1}]},{"hash":"972754069652898015","title":"Golgi sugar-nucleotide transporters","description":"The cluster\u2019s GO terms repeatedly point to transport of nucleotide sugars into the Golgi lumen (UDP-glucose, GDP-fucose) and related glycosylation steps such as fucosylation, suggesting a shared function in Golgi-based glycosylation. Some terms about plant development appear incidental, and a few transport terms seem generic or out of context, but the dominant theme centers on nucleotide-sugar import into the Golgi for glycosylation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":1},{"id":"GO:1990536","count":1},{"id":"GO:0048527","count":1},{"id":"GO:0036066","count":1},{"id":"GO:0015786","count":1}]},{"hash":"1533373930393735204","title":"Unknown","description":"Insufficient functional information: there are no GO terms, no edges or connections, and no enrichment signals to define a shared function across these proteins, so no meaningful label can be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1368202444593786141","title":"Vesicle trafficking and membrane fusion regulation","description":"The top GO terms cluster around intracellular protein transport, regulation of vesicle fusion, COPII vesicle loading, and Rab signaling, pointing to a vesicle trafficking/membrane dynamics theme. A few terms (DNA repair and lens morphogenesis) appear peripheral, so the core signal is vesicle trafficking rather than nuclear or developmental processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046726","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0000715","count":2},{"id":"GO:0006886","count":1},{"id":"GO:0032889","count":1}]},{"hash":"296223981672389936","title":"Vacuolar Amino Acid and Sugar Transport","description":"This cluster is dominated by transmembrane transport terms for amino acids and sugars, especially across vacuolar or intracellular membranes (e.g., basic amino acids, L-cystine, L-serine, D-glucose, general amino acid transport) and references to intracellular amino acid homeostasis. The presence of dolichol-linked oligosaccharide biosynthesis ties into ER-associated glycosylation and vesicle transport. A few terms (lens development, grooming behavior, nitrogen-starvation conjugation regulation) are less directly connected and may reflect broader or cross-species annotations. Overall, the cluster seems to group membrane transport and nutrient homeostasis functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034488","count":2},{"id":"GO:0002088","count":2},{"id":"GO:0015811","count":2},{"id":"GO:0006488","count":2},{"id":"GO:0060905","count":2}]},{"hash":"1478001092437805815","title":"Developmental signaling and neural differentiation","description":"This cluster centers on signaling and development, with GO terms for Wnt signaling, intracellular signal transduction, and cerebellar granule cell differentiation, plus regulation of synaptic plasticity via receptor localization to the synapse. Though it also includes broader developmental processes (cardiac morphogenesis, endothelial differentiation) and immune-related terms, the common thread is signaling-driven development and neural plasticity rather than a single, narrow function. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"825585691026465815","title":"Neuronal differentiation and synaptic signaling","description":"The top GO terms are dominated by neuronal-focused processes: cerebellar granule cell differentiation and regulation of synaptic plasticity by receptor localization to the synapse, plus intracellular signaling and Wnt signaling, which are key in neuronal development and connectivity. Ubiquitination is a common mechanism regulating protein turnover at synapses, supporting a synaptic regulation theme. While some terms (e.g., cardiac morphogenesis, IL-12 regulation) are less directly related, the strongest signals center on neural differentiation and synaptic signaling, making this a coherent cluster label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5}]},{"hash":"1588498036279647922","title":"Gonadal Hormone Signaling","description":"The cluster is dominated by GO terms for LH/FSH signaling, GPCR and cAMP/PKA-related pathways, and reproductive development (uterus development and sexual characteristic development), indicating a cohesive theme of gonadal hormone signaling and reproductive regulation, despite one inflammatory term overlapping.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0071373","count":18},{"id":"GO:0034158","count":18},{"id":"GO:0010738","count":18}]},{"hash":"450800035972757772","title":"Reproductive GPCR Hormone Signaling","description":"The top GO terms are dominated by GPCR-mediated hormone signaling (activation of adenylate cyclase, PLC pathways, PKA regulation) in response to LH, FSH, and TRH, with accompanying reproductive functions such as uterus development and secondary sexual characteristics. This points to a cohesive theme of endocrine signaling governing reproduction, despite one outlier term related to TLR8 signaling. ","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0071373","count":18},{"id":"GO:0034158","count":18},{"id":"GO:0010738","count":18}]},{"hash":"2270701965453247395","title":"Reproductive Hormone GPCR Signaling","description":"The proteins are enriched for GPCR-driven hormone signaling, including LH/FSH and thyrotropin-releasing hormone pathways, with activation of adenylate cyclase and phospholipase C, plus reproductive development terms (uterus development, secondary male sexual characteristics), indicating a cohesive endocrine signaling role in reproduction; an outlier term (TLR8 signaling) is present but does not override the dominant theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0071373","count":18},{"id":"GO:0034158","count":18},{"id":"GO:0010738","count":18}]},{"hash":"992224890803102064","title":"Cyanobacterial nitrogen regulation and heterocyst development","description":"The top GO terms cluster around nitrogen utilization, heterocyst development, and two-component signaling (phosphorelay and autophosphorylation), which are characteristic of cyanobacterial nitrogen-fixation regulation and cell differentiation. A few terms appear unrelated (e.g., immune regulation), suggesting some noise, but the dominant theme points to cyanobacterial nitrogen regulation and heterocyst formation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010105","count":1},{"id":"GO:0010271","count":1},{"id":"GO:0046777","count":1},{"id":"GO:0097411","count":1},{"id":"GO:0000160","count":1}]},{"hash":"1523980049438819657","title":"Lignan biosynthesis and catabolism in phenylpropanoid metabolism","description":"The Top Terms include several lignan-related processes such as (+)-lariciresinol catabolic process, (-)-pinoresinol catabolic process, and (+)-secoisolariciresinol biosynthetic process, all within the phenylpropanoid biosynthetic framework, indicating the proteins participate in lignan production and turnover. While some unrelated GO terms appear (e.g., hair follicle development), the dominant, coherent signal is lignan biosynthesis and catabolism within plant phenylpropanoid metabolism. Confidence: High","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902131","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0001942","count":1},{"id":"GO:0019305","count":1},{"id":"GO:0009699","count":1}]},{"hash":"229022874835787838","title":"Unknown","description":"The top GO terms span immune signaling (NOD2 pathway, NF-kB regulation), metabolism (fat cell differentiation, glucose import), cell cycle control, mechanotransduction, cell migration, telomere maintenance, and mRNA processing, with no single dominant biological process tying the proteins together. This diversity makes a cohesive, meaningful label difficult, so Unknown is the most appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0070431","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0035994","count":4}]},{"hash":"847957181448650217","title":"Glycosylation and developmental processes","description":"The top GO terms are dominated by protein glycosylation (O-linked mannose and O-GlcNAc) and several developmental-related terms (larval cuticle development, mesoderm development, and cell-cell adhesion), suggesting these proteins are involved in glycosylation-modulated development and tissue interactions rather than a single, dedicated pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":5},{"id":"GO:0097370","count":4},{"id":"GO:0008363","count":4},{"id":"GO:0051321","count":1},{"id":"GO:0007498","count":1}]},{"hash":"1545538906718768539","title":"TLR-driven innate antiviral response","description":"Most frequent GO terms indicate innate immune sensing and antiviral defense (defense response to virus, innate immune response) and Toll-like receptor signaling (TLR, MyD88-dependent, TLR10) along with inflammatory control (negative regulation of IL-6), and pathogen-processing and degradation (SCF ubiquitin-proteasome pathway, xenophagy). This suggests a cohesive cluster of proteins involved in intracellular pathogen detection and antiviral responses, hence the label.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0016045","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0032715","count":1}]},{"hash":"2080510770103546196","title":"RNA Pol II Transcription Initiation Regulation","description":"This cluster is dominated by terms tied to RNA polymerase II preinitiation complex assembly and transcription regulation, suggesting a role in transcription initiation control. Some terms are obsolete, reflecting historical annotations, with a possible outlier (midbrain development).","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0071318","count":1},{"id":"GO:0036369","count":1},{"id":"GO:2000825","count":1},{"id":"GO:1905524","count":1}]},{"hash":"516375263886501647","title":"Neural development and sensory signaling","description":"Based on the prevalent GO terms, this cluster centers on neural development and sensory signaling: cerebellar granule cell differentiation and negative regulation of dendrite development indicate neuronal differentiation; regulation of synaptic plasticity by receptor localization to synapse points to synaptic regulation; terms related to sensory perception and mechanical stimuli (pain detection, mechanical stimulus) suggest sensory processing. Other terms reflect intracellular signaling in neurons. The presence of an obsolete term (NF-kappaB sequestration) likely reflects historical annotations rather than a core function. Overall, a concise label capturing neural development and neuronal signaling/sensory functions fits best.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0071446","count":1},{"id":"GO:0035556","count":1}]},{"hash":"797231383153418690","title":"Telomere maintenance and shelterin regulation in plants","description":"The top GO terms cluster around telomere biology: telomeric loop formation, shelterin complex assembly and its regulation, and D-loop dynamics, plus RNA localization to telomeres and related DNA repair. Plant-specific processes (ethylene/ABA responses, chlorophyll biosynthesis regulation, seed growth) appear, but the core signal ties to telomere maintenance and chromatin regulation in a plant context.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"1771872027568277650","title":"Multi-Tissue Developmental Signaling","description":"This cluster features GO terms tied to signaling and development across several tissues\u2014neural differentiation (cerebellar granule cell differentiation, and synaptic plasticity via receptor localization to the synapse), cardiac morphogenesis, venous endothelial differentiation, and Wnt signaling\u2014along with intracellular signal transduction and cellular responses to mechanical stimuli. The inclusion of immune regulation terms also suggests broader signaling roles. The common theme appears to be developmental signaling guiding tissue differentiation across multiple systems rather than a single tissue-specific process.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":16},{"id":"GO:0021707","count":16},{"id":"GO:0035556","count":16},{"id":"GO:1900383","count":16},{"id":"GO:0045083","count":16}]},{"hash":"914395029398374771","title":"Telomere maintenance and PARP activity","description":"The top GO terms cluster around telomere biology\u2014regulation and maintenance of telomeres, telomerase-related processes, and localization to telomeric regions\u2014coupled with protein ADP-ribosylation (PARP- and auto-PARylation). A few terms reference salicylic acid signaling, but the dominant pattern is telomere maintenance and chromosomal telomere localization, occasionally associated with PARP-mediated regulation during mitosis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904743","count":11},{"id":"GO:2000031","count":11},{"id":"GO:0070212","count":11},{"id":"GO:0032212","count":11},{"id":"GO:0070213","count":11}]},{"hash":"1573700300790246812","title":"Telomere maintenance and spindle assembly factors","description":"The cluster is dominated by GO terms related to telomere maintenance via telomerase, telomere localization to chromosomes, and spindle assembly, pointing to proteins involved in chromosome protection and proper mitotic progression. The presence of protein ADP-ribosylation terms aligns with DNA damage response and chromatin regulation, which complements telomere biology. Some terms about salicylic acid signaling or membrane localization seem peripheral or noisy, but the core signal strongly supports a chromosomal maintenance/mitosis theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904743","count":12},{"id":"GO:2000031","count":12},{"id":"GO:0010650","count":12},{"id":"GO:0070212","count":12},{"id":"GO:0032212","count":12}]},{"hash":"227136162018847121","title":"Apoptosis and Developmental Regulation","description":"Based on the Top Terms, the cluster prominently features apoptosis-related processes (anoikis; intrinsic apoptotic signaling in response to DNA damage) alongside terms tied to development (forebrain development; lymphangiogenesis) and transcriptional regulation (positive regulation of RNA polymerase II transcription; mRNA stabilization). This suggests a set of proteins involved in controlling cell fate and growth, where DNA damage\u2013responsive apoptosis intersects with gene expression regulation during development. The diverse GO terms across death, growth, and development indicate a partial cohesive theme rather than a single narrow function, so the label reflects apoptosis-involved regulatory processes with developmental context.","confidence":"Low","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043276","count":2},{"id":"GO:0070345","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0071930","count":2},{"id":"GO:0001946","count":2}]},{"hash":"771145113036387167","title":"Developmental signaling and tissue differentiation","description":"The top GO terms span developmental signaling pathways (e.g., Wnt signaling), several tissue differentiation processes (neural/cerebellar, venous endothelial, cardiac morphogenesis), and general intracellular signal transduction, with additional mechanical stimulus responses. This points to a cluster enriched for signaling processes that drive differentiation across multiple tissues, rather than a single specific function. The terms are diverse but share a developmental signaling theme, giving a reasonable but not perfect match for a concise label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"1785642545324427161","title":"Telomere maintenance and shelterin regulation","description":"The cluster is enriched for telomere-related terms (telomeric loop formation, shelterin complex assembly, RNA localization to telomeres, and telomere repair processes), indicating a shared role in chromosomal end protection; plant-development terms appear secondary.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"1140690886750198345","title":"Telomere maintenance and genome stability in plants","description":"The proteins appear linked primarily through telomere biology and genome maintenance: positive/negative regulation of shelterin assembly, regulation of D-loop disassembly at telomeres, and replication-born double-strand break repair via sister chromatid exchange, plus RNA localization to telomeres. While a few GO terms touch on plant growth or hormone responses, the dominant theme is telomere maintenance and genome stability in plants.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1}]},{"hash":"1927743597930700848","title":"Multitissue Developmental Regulation","description":"The top GO terms point to development across diverse tissues (skeletal muscle fiber development; substantia nigra development; visual perception; adenohypophysis morphogenesis; metanephric part of ureteric bud development). There are also regulatory processes like positive regulation of transcription by RNA polymerase II and positive regulation of GTPase activity, plus signaling responses such as response to cAMP. Together these suggest a cluster of proteins involved in general developmental signaling and gene regulation across multiple tissues, rather than a single tissue-specific function. (Note: one outlier term\u2014karyogamy involved in conjugation with cellular fusion\u2014appears peripheral to the main theme.)","confidence":"Medium","size":17,"edges":108,"triangles":371,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000742","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0021762","count":3}]},{"hash":"1048857184070848692","title":"Stress-Responsive DNA Repair and Transport","description":"Top GO terms point to DNA damage response (SOS response, nucleotide-excision repair) and various transport processes (amino acid, monoatomic anion, methionine, doxorubicin, and mitochondrial peptide export), suggesting a cluster of proteins involved in coping with stress by both repairing DNA and managing transport under adverse conditions. Mercury ion response supports metal stress, while endoribonuclease regulation may reflect broader stress adaptation. The combination of repair and transport themes best captures the cluster's functional core.","confidence":"Medium","size":17,"edges":16,"triangles":6,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3},{"id":"GO:0072089","count":3},{"id":"GO:0099133","count":3}]},{"hash":"1433928450177044009","title":"Inositol/PI Lipid Metabolism and Osmotic Stress","description":"The GO terms cluster around inositol and phosphatidylinositol biosynthesis and signaling, with related inositol phosphate metabolism, and include stress-response processes (hyperosmotic salinity response, ABA signaling, ER-stress\u2013linked apoptosis), suggesting a cohesive theme of inositol/PI metabolism linked to osmotic and stress signaling.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006021","count":3},{"id":"GO:0006094","count":3},{"id":"GO:0046854","count":3},{"id":"GO:0000103","count":3},{"id":"GO:0046855","count":3}]},{"hash":"1293623101940520249","title":"Regulation of transcription and kinase signaling","description":"This cluster centers on regulation-related GO terms, including DNA-templated transcription and DNA binding regulation, and regulation of signaling via GTPase activity and serine/threonine kinase activity (including autophosphorylation). Additional terms touch on mRNA transport, mitotic cell cycle, actin crosslinking, and oxidative detoxification, suggesting a broader role in coordinating transcriptional control with signaling and cell-cycle-related processes rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0098869","count":2}]},{"hash":"2209392016064479680","title":"RNA processing and transcription regulation","description":"The cluster is dominated by GO terms tied to RNA metabolism: regulation of mRNA splicing via the spliceosome, RNA silencing (including ncRNA-mediated and post-transcriptional silencing), RNA polymerase II promoter clearance and transcription termination, and RNA-protein interactions. While there are a few outliers related to DNA repair and MDA-5 signaling, the core theme centers on RNA processing and transcription control.","confidence":"High","size":17,"edges":83,"triangles":186,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000717","count":6},{"id":"GO:0001111","count":5},{"id":"GO:0033683","count":5}]},{"hash":"851634288877523301","title":"ER Stress Response and Protein Quality Control","description":"This cluster is dominated by GO terms tied to the unfolded protein response and proteostasis in the endoplasmic reticulum: unfolded protein response, ER-associated degradation via ubiquitin, chaperone-assisted refolding, and ubiquitin-dependent protein catabolism. It also includes regulation of translation initiation during ER stress, all pointing to a coordinated ER stress/protein quality control program. A few terms touch on downstream trafficking and signaling, but the core theme centers on maintaining protein folding homeostasis in the ER. ","confidence":"High","size":17,"edges":90,"triangles":247,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033144","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0006986","count":3}]},{"hash":"1196858604248090377","title":"Developmental signaling and differentiation","description":"The top GO terms point to differentiation across multiple tissues (fat cell, cerebellar granule cell, cardiac right atrium morphogenesis) and to core signaling processes (intracellular signal transduction, Wnt signaling, regulation of synaptic plasticity). This pattern suggests a theme of developmental signaling guiding cell fate and tissue patterning, with neural contexts (granule cell differentiation, synaptic regulation) and broader differentiation (adipogenesis, heart development) represented. The terms collectively hint at a broad, tissue-spanning differentiation/signaling theme rather than a single, strict function, hence a general label rather than a highly specific one.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"2004281328644460035","title":"Developmental Signaling and Differentiation","description":"The terms point to signaling pathways (Wnt, intracellular signal transduction) and tissue differentiation across neural, cardiac, and vascular lineages, suggesting the proteins contribute to development by coordinating signaling cues. While there is an occasional immune-related term, the dominant theme is developmental signaling and differentiation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0045083","count":3}]},{"hash":"630086005035839449","title":"Multi-tissue development and signaling","description":"This cluster shows GO terms spanning apoptotic processes in different tissues, cell migration, epithelial polarity, intracellular signal transduction, neuronal differentiation and synaptic regulation, immune signaling, and organ morphogenesis (e.g., cardiac development). The common thread appears to be broad developmental regulation and inter-tissue signaling rather than a single, cohesive pathway. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0071260","count":1}]},{"hash":"914934476597630722","title":"Developmental Signaling and Differentiation (Neuronal/Vascular)","description":"This cluster\u2019s GO terms point to broad developmental and signaling processes across multiple tissues: neuronal differentiation and synaptic regulation (cerebellar granule cell differentiation, synaptic plasticity), a canonical signaling pathway (Wnt), and vascular/cardiac development (venous endothelial cell differentiation, cardiac right atrium morphogenesis). The terms are diverse rather than pointing to a single specific function, suggesting a theme of development-driven signaling across tissues rather than a tightly integrated molecular complex. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":14},{"id":"GO:0021707","count":14},{"id":"GO:0035556","count":14},{"id":"GO:1900383","count":14},{"id":"GO:0045083","count":14}]},{"hash":"606434130911983769","title":"Actin remodeling and dendritic spine morphogenesis","description":"This cluster is dominated by GO terms related to Rac signaling, actin-driven structures like lamellipodium and ruffle assembly, and dendritic spine development/morphogenesis, pointing to a shared function in actin cytoskeleton remodeling and neuronal morphology. Trafficking terms linking Golgi to the plasma membrane and endosome localization further support a theme of coordinated membrane dynamics with actin remodeling in neurons.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045792","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0060999","count":3},{"id":"GO:0097178","count":3},{"id":"GO:0021766","count":3}]},{"hash":"1622151293111725190","title":"Nuclear transport and nuclear pore dynamics","description":"The terms cluster around movement and localization of proteins and RNAs through and at the nucleus and nuclear pore, including protein import into the nucleus, regulation of nuclear import, nuclear pore organization, and tRNA export from the nucleus, with related processes like localization to the nuclear inner membrane and mitotic nuclear membrane disassembly. This suggests a coherent theme of nuclear transport and pore-related functions.","confidence":"Medium","size":17,"edges":44,"triangles":32,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":1},{"id":"GO:0006409","count":1},{"id":"GO:0010827","count":1},{"id":"GO:0036228","count":1},{"id":"GO:0007077","count":1}]},{"hash":"1406678280339641075","title":"Mitotic spindle and vesicle transport","description":"The cluster shows strong signals for mitosis: mitotic cell cycle, mitotic spindle assembly, cell division, and microtubule-based movement. It also includes vesicle trafficking terms (ER to Golgi transport) and regulatory GTPase activity, consistent with coordinated cytoskeletal dynamics and intracellular transport during cell division. A few terms reference development (spermatid, nervous system growth), but the core theme remains mitotic/cytoskeletal function with vesicle trafficking. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0090307","count":3},{"id":"GO:1900242","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0007399","count":2}]},{"hash":"103464708894140414","title":"Vesicle trafficking and secretory pathway","description":"This cluster is dominated by GO terms related to intracellular vesicle movement and secretion, including exocytosis, exocyst localization, Golgi-to-vacuole transport, endocytic recycling, lysosomal transport, and ER inheritance. These terms point to a coherent theme of vesicle trafficking and membrane trafficking routes, with some development-associated terms likely reflecting broader expression contexts. Overall, the proteins appear to function in coordinating vesicle budding, docking, and cargo transport across secretory and endolysosomal pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:0006887","count":1},{"id":"GO:0051601","count":1},{"id":"GO:0006896","count":1},{"id":"GO:0032456","count":1}]},{"hash":"393424229703680193","title":"Mitotic Chromosome Segregation and Nuclear Transport","description":"Reason: The top GO terms cluster around mitosis (chromatid cohesion/segregation, APC/C-dependent catabolic process) and nuclear pore localization, with additional links to DNA replication processing and vesicle trafficking, suggesting a set of proteins involved in cell division and associated transport.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090114","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0090344","count":2},{"id":"GO:0000070","count":2},{"id":"GO:0040020","count":2}]},{"hash":"124738737428288584","title":"Development and Cell Cycle Regulation","description":"The top GO terms point to growth and morphogenesis across multiple tissues (lung mesenchyme, cardiac muscle, brain cortex), along with fundamental cell-cycle events (mitotic spindle attachment to kinetochores) and apoptosis, indicating a cluster tied to proliferation, division, and developmental pathways. Outliers such as visual perception and biofilm formation appear less connected to the core theme but do not negate the central pattern.","confidence":"Medium","size":17,"edges":132,"triangles":623,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":16},{"id":"GO:0007601","count":15},{"id":"GO:0000278","count":15},{"id":"GO:0071109","count":14},{"id":"GO:0090606","count":14}]},{"hash":"612406799108055449","title":"Neuroimmune Innate Response and Xenophagy","description":"These proteins strongly co-occur with GO terms for innate immune defense, including cellular response to lipopolysaccharide, response to dsRNA, and innate immune response, plus positive regulation of xenophagy, indicating a core theme of host defense and autophagic handling of pathogens. While there are a few terms tied to neural development or pain behavior, the dominant signal is immune/autophagic processes, suggesting these proteins function together in neuroimmune defense and related autophagy pathways.","confidence":"Medium","size":17,"edges":64,"triangles":70,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071222","count":15},{"id":"GO:0006260","count":15},{"id":"GO:0043330","count":14},{"id":"GO:0014068","count":14},{"id":"GO:0097011","count":14}]},{"hash":"2159915027852665051","title":"Lung morphogenesis and surfactant homeostasis","description":"The Top Terms include several lung-related processes: epithelial tube branching involved in lung morphogenesis, surfactant homeostasis, and basement membrane disassembly, which together point to respiratory system development and architecture. Other terms (mRNA processing, ubiquitination, immune and bone-related processes) are more general or distant, but do not override the lung-centric signals. Overall, the cluster seems best described by lung morphogenesis and surfactant function.","confidence":"Medium","size":17,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0043129","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0001913","count":2}]},{"hash":"890173125400312550","title":"Dendrite morphogenesis and synaptic signaling","description":"This cluster is dominated by GO terms related to nervous system development, dendrite morphogenesis, axon extension, and excitatory synaptic activity, with dopamine response and JNK pathway regulation supporting a theme of neuronal differentiation and signaling. The presence of dendrite morphogenesis, axon extension, and excitatory postsynaptic potential points to structural development of neurons and their synaptic connectivity, rather than immune or cell-cycle processes. The lack of observed network edges suggests the proteins share these functions but are not connected in this dataset.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048813","count":16},{"id":"GO:0033138","count":16},{"id":"GO:0050852","count":16},{"id":"GO:0007399","count":16},{"id":"GO:0000278","count":16}]},{"hash":"1737577971052138604","title":"Unknown","description":"The top terms span neural development and visual perception as well as diverse immune and cellular processes (GM-CSF response, LPS response, T cell signaling, mast cell cytokine production, mitotic cell cycle, apoptosis) with no clear unifying function. This mix does not suggest a single cohesive biological role for the protein cluster, so a concise, representative label cannot be assigned beyond Unknown.","confidence":"","size":17,"edges":16,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0097011","count":14},{"id":"GO:0071222","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0000278","count":14}]},{"hash":"1861493952006758291","title":"Epithelial Differentiation and Inflammatory Signaling","description":"The terms point to epithelial development and differentiation (keratinocyte differentiation, keratinization, salivary gland morphogenesis) with active signaling pathways (PLC-GPCR, NF-kappaB) and inflammatory regulation, plus tissue remodeling aspects (blood vessel remodeling) and calcium signaling, suggesting a cluster centered on epithelial/glandular differentiation coupled to inflammatory responses. The lack of edges does not negate the thematic coherence but indicates a broad functional association rather than direct interaction in this dataset.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060445","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0043123","count":1},{"id":"GO:0001974","count":1}]},{"hash":"2027279748244405269","title":"Translation Initiation and Proteasome Regulation","description":"The top GO terms point to both translational initiation (IRES-dependent initiation, preinitiation complex formation, initiation regulation) and protein turnover (ubiquitin-proteasome degradation, COP9 signalosome assembly, deneddylation), suggesting a theme of coordinated control of protein synthesis and degradation within this cluster, despite some other diverse terms.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0000338","count":2},{"id":"GO:0010387","count":2}]},{"hash":"1443949211945040765","title":"Oxidative Stress Response and Redox Homeostasis","description":"Reason: Many top terms point to redox/oxidative stress biology (cellular response to oxidative stress, redox homeostasis, oxidation\u2013reduction process, hydrogen peroxide-induced cell death) with a secondary ER-stress angle; a few terms appear unrelated noise.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903206","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0034976","count":8},{"id":"GO:0045454","count":6},{"id":"GO:0034599","count":6}]},{"hash":"1664942104777084147","title":"Mechanotransduction and cell migration","description":"The GO terms show a strong emphasis on mechanical cue responses (response to muscle stretch; cellular response to mechanical stimulus) and on cell movement (cell migration), pointing to a mechanotransduction/motility theme. Other terms like telomere maintenance regulation and mRNA processing appear less central to this core pattern, supporting a medium confidence in this label.","confidence":"Medium","size":17,"edges":5,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035994","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0045736","count":4},{"id":"GO:2001275","count":4}]},{"hash":"2100895517460758590","title":"Mitotic Regulation & Ubiquitin-Proteasome Pathways","description":"The top GO terms point to control of mitosis (spindle orientation, cytokinesis, cell proliferation) and proteostasis via ubiquitin ligase activity and SCF-dependent proteasomal degradation. Some development and DNA repair terms appear as noise, but the dominant signal is coordinated regulation of cell division and protein turnover by ubiquitin pathways, justifying a mitosis- and proteolysis-focused label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0006314","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1}]},{"hash":"1181628923978520652","title":"Endosomal MVB Sorting in Epithelial Cells","description":"These proteins cluster around endosomal trafficking and multivesicular body sorting, including both ubiquitin-dependent and -independent catabolic pathways, intralumenal vesicle formation, and endosome localization. The presence of epithelial polarity/adhesion and Toll signaling-related terms, plus antimicrobial peptide production, suggests a role for endosomal sorting interfaces in epithelial cell signaling and innate immunity. Confidence: High","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090611","count":1},{"id":"GO:0045199","count":1},{"id":"GO:0007299","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0002775","count":1}]},{"hash":"2221640088367617312","title":"LPS/TLR4 innate immune signaling","description":"The top GO terms are centered on lipopolysaccharide detection and signaling, including lipopolysaccharide-mediated signaling, detection of lipopolysaccharide, and Toll-like receptor 4 signaling, with positive regulation of LPS signaling and necroptotic process, indicating a cohesive module of innate immune recognition of bacterial components and downstream cell death responses. Some metabolic terms may be noise, but the LPS/TLR4-related terms strongly anchor the cluster concept.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":1},{"id":"GO:0007611","count":1},{"id":"GO:0009313","count":1},{"id":"GO:0070266","count":1},{"id":"GO:0008203","count":1}]},{"hash":"393539804539681662","title":"Diverse Metabolic Biosynthesis Pathways","description":"The top GO terms point to a range of biosynthetic and metabolic processes (glycolysis, pyruvate biosynthesis, aspartate biosynthesis, porphyrinogen and cobalamin biosynthesis, sphingomyelin synthesis, kynurenine catabolism) as well as signaling responses to stimuli (insulin, morphine) and salicylic-acid\u2013mediated defense, suggesting a broad collection of metabolic and biosynthetic functions rather than a single cohesive pathway. Confidence reflects this mixture and lack of a single dominant function.","confidence":"Medium","size":17,"edges":117,"triangles":462,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032869","count":7},{"id":"GO:0042866","count":6},{"id":"GO:0061621","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0009862","count":5}]},{"hash":"2120263551302114477","title":"Calcium signaling and developmental regulation","description":"The terms point to calcium-related processes (calcium ion transport; voltage-gated calcium channel regulation) and second messenger signaling (response to cAMP), along with developmental processes (pituitary and kidney development). This suggests a set of proteins involved in calcium/cAMP\u2013dependent signaling that modulates developmental regulation.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0048855","count":2},{"id":"GO:0035502","count":2},{"id":"GO:0006816","count":2}]},{"hash":"2048598223180050398","title":"Reproductive Hormone Signaling and Gonadal Development","description":"This cluster combines GO terms tied to gonadal development and reproductive signaling, including Sertoli cell development, primary ovarian follicle growth, and FSH signaling, as well as broader endocrine signaling like thyrotropin-releasing hormone response. GPCR-PLC-IP3 signaling terms underlie many hormonal pathways, helping unify these processes. Some immune-related terms (MyD88-dependent TLR signaling) appear but do not define the cluster's core function. ","confidence":"Medium","size":17,"edges":8,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":7},{"id":"GO:0002755","count":7},{"id":"GO:0007200","count":7},{"id":"GO:0032962","count":7},{"id":"GO:0034154","count":7}]},{"hash":"670277190345306932","title":"Membrane transport and metabolite exchange","description":"The GO terms highlight various transport activities (alpha-ketoglutarate, NAD, ADP, deoxynucleotide, and protein transport) and regulation of endocytosis/exocytosis, with an additional note on metabolic/starvation responses. This suggests a cohesive theme around intracellular membrane transport and metabolite exchange, rather than a single, narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":1},{"id":"GO:0050715","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0045806","count":1},{"id":"GO:0034198","count":1}]},{"hash":"831285296270007256","title":"Drosophila germline stem cells and meiosis","description":"Top GO terms strongly indicate Drosophila ovarian germline biology\u2014meiotic cell cycle, germarium cyst encapsulation, karyogamy, and stem cell maintenance. Some RNA processing and translational regulation terms reflect germline post-transcriptional control. Overall, the cluster centers on germline development and meiosis in Drosophila.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903679","count":1},{"id":"GO:0061157","count":1},{"id":"GO:0080009","count":1},{"id":"GO:0051321","count":1},{"id":"GO:0000742","count":1}]},{"hash":"1248404508880098563","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0042026","count":1}]},{"hash":"1520320806192655453","title":"Unknown","description":"The top GO terms are a mix of muscle development, sarcomere organization, gland development, vacuole fusion, lipid A biosynthesis, and various post-translational modifications, with several entries flagged as obsolete. There is no single dominant biological process or pathway linking these terms, and no interaction evidence (edges/triangles) to suggest a cohesive function. Therefore, there is no clear theme to label the cluster; Unknown with None. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":1},{"id":"GO:0048733","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0090116","count":1},{"id":"GO:1904100","count":1}]},{"hash":"1478341113180732152","title":"Unknown","description":"The GO terms are too diverse and sparsely represented to define a single, coherent function for this protein cluster (ranging from nervous system development and stem cell maintenance to Wnt signaling regulation, histone methylation, and apoptosis). With no clear unifying pathway or process and no interactions evident, a specific functional label cannot be confidently assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007422","count":1},{"id":"GO:0035019","count":1},{"id":"GO:0033234","count":1},{"id":"GO:0060729","count":1},{"id":"GO:0010452","count":1}]},{"hash":"1086161003537593195","title":"Vertebrate Developmental Regulation","description":"The terms point to broad regulatory roles in vertebrate development and tissue maintenance, spanning peripheral nervous system development, neural crest migration, heart development via Wnt signaling, myoblast differentiation regulation, stem cell maintenance, and intestinal epithelium structure maintenance. Several entries emphasize negative regulation, suggesting these proteins modulate developmental signaling and differentiation pathways rather than serving as direct effectors. Overall, the cluster appears to collect genes involved in coordinating complex developmental processes across tissues.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007422","count":2},{"id":"GO:0035019","count":2},{"id":"GO:0033234","count":2},{"id":"GO:0060729","count":2},{"id":"GO:0010452","count":2}]},{"hash":"2277283046508201517","title":"Spliceosome Assembly","description":"The top GO terms point to spliceosomal complex assembly and spliceosomal snRNP assembly, indicating a shared involvement in pre-mRNA splicing machinery assembly. A single metabolic term appears but does not define the cluster, which is otherwise dominated by splicing-related annotations. Thus, the cluster is best described as related to spliceosome assembly. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0046360","count":1}]},{"hash":"1007001068631771459","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071039","count":1},{"id":"GO:0071035","count":1},{"id":"GO:0045950","count":1},{"id":"GO:0034476","count":1},{"id":"GO:0071037","count":1}]},{"hash":"472563129240585452","title":"Unknown","description":"There are no GO terms listed and no interactions (edges) among the proteins, so there is no coherent shared function to tie the cluster together. Without a detectable functional theme, the appropriate label is Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"579633534769342680","title":"Unknown","description":"The terms span renal endocrine functions (renin/angiotensin), neural development (axonogenesis, axon guidance, facial nerve organization), cilium assembly, and vesicle trafficking, with no single cohesive theme or central biology tying them together. This dispersion suggests the cluster likely lacks a specific unified function, so Unknown with None confidence is appropriate.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002001","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0002019","count":1},{"id":"GO:0002035","count":1}]},{"hash":"434515728365879790","title":"Unknown","description":"The terms span a wide range of development, cardiac, hepatic, secretory, and toxic-response processes with no clear common function; there are no edges connecting the proteins, so there is no coherent theme to label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035441","count":1},{"id":"GO:0034772","count":1},{"id":"GO:0003290","count":1},{"id":"GO:1900006","count":1},{"id":"GO:0014898","count":1}]},{"hash":"1967985030723552380","title":"Neural and cardiovascular signaling and differentiation","description":"Top GO terms indicate a blend of signaling pathways (intracellular signal transduction, Wnt signaling, regulation of synaptic plasticity via receptor localization to synapse) and development/differentiation in neural and cardiovascular contexts (cerebellar granule cell differentiation, venous endothelial differentiation, cardiac right atrium morphogenesis). A mechanotransduction-related term (cellular response to mechanical stimulus) supports a broader signaling/mechanical responsiveness theme. Although an outlier immune term appears, the dominant pattern is signaling cascades coupled with tissue development across neural and cardiovascular systems, justifying a cohesive label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"990161704652379233","title":"Developmental Signaling Across Tissues","description":"Top terms cluster around signaling and differentiation processes across multiple tissues (Wnt signaling, intracellular signal transduction, cerebellar granule cell differentiation, cardiac morphogenesis, endothelial differentiation), with additional immune and synaptic modulation terms suggesting broader signaling roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0021707","count":11},{"id":"GO:0035556","count":11},{"id":"GO:1900383","count":11},{"id":"GO:0045083","count":11}]},{"hash":"502383770408694394","title":"GPCR Hormone Signaling in Reproduction","description":"The top GO terms cluster around G protein-coupled receptor signaling and second messenger pathways (adenylate cyclase activation, PLC-activating GPCR signaling), with strong representation of LH/FSH signaling and related reproductive development processes (uterus development, secondary sexual characteristics) and even TRH response. This points to a cohesive group of proteins involved in hormone-driven GPCR signaling relevant to reproductive biology, with a potential minor outlier term (TLR8 signaling) not materially altering the main theme.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0071373","count":17},{"id":"GO:0034158","count":17},{"id":"GO:0010738","count":17}]},{"hash":"1655433739870047262","title":"GPCR Hormone Signaling in Reproduction","description":"The cluster is dominated by GO terms for GPCR-mediated hormone signaling (LH/FSH/TRH), including PLC activation and adenylate cyclase pathways, plus associated reproductive development terms like uterus development and secondary sexual characteristics, indicating a coherent hormone-signaling in reproduction theme. One outlier term (TLR8 signaling) likely reflects annotation noise rather than a core function of the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0071373","count":17},{"id":"GO:0034158","count":17},{"id":"GO:0010738","count":17}]},{"hash":"517540220007507208","title":"Propionate/Acetate Metabolism","description":"This cluster is mainly enriched for short-chain fatty acid metabolism, with multiple terms tied to propionate and acetate catabolism and related acetyl-CoA metabolic steps (succinyl-CoA catabolic process, acetyl-CoA biosynthetic from acetate). The other terms (sumoylation, vitellogenesis, keratinocyte apoptosis, general cell growth) occur only once and do not form a cohesive alternative theme, so the metabolic cluster is the most representative explanation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019679","count":2},{"id":"GO:1901289","count":2},{"id":"GO:0019427","count":2},{"id":"GO:0045733","count":2},{"id":"GO:1902174","count":1}]},{"hash":"153232522320633545","title":"Translation initiation and mRNA processing cluster","description":"This cluster is dominated by GO terms for translation initiation and reinitiation, preinitiation complex formation, mRNA export and stability, and related viral translation terms, indicating a shared role in controlling translation and mRNA fate.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0006406","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1900363","count":3}]},{"hash":"471904223621616726","title":"LDL receptor trafficking and cholesterol transport regulation","description":"This cluster\u2019s top GO terms cluster around LDL receptor\u2013mediated endocytosis and cholesterol transport, including positive/negative regulation of LDL receptor catabolic processes, receptor recycling, and receptor-mediated endocytosis in cholesterol transport. While a few terms may be unrelated (embryo axis, sporulation), the dominant theme ties to lipoprotein receptor trafficking and cholesterol homeostasis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":1},{"id":"GO:0001920","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0032804","count":1}]},{"hash":"1153018850802362354","title":"Unknown","description":"The top GO terms are highly diverse (insulin signaling, various developmental processes, apoptosis, spindle\u2013kinetochore attachment, biofilm formation, cytokine production) and there are no interactions among the proteins. There isn\u2019t a single cohesive function tying the cluster together, so a meaningful, specific label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"1798305414981384057","title":"Cell Cycle and Chromosome Segregation","description":"The cluster shows GO terms tied to cell cycle progression, sister chromatid biorientation, and chromosome localization, plus septin ring organization/disassembly, indicating a module focused on cell division and chromosome dynamics. Regulatory processes such as protein dephosphorylation and signal transduction support control of these events, while P granule assembly hints at broader cellular organization; overall the dominant theme is cell cycle\u2013linked chromosome segregation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0032186","count":1},{"id":"GO:0031134","count":1},{"id":"GO:0006470","count":1},{"id":"GO:0090219","count":1}]},{"hash":"385000392264595078","title":"Toll-like receptor signaling and innate immune sensing","description":"The top terms are dominated by Toll-like receptor signaling (TLR pathways, TLR4 signaling, MyD88-independent TLR signaling) and detection of bacterial lipopeptides, pointing to innate immune pattern recognition as the core function of this cluster. A few outlier terms related to neuronal development and angiogenesis are present but likely represent secondary or pleiotropic roles; overall the cluster appears to group proteins involved in innate immune sensing and downstream inflammatory signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0021972","count":1},{"id":"GO:0008063","count":1}]},{"hash":"1688052705845121826","title":"Cell cycle progression and mitotic regulation","description":"The top GO terms cluster around cell cycle control and mitosis\u2014G1/S and G2/M transitions, spindle pole separation, and chromosome condensation\u2014suggesting proteins that regulate cell division. The presence of DNA-templated transcription reflects broader gene expression accompanying the cell cycle. Some terms also point to proliferation signaling in specific tissues (hepatocyte/mammary gland) and insulin signaling interplay, reinforcing a proliferative context. Overall, these terms converge on cell cycle progression and mitotic regulation as the most representative theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000775","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0010696","count":3}]},{"hash":"852856461340346899","title":"Clathrin-mediated endocytosis and vesicle trafficking","description":"The top GO terms cluster around membrane trafficking and endocytosis: clathrin-dependent endocytosis, GPCR internalization, and synaptic vesicle budding point to vesicle trafficking via clathrin pathways. Ubiquitination also ties into regulation of trafficking. A few terms are obsolete or peripheral, but the core signal supports endocytosis/vesicle trafficking as the theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016185","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0006314","count":2},{"id":"GO:0072583","count":2}]},{"hash":"985189477911237649","title":"Developmental Signaling and Tissue Differentiation","description":"The top GO terms show emphasis on development and differentiation across tissues (cerebellar granule cell differentiation, cardiac right atrium morphogenesis, venous endothelial cell differentiation) and on signaling pathways (Wnt signaling, intracellular signal transduction). This points to a theme of developmental signaling that guides tissue differentiation. While terms like negative regulation of interleukin-12 production and cellular response to mechanical stimulus appear, they are ancillary to the core developmental signaling pattern.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0021707","count":13},{"id":"GO:0035556","count":13},{"id":"GO:1900383","count":13},{"id":"GO:0045083","count":13}]},{"hash":"388591139798873347","title":"Xenobiotic and Stimulus Response","description":"The proteins in this cluster are tied to a broad set of GO terms about responding to environmental chemicals and stimuli, including herbicide, xenobiotic stimulus, methylmercury, manganese ion, amino acids, and glucagon stimulus. Although there is little connectivity within the cluster, the common thread is participation in general chemical/environmental response processes rather than a single, specific function, suggesting a broad stress or detoxification-related role.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009635","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0019556","count":1},{"id":"GO:0051597","count":1}]},{"hash":"1324705433495479836","title":"GPCR-Mediated Hormone Signaling","description":"The top GO terms cluster around GPCR signaling pathways that activate adenylate cyclase and phospholipase C, including thyrotropin-releasing hormone response and luteinizing/follicle-stimulating hormone signaling, plus related reproductive development terms. This points to proteins mainly involved in hormone-driven GPCR signaling, especially in reproductive contexts. An immune signaling term (TLR8) appears but is not central to the cluster\u2019s dominant theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0071373","count":17},{"id":"GO:0034158","count":17},{"id":"GO:0010738","count":17}]},{"hash":"1844862425925799604","title":"Unknown","description":"The terms are highly diverse and only appear as singleton annotations (sumoylation, DNA damage responses, membrane potential, signaling, vitellogenesis, etc.) with no clear, shared function or interaction pattern linking the proteins. Because there isn\u2019t a coherent theme, a precise label isn\u2019t supported.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902174","count":1},{"id":"GO:1990466","count":1},{"id":"GO:0033235","count":1},{"id":"GO:0007296","count":1},{"id":"GO:0016049","count":1}]},{"hash":"2083880246167519562","title":"Sugar and related solute transporters","description":"The top GO terms point to transport across membranes for a range of sugars (glucose, galactose, fructose, trehalose) and other solutes (nitrate, sialic acid, dehydroascorbic acid, xenobiotics, organic cations). This suggests a cluster of membrane transport proteins with broad substrate specificity for small solutes, rather than a single specialized transporter. The lack of network edges reinforces the idea of a collective transporter-related set rather than a defined interaction module.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":1},{"id":"GO:0015706","count":1},{"id":"GO:1990539","count":1},{"id":"GO:0042908","count":1},{"id":"GO:0070837","count":1}]},{"hash":"2273422520854603338","title":"Secretory & Neuroendocrine Signaling","description":"The cluster shows enrichment for ER-to-Golgi transport and various secretion-related processes, including production of signaling molecules (renin, cytokines, nerve growth factor) and peptide processing (islet amyloid polypeptide). Developmental and behavioral terms (respiratory tube development, larval wandering) suggest roles in tissue development and signaling via secreted factors. Overall, the common thread appears to be secretory trafficking and release of regulatory peptides, rather than a single, cohesive enzymatic function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:1904810","count":1},{"id":"GO:0034231","count":1},{"id":"GO:0032902","count":1},{"id":"GO:0042089","count":1}]},{"hash":"1966538006464384166","title":"Cell division and vesicle trafficking regulators","description":"This cluster centers on regulatory processes related to cell division (negative regulation of cytokinesis, mitotic spindle pole separation, chromatid cohesion) along with components of cytoskeleton dynamics (barbed-end actin capping) and intracellular trafficking (COPII vesicle budding, intraciliary transport). The mix suggests proteins that act as regulators coordinating division, cytoskeleton remodeling, and transport rather than a single, narrow function. The pancreatic juice secretion term appears as an outlier, likely not representative of the core cluster function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032466","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0030157","count":2},{"id":"GO:1905705","count":2}]},{"hash":"2019681176208760069","title":"Unknown","description":"The proteins show a highly diverse set of GO terms, including ion transport (sodium, proton), energy metabolism (proton motive force-driven ATP synthesis), and multiple signaling/development pathways (Wnt, adiponectin signaling, testosterone response, heart looping, endothelial migration). There is no clear single function or unifying theme that ties these terms together, and some terms are obsolete, suggesting no coherent cluster-wide function can be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035522","count":2},{"id":"GO:0006814","count":1},{"id":"GO:0042777","count":1},{"id":"GO:0015991","count":1},{"id":"GO:1901207","count":1}]},{"hash":"2108457894592499463","title":"Unknown","description":"The top GO terms are scattered across development (insect larval cuticle), post-translational modifications (O-GlcNAcylation and glycosylation), RNA processing, transcription regulation, light perception, and extracellular matrix metabolism, with several terms marked obsolete. There is no coherent shared function or pathway tying these proteins together, indicating either diverse roles or annotation noise. Therefore, a specific, representative label cannot be assigned beyond Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0000289","count":2},{"id":"GO:0071931","count":1}]},{"hash":"359653281628479896","title":"Developmental signaling and differentiation","description":"The cluster's top GO terms emphasize tissue differentiation and developmental signaling, notably oligodendrocyte differentiation, cerebellar granule cell differentiation, and the Wnt signaling pathway, along with intracellular signal transduction and receptor localization that modulates synaptic plasticity. While some terms touch immune and cardiac development, the shared theme appears to be developmental processes orchestrated by signaling networks across different tissues, with neural differentiation and synaptic modulation forming a core. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":12},{"id":"GO:0071260","count":11},{"id":"GO:0021707","count":11},{"id":"GO:0035556","count":11},{"id":"GO:1900383","count":11}]},{"hash":"1487192453030357154","title":"DNA transposition and proviral integration","description":"The top GO terms cluster around DNA transposition, retrotransposition, DNA integration, and proviral latency, indicating mobile genetic elements and viral integration activity; a few outliers involve symbiont-host interactions and signaling, but the dominant theme is genome mobility and proviral integration.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075732","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0075713","count":1}]},{"hash":"364268762537375582","title":"Developmental Signaling and Differentiation","description":"These proteins cluster around developmental processes and signaling, highlighted by cerebellar granule cell differentiation, cardiac right atrium morphogenesis, and venous endothelial differentiation, along with intracellular signal transduction and the Wnt pathway. A few terms pertain to immune regulation, but the dominant theme is signaling linked to development and differentiation across tissues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"937358262089147998","title":"RNA processing and mRNA turnover under stress","description":"This cluster centers on RNA metabolism: tRNA processing, SSU-rRNA maturation, spliceosome-mediated mRNA splicing, snRNP assembly, and decay pathways (deadenylation-dependent decapping), along with P-body assembly and nuclear import. The co-occurrence of stress-responsive GO terms (abscisic acid signaling and water deprivation) suggests these RNA-processing activities are modulated under plant stress, making RNA processing and mRNA turnover under stress a coherent, representative label.","confidence":"High","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":5},{"id":"GO:0051170","count":4},{"id":"GO:0030490","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0000387","count":4}]},{"hash":"344798193300498599","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001707","count":3},{"id":"GO:0071374","count":3},{"id":"GO:1901621","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1417603056988712703","title":"Neural signaling and development","description":"Based on the prominent GO terms, the cluster centers on signaling regulation and developmental processes, especially neural development and synaptic signaling (e.g., intracellular signal transduction, regulation of kinase activity, Wnt signaling, cerebellar granule cell differentiation, and synaptic plasticity regulation). While there are a few terms related to immune or cardiac development, the dominant pattern ties to neural signaling and differentiation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1}]},{"hash":"2186450839298466694","title":"Neuronal signaling and plasticity","description":"The top GO terms center on neuronal development and signaling, including cerebellar granule cell differentiation, intracellular signal transduction, and regulation of synaptic plasticity via receptor localization to the synapse, with supporting pathway signs from Wnt signaling. There are also several non-neuronal terms (immune and vascular development), suggesting some functional heterogeneity, but the strongest and most coherent theme is neuronal signaling and synaptic plasticity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"871849417457799261","title":"Centromeric Chromatin Assembly and Chromosome Maintenance","description":"The terms consistently point to centromeric and pericentromeric chromatin organization (CENP-A chromatin assembly, cohesion establishment, heterochromatin formation) and mitotic DNA replication/repair tasks (Okazaki fragment processing, break-induced repair), indicating a focus on chromosome maintenance during mitosis. A few outliers exist (pole plasm localization, signaling regulation) but do not override the main theme.","confidence":"High","size":16,"edges":40,"triangles":36,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035185","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0034085","count":1},{"id":"GO:0030702","count":1},{"id":"GO:0061641","count":1}]},{"hash":"907439520187464667","title":"Ubiquitin-Dependent Protein Turnover","description":"Most GO terms point to ubiquitination and ubiquitin-dependent protein catabolic processes (protein ubiquitination, ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination, K33-linked ubiquitination), as well as related regulatory steps (RISC complex assembly). While there are a few terms tied to development and tissue-specific processes (renal sodium absorption, flower development, nervous system development, sarcomere organization, glucosinolate catabolic process), the dominant signal across the cluster is ubiquitin-mediated modification and degradation of proteins. This makes a cohesive, high-level label of ubiquitin-dependent protein turnover appropriate for the group.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0070923","count":2},{"id":"GO:1990390","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0031397","count":2}]},{"hash":"1688271636451021814","title":"RNA Pol II transcription and RNA splicing","description":"Enriched terms cluster around RNA Pol II\u2013mediated transcription, preinitiation complex assembly, and RNA processing/splicing, suggesting these proteins participate in transcription initiation and mRNA maturation. A single unrelated term about neuroblast proliferation is present but not representative of the main theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0007406","count":1},{"id":"GO:0000244","count":1}]},{"hash":"1863569381807574163","title":"Xenobiotic and stress-response cluster","description":"The top GO terms are dominated by responses to xenobiotics and environmental stress (response to cocaine, cellular and overall xenobiotic stimulus, hyperosmotic response, defense against bacteria), with supporting roles from transcriptional regulation and RNA processing (DNA-templated transcription, RNA guanine-N7-methylation). There is also a cholesterol biosynthesis signal, which can relate to membrane and metabolic adjustments during stress. The retina development term appears as an outlier, likely reflecting tissue-specific expression rather than core cluster function. Overall, the cluster centers on xenobiotic/stress response with ancillary regulatory processes.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0036265","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1725003390155693017","title":"Neural development and cytoskeleton signaling","description":"The top GO terms indicate neural development (brain development, neural tube patterning) alongside broader developmental processes (skeletal system development) and cytoskeleton/trafficking functions (actin filament depolymerization, positive regulation of GTPase activity, protein heterotrimerization, ER-to-Golgi vesicle transport). This combination suggests a module coordinating neural development with cytoskeletal remodeling and GTPase-mediated signaling, consistent with roles in neuronal patterning and intracellular transport. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1515860112409471418","title":"Cerebellar and cortical neural development with insulin signaling","description":"The cluster is dominated by neural development terms related to brain regions and cells: cerebellar cortex formation, Bergmann glial cell differentiation, superior temporal gyrus development, and visual perception, suggesting cortical/neural maturation. Insulin signaling terms (insulin receptor signaling pathway, regulation of glucose import in response to insulin) point to metabolic regulation linked to neural development and brain function. Some outliers (T cell receptor signaling, biofilm formation) appear, but the core theme is brain development and associated signaling.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050852","count":16},{"id":"GO:2001275","count":16},{"id":"GO:0021697","count":16},{"id":"GO:0060020","count":16},{"id":"GO:0008286","count":16}]},{"hash":"486360251294023722","title":"Unknown","description":"The top GO terms cover microtubule severing, spindle orientation, DNA repair, ubiquitin\u2013proteasome\u2013mediated degradation, and various development-related processes (neuron projection, skeletal and prostate development, pigmentation). This diversity provides no single, cohesive functional theme for the cluster, so a neutral, Unknown label is appropriate.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0006314","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1}]},{"hash":"1878045530575641405","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":29,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903071","count":1},{"id":"GO:2000531","count":1},{"id":"GO:0071357","count":1},{"id":"GO:0006458","count":1}]},{"hash":"1760901374976805783","title":"Cross-tissue developmental signaling and differentiation","description":"This cluster shows enrichment for signaling and differentiation across tissues: neural development (granule cell differentiation, synaptic plasticity regulation), cardiac/vascular development (right atrium morphogenesis, venous endothelial differentiation), and Wnt signaling, plus general intracellular signal transduction. The mix suggests a broad developmental signaling theme spanning multiple organ systems rather than a single pathway or tissue. A few immune or mechanotransduction terms are present but do not define the cluster\u2019s core function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":16},{"id":"GO:0021707","count":16},{"id":"GO:0035556","count":16},{"id":"GO:1900383","count":16},{"id":"GO:0045083","count":16}]},{"hash":"1387419063664175902","title":"Transcription Regulation and Intracellular Transport","description":"Top GO terms are centered on RNA polymerase II\u2013mediated transcription regulation, with additional signals for protein kinase activation and multiple intracellular trafficking processes (Golgi retention, endosome-to-Golgi transport, intracellular transport, endocytic recycling). This suggests a broad set of proteins involved in gene expression control that may also participate in cellular trafficking, though the presence of an outlier term (intron homing) and the lack of observed interactions reduce coherence. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0007406","count":1},{"id":"GO:0032147","count":1}]},{"hash":"965208048415044391","title":"Neuronal signaling and endosomal trafficking","description":"The top GO terms center on glutamatergic synaptic regulation and endosome localization, pointing to a core theme of neuronal communication linked with intracellular trafficking. Additional terms reference development and membrane remodeling (neural tube patterning, EMT signaling, cytokinesis membrane addition), suggesting broader signaling and trafficking roles during growth and differentiation. Taken together, the cluster appears to group proteins involved in synaptic regulation alongside endosomal trafficking and related membrane dynamics, rather than a single narrow function.","confidence":"Medium","size":16,"edges":47,"triangles":61,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":15},{"id":"GO:0036010","count":15},{"id":"GO:0007119","count":15},{"id":"GO:0060684","count":15},{"id":"GO:0021532","count":15}]},{"hash":"1644425997894092409","title":"TLR/NOD2 Innate Immune Signaling","description":"The terms concentrate on innate immune pathways, including Toll-like receptor signaling (TLR and TLR4) and NOD2 signaling, with links to NF-\u03baB activation and inflammatory responses. The SCF-dependent ubiquitin-proteasome process aligns with NF-\u03baB regulation, and actin remodeling can accompany receptor signaling. Overall, the cluster appears to represent innate immune sensing leading to inflammation.","confidence":"High","size":16,"edges":48,"triangles":59,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0051639","count":1},{"id":"GO:0002756","count":1}]},{"hash":"218988341817620724","title":"Unknown","description":"There are no top GO terms to guide a function label, and the network properties show zero edges and degree, with no triangles. ReCIPE added 20 proteins but the cluster still has no connectivity, making it impossible to infer a shared function from the data provided. Therefore, the cluster is labeled Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"703158818428599162","title":"Centrosome duplication and mitotic spindle assembly","description":"The dominant GO terms point to centrosome-related processes: centriole replication, centriole-centriole cohesion, centrosome duplication, and establishment of mitotic spindle orientation, indicating a cohesive function in centrosome and spindle assembly during mitosis. Related cell-cycle regulation terms (ubiquitin ligase activity and SCF-dependent proteasomal degradation) further support coordination of mitotic entry. A few terms (intron homing, neuron projection development) appear as noise. Overall, the cluster seems centered on centrosome structure and mitotic spindle formation and regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0071931","count":1},{"id":"GO:0007099","count":1},{"id":"GO:0010457","count":1},{"id":"GO:0051298","count":1}]},{"hash":"2256810171187435023","title":"Unknown","description":"The top GO terms span neural development (cerebral cortex and superior temporal gyrus) and vision, but also include apoptosis, sperm capacitation, biofilm formation, cytokine production, cardiac proliferation, and spindle-kinetochore attachment, suggesting a highly heterogeneous set with no single coherent function.","confidence":"","size":16,"edges":60,"triangles":136,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":15},{"id":"GO:0021987","count":15},{"id":"GO:0048240","count":15},{"id":"GO:0045793","count":15},{"id":"GO:0007601","count":14}]},{"hash":"1633566312111222759","title":"Cytoskeleton dynamics and vesicle transport with autophagy","description":"The top GO terms point to intracellular trafficking (ER\u2013Golgi transport, nuclear pore assembly), microtubule organization (centrosome and spindle orientation), and turnover processes (autophagy and apoptosis), all of which relate to cytoskeleton-driven transport and cell fate regulation. Some terms like intron homing and chaeta development likely reflect background noise rather than core cluster functions, so the central theme appears to be cytoskeletal and vesicular maintenance with links to autophagy. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0022008","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0051292","count":1},{"id":"GO:0000132","count":1}]},{"hash":"1709816534999428997","title":"Mitotic spindle orientation and cytokinesis","description":"The GO terms point to a cytoskeletal and cell-division program: establishment of mitotic spindle orientation, actin filament organization and mitotic actomyosin contractile ring assembly (even though some terms are obsolete), and inheritance of organelles like mitochondria and vacuoles. There is also related growth and microvillus organization, which can tie to actin-based structures. Taken together, the cluster seems centered on mitosis/cytokinesis and associated cytoskeletal processes, with some peripheral terms. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":1},{"id":"GO:0000001","count":1},{"id":"GO:1903480","count":1},{"id":"GO:0000132","count":1},{"id":"GO:1900748","count":1}]},{"hash":"291846268086495159","title":"SRP-dependent cotranslational targeting to ER membrane","description":"The top GO terms show a strong emphasis on SRP-dependent cotranslational protein targeting to membrane (translocation), suggesting proteins in this cluster function to direct nascent peptides to the ER membrane. Additional terms related to translation regulation and membrane-associated trafficking align with this theme, though there are also some broader or less connected terms. Despite no observed edges, the prominent SRP-related function provides a coherent, membrane-targeting label for this group.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:1902072","count":1},{"id":"GO:1902306","count":1},{"id":"GO:0048227","count":1},{"id":"GO:0032088","count":1}]},{"hash":"2031568824092131653","title":"ER-Golgi vesicle trafficking and Golgi organization","description":"Most of the top GO terms describe vesicle movement between the ER and Golgi, Golgi-to-vacuole transport, and processes related to Golgi architecture (ribbon formation and organization). There are also terms pointing to autophagosome maturation and regulation of protein localization to the plasma membrane, which fit a broader vesicle trafficking and membrane-targeting theme. A couple of terms (intron homing, specific lipid metabolism) are less clearly connected and may reflect broader or mis-annotation noise. Overall, the cluster appears to consist of proteins involved in Golgi function and vesicle trafficking with related membrane localization roles.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0006896","count":2},{"id":"GO:0006314","count":2},{"id":"GO:0097352","count":1},{"id":"GO:1903078","count":1}]},{"hash":"390600257137748304","title":"Unknown","description":"The GO terms cover a wide range of distinct processes (salivary gland morphogenesis regulation, sarcomere organization, chromosome passenger complex localization, germinal center formation, ubiquitination, renal sodium absorption, B cell signaling, muscle differentiation, and synaptic vesicle endocytosis) with no obvious shared function or connectivity, so there is no cohesive theme to name the cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060693","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0002467","count":1},{"id":"GO:1990390","count":1}]},{"hash":"369563012742866460","title":"Unknown","description":"The terms span both developmental processes (kidney development, neural tube patterning, Hedgehog/smoothened signaling) and general cellular functions (RNA export, ribosome biogenesis, rRNA decay, small GTPase signaling, DNA repair, and mitochondrial DNA replication) with no single unifying pathway or function. This mixture suggests no cohesive theme for a precise label, so the cluster is best called Unknown with None confidence.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0042274","count":1},{"id":"GO:0021532","count":1}]},{"hash":"486095696051877207","title":"Nuclear RNA processing and chromatin regulation","description":"This cluster centers on nuclear processes: rRNA processing and ribosome biogenesis (nucleolar activities) alongside chromatin organization and histone modification (negative regulation of histone acetylation), plus protein localization to the nucleoplasm and UV-induced DNA damage response. Although one term about floral meristem determinacy is plant-specific, the dominant theme is nuclear machinery governing RNA processing and chromatin dynamics, justifying a label focused on nuclear RNA processing and chromatin regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":1},{"id":"GO:0035067","count":1},{"id":"GO:0002903","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0034644","count":1}]},{"hash":"1136457512152225580","title":"Ion and Sugar Transmembrane Transporters","description":"This cluster is characterized by multiple GO terms for transmembrane transport of diverse substrates (nitrate, arabinose, galactose, sialic acid, phosphate, sodium, potassium, xenobiotics, etc.), suggesting a group of membrane transporter proteins specialized in moving ions and sugars across membranes. The scattered substrate terms and lack of interaction motifs point to a broad transporter function rather than a single substrate, so the label captures the shared theme without overfitting.","confidence":"Medium","size":16,"edges":19,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0015757","count":1},{"id":"GO:0035435","count":1}]},{"hash":"405058592077814519","title":"Unknown","description":"Top GO terms are extremely diverse and do not converge on a single biological process or cellular function: microsporogenesis, pectin and polysaccharide catabolism, RISC assembly, protein ubiquitination, alginic acid biosynthesis, cell wall organization, renin secretion, cilium assembly, and smoothened signaling. Because there is no shared theme among these terms, the cluster cannot be functionally characterized beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009556","count":1},{"id":"GO:0045490","count":1},{"id":"GO:0070923","count":1},{"id":"GO:0000272","count":1},{"id":"GO:0016567","count":1}]},{"hash":"1965109931440686808","title":"Chromatin Remodeling and Epigenetic Regulation","description":"Based on the top GO terms, the proteins cluster around chromatin remodeling, histone modification (H4-K20 trimethylation), nucleosome positioning/density, and heterochromatin formation, all central to epigenetic regulation of transcription. While a few developmental terms appear, they seem incidental; the dominant theme is chromatin state and transcriptional control via epigenetic mechanisms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030540","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0034773","count":1},{"id":"GO:0036091","count":1},{"id":"GO:0006343","count":1}]},{"hash":"1866947540895948530","title":"Golgi Nucleotide-Sugar Transport and Glycosylation","description":"The dominant GO terms point to transmembrane transport of nucleotide sugars into the Golgi lumen (e.g., UDP-glucose, GDP-fucose) and glycosylation processes, which together define a function group of Golgi sugar nucleotide transporters involved in glycan biosynthesis in plants. The presence of root hair and lateral root development terms suggests tissue-specific expression but does not contradict the core Golgi transport/glycosylation theme. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":2},{"id":"GO:1990536","count":2},{"id":"GO:0048527","count":2},{"id":"GO:0036066","count":2},{"id":"GO:0015786","count":2}]},{"hash":"822503333059889506","title":"Endocrine reproductive and innate immune signaling","description":"These GO terms cluster around signaling pathways that regulate endocrine-driven reproductive development (FSH signaling, Sertoli cell development, ovarian follicle growth, secondary sexual characteristics) and innate immune signaling (MyD88-dependent TLR signaling, TLR7 signaling, GPCR-PLC-IP3). The presence of osteoclast differentiation regulation also fits the broader bone-immune\u2013endocrine axis influenced by hormones. Taken together, the proteins appear to participate in coordinated endocrine and innate immune signaling relevant to reproduction and bone remodeling.","confidence":"Medium","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":16},{"id":"GO:0002755","count":16},{"id":"GO:0007200","count":16},{"id":"GO:0032962","count":16},{"id":"GO:0034154","count":16}]},{"hash":"2099656909003709929","title":"Unknown","description":"The annotated GO terms are highly diverse, spanning kidney basement membrane development, filtration, VEGF signaling, Fc-gamma receptor\u2013mediated phagocytosis, actin nucleation, cell gliding, and T cell immunity, with no single prevailing function tying the 16 proteins together. The graph has no edges or triangles, indicating a lack of detectable functional cohesion in this cluster. Therefore a specific, representative label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0032836","count":1},{"id":"GO:0044656","count":1},{"id":"GO:0048803","count":1},{"id":"GO:1900748","count":1}]},{"hash":"600913258573512212","title":"Protein deubiquitination","description":"The top GO terms are dominated by various protein deubiquitination activities (K6, K11, K48, K63-linked) and related regulation of ubiquitin ligase activity, plus a note on histone deubiquitination. This pattern strongly indicates a cluster enriched for deubiquitinases and ubiquitin-regulation factors, with transcription and morphogenesis terms likely as downstream associations rather than core functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044313","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0000245","count":1},{"id":"GO:1990108","count":1},{"id":"GO:0070537","count":1}]},{"hash":"1286249972498646027","title":"Wnt signaling with pinocytosis regulation","description":"The two top GO terms are Wnt signaling pathway and positive regulation of pinocytosis (each appearing twice), suggesting a core theme around signaling linked to endocytic processes; other terms show broader development and intracellular signaling across tissues, but the strongest link is Wnt signaling tied to pinocytosis regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1}]},{"hash":"2283971331991316079","title":"Plant ribosome biogenesis and genome maintenance","description":"This cluster centers on core protein synthesis and ribosome assembly (translation and ribosome biogenesis) and includes signals for genome stability (DNA repair, sister chromatid exchange, shelterin/telomere maintenance) with plant-specific regulatory cues (chlorophyll biosynthesis regulation, ethylene and abscisic acid responses), suggesting a group of proteins tied to growth through protein production and genome integrity in plants.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0042254","count":1},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1}]},{"hash":"332072726965692529","title":"G1/S and G2/M mitotic transitions","description":"This cluster is strongly enriched for GO terms related to entry into and progression through mitosis, including G1/S and G2/M transitions, mitotic cell cycle, spindle pole separation, and re-entry into mitosis. The presence of transcriptional and phosphorylation regulation terms suggests coordinated control of cell cycle progression via signaling and gene expression. Taken together, the proteins likely function as regulators of mitotic entry and progression rather than a single structural complex. ","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000086","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0033138","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0010800","count":2}]},{"hash":"780125088616685136","title":"Protein folding, targeting, and Fe-S assembly","description":"The cluster centers on protein maturation: unfolded-protein response, chaperone-assisted refolding, SRP-dependent cotranslational targeting to membranes, and iron-sulfur cluster assembly, which together point to folding and maturation pathways. Some terms like DNA replication or karyogamy are present but appear less related, likely annotation noise; the core signals support this theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"584108523933436866","title":"Unknown","description":"The top GO terms span vascular development (angiogenesis, endothelial migration), brain development (visual perception, temporal gyrus development), and basic cellular processes (proton transport, vacuolar acidification, apoptosis) with no single dominant function tying the proteins together. The mix of developmental, metabolic, and possibly annotation-noise terms suggests there isn\u2019t a cohesive shared function to label the cluster Meaningfully. ","confidence":"","size":16,"edges":58,"triangles":93,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0043536","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0007601","count":1}]},{"hash":"1691181470993926726","title":"mRNA Deadenylation and Decay Regulation","description":"The top GO terms strongly point to post-transcriptional control of mRNA stability and turnover, including deadenylation-dependent decay, poly(A) tail shortening (both positive and negative regulation of tail length), and nuclear/cytoplasmic mRNA decay processes. Although a few terms relate to insect development or glycosylation and may reflect annotation noise, the dominant theme is mRNA metabolism and processing body\u2013associated decay. This justifies a label centered on mRNA deadenylation and decay regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0000749","count":1},{"id":"GO:0010607","count":1}]},{"hash":"466712897526109294","title":"Telomere maintenance and chromatin regulation in plants","description":"The top terms point to telomere biology (shelterin assembly, telomeric loops, D-loop regulation) and chromatin regulation (histone acetylation), suggesting a focus on chromosome end maintenance and chromatin state in a plant context. Additional terms about plant hormone responses and chlorophyll biosynthesis imply this cluster sits within plant biology, potentially linking telomere/chromatin dynamics to stress signaling and growth. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":6},{"id":"GO:1905839","count":6},{"id":"GO:1904792","count":6},{"id":"GO:0010380","count":6},{"id":"GO:0009723","count":6}]},{"hash":"1505637031037733522","title":"Cell Signaling and Regulation","description":"The top GO terms point to various signaling and regulatory processes across different biological contexts, including Wnt and NOD-like signaling, hormone secretion (vasopressin), differentiation (fat cells), membrane trafficking regulation (SNARE complex), and post-translational control (protein ubiquitination). The lack of a single cohesive function among terms suggests the cluster represents proteins involved in multiple signaling and regulatory pathways rather than a narrowly defined activity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":7},{"id":"GO:0016055","count":7},{"id":"GO:1904743","count":7},{"id":"GO:0045444","count":7},{"id":"GO:0030103","count":7}]},{"hash":"1488184269805028300","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes: ribosome biogenesis, ribosome subunit export from nucleus, ribosomal large subunit biogenesis, maturation of SSU-rRNA, and translational initiation/termination. This indicates a cluster of proteins involved in ribosome assembly and function. A couple of non-ribosome terms appear but are not representative of the main theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0032790","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0000054","count":1}]},{"hash":"1106901917984247003","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000395","count":1}]},{"hash":"153791526594229472","title":"RNA Processing and Translation Regulation","description":"This cluster centers on mRNA export, stability, and processing (mRNA export, mRNA stabilization, small-subunit processome assembly, polyadenylation regulation), alongside control of translation (IRES-dependent initiation, viral termination-reinitiation, miRNA-mediated silencing) and ER stress response regulation, suggesting a cohesive theme of RNA metabolism and protein synthesis control, despite one outlier term like muscle attachment.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1033176803511720898","title":"Cell adhesion and cytoskeletal organization","description":"Top GO terms center on cell-cell adhesion and cytoskeletal connections (epithelial cell-cell adhesion, zonula adherens maintenance, microtubule anchoring) and a neuronal morphology aspect (neuron projection development). This suggests a shared theme of adhesion-cytoskeleton interplay. The remaining terms appear more peripheral regulatory processes (response to chitin, ethanol, glucocorticoid metabolism, ABA biosynthesis, and chaperone-mediated assembly) and do not define a single cohesive pathway. Overall, the cluster most likely reflects proteins involved in maintaining cell junctions and cytoskeletal organization rather than a narrow signaling route.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":1},{"id":"GO:0090136","count":1},{"id":"GO:0034453","count":1},{"id":"GO:0010923","count":1},{"id":"GO:0045218","count":1}]},{"hash":"2206755855593247832","title":"Nuclear Transport and Chromatin Dynamics","description":"Most terms reference nuclear processes\u2014ribosomal protein import into the nucleus, nuclear pore complex assembly, and DNA replication\u2013dependent chromatin assembly, plus mitotic nuclear membrane reassembly. While a few terms touch on signaling or cilia/centrosome connections, the dominant theme is nuclear transport and chromatin/nuclear envelope regulation, which justifies a label focused on nuclear transport and chromatin dynamics.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0097711","count":3}]},{"hash":"623760125949283223","title":"Eye Photoreceptor Signaling","description":"The top GO terms suggest membrane receptor signaling at the cell surface (receptor tyrosine kinase signaling, general receptor signaling, receptor internalization) with some eye-specific terms (camera-type eye photoreceptor cell differentiation, visual perception). This points to proteins involved in signaling pathways relevant to photoreceptor development or function, linking membrane signaling to the visual system. However, the cluster also includes broader neuronal and Notch/NF-kappaB related terms, so the link to eye biology is present but not exclusive.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007169","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0060219","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0030913","count":1}]},{"hash":"470797544571386351","title":"Plant telomere maintenance and shelterin assembly","description":"The top GO terms cluster around telomere biology: replication-born double-strand break repair via sister chromatid exchange, regulation of telomeric D-loop disassembly, shelterin complex assembly, and telomeric loop formation, all pointing to telomere protection and maintenance in plants. Some terms about chlorophyll biosynthesis, seed growth, and hormone responses may reflect broader plant development or stress signaling, but the telomere-related terms dominate, supporting this label. ","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":16},{"id":"GO:1905839","count":16},{"id":"GO:1904792","count":16},{"id":"GO:0010380","count":16},{"id":"GO:0009723","count":16}]},{"hash":"931554722944654111","title":"Synaptic signaling and cytoskeletal dynamics","description":"These proteins show a clustering around neuronal functions: cerebellar granule cell differentiation, intracellular signal transduction, and especially regulation of synaptic plasticity by receptor localization to synapse, together with actin filament bundle assembly which underpins cytoskeletal remodeling at synapses. While some terms like spindle assembly and telomere maintenance are general cellular processes, the dominant signal points to neuronal signaling and cytoskeletal dynamics in synaptic contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0090501","count":5}]},{"hash":"1973661755109137007","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0071033","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0071035","count":1},{"id":"GO:0000973","count":1}]},{"hash":"947629184132737383","title":"LDL receptor trafficking and regulation","description":"The top GO terms cluster around LDL receptor catabolic processes and their regulation, including receptor recycling and receptor-mediated endocytosis in cholesterol transport. This suggests a unifying function in lipid uptake and receptor trafficking. Some terms (developmental and sporulation processes) are less connected and may reflect annotation noise, but the lipid receptor regulation theme remains the best overall fit.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":2},{"id":"GO:0001920","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0032804","count":2}]},{"hash":"532972839821562385","title":"Vacuolar Proteolysis and Protein Turnover","description":"The strongest shared signal among the GO terms is proteolysis and protein catabolic processes in the vacuole, suggesting a vacuolar/lysosomal protein turnover theme. Protein transport also appears, which can accompany turnover. The presence of metabolism and development-related terms (gluconeogenesis, angiogenesis, learning/memory, embryonic development, morphine response) is inconsistent with a single cohesive function, indicating a mixed set of annotations. Therefore, the label highlights the dominant proteolysis/vacuolar turnover theme while recognizing the broader, less coherent functional signals.","confidence":"Low","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007039","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0061077","count":3},{"id":"GO:0015031","count":3},{"id":"GO:0006094","count":2}]},{"hash":"648972866618730297","title":"Unknown","description":"The GO terms span diverse processes, from mechanical stimulus response and intracellular signaling to neural differentiation, cardiac morphogenesis, endothelial differentiation, and immune regulation, with no single cohesive function uniting all proteins. Because no clear shared theme emerges, this cluster is labeled Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"1167881068588459198","title":"Developmental signaling and differentiation","description":"The terms point to signaling pathways (Wnt, intracellular signal transduction) driving differentiation across neural, cardiovascular, and immune contexts, e.g., cerebellar granule cell differentiation, endothelial and cardiac morphogenesis. Immune-related terms are present but do not dominate the theme, which centers on developmentally oriented signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"2206126434152647229","title":"Plant autophagy and pigment transport to vacuoles","description":"The terms cluster around autophagy regulation (mitophagy, autophagosome maturation), vesicle trafficking (intracellular transport, actin polymerization), and plant-specific pigment biology (flavonoid transport to vacuoles and anthocyanin biosynthesis). This suggests a cohesive theme of autophagy- and vesicle-mediated pigment sequestration in plant cells.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901525","count":1},{"id":"GO:1901098","count":1},{"id":"GO:0032435","count":1},{"id":"GO:1903415","count":1},{"id":"GO:0009718","count":1}]},{"hash":"966002974109368206","title":"LPS/TLR4 innate immune signaling","description":"The top GO terms cluster around detection of lipopolysaccharide and signaling via the Toll-like receptor 4 pathway, including positive regulation of LPS signaling and necroptotic process, which together point to an innate immune response to Gram-negative bacteria. Some terms related to cholesterol metabolism/transport may reflect membrane-related aspects of signaling, while a couple (learning/memory, ecdysteroid biosynthesis) appear as noise or broader biological contexts. Overall, the dominant theme is LPS-induced innate immune signaling, with lipid processes as a secondary link.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":1},{"id":"GO:0007611","count":1},{"id":"GO:0009313","count":1},{"id":"GO:0070266","count":1},{"id":"GO:0008203","count":1}]},{"hash":"569612422900464090","title":"Centromeric chromatin assembly and mitotic chromosome maintenance","description":"This cluster is dominated by terms related to centromere and chromatin organization during mitosis, including CENP-A chromatin assembly, pericentric heterochromatin formation, establishment of sister chromatid cohesion, and mitotic DNA replication processes, suggesting a cohesive role in centromeric chromatin maintenance and chromosome segregation. A few terms reference general nuclear import and xenobiotic response, but the core signals point to centromeric/chromosome maintenance functions.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035185","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0034085","count":1},{"id":"GO:0030702","count":1},{"id":"GO:0061641","count":1}]},{"hash":"2068823862115391881","title":"Developmental processes and cell cycle regulation","description":"These proteins show enrichment in developmental terms (mesoderm development, myelination in the peripheral nervous system, cell\u2013cell adhesion) and in cell cycle/damage control (meiotic cell cycle, intra-S DNA damage checkpoint signaling, regulation of chromosome condensation). Although a few terms relate to metabolism and drug response, the dominant theme is coordination of development with cell division and genome maintenance, suggesting a cluster of factors involved in development-linked cell cycle regulation and differentiation.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":15},{"id":"GO:0007498","count":15},{"id":"GO:0005979","count":15},{"id":"GO:0006685","count":15},{"id":"GO:0043278","count":15}]},{"hash":"26816098601962211","title":"Protein folding and stress response","description":"This cluster centers on proteostasis-related GO terms: cellular response to unfolded protein, chaperone/cofactor-dependent refolding, SRP-dependent cotranslational targeting, and oxidative-stress\u2013related regulation, indicating a cohesive theme of protein quality control and stress management. Some terms (DNA replication, karyogamy) are less directly connected, suggesting broader cellular maintenance roles in the set, but the dominant signal is proteostasis and stress response.","confidence":"Medium","size":15,"edges":15,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"2005139736282492505","title":"Peripheral nervous system development and myelination","description":"Based on the prominent GO term myelination in peripheral nervous system and related neural development themes (mesoderm development, cell-cell adhesion, lipid metabolism such as sphingomyelin catabolism and cholesterol biosynthesis regulation), the cluster appears enriched for neural tissue formation and myelin assembly. The presence of a nervous system\u2013related stimulus response (response to morphine) supports neural signaling involvement. While some terms pertain to general cell cycle checkpoints, the strongest cohesive signal is nervous system development and PNS myelination.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":15},{"id":"GO:0007498","count":15},{"id":"GO:0005979","count":15},{"id":"GO:0006685","count":15},{"id":"GO:0043278","count":15}]},{"hash":"1447061331435929647","title":"Mitotic Spindle Assembly and Separation","description":"The terms show strong enrichment for mitosis-related processes: mitotic centrosome separation, minus-end directed microtubule sliding, spindle midzone assembly, kinetochore-microtubule attachments, initial spindle pole body separation, and actomyosin contractile ring assembly. A few terms are broader or neural-related, but the dominant pattern clearly points to spindle assembly and chromosome segregation during cell division.","confidence":"High","size":15,"edges":61,"triangles":114,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0048364","count":8},{"id":"GO:0007100","count":8},{"id":"GO:0033624","count":7},{"id":"GO:0032487","count":7},{"id":"GO:0031534","count":7}]},{"hash":"1793169210874170824","title":"Neuronal development and ERK signaling","description":"Based on the GO terms, many entries converge on nervous system development and signaling: positive regulation of neuron apoptotic process; regulation of ERK1/ERK2 cascade; regulation of glutamatergic synaptic transmission; neural tube patterning; locomotory exploration behavior. Together they point to a module involved in neuronal differentiation, synaptic function, and ERK-mediated signaling. Some terms like endosome localization and budding growth may be peripheral or cross-cutting, but the dominant theme remains neuronal development and signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043525","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0051966","count":6},{"id":"GO:0036010","count":6},{"id":"GO:0007119","count":6}]},{"hash":"1401900329659281658","title":"Nuclear Transport and Signaling Regulators","description":"The top GO terms cluster around nuclear processes: import of NLS-bearing proteins into the nucleus, RNA export from the nucleus, and localization to nuclear inner membranes, along with regulation of SMAD signaling. There are a few outliers related to metabolism and chromatin, but the dominant pattern points to proteins coordinating nuclear transport and signaling pathways (with supporting links to GTPase activity and cell cycle aspects). ","confidence":"Medium","size":15,"edges":26,"triangles":19,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006607","count":2},{"id":"GO:0035392","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0033132","count":1}]},{"hash":"1297010019552824500","title":"Unknown","description":"The GO terms for this cluster are extremely diverse, spanning defense responses to Gram-positive bacteria, chromatin localization, RNA regulation, redox processes, multiple metabolic pathways (pyruvate catabolism, TCA cycle, menaquinone biosynthesis), bacterial flagellum assembly, and photosystem I electron transport. This lack of a cohesive shared function suggests no clear unifying theme for a concise label, so the appropriate designation is Unknown.","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0060702","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0000949","count":2}]},{"hash":"2305015527110390743","title":"Unknown","description":"The top GO terms describe very different processes\u2014protein ubiquitination, alginic acid biosynthesis, pectin catabolic process, and RISC complex assembly\u2014offering no clear shared function for the cluster. This likely reflects a heterogeneous or loosely connected set of proteins, so a specific functional label cannot be confidently assigned.","confidence":"","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":1},{"id":"GO:0042121","count":1},{"id":"GO:0045490","count":1},{"id":"GO:0070923","count":1}]},{"hash":"2251699340805460668","title":"RNA metabolism and translation initiation","description":"These proteins cluster around the RNA life cycle from processing to translation: terms on splicing regulation, mRNA export, and stability, plus translation initiation and ribosome biogenesis components (preinitiation complex formation, translation reinitiation, small-subunit processome assembly). The convergence of RNA processing events with initiation/termination of translation suggests a cohesive role in RNA metabolism and translation control.","confidence":"High","size":15,"edges":92,"triangles":325,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0006406","count":8}]},{"hash":"581936325692363224","title":"Multi-substrate Membrane Transporters","description":"Explanation: Most top GO terms point to transmembrane transport across membranes for various substrates (xenobiotics, amino acids, glucose, L-cystine) and amino acid homeostasis, suggesting these proteins function as transporters. A few terms (lens development, grooming behavior, dolichol-linked oligosaccharide biosynthesis) are less related and may reflect annotation spillover or pleiotropy. Overall, the dominant theme is membrane transport with multiple substrates.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0034488","count":1},{"id":"GO:0002088","count":1},{"id":"GO:0015811","count":1},{"id":"GO:0006488","count":1}]},{"hash":"2089153003952948885","title":"Unknown","description":"The top GO terms cover a broad mix of metabolic and catabolic processes (antibiotic biosynthesis; epoxygenase P450 pathway; stilbene and triglyceride catabolism; uracil catabolism; phospholipid dephosphorylation), with several obsolete terms, and there are no interacting edges among proteins. This lack of a unifying biological function makes it inappropriate to assign a specific functional label to the cluster; hence the label Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0006212","count":4}]},{"hash":"1621579700098196254","title":"Multisystem Developmental Signaling","description":"This cluster is enriched for GO terms related to development across multiple systems (skeletal, nervous, heart) and for various signaling processes (Rho-mediated signaling, Wnt pathway regulation, calcium-dependent exocytosis), with additional terms touching metabolism and immune/reproductive contexts. The mix suggests broad developmental and signaling roles across tissues rather than a single cohesive pathway, hence the multisystem developmental signaling label.","confidence":"Medium","size":15,"edges":15,"triangles":1,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0007266","count":6},{"id":"GO:0045956","count":6},{"id":"GO:0007124","count":6}]},{"hash":"1610899103815416482","title":"Neuronal Synaptic Vesicle Regulation and Dendrite Growth","description":"This label captures the dominant signals in the cluster: regulation of synaptic vesicle exocytosis and maturation, along with positive regulation of dendrite extension and regulation of synaptic plasticity, pointing to neuronal communication and dendrite development. Some metabolic and regulatory terms are also present, but the core theme centers on synaptic vesicle dynamics and neuron morphology.","confidence":"Medium","size":15,"edges":67,"triangles":127,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0016052","count":1},{"id":"GO:0005976","count":1},{"id":"GO:0016188","count":1},{"id":"GO:1903861","count":1}]},{"hash":"1877224531063641945","title":"Actin Cytoskeleton Remodeling and Adhesion Signaling","description":"The highest-frequency GO terms cluster around actin-based structures and signaling: podosome assembly, dendritic spine development, small GTPase-mediated pathways, and bone resorption via osteoclast-type adhesion. Additional terms point to vesicle trafficking to endosomes and EMT-related signaling, all of which rely on dynamic cytoskeletal remodeling and adhesion processes across diverse cell types. This makes a cohesive theme of actin cytoskeleton dynamics governing adhesion, trafficking, and morphogenesis.","confidence":"Medium","size":15,"edges":27,"triangles":8,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045453","count":13},{"id":"GO:0007264","count":13},{"id":"GO:0060999","count":13},{"id":"GO:0071803","count":13},{"id":"GO:0051966","count":12}]},{"hash":"285979175425182430","title":"Unknown","description":"The terms span diverse processes\u2014from DNA repair and mitotic spindle orientation to various developmental pathways (neural, skeletal, pigmentation, prostate) and ubiquitin-mediated degradation\u2014without a single dominant function tying the proteins together, so a cohesive label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1}]},{"hash":"2207443338674881683","title":"Rho GTPase Signaling in Axon Guidance","description":"The top GO terms cluster around Rho GTPase activity, Rho-mediated signaling, and semaphorin-plexin pathways, together with axonogenesis, implying a function in cytoskeletal regulation and neuronal pathfinding rather than broad cellular maintenance.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006314","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0050772","count":1},{"id":"GO:0071461","count":1}]},{"hash":"1860809707553496036","title":"Vacuolar Sorting and Autophagy","description":"The top GO terms cluster around intracellular vesicle trafficking to the vacuole, intralumenal vesicle formation (MVB), and autophagy-related processes. Terms include intra-Golgi transport to vacuole, CVT pathway targeting, MVB sorting, and regulation of autophagosome assembly, indicating a function in endomembrane transport and vacuolar degradation.","confidence":"High","size":15,"edges":17,"triangles":4,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0009860","count":1},{"id":"GO:1902187","count":1},{"id":"GO:0007076","count":1}]},{"hash":"1579135768024234688","title":"Secretory and endocytic vesicle trafficking","description":"This cluster predominantly features GO terms tied to vesicle movement within the cell, including ER-to-Golgi transport, Golgi-to-ER retrograde transport, endosome-to-Golgi/endosome-to-melanosome transport, and synaptic vesicle budding/endocytosis. Together, these terms define a coherent role in intracellular vesicle trafficking across secretory and endocytic pathways, with a minor term like bone resorption likely incidental. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0006890","count":4},{"id":"GO:0035646","count":4},{"id":"GO:0048490","count":3},{"id":"GO:0045453","count":2}]},{"hash":"912214048147794523","title":"Unknown","description":"The GO terms show a mix of innate immune signaling (TLR pathways), GPCR-PLC signaling, calcium signaling, and several reproductive/endocrine development processes (Sertoli cell development, FSH signaling, secondary male characteristics, ovarian follicle growth, thyroid hormone response). There is no single dominant function tying these terms together, so a concise, representative cluster name cannot be determined.","confidence":"","size":15,"edges":16,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"2004030133929646349","title":"Signaling and endosomal trafficking regulation","description":"This cluster combines GO terms tied to cellular signaling pathways (GPCR-PLC signaling, Rho signaling, MyD88/TLR signaling) with endosomal processes (receptor recycling, endosome size) and associated calcium signaling, suggesting a common theme of how cells regulate signal transmission and receptor trafficking. While there are a few terms related to transcription or chromatin modification, the dominant pattern points to membrane signaling and intracellular trafficking coordination.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0001881","count":1}]},{"hash":"1860839680941840940","title":"Neuronal membrane trafficking and dendrite extension","description":"The cluster shows GO terms centered on neuronal membrane trafficking and cytoskeletal remodeling, including endocytosis, GTPase and Rho signaling regulation, plasma membrane tubulation, and dendrite extension. The presence of neurotransmitter receptor transport from endosome to postsynaptic membrane supports a synaptic trafficking theme. A couple of terms (e.g., subtelomeric heterochromatin formation) are outliers, but the dominant signal points to neuronal membrane dynamics and neurite outgrowth.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006897","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0098887","count":1},{"id":"GO:0035023","count":1}]},{"hash":"1944830076210007880","title":"Endomembrane trafficking and localization","description":"These proteins cluster around endomembrane processes: regulation of ER exit, targeting to endosomes, vesicle/vacuole organization, and transmembrane lipid transport. The GO terms emphasize membrane traffic and localization within the cell, suggesting a shared role in trafficking and localization within the endomembrane system rather than a cytosolic function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070863","count":1},{"id":"GO:0010570","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0045332","count":1}]},{"hash":"1666333894674533536","title":"Developmental signaling and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across various tissues (ovarian follicle development, intestinal epithelial development, imaginal disc\u2013derived leg segmentation) and signaling regulation (Notch pathway), with a few metabolism/cell cycle terms that are less central. Overall, the dominant theme is developmental signaling and tissue differentiation rather than metabolism or general transcription control.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":3},{"id":"GO:2000134","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0007143","count":3},{"id":"GO:0016267","count":3}]},{"hash":"1879797060479862681","title":"Unknown","description":"These proteins show a highly diverse set of GO terms, spanning transposon-related intron homing, multiple carbohydrate metabolic processes (arabinan/arabinose/xylan), DNA ADP-ribosylation, translation regulation, glycosylation, immunoglobulin production, extracellular matrix component secretion, and galactosylceramide catabolism. The lack of edges and clustering signal means there isn\u2019t a coherent shared function that ties them together, so a concise, meaningful label cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0031221","count":1},{"id":"GO:0030592","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0045493","count":1}]},{"hash":"1370675748766542196","title":"Golgi\u2013ER\u2013vacuole vesicle transport","description":"The top GO terms indicate proteins involved in vesicle trafficking along the secretory pathway, including ER-to-Golgi and Golgi-to-ER transport, Golgi localization, endocytosis, and targeting to vacuoles, suggesting a cohesive group of secretory/endocytic transport factors.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016185","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0006896","count":1},{"id":"GO:1901998","count":1},{"id":"GO:0006623","count":1}]},{"hash":"1901167714011979708","title":"ER-Golgi Vesicle Trafficking","description":"Top terms indicate intracellular protein transport, especially ER-to-Golgi vesicle transport and COPII cargo loading, with supporting involvement of actin polymerization for vesicle movement. While some development-related terms appear, the dominant cluster theme is vesicle trafficking within the secretory pathway, justifying a label focused on ER-Golgi transport and related trafficking processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:1903923","count":1},{"id":"GO:1903909","count":1},{"id":"GO:0030041","count":1},{"id":"GO:0060463","count":1}]},{"hash":"1715827464280471233","title":"Unknown","description":"The top GO terms are highly heterogeneous, covering redox processes, ion transport, ethanol response, nutrient response, cholinergic signaling, aging, and apoptotic regulation, with no clear shared function or interaction pattern across the proteins. Therefore there isn\u2019t a cohesive theme to label the cluster beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0045471","count":1}]},{"hash":"121734100649885420","title":"ER-Golgi trafficking and vesicle cycling","description":"The top terms are strongly centered on vesicle transport within the secretory pathway (COPII budding; ER\u2013Golgi and Golgi\u2013ER retrograde transport; ER-to-Golgi vesicle transport), indicating a cohesive vesicle trafficking theme. Additional terms related to mitotic cell cycle, ribosome biogenesis, and cell proliferation suggest a link to growth and proliferation processes that rely on proper trafficking; some developmental terms (Wnt signaling, gonad development) may reflect downstream or broader roles tied to growth and secretion. Overall, the dominant signal is endomembrane trafficking with supporting growth-related processes.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0090263","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0006890","count":2}]},{"hash":"1843713146849431991","title":"tRNA charging and translation","description":"The top GO terms center on translation and tRNA aminoacylation (glutamyl-tRNA and glutaminyl-tRNA) as well as tRNA modification, pointing to involvement in protein synthesis machinery. Other biosynthetic and signaling terms appear less connected to the core cluster, suggesting translation-related function is dominant.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006424","count":2},{"id":"GO:0006425","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0009862","count":2}]},{"hash":"693678901113720883","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":33,"triangles":25,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0035753","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0000710","count":1},{"id":"GO:0034087","count":1},{"id":"GO:0007064","count":1}]},{"hash":"1278253765331699217","title":"Unknown","description":"The top GO terms span metabolism, DNA repair, development, immune signaling, cell cycle, apoptosis, and more, with no single coherent function tying the proteins together. The absence of linking processes and the diverse annotations suggest no clear shared theme, so Unknown is appropriate.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006006","count":14},{"id":"GO:0006281","count":14},{"id":"GO:0006695","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0071109","count":13}]},{"hash":"961065831862326749","title":"Proteostasis and ubiquitin-mediated degradation","description":"GO terms point to protein quality control and turnover: regulation of chaperone-mediated protein complex assembly, protein autoubiquitination, and ubiquitin-dependent ERAD. The presence of granzyme-mediated apoptotic signaling further links protein degradation to cellular fate. Some terms (obsolete or unrelated stress responses like chitin or ethanol) reduce cohesion, but the core theme appears to be proteostasis under stress.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0010200","count":1},{"id":"GO:0071361","count":1},{"id":"GO:0031943","count":1},{"id":"GO:0090035","count":1}]},{"hash":"697515701729163299","title":"Ubiquitin-mediated apoptosis and innate immunity","description":"The top GO terms cluster around ubiquitination processes (K6- and K48-linked ubiquitination, autoubiquitination, ubiquitin-dependent ERAD) and their roles in protein turnover, coupled with apoptotic process and innate immune response. This points to a coherent theme of ubiquitin-dependent regulation of cell death and immune signaling, with some ancillary terms reflecting broader stress-related processes.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0085020","count":5},{"id":"GO:0070936","count":5}]},{"hash":"347657853612778767","title":"Ribosome Biogenesis and ER-Golgi Trafficking","description":"The top GO terms show strong signals for RNA polymerase I transcription and ribosome biogenesis, indicating nucleolar activity in ribosome production. Concurrently, COPII vesicle budding and the Cvt pathway point to secretory/trafficking processes (ER-to-Golgi and related autophagy-related pathways). A few cell wall-related terms appear but are less central. Overall, the cluster seems enriched for ribosome production together with vesicular trafficking components, justifying this combined label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006360","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0006037","count":1}]},{"hash":"961632563100703667","title":"Unknown","description":"The cluster\u2019s top GO terms are a mixed bag: reproductive gland development and uterus morphogenesis, various gland-related terms, chromatin modification, protein acetylation/regulation, IL-6 production, and basic metabolism. There isn\u2019t a single coherent biological theme tying these functions together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":15,"edges":21,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1903709","count":4},{"id":"GO:1903699","count":4},{"id":"GO:0097676","count":4},{"id":"GO:0032635","count":4},{"id":"GO:0043969","count":3}]},{"hash":"1533392586914625708","title":"Signaling-driven transcription and cell cycle control","description":"This cluster combines GO terms pointing to signaling and phosphorylation regulation (peptidyl-serine/threonine, JNK cascade, growth factor response) with core nuclear and cell cycle processes (DNA-templated transcription, DNA replication, mitotic spindle organization) and cellular trafficking (Golgi retention, intracellular transport). The common theme appears to be signaling events that modulate gene expression and cell division, with some development-related terms, suggesting a broad coupling of signal transduction to transcription and cell cycle regulation.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0010800","count":2}]},{"hash":"1050211286018936020","title":"Unknown","description":"The GO terms are heterogeneous, spanning neuronal processes (synaptic vesicle maturation, dendrite extension, synaptic plasticity), cell-cycle transcription regulation, and lipid metabolism, with no single unifying function.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0016188","count":1},{"id":"GO:1903861","count":1},{"id":"GO:2000203","count":1},{"id":"GO:0043619","count":1}]},{"hash":"830575196912227143","title":"Toll-like receptor signaling and inflammation","description":"The cluster is dominated by GO terms related to Toll-like receptor signaling, especially TLR4 signaling, detection of bacterial lipopeptides, and positive regulation of inflammatory responses, indicating a cohesive innate immune signaling function. A few outlier terms (angiogenesis and tooth mineralization regulation) are likely incidental and do not define the main theme.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"513309909463823432","title":"RDNA Chromatin Condensation and Chromosome Segregation","description":"The proteins are linked to condensation of rDNA chromatin and segregation of chromosomes (meiotic and mitotic), including centromere-associated condensation and nucleolar localization to rDNA repeats, suggesting a chromosome-organization module centered on rDNA and centromeric regions.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:0034503","count":1},{"id":"GO:0045144","count":1},{"id":"GO:0045143","count":1},{"id":"GO:0070550","count":1}]},{"hash":"586616996204881166","title":"RNA Pol II Transcription Regulation","description":"This cluster is dominated by GO terms related to transcription by RNA polymerase II and regulation of DNA binding (e.g., negative regulation of transcription by RNA Pol II, DNA-templated transcription). A few terms touch on development or maintenance, but these are much less represented, so the core theme is transcriptional control. Confidence reflects the clear transcription-centric signal with some peripheral annotations. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007422","count":1}]},{"hash":"1632290574010975076","title":"Unknown","description":"The cluster shows no interactions (Max Degree 0, no edges/triangles) and only an obsolete GO term with a single occurrence, providing no coherent functional theme to group these proteins. Therefore a meaningful, specific label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"980098456018529021","title":"ER Stress and Protein Quality Control","description":"The cluster centers on endoplasmic reticulum processes: ER overload response, ER organization, and ubiquitin-dependent ERAD pathway, which together suggest ER stress and protein quality control in the secretory pathway. Other terms like cell migration or differentiation appear less directly connected, likely representing peripheral associations rather than core functions of this group.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0001649","count":1},{"id":"GO:0006983","count":1}]},{"hash":"185328200237011366","title":"G1/S Cell Cycle Transcription Regulation","description":"The only top GO term is GO:0071931, describing positive regulation of transcription during the G1/S transition of the mitotic cell cycle (obsolete). This hints at a shared function in cell cycle transcription control, despite the obsolete status and lack of network connections in this cluster. Thus the label is plausible but tentative due to limited, outdated annotation.","confidence":"Low","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2}]},{"hash":"1483244115969241550","title":"RNA capping and translation","description":"The strongest signals are RNA processing and translation: 7-methylguanosine mRNA capping, RNA guanine-N7 methylation, cytoplasmic translation, and maturation of 5.8S rRNA, pointing to mRNA maturation and protein synthesis machinery. Some viral-related terms appear but likely reflect annotation noise or shared host factors; overall the cluster centers on RNA processing and translation activities.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0016049","count":2}]},{"hash":"1780297498408886820","title":"Nucleocytoplasmic transport and TOR signaling","description":"The top GO terms cluster around import into the nucleus (NLS-bearing import, nuclear pore complex assembly, ribosomal protein import into the nucleus) and related nucleocytoplasmic transport processes, with TORC1 signaling and amino acid response pointing to nutrient-growth regulation that accompanies ribosome biogenesis. While a few terms are tangential (e.g., desumoylation regulation), the core theme is nuclear transport and ribosome-related assembly in the context of TOR pathway activity.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006610","count":4},{"id":"GO:0051292","count":4},{"id":"GO:0000060","count":4}]},{"hash":"1851684436586551970","title":"Unknown","description":"With no GO terms reported (Top Terms list is empty) and no edges or connections among the proteins, there is no shared functional signal to define a cohesive theme. The note about ReCIPE re-additions adds no interpretable functional context. Therefore, a meaningful cluster name cannot be assigned with confidence.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"350881516024248482","title":"GPCR Hormone Signaling (LH/FSH/TSH)","description":"The cluster is dominated by GO terms for G protein-coupled receptor signaling pathways and downstream cAMP/PLC activation, with explicit references to LH and FSH signaling and related endocrine responses (TRH/thyrotropin-releasing hormone and uterine or sexual development). This suggests a cohesive theme of endocrine GPCR-mediated signaling in reproductive and thyroid axes, with one outlier term likely noise. Hence this name captures the core function shared by the proteins.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":15},{"id":"GO:0007190","count":15},{"id":"GO:0071373","count":15},{"id":"GO:0034158","count":15},{"id":"GO:0010738","count":15}]},{"hash":"1278448588601498342","title":"Mitochondrial Metabolite Transport","description":"The cluster centers on transport of multiple metabolites and cofactors (alpha-ketoglutarate, NAD, ADP, citrate, heme, deoxynucleotides) across membranes, with terms also touching on mitochondrial processes and metabolic stress responses, suggesting a cohesive role in mitochondrial metabolite transport and energy metabolism.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":2},{"id":"GO:0015742","count":2},{"id":"GO:0030302","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0035352","count":2}]},{"hash":"1971198941650470095","title":"Mitochondrial Function and Cell Cycle Regulation","description":"This cluster centers on mitochondrial-related processes: regulation of mitochondrial membrane permeability and protein import into the mitochondrial matrix, along with signals for lipid metabolism (triglyceride biosynthesis) and ROS regulation. The presence of terms related to cell-cycle control (negative regulation of G1/S transition) and necroptosis suggests coordination between mitochondrial function, metabolism, and cell-cycle checkpoints. Some terms (histone catabolic process, intralumenal vesicle formation) appear peripheral or broader, but do not override the dominant mitochondrial/metabolic theme.","confidence":"Medium","size":15,"edges":48,"triangles":63,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070940","count":7},{"id":"GO:0046902","count":7},{"id":"GO:0010867","count":7},{"id":"GO:1903740","count":7},{"id":"GO:2000134","count":7}]},{"hash":"1105350989779011815","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning proteasomal degradation regulation, metal stress response, visual perception, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, spindle attachment, and lung mesenchyme development, with no shared biological theme. There are no edges linking proteins, and no dominant function, so a cohesive functional label is not supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"2207222236578291785","title":"Unknown","description":"The set of GO terms spans highly distinct biological areas (bacterial lipopolysaccharide biosynthesis; pre-B cell differentiation; vacuole organization; membrane repolarization; vascular regulation; muscle contraction; sodium export; inner ear development; endocytosis; calcium homeostasis), showing little cohesive function. There isn\u2019t a single, representative theme to label the cluster with a specific function, so Unknown with no confidence.","confidence":"","size":15,"edges":7,"triangles":1,"max_degree":3,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0009103","count":7},{"id":"GO:0002329","count":4},{"id":"GO:0007033","count":4},{"id":"GO:0086009","count":4},{"id":"GO:0097755","count":4}]},{"hash":"1086185350844562734","title":"Deoxynucleotide Biosynthesis","description":"The enriched GO terms cluster around dUDP/dTDP/dTTP biosynthetic processes and TMP metabolism, indicating a core function in deoxynucleotide production; additional terms like differentiation and stress responses may reflect broader roles or annotation noise, but do not override the clear nucleotide metabolism theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":2},{"id":"GO:0046940","count":2},{"id":"GO:0046044","count":2},{"id":"GO:0006227","count":2},{"id":"GO:0045445","count":2}]},{"hash":"1038101056199326391","title":"Toll-like receptor signaling and inflammatory response","description":"The top GO terms are dominated by Toll-like receptor pathways (TLR4 signaling; MyD88-independent TLR signaling; Toll signaling pathway), detection of bacterial lipoproteins, and positive regulation of inflammatory response, indicating a cohesive theme of innate immune sensing and inflammation. While a few terms touch on processes like angiogenesis, tooth mineralization, and axon guidance, these appear as peripheral annotations, with the core cluster centered on TLR-driven immune signaling.","confidence":"High","size":15,"edges":15,"triangles":0,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":15},{"id":"GO:0016525","count":15},{"id":"GO:0002756","count":15},{"id":"GO:0021972","count":15},{"id":"GO:0008063","count":15}]},{"hash":"545109496204349763","title":"LH/FSH GPCR\u2013cAMP Hormone Signaling","description":"The cluster centers on GO terms for luteinizing hormone and follicle-stimulating hormone signaling, GPCR pathways activating phospholipase C and adenylate cyclase, and related reproductive development (uterus and sexual characteristics), indicating a cohesive theme of reproductive endocrine signaling; one immune signaling term (TLR8) appears as noise relative to the dominant hormonal theme.","confidence":"High","size":15,"edges":73,"triangles":169,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":15},{"id":"GO:0007190","count":15},{"id":"GO:0071373","count":15},{"id":"GO:0034158","count":15},{"id":"GO:0010738","count":15}]},{"hash":"2162558730371331143","title":"Reproductive Hormone GPCR Signaling","description":"The top GO terms are dominated by endocrine signaling via G protein-coupled receptors, including activation of adenylate cyclase and PLC pathways, with specific references to thyrotropin-releasing hormone, luteinizing hormone, and follicle-stimulating hormone signaling, plus uterus development and sexual characteristic development. This suggests the cluster represents GPCR-mediated hormonal signaling in reproduction, despite one outlier immune signaling term.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":15},{"id":"GO:0007190","count":15},{"id":"GO:0071373","count":15},{"id":"GO:0034158","count":15},{"id":"GO:0010738","count":15}]},{"hash":"1554174744287441725","title":"Intron Homing Proteins","description":"The only strong GO signal is intron homing (GO:0006314), with a few proteins annotated to this function, suggesting the cluster may represent intron mobility/homing-related proteins. The lack of connections and limited GO coverage means this label is a best-effort summary rather than a broad, well-supported category.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3}]},{"hash":"1094926420597622372","title":"Unknown","description":"The GO terms are diverse (phagocytosis regulation, ER-Golgi vesicle transport, lipid catabolic processes, dorsal appendage formation, and a deprecated glycosylation term) with no single shared function, and the network shows no edges to support a cohesive module. This makes it inappropriate to assign a specific functional label. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050766","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0046338","count":1},{"id":"GO:0046843","count":1},{"id":"GO:0031161","count":1}]},{"hash":"308375081292080039","title":"Diverse Metabolic Pathways","description":"Terms span diverse biosynthetic/catabolic processes (aspartate, heme, sphingomyelin, cobalamin, alanine, kynurenine) and one defense signaling term, indicating a broad metabolic theme rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009862","count":1},{"id":"GO:0006532","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0097053","count":1},{"id":"GO:0006686","count":1}]},{"hash":"1683092072538345630","title":"Developmental signaling across tissues","description":"GO terms span signal transduction, neuronal differentiation, cardiac morphogenesis, endothelial differentiation, and Wnt signaling, pointing to a shared theme of developmental signaling across tissues. The variety suggests a broad developmental regulatory program rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":6},{"id":"GO:0035556","count":6},{"id":"GO:1900383","count":6},{"id":"GO:0045083","count":6}]},{"hash":"2230661127055749583","title":"Plant chromatin remodeling and telomere regulation","description":"The top GO terms cluster around chromatin remodeling and telomere-related processes (chromatin remodeling, shelterin complex assembly, telomeric D-loop regulation, RNA localization to telomeres), complemented by plant-development signals (chlorophyll biosynthesis regulation, ethylene and ABA responses, seed growth regulation). This suggests a chromatin-regulation module in plants that intersects with telomere maintenance and developmental signaling, rather than a single isolated function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1}]},{"hash":"413541433103494645","title":"Neuronal signaling and mechanotransduction","description":"The top GO terms point to neuronal signaling and response to mechanical cues (cellular and muscle stretch responses, intracellular signaling, protein kinase activation, and synaptic plasticity regulation), with a note of cerebellar granule cell differentiation. These together suggest a theme of neurons adapting to mechanical stimuli and modulating synaptic function, with ancillary transcriptional regulation. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0006351","count":1},{"id":"GO:0032147","count":1},{"id":"GO:1902064","count":1}]},{"hash":"1490213883766597128","title":"Plant development and hormone signaling","description":"The cluster's top GO terms focus on plant growth regulation (seed growth, chlorophyll biosynthesis regulation) and hormone responses (ethylene, abscisic acid), suggesting a cohesive theme around plant development and hormone signaling. A few terms touch on nucleic/chromatin processes, but the dominant signal is plant growth and hormone-related regulation. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2}]},{"hash":"321923083089950132","title":"Vacoular amino acid transport","description":"The GO terms cluster around transport of amino acids across membranes, including serine and arginine import into vacuoles and proline/glutamine transport, suggesting a core theme of vacuolar amino acid transport; some terms are unrelated or obsolete, so the link is present but not perfect.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"203090398394509103","title":"Transcriptional Regulation and Oxidative Stress Response","description":"The proteins cluster around DNA-templated transcription and RNA polymerase II regulatory region control, coupled with redox homeostasis and detoxification processes, and extend to ER stress response and protein repair. This points to a coherent theme of transcriptional reprogramming during oxidative/ER stress, with supporting roles in protein maintenance and nuclear trafficking.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0045454","count":3},{"id":"GO:0055114","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0030091","count":3}]},{"hash":"1409574278487179639","title":"Unknown","description":"Top GO terms span neural development and synaptic signaling, broad developmental pathways (Wnt, heart and vascular differentiation), and immune modulation, with no single cohesive theme tying all proteins. Therefore no specific high-level label can be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0021707","count":8},{"id":"GO:0035556","count":8},{"id":"GO:1900383","count":8},{"id":"GO:0045083","count":8}]},{"hash":"1628137404301098341","title":"Unknown","description":"No shared GO terms, edges, or functional signal are observed; the six ReCIPE-readded proteins do not reveal a coherent function, so a specific label cannot be inferred.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"341779141729059984","title":"Unknown","description":"The top GO terms span neuronal, cardiac/vascular development, immune regulation, and general signaling with no single cohesive function tying all terms together, suggesting the proteins participate in multiple unrelated processes rather than one shared pathway.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"1603704302120350334","title":"Translation and Translational Regulation","description":"The cluster\u2019s top terms cluster around translation and tRNA charging (prolyl-tRNA aminoacylation) and regulation of translational fidelity, with explicit references to translation itself. While a few terms are obsolete or less connected (e.g., cell adhesion, autophosphorylation), the recurring emphasis on protein synthesis and its control supports a translation-centered theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1}]},{"hash":"158737047526810105","title":"Protein folding, targeting, and stress response","description":"The terms cluster around protein quality control (unfolded protein response, chaperone/cofactor\u2013dependent refolding), SRP-dependent targeting to membranes, and stress-related regulation (heat, hydrogen peroxide). Iron-sulfur cluster assembly and iron handling tamb\u00e9m tie into maturation of metalloproteins under stress, supporting a broader theme of protein homeostasis and proper localization under stress conditions; a few terms (DNA replication, karyogamy) appear less connected but do not override the dominant signal.","confidence":"Medium","size":14,"edges":47,"triangles":64,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0000742","count":9},{"id":"GO:0034620","count":8},{"id":"GO:1900035","count":8},{"id":"GO:0006616","count":8}]},{"hash":"541125452440059019","title":"Developmental signaling and tissue differentiation","description":"These proteins show a theme around signaling pathways (intracellular signal transduction, Wnt signaling) and differentiation across multiple tissues (cerebellar granule neurons, cardiac/right atrium morphogenesis, venous endothelial cells). A mechanosensory response and regulation of synaptic plasticity also support a developmental signaling role spanning various tissues. While some immune-related terms appear, they do not redefine the cluster's core function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"1117833792854812147","title":"Neural development and cell cycle control","description":"This cluster features strong neural-development signals (myelination in peripheral nervous system, response to morphine) alongside cell-cycle regulation signals (mitotic intra-S checkpoint signaling, negative regulation of mitotic chromosome condensation, meiotic cell cycle) and developmental context (mesoderm development). These together point to coordinated development of nervous tissue with cell-cycle control, despite some metabolic terms present. Confidence: Medium","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":14},{"id":"GO:0007498","count":14},{"id":"GO:0005979","count":14},{"id":"GO:0006685","count":14},{"id":"GO:0043278","count":14}]},{"hash":"2267427649222455790","title":"Developmental signaling and tissue differentiation","description":"The GO terms point to signaling pathways (notably Wnt signaling) that govern development across multiple tissues, including cerebellar granule cell differentiation, venous endothelial differentiation, and cardiac right atrium morphogenesis. Intracellular signal transduction and regulation of synaptic plasticity further support roles in developmental neural processes. The lack of cohesive, single-module connectivity (edges 0) suggests a broad developmental signaling theme rather than a specific pathway, hence this label. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"2288252245872394208","title":"Antiviral innate immune response","description":"The top GO terms are dominated by antiviral-related functions: defense response to virus, innate immune response, and viral process, indicating that the cluster is enriched for antiviral immune activity. Some accompanying terms (transcription, various biosynthetic processes, development) appear less related and may reflect annotation noise, but the antiviral signaling theme is strongest. Confidence is Medium.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0016032","count":3}]},{"hash":"2112380465181074689","title":"Negative regulation of signaling pathways","description":"Based on GO terms such as negative regulation of ERK/MAPK signaling, negative regulation of PI3K/AKT signaling, negative regulation of T cell receptor signaling, and peptidyl-tyrosine dephosphorylation, the cluster seems to group proteins involved in dampening signaling across diverse contexts (immune, neuronal, and cell-cycle processes), with additional hints from postsynaptic density assembly and focal adhesion regulation. This suggests a coherent theme centered on signaling inhibition rather than activation.","confidence":"Medium","size":14,"edges":84,"triangles":289,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":10},{"id":"GO:0070373","count":10},{"id":"GO:0050860","count":10},{"id":"GO:0097107","count":9},{"id":"GO:0035335","count":9}]},{"hash":"750349273554377487","title":"Unknown","description":"The GO terms are highly diverse, including transcription-coupled repair, transcription elongation, neuron and lens development, viral mRNA export, various transport and biosynthetic processes. There is no single coherent biological function or pathway tying these proteins together, so a clear, interpretable label isn\u2019t evident.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0006283","count":1},{"id":"GO:0048699","count":1},{"id":"GO:0046784","count":1},{"id":"GO:2001209","count":1}]},{"hash":"1700108153824981588","title":"Unknown","description":"The top terms cover a wide range of disparate processes (mating, cAMP signaling, vision, surfactant homeostasis, pituitary and kidney development, calcium transport, NF-kB signaling, sumoylation, and heart rate regulation). There is no clear, single function or pathway uniting these terms, so a concise, representative label cannot be confidently assigned.","confidence":"","size":14,"edges":82,"triangles":267,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000742","count":7},{"id":"GO:0051591","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0043129","count":3},{"id":"GO:0048855","count":3}]},{"hash":"806377059963577367","title":"Plant signaling and proteostasis","description":"The top GO terms center on ubiquitin-dependent protein catabolic processes and proteasome assembly (proteostasis), alongside regulation of GTPase activity and kinase signaling (phosphorylation and autophosphorylation). Some terms are plant-specific (stamen formation, chlorophyll biosynthetic process), suggesting a plant-focused signaling/protein turnover theme; heterotrimerization likely reflects G protein subunit assembly. Taken together, the cluster appears to group plant proteins involved in signaling regulation linked to protein turnover and cellular processes.","confidence":"Medium","size":14,"edges":10,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":6},{"id":"GO:0048455","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0015995","count":5},{"id":"GO:0043248","count":5}]},{"hash":"1464615994560715148","title":"Neural development and synaptic regulation","description":"The terms cluster around neural development and synaptic function, including cerebellar granule cell differentiation, regulation of dendrite development, synaptic plasticity, and intracellular signaling. Apoptosis and ubiquitination appear as development-related processes, supporting a theme of neuronal differentiation and synaptic regulation.","confidence":"Medium","size":14,"edges":26,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":13},{"id":"GO:0033028","count":13},{"id":"GO:0007049","count":13},{"id":"GO:0097284","count":13},{"id":"GO:0016567","count":13}]},{"hash":"1798748908192697524","title":"Schwann Cell Development and PNS Myelination","description":"This cluster is dominated by GO terms for Schwann cell development and myelination in the peripheral nervous system, indicating a core function in PNS myelination. Supporting signals include calcium-dependent signaling and neuronal activity-related terms (excitatory postsynaptic potential, calcineurin-NFAT pathway), suggesting a role in activity-linked neural development and signaling. While there are broader neuromuscular development terms, the strongest common theme is Schwann cell maturation and PNS myelination.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0022011","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0033173","count":6},{"id":"GO:0060316","count":6}]},{"hash":"1735433284053996321","title":"Vesicle trafficking and mitosis in development","description":"Top GO terms indicate strong involvement in ER-Golgi and COPII vesicle transport, retrograde transport, and mitotic processes (spindle assembly, cell cycle), with developmental signals such as brain development and neuronal function, suggesting a theme of secretory trafficking coupled to cell division during development.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0090114","count":8}]},{"hash":"1132680743291263453","title":"Proteostasis: Ubiquitin-ERAD and Autophagy","description":"The cluster is driven by GO terms related to ubiquitin-dependent degradation and ER-associated degradation (protein deubiquitination, ERAD), along with autophagy-related processes (aggrephagy, autophagosome maturation) and trafficking regulation (endocytosis, GPCR internalization). While a few terms touch on DNA repair or cell division, the dominant theme is protein quality control and turnover via ubiquitin-proteasome and autophagy pathways.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":5},{"id":"GO:0016579","count":5},{"id":"GO:1901340","count":5},{"id":"GO:1901097","count":5},{"id":"GO:0030474","count":5}]},{"hash":"1897710136393857873","title":"Developmental signaling and endosomal trafficking","description":"This cluster shows a mix of developmental signaling terms (neural tube patterning, epithelial-mesenchymal signaling), neuronal function (glutamatergic synaptic regulation), and vesicular trafficking (protein localization to endosome, membrane addition at cytokinesis). The common thread appears to be signaling processes coordinated with endosomal/vesicular trafficking during development and cell movement, with some related stress/drug response overlap. Confidence: Medium","confidence":"Medium","size":14,"edges":20,"triangles":10,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0007119","count":3},{"id":"GO:0060684","count":3},{"id":"GO:0021532","count":3}]},{"hash":"291910928054835378","title":"Neuronal development and synaptic signaling","description":"The top GO terms cluster around brain development, neural tube patterning, and regulation of synaptic vesicle exocytosis and glutamatergic transmission, suggesting a theme of neuronal development and synaptic function. A few terms about endosome localization and other growth processes appear, which may reflect annotation noise, but the dominant signal points to neural development and synaptic communication.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0051966","count":1}]},{"hash":"1990012907728295263","title":"Transcription and ubiquitin-regulated proteolysis","description":"This cluster is dominated by DNA-templated transcription and ubiquitin-proteasome\u2013related processes (SCF-dependent proteolysis and regulation of ubiquitin ligase activity), with supporting signals from cell cycle and development-related terms. This suggests a cohesive theme around gene expression control coupled to proteostasis, impacting proliferation and developmental pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0070208","count":4},{"id":"GO:1904668","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0031175","count":3}]},{"hash":"482972210588223407","title":"Unknown","description":"The GO terms span diverse processes from cell cycle and mitosis (CDK activity, kinetochore localization, spindle attachment) to signaling and neural development (ERBB signaling, cardiac proliferation, visual perception, superior temporal gyrus development) and even biofilm formation, indicating no single cohesive function for the cluster.","confidence":"","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045736","count":14},{"id":"GO:0034501","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0071109","count":13},{"id":"GO:0090606","count":13}]},{"hash":"1831925228118714522","title":"Neurodevelopment and vesicle trafficking","description":"This cluster is characterized by GO terms centered on nervous system development and neuronal signaling, together with terms describing the secretory pathway and vesicle trafficking (ER-to-Golgi transport, COPII coating regulation, endosome localization). The overlap implies proteins that coordinate neuronal development with membrane trafficking processes critical for synapse formation and function. Some terms also touch on cell-cycle and spermatid development, but the neural-development and trafficking themes are most prominent.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007286","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0043525","count":4}]},{"hash":"1060533654285527794","title":"Unknown","description":"The GO terms are highly diverse and cover multiple tissues and processes (vision, brain development, biofilm formation, immune signaling, heart growth, apoptosis, mitotic spindle attachment, lung development, ion transport, and ERBB signaling), with no single cohesive function linking all proteins. Confidence in a specific functional label is therefore None.","confidence":"","size":14,"edges":79,"triangles":247,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0071109","count":14},{"id":"GO:0090606","count":14},{"id":"GO:0032762","count":14},{"id":"GO:0060045","count":14}]},{"hash":"2166431007175364167","title":"ERBB signaling and tissue development","description":"The top GO term is ERBB signaling pathway, and the cluster also shows multiple development-related terms across tissues (neural, lung mesenchyme, cardiac muscle proliferation). This suggests a theme of growth-factor\u2013driven signaling guiding tissue development, with additional related processes like apoptosis and cell division. Some terms (e.g., biofilm formation) may be noise or cross-species artifacts, but the ERBB/development link is the strongest signal.","confidence":"Medium","size":14,"edges":84,"triangles":291,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0071109","count":13},{"id":"GO:0090606","count":13},{"id":"GO:0032762","count":13},{"id":"GO:0060045","count":13}]},{"hash":"2135898118286773707","title":"Unknown","description":"There are no top GO terms and no network connections (edges or triangles) among the cluster, so there is no shared functional signal to define a cohesive label. The empty top terms and zero connectivity indicate insufficient functional coherence to name the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"514224505101976223","title":"Iron-sulfur cluster assembly and iron homeostasis","description":"The top GO terms point strongly to iron-sulfur (Fe-S) biology: Fe-S cluster assembly, maturation via Fe-S cluster transfer, and intracellular iron ion homeostasis, suggesting proteins involved in Fe-S biogenesis and iron regulation. The remaining terms (e.g., TLR signaling, Sertoli cell development, nitrogen fixation) appear more as annotation noise or multifunctional roles rather than a single coherent cluster function. Overall, Fe-S metabolism best describes the core theme of this cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016226","count":1},{"id":"GO:0009399","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0006879","count":1},{"id":"GO:0045670","count":1}]},{"hash":"1001233962107662532","title":"DNA Damage Response and Transcription Initiation","description":"The cluster\u2019s top GO terms largely point to genome maintenance and transcription regulation, including SOS response and nucleotide-excision repair, as well as RNA polymerase II promoter clearance and open complex formation. While a few terms (immune signaling, hair cell differentiation, restriction-modification) seem more peripheral, the shared theme appears to be cellular responses to DNA damage coupled with transcription initiation processes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":3},{"id":"GO:0006289","count":3},{"id":"GO:0001111","count":2},{"id":"GO:0035315","count":2},{"id":"GO:0033683","count":2}]},{"hash":"1489679210192922622","title":"Mitotic cell cycle progression","description":"This cluster is dominated by GO terms for G1/S and G2/M transitions, chromosome condensation, and spindle pole separation, which collectively define mitotic progression; other terms describing transcription and proliferation context are present but secondary to the core mitotic theme.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":6},{"id":"GO:0000320","count":5},{"id":"GO:0046626","count":5},{"id":"GO:0000086","count":5},{"id":"GO:2000775","count":5}]},{"hash":"2058176266053913823","title":"Oxidative stress response and redox detoxification","description":"The top GO terms point to redox biology and detoxification: oxidative-reduction processes, cellular response to oxidative stress, and cellular oxidant detoxification, along with F420 metabolic involvement which is linked to redox reactions. While other terms (uracil catabolic, TNT catabolic, thyroid hormone generation) are more diverse, the dominant theme across the cluster appears to be managing oxidative stress and redox-related metabolism, hence a label focused on redox detoxification and stress response.","confidence":"Medium","size":14,"edges":55,"triangles":106,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0006212","count":2},{"id":"GO:2001039","count":2}]},{"hash":"1215647207377509532","title":"TORC1-driven growth and autophagy regulation","description":"The terms strongly point to TORC1 signaling and growth control, including amino-acid sensing (L-leucine), positive regulation of autophagy, and promotion of cell growth and G1/S cell-cycle progression, with an overarching theme of growth- and autophagy-related regulation. Endothelial proliferation and serine/threonine kinase activity regulation further support a coordinated growth signaling network centered on TORC1. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010506","count":1},{"id":"GO:0033138","count":1},{"id":"GO:0030307","count":1},{"id":"GO:0071902","count":1},{"id":"GO:0031139","count":1}]},{"hash":"2067518446467398134","title":"APC/C-Dependent Ubiquitination and Proteolysis","description":"Most of the top GO terms point to ubiquitin-mediated protein degradation, including K11-linked ubiquitination and APC/C-dependent (anaphase-promoting complex) catabolic processes that drive mitotic transitions. While a few terms reference interferon responses, the dominant theme is ubiquitin\u2011dependent proteolysis linked to cell cycle control, justifying this label.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903071","count":5},{"id":"GO:0045842","count":5},{"id":"GO:0035457","count":5},{"id":"GO:0031145","count":5},{"id":"GO:0071357","count":5}]},{"hash":"208638619770122257","title":"Unknown","description":"The GO terms span many unrelated biological contexts (sperm capacitation, visual perception, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, meiotic spindle attachment, lung mesenchyme development, sodium transport), without a cohesive shared function. There isn\u2019t a single clear theme to assign a specific label. ","confidence":"","size":14,"edges":19,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048240","count":9},{"id":"GO:0007601","count":7},{"id":"GO:0071109","count":7},{"id":"GO:0090606","count":7},{"id":"GO:0032762","count":7}]},{"hash":"372826417485209713","title":"ECM remodeling and cell adhesion","description":"Reason: Several GO terms converge on extracellular matrix remodeling and cell adhesion (negative regulation of ECM assembly, calcium-independent cell-matrix adhesion, integrin signaling, hyaluronan metabolism, cellular extravasation). A few terms like light perception and chlorophyll biosynthesis may be annotations from other contexts or species, but the dominant theme points to ECM interactions and adhesion processes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901202","count":1},{"id":"GO:0050908","count":1},{"id":"GO:0007161","count":1},{"id":"GO:0035987","count":1},{"id":"GO:0015995","count":1}]},{"hash":"1682884428417891340","title":"Transmembrane Transport of Sugars and Xenobiotics","description":"Proteins in this cluster are enriched for diverse transmembrane transport activities across plasma membranes, including sugar transport (glucose, fructose, trehalose), xenobiotic transport, nitrate transport, sialic acid transport, dehydroascorbic acid transport, and sodium-dependent organic cation transport. The common theme is movement of small molecules and nutrients across membranes, indicating a transporter-focused cluster.","confidence":"High","size":14,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015739","count":1},{"id":"GO:0015706","count":1},{"id":"GO:1990539","count":1},{"id":"GO:0042908","count":1}]},{"hash":"417017712488893448","title":"Tryptophan-Kynurenine-NAD Pathway","description":"The top GO terms are dominated by tryptophan/kynurenine metabolism (L-kynurenine catabolic, L-tryptophan catabolic, quinolinate biosynthetic) and related NAD biosynthesis processes, suggesting a core function in converting tryptophan through the kynurenine pathway to NAD. Other metabolic catabolic terms (alanine, glyoxylate) support a broader amino-acid catabolic context, while Notch signaling and glucocorticoid response may reflect regulatory associations rather than defining the cluster\u2019s primary function. Overall, the cluster appears centered on tryptophan metabolism toward NAD biosynthesis with ancillary metabolic connections.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0097053","count":7},{"id":"GO:0042853","count":7},{"id":"GO:0007219","count":7},{"id":"GO:0009436","count":6},{"id":"GO:0051591","count":5}]},{"hash":"1259820050174995051","title":"Chromatin Remodeling and Transcription Regulation","description":"The top GO terms cluster around chromatin state control and transcriptional regulation: negative regulation of transcription by RNA polymerase II, chromatin remodeling, heterochromatin formation, nucleosome density/positioning, and histone modification such as H4-K20 trimethylation. These together point to proteins that modulate chromatin accessibility to repress or fine-tune transcription, with developmental terms likely reflecting context-specific roles. Overall, the common theme is chromatin-mediated transcription regulation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0043044","count":5},{"id":"GO:0030540","count":3},{"id":"GO:0060303","count":3},{"id":"GO:0034773","count":3}]},{"hash":"1087338390004082822","title":"Unknown","description":"The GO terms are broad and scattered across xenobiotic response, development, metabolism, cell adhesion, and nervous system processes, with no single cohesive function linking them. This makes it hard to assign a specific, representative label to the cluster. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0051321","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0005979","count":2},{"id":"GO:0006685","count":2}]},{"hash":"1148419967232461947","title":"Unknown","description":"No shared GO terms or network connections are shown for this cluster (edges 0, triangles 0, and empty Top Terms), so a coherent functional label cannot be inferred from the data.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2091954565132840363","title":"Splicing and mRNA export machinery","description":"The top GO terms point to RNA processing, including mRNA splicing via the spliceosome, mRNA export, and mRNA stabilization, with supporting roles in small-subunit processome assembly and stress-related mRNA stability regulation. Although some terms reference viral translation, the predominant signal is RNA maturation and handling from splicing to export and stabilization, suggesting a cohesive cluster of RNA processing factors.","confidence":"High","size":14,"edges":82,"triangles":272,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0010610","count":7},{"id":"GO:0006378","count":7},{"id":"GO:1901407","count":7},{"id":"GO:0006406","count":6}]},{"hash":"911389871587787846","title":"Unknown","description":"There are 14 proteins but no edges, triangles, or GO terms available to define a shared function or pathway, so no meaningful common theme can be inferred from the data provided; the ReCIPE note does not supply functional context by itself.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1745392130525259513","title":"TLR signaling and innate immunity","description":"Based on GO terms, the cluster is dominated by Toll-like receptor\u2013related processes (Toll signaling pathway, TLR4 signaling, detection of diacyl/triacyl lipopeptides, and MyD88-independent TLR signaling), indicating a cohesive group of proteins involved in innate immune sensing of bacterial components. Some unrelated terms appear, but the Toll-like receptor\u2013driven immune response theme is clear.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0021972","count":1},{"id":"GO:0008063","count":1}]},{"hash":"2279564057008116174","title":"Unknown","description":"The top GO terms are unrelated (ribosomal large subunit nuclear export vs. neuroendocrine cell differentiation) with only a single hit each, giving no clear shared function across the cluster to define a cohesive label.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0061101","count":1}]},{"hash":"936630628873898439","title":"RNA maturation and translation control","description":"The proteins cluster around processes related to RNA processing and translation regulation: mRNA export from the nucleus, mRNA stability and stabilization, translation initiation/termination (including viral IRES and termination-reinitiation pathways), polyadenylation aspects, and ribosome biogenesis (small-subunit processome assembly). This combination suggests a cohesive theme centered on mRNA maturation and the control of protein synthesis, including stress responses and miRNA-mediated silencing.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1}]},{"hash":"977150448395052322","title":"Jasmonate/oxylipin biosynthesis and stress response","description":"The cluster centers on jasmonic acid and oxylipin biosynthesis (JA pathway, oxylipin production) and related lipid metabolism, with several stress-response terms (ozone, toxic substances). The inclusion of fatty acid beta-oxidation fits JA precursor generation. A linking note is stamen development, which JA also influences, supporting a JA-related function rather than an unrelated grouping.","confidence":"High","size":14,"edges":17,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048443","count":1},{"id":"GO:0009695","count":1},{"id":"GO:0010193","count":1},{"id":"GO:0033543","count":1},{"id":"GO:0031408","count":1}]},{"hash":"1974053921959632865","title":"Multisystem Developmental Processes","description":"The most common terms point to developmental roles across multiple tissues (skin, skeletal system, neuron projection, pigmentation, prostate-related development), suggesting a shared developmental function. Some terms also indicate regulation of protein turnover and cell-cycle processes (ubiquitin ligase activity, SCF-mediated degradation, spindle orientation, cytokinesis), which often accompany development. Overall, the cluster appears to reflect broad developmental programs across organ systems rather than a single specific pathway.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:1904668","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0060770","count":2}]},{"hash":"2228978477716027991","title":"Ion Transport and Cholinergic Synaptic Signaling","description":"These proteins cluster around ion homeostasis and neuronal signaling, with GO terms emphasizing potassium ion transport, regulation of ion transporter activity, and cholinergic synaptic transmission. While a few additional terms are more general, the core theme points to ion transport linked to neural communication.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":2},{"id":"GO:0055114","count":1},{"id":"GO:0032414","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0007568","count":1}]},{"hash":"621169684422182906","title":"Carbohydrate metabolism and glycan biosynthesis","description":"This cluster is dominated by carbohydrate-related metabolic processes: pyruvate, malate, and glucose-1-phosphate metabolism, as well as glycan biosynthesis pathways (GDP-mannose and O antigen). A few terms (protein tetramerization, proteolysis) are more general, but the core theme is metabolism around carbohydrates and the assembly of glycans. ","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":3},{"id":"GO:0006090","count":3},{"id":"GO:1902031","count":3},{"id":"GO:0006108","count":3},{"id":"GO:0043464","count":3}]},{"hash":"639515777671721354","title":"Innate Immunity and Reproductive Hormone Signaling","description":"The cluster includes innate immune signaling terms (MyD88-dependent TLR signaling, TLR7 signaling) and GPCR-related signaling (phospholipase C activation and IP3 biosynthesis), plus reproductive/hormonal development terms (Sertoli cell development, FSH signaling, ovarian follicle growth, and responses to hypothalamic hormones). This suggests a shared theme around signaling pathways that operate in immune contexts and in hormone-regulated reproductive processes, though the link is broad and not tightly specific. Confidence: Medium","confidence":"","size":14,"edges":18,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"575093224410004341","title":"Nuclear transport and mitotic regulation cluster","description":"The top GO terms point to nuclear import (ribosomal protein import into nucleus; nuclear pore complex assembly), mitotic chromosome condensation, and cell-cycle signaling (TORC1), with a note on ciliogenesis (basal body docking). This suggests a cohesive theme of coordinating nucleus-cytoplasm transport with mitotic and related cellular processes, despite some obsolete annotations. ","confidence":"Medium","size":14,"edges":35,"triangles":31,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0061509","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0038202","count":1},{"id":"GO:0051292","count":1}]},{"hash":"180486542481679616","title":"Unknown","description":"The Top Terms span neural development (cerebellar granule cell differentiation, synaptic plasticity regulation, Wnt signaling), immune modulation (negative regulation of IL-12 production), cardiac formation (right atrium morphogenesis), mechanotransduction, general mRNA processing, and apoptosis in myeloid cells. The diverse, non-overlapping functions show no coherent, single biological theme for the cluster, so a specific label isn\u2019t justifiable.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"571345953996918660","title":"Developmental regulation and organogenesis","description":"These annotations are dominated by developmental processes (animal organ development, spermatid nucleus differentiation) and include related epigenetic regulation concepts (gene expression via DNA methylation and histone modification). A nearby term about central tolerance hints at developmental immune programming. Overall, the terms point to broad development and its regulation rather than a single pathway, making this a reasonable label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000791","count":1},{"id":"GO:0010216","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0043972","count":1},{"id":"GO:0034720","count":1}]},{"hash":"1497947497092376622","title":"Unknown","description":"No GO terms are listed for this cluster, so I cannot infer a shared biological function. The graph shows a tightly connected set of proteins (high triangle count) but without annotated terms to tie them to a process, a specific, representative label cannot be confidently assigned.","confidence":"","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[]},{"hash":"2256031483829923941","title":"Ciliary/Flagellar Assembly and Motility","description":"Based on the top GO terms, the cluster centers on axoneme assembly and cilium movement, pointing to proteins involved in the formation and function of flagella/cilia. Although a karyogamy term appears and some entries are obsolete, the recurring themes are ciliogenesis and flagellar motility, suggesting a coherent set of ciliary/flagellar proteins.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":2},{"id":"GO:0061571","count":1},{"id":"GO:0061570","count":1},{"id":"GO:0006756","count":1},{"id":"GO:0035082","count":1}]},{"hash":"2010612809537072132","title":"Innate immune response to pathogens","description":"The top GO terms center on dsRNA response, LPS response, and innate immune signaling, which together indicate a primary immune-function theme for this cluster; other neural-related terms appear less central and may reflect broader pleiotropy or annotation noise.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043330","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0071222","count":2}]},{"hash":"445804219983802229","title":"Auxin Transport and Root Development","description":"The cluster is dominated by GO terms related to auxin signaling and transport (auxin-activated signaling pathway, auxin polar transport, auxin export across the plasma membrane, ER-to-cytosol auxin transport) and root morphogenesis (adventitious root development), suggesting a cohesive theme of auxin-mediated growth and development in plants. A few terms appear unrelated (e.g., sebaceous gland development), but do not override the main auxin-centric pattern.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":1},{"id":"GO:0048733","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0009734","count":1},{"id":"GO:0009926","count":1}]},{"hash":"38264769102344066","title":"Ribosome biogenesis and transcription apparatus","description":"These proteins are annotated with ribosome biogenesis, translation initiation and preinitiation complex formation, nucleologenesis, and transcription by RNA polymerases I, II, and III, plus ncRNA-associated chromatin regulation. The common thread is RNA production (rRNA, tRNA, mRNA) and ribosome assembly in the nucleolus, indicating a coordinated ribosome biogenesis and transcription machinery. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0017126","count":2},{"id":"GO:0006366","count":2}]},{"hash":"1742560054107922164","title":"Endogenous retroelements and proviral latency","description":"The top GO terms cluster around DNA integration, retrotransposition, DNA transposition, and proviral latency, with viral process and host entry terms as well. This points to retroelement/retrovirus-like elements that integrate into the genome and can establish latent proviral states, rather than a single protein function, hence a cohesive theme of endogenous retroelements and related viral processes.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0032197","count":5},{"id":"GO:0075732","count":5},{"id":"GO:0039651","count":5},{"id":"GO:0075713","count":5}]},{"hash":"993888951455432355","title":"Wnt signaling and telomere regulation","description":"The top terms emphasize signaling pathways (Wnt, ephrin) and regulation of synaptic plasticity, alongside multiple telomere maintenance and telomerase-related terms, with supporting post-translational modification processes (ubiquitination, ADP-ribosylation). This suggests a cluster of proteins involved in signaling modulation that also intersects with telomere dynamics, potentially via PTMs. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":5},{"id":"GO:0016055","count":5},{"id":"GO:1904743","count":5},{"id":"GO:0016567","count":5},{"id":"GO:1901187","count":5}]},{"hash":"276793408818792514","title":"Nuclear import and chromatin organization","description":"This cluster centers on nuclear processes: chromatin localization, ribosomal protein import into the nucleus, RNA polymerase II tethering at the nuclear periphery, and tRNA gene clustering, all pointing to nuclear transport and chromatin dynamics. A few terms about morphogenesis and viral processes are less connected, so the overall theme remains nuclear/chromatin-related.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":2},{"id":"GO:0070212","count":2},{"id":"GO:0006610","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0009959","count":1}]},{"hash":"211350351847285411","title":"Male Germ Cell Meiosis and Spermatogenesis","description":"The dominant signals are terms tied to male germ cell development, including meiosis (chromosome segregation, cytokinesis) and spermatid/spermatocyte differentiation, pointing to genes involved in spermatogenesis. Some translation-related and other terms appear as ancillary signals or annotation noise, but they do not override the spermatogenesis-focused theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007060","count":1},{"id":"GO:0002191","count":1},{"id":"GO:0045665","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1681451847484196892","title":"Oxidative Stress Response and Redox Homeostasis","description":"The most represented GO terms are related to redox biology: cellular response to hydrogen peroxide, response to alkyl hydroperoxide, and peptidyl-cysteine oxidation, along with redox homeostasis and erythrocyte homeostasis. These point to proteins involved in sensing and mitigating oxidative stress and maintaining cellular redox balance. The other terms (extracellular matrix organization, NK cell cytotoxicity, etc.) are less central but may reflect secondary roles or annotation overlap. Overall, the cluster appears to reflect oxidative stress response and redox regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0033195","count":1},{"id":"GO:0042267","count":1},{"id":"GO:0034101","count":1}]},{"hash":"361860021264876588","title":"DNA transposition and proviral latency","description":"The cluster is dominated by DNA mobility processes: DNA integration, retrotransposition, DNA transposition, and proviral latency, plus related viral entry concepts, indicating a unifying theme of genome/integration activity and host\u2013virus interactions. Some terms about symbionts or unrelated processes appear as noise, but the core pattern points to transposable elements and proviral latency.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0032197","count":3},{"id":"GO:0075732","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3}]},{"hash":"1203285614463282346","title":"Nuclear import/export and NPC assembly proteins","description":"The top GO terms cluster around nuclear transport activities\u2014import of ribosomal proteins, splicing factors, and mRNA export\u2014as well as nuclear pore complex assembly, pointing to a shared function in nuclear transport and NPC-related processes. Some terms are listed as obsolete, but the core theme remains nuclear trafficking and NPC assembly.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0035048","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0030953","count":1}]},{"hash":"2041105650136400101","title":"Actin Cytoskeleton Signaling in Morphogenesis","description":"GO terms point to actin cytoskeleton organization and small GTPase\u2013mediated signaling involved in morphogenesis (e.g., wing vein morphogenesis, imaginal disc-derived processes). While some terms touch vesicle trafficking and barrier regulation, the common thread appears to be cytoskeleton-driven signaling governing morphogenetic remodeling. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048563","count":1},{"id":"GO:0001845","count":1},{"id":"GO:0090334","count":1},{"id":"GO:0060396","count":1},{"id":"GO:0008586","count":1}]},{"hash":"2202625701687842635","title":"Unknown","description":"The GO terms in this cluster are highly diverse, spanning metabolism (glutathione biosynthesis, nucleotide biosynthesis, amino acid catabolic processes) and separate cellular events (mitochondrial cytochrome c release, cortical cell migration, histone acetylation, and ADP-ribosylation regulation). There is no clear, single function or pathway that ties these proteins together, and with no edges or interactions to support a cohesive role, a confident labeling is not possible.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:0006750","count":1},{"id":"GO:0001836","count":1},{"id":"GO:0006228","count":1},{"id":"GO:0006241","count":1}]},{"hash":"1777519219587364091","title":"Starch and Glucan Metabolism","description":"Most GO terms describe biosynthesis and breakdown of starch, glycogen, and related glucans (amylopectin, alpha-glucan, maltose, trehalose). An outlier term for chromatin remodeling is present, but the dominant pattern points to carbohydrate polymer metabolism, grouping proteins involved in starch/glucan synthesis and degradation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0043044","count":2},{"id":"GO:0010021","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0030979","count":2}]},{"hash":"280197021522099557","title":"Unknown","description":"The terms cluster into two weakly connected themes: telomere maintenance and chromatin/DNA repair (shelterin assembly, telomeric loop formation, DSB repair near telomeres) and plant development/hormonal responses (ethylene/abscisic acid responses, chlorophyll biosynthesis regulation, seed growth). There is no single cohesive function that ties all terms together, so a precise, unified label isn\u2019t evident.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0009723","count":2}]},{"hash":"1990029969222444301","title":"Far-Red Light Signaling and Circadian Regulation","description":"This cluster is dominated by GO terms for red/far-red light phototransduction and far-red light signaling, along with positive regulation of circadian rhythm, suggesting a cohesive theme of light perception driving circadian and signaling responses. Additional terms related to GPCR signaling and GTPase activity support a broader signaling module downstream of light perception. Some terms like behavioral fear response and cell migration are less directly connected, but the light-responsive and circadian terms provide a clear central theme. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0030845","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051497","count":2},{"id":"GO:0016477","count":2}]},{"hash":"2084577286834874569","title":"Reproductive Hormone Signaling","description":"The top GO terms are dominated by reproductive and hormonal processes (FSH signaling, primary ovarian follicle growth, Sertoli cell development, development of secondary male sexual characteristics) with GPCR and IP3 signaling pathways also represented, pointing to endocrine regulation of reproduction as the main theme. Some immune signaling terms (TLR pathways) appear but are less central to the cluster\u2019s core function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"1741233793201645296","title":"Starch and alpha-glucan metabolism and transport","description":"The cluster shows strong representation of starch and alpha-glucan biosynthetic and catabolic processes (starch, amylopectin, maltose, alpha-glucans) along with related sugar transport terms, indicating a cohesive theme around carbohydrate metabolism and sugar transport. Some transporter terms (xenobiotic transmembrane transport) are present but do not outweigh the carbohydrate-focused signals. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0010021","count":1},{"id":"GO:0005980","count":1},{"id":"GO:0030979","count":1}]},{"hash":"299303235175175640","title":"Developmental Signaling and Kinase Regulation","description":"The cluster shows enrichment for signaling-related GO terms (GTPase regulation, serine/threonine kinase activity, autophosphorylation, GPCR signaling) alongside developmental/differentiation processes (pigmentation, skin development) and broader cellular processes (mRNA transport, mitotic cell cycle). This suggests proteins that modulate signaling pathways involved in development and cell-cycle control, rather than a single cohesive pathway. ","confidence":"Medium","size":13,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0000742","count":2},{"id":"GO:0051028","count":2}]},{"hash":"912038885035207813","title":"Proteostasis and ER targeting","description":"This cluster is driven by terms related to protein folding quality control (unfolded protein response, chaperone-assisted refolding), SRP-dependent targeting to membranes, and stress response pathways, all pointing to a proteostasis/ER-associated protein maturation module. Some outlier terms (DNA replication, karyogamy) are present but do not define the core theme.","confidence":"Medium","size":13,"edges":29,"triangles":20,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034620","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0006616","count":3},{"id":"GO:0006880","count":3},{"id":"GO:1903751","count":3}]},{"hash":"2132498354689120554","title":"Neuronal GPCR\u2013cAMP Signaling","description":"Top GO terms cluster around GPCR signaling that activates PKC and adenylate cyclase, with responses to cAMP, plus neural processes like axonogenesis and visual perception. A secondary theme includes ubiquitination and immune signaling terms, but these are less central to the primary function. Therefore, a label capturing GPCR-driven signaling in neurons best represents the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0007190","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0071260","count":3}]},{"hash":"243636318135742670","title":"DNA Damage Response and Transport","description":"This cluster is enriched for DNA damage response and repair terms (SOS response, nucleotide-excision repair) along with metal/drug stress signals (mercury ion response, doxorubicin transport) and various transport and ribosome-related processes, suggesting a broad stress-adaptation module coupling DNA repair with transporter activity.","confidence":"Medium","size":13,"edges":35,"triangles":31,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3},{"id":"GO:0072089","count":3}]},{"hash":"123362007881517815","title":"RNA Pol II Transcription Initiation and Regulation","description":"The top GO terms are dominated by regulation of DNA-templated transcription and RNA polymerase II promoter\u2013related initiation (open complex formation, transcription initiation), indicating the proteins cluster around transcriptional control mechanisms. Additional terms hint at related stress responses and metabolism but are less central. ","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0001113","count":1},{"id":"GO:0006367","count":1}]},{"hash":"1923889009481627466","title":"Rab GTPase\u2013regulated endocytosis","description":"Proteins in this cluster are dominated by terms tied to Rab GTPase signaling and vesicle trafficking, including endocytic recycling, regulation of Rab signal transduction, regulation of GTPase activity, and synaptic vesicle endocytosis, suggesting a cohesive function in Rab-dependent endocytosis and vesicle cycling. The other GO terms (apoptosis, Pol II transcription) are less directly connected and may reflect broader regulatory roles or annotation noise. ","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":1},{"id":"GO:0032456","count":1},{"id":"GO:0032483","count":1},{"id":"GO:0043087","count":1},{"id":"GO:0035745","count":1}]},{"hash":"499815916924812178","title":"Unknown","description":"The top GO terms span diverse processes (translation, ER stress, mRNA decay, endosome protein localization, neuronal differentiation, glutamatergic synaptic regulation, bone resorption, and fungal cell-wall biosynthesis). There is no single, coherent function tying all proteins together; the terms reflect mixed cellular activities rather than a shared pathway. Therefore this cluster is best labeled Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1903206","count":4},{"id":"GO:0045453","count":4},{"id":"GO:0090334","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0000288","count":4}]},{"hash":"1106090841526968303","title":"Drosophila neural development and signaling","description":"The terms center on insect neural development (mushroom body development, axon guidance, axon extension/regeneration, intraciliary transport in cilium assembly) and on signaling pathways that regulate growth and cellular responses (GTPase activity, TOR signaling, amino acid response). This combination suggests a cohesive cluster of proteins involved in neural development and related signaling processes in Drosophila.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016319","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0032008","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0000186","count":1}]},{"hash":"2280926861537029707","title":"Golgi-ER Trafficking and Vesicle Secretion","description":"The terms are dominated by ER-Golgi transport, Golgi organization and vesicle-related processes (ER-Golgi transport, Golgi ribbon formation, vesicle fusion at the presynaptic zone, and protein localization to plasma membrane). The inclusion of autophagosome maturation and norepinephrine secretion aligns with membrane trafficking and regulated secretion pathways. Together, these terms point to a core function in intracellular vesicle trafficking through the Golgi/ER axis and subsequent secretion.","confidence":"High","size":13,"edges":36,"triangles":23,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":4},{"id":"GO:1903078","count":4},{"id":"GO:2000010","count":4},{"id":"GO:1903358","count":4},{"id":"GO:0031629","count":4}]},{"hash":"2080861533312656190","title":"Unknown","description":"Top GO terms span vision, brain development, biofilm formation, immune signaling, cardiac proliferation, apoptosis, spindle-kinetochore attachment, lung mesenchyme development, sodium transport, and ERBB signaling, showing no single cohesive function across the cluster; thus no specific representative label can be assigned beyond Unknown.","confidence":"","size":13,"edges":57,"triangles":143,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0071109","count":13},{"id":"GO:0090606","count":13},{"id":"GO:0032762","count":13},{"id":"GO:0060045","count":13}]},{"hash":"1858921390129754155","title":"Neuronal development and protein trafficking","description":"The cluster shows a mix of neuronal development signals (substantia nigra development, neuron migration, regulation of synaptic plasticity) and intracellular trafficking/processing terms (Golgi reassembly, protein targeting, protein export from nucleus, protein heterooligomerization), suggesting a core theme of neuronal maturation with coordinated protein handling; a few terms (keratinocyte differentiation, apoptotic signaling) are less connected but do not outweigh the primary pattern.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":2},{"id":"GO:0048167","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0021762","count":2}]},{"hash":"2257076931239713266","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0006458","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0006626","count":2}]},{"hash":"672299655499646627","title":"Nucleotide Salvage and Golgi Trafficking","description":"The cluster is enriched for nucleotide salvage (UMP, CMP, CTP) and coenzyme A biosynthesis, indicating nucleotide metabolism, alongside GO terms for ER-to-Golgi and endosome-to-Golgi transport and Golgi ribbon formation, suggesting a coupling between nucleotide metabolism and Golgi/ER trafficking. A minor signal for phosphorylation and synaptic potentiation may reflect broader signaling contexts but does not define the core theme.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":4},{"id":"GO:0044206","count":4},{"id":"GO:0006238","count":4},{"id":"GO:0016310","count":4},{"id":"GO:0044211","count":4}]},{"hash":"422908910057505655","title":"Unknown","description":"There are no GO terms or functional annotations provided for this cluster; with zero edges/triangles and no top terms, there is no observable shared function to anchor a label. As a result, the appropriate label is Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1463953848212649354","title":"Multisystem Developmental Signaling","description":"The GO terms cluster around development and differentiation across neural, cardiac, and vascular tissues, with core signaling processes (Wnt, intracellular signal transduction) and responses to mechanical cues, suggesting a general developmental signaling theme rather than a single pathway. Immune-related terms and an obsolete term appear less central, likely as noise.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0021707","count":10},{"id":"GO:0035556","count":10},{"id":"GO:1900383","count":10},{"id":"GO:0045083","count":10}]},{"hash":"1408552888504460335","title":"Embryonic organ morphogenesis and chromatin regulation","description":"The GO terms point to broad embryonic development across multiple organs (neural crest migration, pancreas and digestive tract morphogenesis, ureteric bud branching, peripheral nervous system development) and to chromatin-level control (chromatin remodeling, negative regulation of transcription by RNA Pol II, negative regulation of protein sumoylation). The combination suggests a general role in coordinating organ morphogenesis via chromatin dynamics rather than a single tissue-specific function.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":6},{"id":"GO:0001755","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0090190","count":4},{"id":"GO:0048557","count":4}]},{"hash":"1715315744058966761","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome assembly and function: ribosome biogenesis, small and large subunit biogenesis, cytoplasmic translation, export of ribosomal subunits from the nucleus, and tRNA modification. Additional terms for cell cycle and cell division/septum assembly suggest a link between ribosome production and cellular growth, supporting a coherent theme of ribosome biogenesis driving protein synthesis and cell proliferation. Some terms (stress response regulation, cellular fusion) are less central but do not contradict the main theme. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0002181","count":2}]},{"hash":"858583558800897623","title":"Autophagy and phagophore assembly","description":"This cluster is dominated by GO terms related to autophagy and phagophore assembly (autophagosome assembly, autophagy of mitochondrion, Cvt pathway targeting, phagophore assembly site localization, piecemeal autophagy of the nucleus), with additional vesicle-trafficking connections (ER to Golgi transport). The coherence around autophagy-related processes suggests a group of proteins functioning in autophagy and selective organelle turnover.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0045850","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0035096","count":1},{"id":"GO:1903955","count":1}]},{"hash":"688776073731901925","title":"Unknown","description":"The terms span diverse developmental and cell-cycle processes (eye morphogenesis, myeloid differentiation, cerebellar neuron differentiation, cell cycle regulation, adhesion, mechanical signaling) with several obsolete entries, and there are no reported edges or shared functions among the proteins; there isn't a coherent, single function uniting them.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000495","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0002318","count":1},{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1}]},{"hash":"432999534284705397","title":"Unknown","description":"The GO terms are a mix of immune signaling (TLR/MyD88), GPCR and calcium signaling, and diverse reproductive/endocrine development processes (Sertoli cell development, FSH signaling, ovarian follicle growth, secondary male sexual characteristics, thyrotropin-releasing hormone response). There is no clear, cohesive biological theme tying these proteins into a single function or pathway, and the network has no edges or triangles, suggesting the cluster may be compositionally diverse or noisy. Therefore no specific, representative label can be assigned with confidence.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"2166137067696401333","title":"Nuclear RNA Processing and Chromatin Regulation","description":"The terms include tRNA processing; intronic snoRNA processing; RNase MRP-dependent RNA catabolic process; chromosome condensation; and histone H4-K16 acetylation, plus a double-strand break repair term. Together they point to nuclear/nucleolar RNA maturation and chromatin-modifying activities that can influence genome organization and repair. The presence of positive regulation of macroautophagy and reproductive terms may reflect annotation noise or distant secondary roles, but the dominant signal is nuclear RNA processing with chromatin regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0034965","count":1},{"id":"GO:0090502","count":1}]},{"hash":"1024278882703180450","title":"Lysosome-Linked Glycan Processing and Capsule Biosynthesis","description":"The top GO terms cluster around lysosomal pathways (N-glycan processing to lysosome, lysosome organization, secretion of lysosomal enzymes) and polysaccharide biosynthesis/transport (capsule and cell wall polysaccharide biosynthesis, polysaccharide transport, UDP-galactose metabolism), suggesting a functional group involved in glycan processing related to lysosomal/secretory function and capsule biosynthesis. An immunoglobulin production term may reflect incidental overlap with immune-related glycosylation processes rather than a core function of the cluster.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016256","count":1},{"id":"GO:0007040","count":1},{"id":"GO:0046835","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0036108","count":1}]},{"hash":"974018541771967302","title":"DNA Damage Response and Transcription Regulation","description":"This cluster is enriched for terms tied to genome maintenance and control of transcription, including DNA-templated transcription, negative regulation of transcription by RNA polymerase II, nucleotide-excision repair, and the SOS response, suggesting a core theme around coordinating transcription with DNA repair and stress signaling. Some terms like mercury ion response and cellulose catabolic process may reflect multifunctional annotations or organism-specific contexts.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0030245","count":3},{"id":"GO:0060702","count":2},{"id":"GO:0046689","count":2}]},{"hash":"1486756033332033322","title":"Vacuolar amino acid transport","description":"This cluster is dominated by GO terms for import and export of multiple amino acids across the vacuolar membrane (e.g., serine, arginine, histidine, lysine, proline, asparagine, glutamine), indicating a cohesive group of vacuolar amino acid transport processes. A secondary term about transcription response to acidic pH is likely noise, and the potassium starvation term is less central to the core transport theme.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090516","count":1},{"id":"GO:2000487","count":1},{"id":"GO:0090518","count":1},{"id":"GO:0015824","count":1},{"id":"GO:0089708","count":1}]},{"hash":"1509357669814937948","title":"Reproductive Hormone Signaling and Gonad Development","description":"These proteins are chiefly linked to endocrine control of reproduction: FSH signaling, Sertoli cell development, primary ovarian follicle growth, and development of secondary sexual characteristics. The inclusion of thyrotropin-releasing hormone response adds a broader endocrine context. Innate immune signaling terms (TLR/MyD88) appear secondary, so the dominant theme is reproductive hormonal signaling and gonad development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":10},{"id":"GO:0002755","count":10},{"id":"GO:0007200","count":10},{"id":"GO:0032962","count":10},{"id":"GO:0034154","count":10}]},{"hash":"1805868349014189425","title":"Plant Telomere Maintenance and DNA Repair","description":"This cluster is characterized by GO terms tied to telomere biology and DNA repair (telomeric D-loop regulation, shelterin assembly, and general DNA repair), with additional plant-specific processes such as chlorophyll biosynthesis regulation and hormone responses, suggesting a plant telomere maintenance/dna repair role.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"1567692094924587812","title":"Unknown","description":"The top terms cover sporulation, metabolism, apoptosis, development (forebrain and cranial skeleton), transcription and chromatin remodeling, and mRNA processing, with no clear shared function across them. The diversity suggests no cohesive theme for a specific label.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":3},{"id":"GO:0045150","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1880302355460382505","title":"Gonadal development and reproductive hormone signaling","description":"The dominant GO terms center on reproductive biology\u2014Sertoli cell development, FSH signaling, primary ovarian follicle growth, and development of secondary male sexual characteristics\u2014alongside related endocrine responses (thyrotropin-releasing hormone). Immune signaling terms (TLR pathways) appear, but the cluster\u2019s strongest emphasis is on gonadal development and hormonal signaling, suggesting a reproductive-focused function.","confidence":"Medium","size":13,"edges":63,"triangles":175,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":13},{"id":"GO:0002755","count":13},{"id":"GO:0007200","count":13},{"id":"GO:0032962","count":13},{"id":"GO:0034154","count":13}]},{"hash":"411759007068964542","title":"Reproductive endocrine and immune signaling","description":"The top GO terms span reproductive development and hormone signaling (Sertoli cell development, primary ovarian follicle growth, development of secondary male sexual characteristics, FSH signaling, TRH response) as well as innate immune pathways (MyD88-dependent TLR signaling, TLR7 signaling) and GPCR/IP3 signaling. The absence of protein-protein interactions (Edges: 0) suggests these proteins may participate in distinct signaling processes that collectively highlight endocrine-reproductive regulation and immune sensing rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":13},{"id":"GO:0002755","count":13},{"id":"GO:0007200","count":13},{"id":"GO:0032962","count":13},{"id":"GO:0034154","count":13}]},{"hash":"624836676202554111","title":"Neural and vascular differentiation signaling","description":"The terms point to developmental signaling across neural and vascular tissues: cerebellar granule cell differentiation and synaptic plasticity regulation highlight neural differentiation and function, while venous endothelial differentiation, cardiac morphogenesis, and Wnt signaling point to broader developmental processes in other tissues. A few immune regulation and mechanotransduction terms are present but appear ancillary to the main theme of tissue differentiation via signaling pathways, suggesting a cohesive cluster of developmental signaling in neural and vascular contexts.","confidence":"Medium","size":13,"edges":17,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0045083","count":3}]},{"hash":"680637648952249028","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006458","count":1},{"id":"GO:0042098","count":1},{"id":"GO:1902991","count":1}]},{"hash":"1466822044436789476","title":"Chromatin remodeling and histone modification","description":"The top terms cluster around chromatin regulation, including chromatin remodeling (GO:0043044) and histone-related acetylation/regulation (GO:0043969, GO:0018076, GO:0010835, GO:0010742 touching on modification/regulation). Although some terms reference tissue-specific processes (uterus morphogenesis, uterine gland development) or metabolism, the dominant signal points to chromatin state control and associated post-translational modifications governing transcription. This makes chromatin modification a coherent, representative label for the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0060765","count":1}]},{"hash":"2131547877228296539","title":"Muscle Ca2+ handling and EC coupling","description":"The top GO terms cluster around skeletal/cardiac muscle function, especially Ca2+ transport and release (cytosol to ER, Golgi), T-tubule organization, membrane repolarization, and regulation of fast-twitch contraction. Together these describe excitation-contraction coupling and Ca2+-dependent contraction regulation in muscle cells, consistent with both skeletal and cardiac muscle processes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903416","count":1},{"id":"GO:0086009","count":1},{"id":"GO:0031448","count":1},{"id":"GO:0036376","count":1},{"id":"GO:0061092","count":1}]},{"hash":"744541571455252103","title":"Unknown","description":"The GO terms are scattered across oxidative stress response and detoxification (cellular response to oxidative stress, cellular oxidant detoxification, F420 metabolism) but also include unrelated processes (uracil catabolic process, TNT catabolic process, thyroid hormone generation, retinal neuron differentiation). With no clear shared function or pathway linking these terms and no network connectivity, there isn\u2019t a coherent theme to name the cluster. Unknown with None.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":1},{"id":"GO:0006212","count":1},{"id":"GO:0055114","count":1},{"id":"GO:2001039","count":1},{"id":"GO:0052645","count":1}]},{"hash":"1198783541665471931","title":"Multi-tissue differentiation and development","description":"The GO terms point to differentiation and development across multiple tissues (neural structures like cerebellar granule cells and midbrain morphogenesis; immune lineage differentiation such as T cell and pro-B cell differentiation), with supporting signaling and metabolic processes (Ral signaling, phosphatidylinositol catabolism). The terms are quite diverse and do not map to a single cohesive pathway, so a broad label reflecting cross-tissue differentiation is most representative.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":1},{"id":"GO:0034242","count":1},{"id":"GO:0032485","count":1},{"id":"GO:1904693","count":1},{"id":"GO:1902634","count":1}]},{"hash":"2088993715047311314","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":1},{"id":"GO:1990180","count":1},{"id":"GO:0001680","count":1},{"id":"GO:0042245","count":1},{"id":"GO:0034087","count":1}]},{"hash":"1438779011236509350","title":"Sphingolipid metabolism and ceramide regulation","description":"The cluster's GO terms cluster around ceramide metabolism, regulation of ceramide biosynthesis, and intracellular sphingolipid homeostasis, with a note on unfolded protein response suggesting ER stress involvement. The core theme is sphingolipid biology and ceramide control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900060","count":1},{"id":"GO:0090156","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0006672","count":1}]},{"hash":"818764668688376469","title":"Nuclear transport and mitotic membrane reassembly","description":"The cluster\u2019s GO terms center on nucleus-related processes: ribosomal protein import into the nucleus, nuclear pore complex assembly, and mitotic nuclear membrane reassembly. While a few terms (TORC1 signaling, ciliary docking, viral process, STAT dephosphorylation) are broader or less directly related, the dominant theme is nuclear transport and envelope dynamics during cell division, suggesting proteins linked to nucleus integrity and mitosis. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":1},{"id":"GO:0038202","count":1},{"id":"GO:0051292","count":1},{"id":"GO:0000060","count":1},{"id":"GO:0097711","count":1}]},{"hash":"527607898719404417","title":"Plant Telomere Maintenance and Genome Stability","description":"The top GO terms are dominated by telomere-related processes, including shelterin complex assembly, telomeric loop formation, and repair mechanisms at chromosome ends, suggesting a cohesive theme around telomere maintenance and genome stability in plants. A few terms related to chlorophyll regulation and seed growth point to broader plant growth/stress contexts but do not override the central telomere-focused signal.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"436083746291044642","title":"Plant telomere maintenance and chromatin regulation","description":"The top GO terms point to core telomere biology\u2014shelterin complex assembly, telomeric loop formation, RNA localization to telomeres, and replication-associated D-loop repair\u2014indicating a primary function in telomere maintenance and chromatin context. Some plant-specific terms (chlorophyll biosynthesis regulation, seed growth, stress hormone responses) likely reflect broader developmental and stress-related regulation in the nucleus, but the dominant theme remains telomere biology in a plant context.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"1200746527629038706","title":"Signaling Pathways and Tissue Differentiation","description":"The cluster shows enrichment for intracellular signal transduction and Wnt signaling, plus several differentiation-related terms (granule cell differentiation, venous endothelial differentiation, cardiac right atrium morphogenesis), as well as synaptic regulation. This pattern suggests proteins involved in signaling cascades that influence development across multiple tissues, rather than a single specific function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5},{"id":"GO:0045083","count":5}]},{"hash":"1826650468983339293","title":"Vesicle-Mediated Secretion and Membrane Transport","description":"This cluster is dominated by GO terms related to secretion and transport across membranes\u2014protein secretion, vesicle-mediated transport, and export of ions or amino acids across the plasma membrane\u2014pointing to secretory and membrane-transport functions. Some terms are unrelated or obsolete noise (e.g., centrosome separation, cytokine induction), but the core theme centers on secretory pathways and membrane transport.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009306","count":1},{"id":"GO:0016192","count":1},{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1}]},{"hash":"1378698168222452810","title":"Vacuolar Proton Transport and Acidification","description":"This cluster is best characterized by GO terms for proton transmembrane transport and vacuolar acidification, pointing to a shared role in proton pumping and pH regulation within vacuoles. Other terms (oxygen transport, stress response, protein repair) are only single instances and do not define a cohesive function, and there are no inter-protein connections, so the label focuses on the strongest, most common theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015671","count":1},{"id":"GO:0006950","count":1},{"id":"GO:0030091","count":1},{"id":"GO:0007035","count":1},{"id":"GO:1902600","count":1}]},{"hash":"1064966074299909671","title":"Nuclear transcription and genome organization","description":"This cluster combines GO terms tied to transcription initiation and preinitiation complex assembly with multiple nuclear architecture and genome organization terms (nuclear envelope organization, telomere tethering, nuclear matrix anchoring, chromosome pairing), suggesting proteins that participate in both transcriptional regulation and maintenance of nuclear structure and genome organization. The connection is broad but coherent around nuclear functions.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006352","count":1},{"id":"GO:0051090","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0007221","count":1},{"id":"GO:0043966","count":1}]},{"hash":"1510525011957311369","title":"Phosphorylation and ubiquitin-regulated signaling","description":"This cluster is dominated by terms tied to phosphorylation and kinase regulation (positive regulation of protein serine/threonine kinase activity and positive regulation of protein autophosphorylation) along with ubiquitin ligase activity and SCF-dependent proteasomal degradation, pointing to a theme of tightly controlled protein signaling and turnover. Some included terms also touch on mRNA transport, neuron projection development, and cell cycle/hypoxia responses, suggesting broader roles in development and cellular regulation, but the core signal appears to be phosphorylation-driven signaling modulated by ubiquitination. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0071902","count":4},{"id":"GO:0031954","count":4}]},{"hash":"269277789133916627","title":"Unknown","description":"The terms span very different biological contexts\u2014from mechanosensing and neural differentiation to heart development, endothelial differentiation, and inflammatory signaling\u2014with no dominant shared function or pathway. The cluster has no edges or shared connections, so there is no cohesive theme to name it beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1134189125324083982","title":"Unknown","description":"The top GO terms in this cluster cover highly diverse processes (immune signaling, Wnt signaling, adipogenesis, vasopressin secretion, SNARE regulation, NOD2 signaling, ubiquitination, cardiac conduction), with no single cohesive biological function tying the proteins together. They appear to be regulators across multiple pathways rather than a shared, specific function.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":7},{"id":"GO:0016055","count":7},{"id":"GO:1904743","count":7},{"id":"GO:0045444","count":7},{"id":"GO:0030103","count":7}]},{"hash":"1014562360603204298","title":"Unknown","description":"The terms span transcription, nuclear transport, neural/visual development, immune signaling, cardiac and lung development, cell division, and even microbial biofilm formation, with no single dominant function tying them together. This diversity suggests either annotation noise or multi-function proteins rather than a cohesive cluster theme, so a specific label is not supported.","confidence":"","size":12,"edges":13,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0007601","count":6},{"id":"GO:0071109","count":6},{"id":"GO:0090606","count":6}]},{"hash":"896009165424919001","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":24,"triangles":35,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0000463","count":7},{"id":"GO:0000480","count":7},{"id":"GO:0000398","count":7}]},{"hash":"1617079038253721442","title":"Unknown","description":"The terms span neural differentiation and synaptic modulation, various signaling pathways (including Wnt and intracellular signaling), mechanotransduction, immune regulation, and vascular/immune cell processes. There isn\u2019t a clear, single biological function tying the proteins together, so an Unknown label is most appropriate.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"1588790939693583846","title":"Multisystem differentiation and development","description":"The top GO terms cluster around differentiation and development across multiple tissues (cardiac and vascular lineages, neural development, inner ear and hepatocyte differentiation, renal fibroblast development). Only a single term relates to DNA repair, suggesting the shared signal is tissue differentiation rather than a single biochemical process. Therefore, a label focusing on multisystem differentiation best reflects the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006302","count":1},{"id":"GO:0003266","count":1},{"id":"GO:0061103","count":1},{"id":"GO:0072141","count":1},{"id":"GO:0045609","count":1}]},{"hash":"812273001848280043","title":"Unknown","description":"There is no shared functional signal: zero edges/triangles and no GO terms to summarize, despite 12 proteins being listed and 20 re-added by ReCIPE. Without a common function or interaction pattern, a meaningful label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"331193974491163869","title":"Chromatin remodeling and histone acetylation","description":"The cluster is characterized by GO terms centered on chromatin remodeling and histone modification, including chromatin remodeling, histone H2B acetylation, and N-terminal acetylation of lysines. While other terms (tissue development and metabolism) appear, the strongest and most frequent signals relate to chromatin modification and regulation of transcription, suggesting a cohesive theme around chromatin state control.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":5},{"id":"GO:0043969","count":4},{"id":"GO:0010835","count":4},{"id":"GO:0018076","count":4},{"id":"GO:0061038","count":4}]},{"hash":"1557938559661589355","title":"Unknown","description":"Top terms are empty and there are no edges or shared GO annotations to indicate a common function, so there is no clear functional theme to group these proteins.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"106160379633136961","title":"Endosomal trafficking and neuronal signaling","description":"This cluster centers on proteins involved in endosomal localization and modulation of neuronal signaling, especially glutamatergic synaptic transmission, with implications for neural development (neural tube patterning, EMT). The presence of Ras signaling and membrane trafficking terms (membrane addition at cytokinesis) suggests roles in membrane dynamics that shape signaling pathways.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":12},{"id":"GO:0036010","count":12},{"id":"GO:0007119","count":12},{"id":"GO:0060684","count":12},{"id":"GO:0021532","count":12}]},{"hash":"60170098054932021","title":"Neural development and glutamatergic signaling","description":"Top GO terms cluster around nervous system development and neurotransmission, notably neural tube patterning and regulation of glutamatergic synaptic transmission, which together point to neuronal development and signaling. Endosome localization and epithelial\u2013mesenchymal signaling hint at intracellular trafficking and developmental communication that support neural functions. A few terms (intron homing, general stress responses) are less directly connected but do not overshadow the neural theme. Overall, the cluster is best described as neural development and glutamatergic signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1},{"id":"GO:0060684","count":1}]},{"hash":"418500364866433782","title":"Endosome trafficking and synaptic vesicle exocytosis","description":"This cluster is enriched for terms tied to endosome localization, regulation of synaptic vesicle exocytosis, and glutamatergic transmission, pointing to a shared function in vesicle trafficking and neurotransmitter release. A few terms concerning brain development and neural patterning may reflect broader developmental roles or cross-species annotations, but the dominant signal centers on endosome/vesicle dynamics.","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0051966","count":1}]},{"hash":"1290814708453681447","title":"Translation and ribosome biogenesis with vesicle trafficking","description":"This cluster shows multiple GO terms tied to protein synthesis and ribosome assembly (cytoplasmic translation, ribosomal small subunit biogenesis, ribosomal large subunit export) alongside vesicle trafficking signals (synaptic vesicle budding) and membrane-associated signaling (small GTPase-mediated signal transduction). While some terms touch on polarity, division, or apoptosis, the strongest shared theme is translation/ribosome biogenesis with components of vesicle trafficking, suggesting a core function in protein production and processing. ","confidence":"Medium","size":12,"edges":19,"triangles":6,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0090162","count":5},{"id":"GO:0035641","count":4},{"id":"GO:0033028","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0051301","count":4}]},{"hash":"93297324169219854","title":"RNA metabolism and translation regulation","description":"The terms cluster around mRNA export, stability, and processing (mRNA export from nucleus; regulation of mRNA stability; mRNA stabilization; regulation of mRNA polyadenylation), as well as ribosome biogenesis and translation initiation/termination (small-subunit processome assembly; viral translational initiation/termination). These collectively point to RNA processing and control of translation. A couple of terms about dynein arm assembly and spermatid development are outliers and may reflect multifunctional proteins or annotation noise, but they do not dominate the set. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000574","count":1},{"id":"GO:0036159","count":1},{"id":"GO:0007286","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1}]},{"hash":"1776885167556838938","title":"Renin-Angiotensin GPCR Signaling","description":"The provided GO terms cluster around the renin-angiotensin system (renin secretion, regulation of renal output by angiotensin, brain renin-angiotensin system) and GPCR-mediated signaling pathways (phospholipase C activation, IP3 biosynthesis), with additional hints toward ciliary-related signaling (cilium assembly, Smoothened pathway). This suggests a cohesive theme of renin-angiotensin regulation intertwined with GPCR signaling and ciliary signaling components, potentially reflecting renal/vascular physiology.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002001","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0002019","count":1},{"id":"GO:0002035","count":1}]},{"hash":"1004276479697334750","title":"Ephrin signaling in neural development and synaptic plasticity","description":"This cluster is driven by ephrin receptor signaling and neural-related terms, including learning, regulation of glutamatergic synaptic transmission, and synapse structural plasticity, with neural tube patterning reinforcing a developmental theme. Additional terms on endosome localization and epithelial-mesenchymal signaling, plus endothelial lumen extension, suggest coordinated receptor trafficking and developmental remodeling that can span both neural and vascular contexts. Overall, the cluster centers on ephrin-driven neural development and synaptic plasticity, with vascular-associated signals reflecting broader developmental coordination.","confidence":"High","size":12,"edges":15,"triangles":2,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0048013","count":4},{"id":"GO:0097498","count":4},{"id":"GO:0051835","count":4},{"id":"GO:0007612","count":4},{"id":"GO:0051966","count":3}]},{"hash":"2269024208298970808","title":"Unknown","description":"The terms span iron homeostasis, proteolysis, cell proliferation in multiple tissues, development in plants and fungi, and specific biosynthetic processes, with no single dominant function tying the proteins together. The cluster shows no edges or interactions, indicating a highly heterogeneous set of annotations rather than a cohesive pathway, so there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006879","count":1},{"id":"GO:0007039","count":1},{"id":"GO:0042098","count":1},{"id":"GO:0098707","count":1},{"id":"GO:0010081","count":1}]},{"hash":"2237002663453254918","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by terms related to ribosome assembly and function, including ribosome biogenesis (and its subunits), cytoplasmic translation, and export of the large subunit from the nucleus. Additional terms about ER inheritance and cell division/MCO suggest coordination of ribosome production with cell growth, but the strongest signal is ribosome assembly and protein synthesis.","confidence":"High","size":12,"edges":26,"triangles":19,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0042254","count":2},{"id":"GO:1901001","count":2}]},{"hash":"995927343120922562","title":"Mitotic Cell Cycle Regulation","description":"The top GO terms are dominated by cell division, mitotic cell cycle phase transitions, cell cycle, and regulation of CDK activity, indicating a coherent theme of cell cycle control and cell proliferation. Some terms touch transcriptional regulation and developmental morphogenesis, which can accompany cell cycle events, but the core signal is mitotic regulation and proliferation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0044772","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0045737","count":1}]},{"hash":"1337065779362549127","title":"Endocrine GPCR Hormone Signaling","description":"This cluster is dominated by GO terms tied to G protein\u2013coupled receptor signaling in the context of reproductive hormones (LH/FSH signaling, TRH response, PLC and adenylate cyclase activation) and related developmental processes (uterus development, secondary sexual characteristics). The convergence on GPCR-mediated signal transduction and hormonal pathways suggests a cohesive theme of endocrine signaling in reproduction rather than other pathways.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905229","count":2},{"id":"GO:0007190","count":2},{"id":"GO:0071373","count":2},{"id":"GO:0034158","count":2},{"id":"GO:0010738","count":2}]},{"hash":"383120852875552458","title":"Unknown","description":"The GO terms are scattered across prostaglandin metabolism, lymphangiogenesis, lung development, cell\u2013cell adhesion, DNA repair, transcription regulation, endosome size regulation, and Rho signaling, showing no single cohesive function or theme for the proteins in this cluster. This suggests the proteins do not share a common, well-defined role beyond general cellular regulation.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006693","count":1},{"id":"GO:0051272","count":1},{"id":"GO:0016337","count":1},{"id":"GO:0001946","count":1},{"id":"GO:2000045","count":1}]},{"hash":"424345917569592762","title":"Neurodevelopment and synaptic signaling","description":"Top terms point to neural differentiation (oligodendrocyte and cerebellar granule cell differentiation) and neuronal signaling (intracellular signal transduction, regulation of synaptic plasticity via receptor localization), with a supporting role for the Wnt pathway; while a few terms relate to non-neural processes, the enrichment in neural development and synaptic signaling suggests the cluster primarily reflects neurodevelopmental signaling functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1}]},{"hash":"1716075851277572747","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000447","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000465","count":1},{"id":"GO:0000463","count":1}]},{"hash":"1643065663588732668","title":"Telomere maintenance and shelterin regulation","description":"This cluster is best captured by telomere dynamics: several top terms describe shelterin complex assembly, telomeric loop formation, and regulation of D-loop disassembly, pointing to chromosome end protection and telomere maintenance. Additional terms touch on genome stability (DSB repair via sister chromatid exchange) and chromatin regulation (histone acetylation), with some plant-specific growth/hormone terms that may reflect broader regulatory roles in plants. Overall, the core theme is telomere maintenance and shelterin/chromatin regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0009723","count":2}]},{"hash":"673629150255998545","title":"Plant shoot development and stem cell maintenance","description":"This cluster is anchored by GO terms for plant shoot system development and stem cell population maintenance, suggesting a module governing shoot tissue formation and stem cell upkeep; the telomere maintenance term provides a supplementary hint toward cellular aging/regulation aspects but does not outweigh the core developmental theme.","confidence":"Medium","size":12,"edges":33,"triangles":31,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048367","count":1},{"id":"GO:0032211","count":1},{"id":"GO:0019827","count":1}]},{"hash":"1261214437598608851","title":"Biosynthesis and gene expression","description":"The top GO terms cluster around biosynthetic processes for vitamins and antibiotics (menaquinone, cobalamin, biotin, antibiotic biosynthesis) and core gene expression activities (RNA guanine-N7-methylation, transcription, DNA-templated transcription, cell division). A few stress/response terms (xenobiotic stimulus, TGF-beta stimulus) appear but are less central. This suggests a loosely connected group involved in small-molecule biosynthesis and basic regulation of gene expression, hence a label that combines biosynthesis with transcriptional activity.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0071560","count":2},{"id":"GO:0046549","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0009236","count":2}]},{"hash":"522238000211562192","title":"Developmental signaling and neural differentiation","description":"This cluster\u2019s top GO terms center on signaling pathways (Wnt signaling; intracellular signal transduction) and differentiation/development (cerebellar granule cell differentiation; venous endothelial/endocardial morphogenesis), with several neural and vascular development signals. While a few terms are peripheral (immune regulation; telomere-related), the common theme ties to developmental signaling and differentiation, suggesting proteins involved in growth and neural development processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5},{"id":"GO:0045083","count":5}]},{"hash":"945810178382642005","title":"DNA Repair and Telomere Maintenance","description":"The top GO terms cluster around DNA double-strand break repair by homologous recombination, telomere maintenance, and regulation of sister chromatid cohesion and mitotic progression, all core elements of genome stability. Also present are processes like protein sumoylation and cellular senescence, indicating regulatory control of DNA repair and cell cycle in response to damage. A few terms, such as cytokinin signaling and germ-line stem-cell niche homeostasis, may reflect broader regulatory networks but do not override the central theme of genome integrity. Overall, this cluster likely represents proteins coordinating DNA damage response, chromosome maintenance, and cell-cycle regulation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0045842","count":1},{"id":"GO:0060250","count":1},{"id":"GO:1990683","count":1}]},{"hash":"2122923872780199403","title":"Plant Growth Signaling and Telomere Maintenance","description":"The terms show clear plant hormone signaling (cytokinin, ethylene, ABA) tied to growth responses, while others point to genome integrity at telomeres (shelterin assembly, D-loop regulation) and DNA repair. The combination suggests a functional link between developmental signaling and chromosome maintenance in plants, complemented by development-related processes like chlorophyll regulation and seed growth.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0009736","count":6},{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4}]},{"hash":"1283025347267359610","title":"DNA Replication and Mitosis Checkpoints","description":"The top GO terms point to nuclear DNA replication, cell cycle progression, and checkpoint signaling (e.g., DNA replication checkpoint signaling, mitotic intra-S DNA damage checkpoint signaling, regulation of nuclear cell cycle DNA replication), plus sister chromatid cohesion and replication fork arrest, with septin ring organization linked to mitosis. This collection suggests a cohesive theme of coordinating replication with mitosis and chromosomal stability, justifying a label centered on DNA replication and mitotic checkpoints.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0034087","count":1},{"id":"GO:0000076","count":1},{"id":"GO:0048478","count":1},{"id":"GO:0043111","count":1}]},{"hash":"338018017550490203","title":"DNA damage response and transcription regulators","description":"This cluster is dominated by GO terms for regulation of DNA-templated transcription, DNA-templated transcription, SOS response, and nucleotide-excision repair, pointing to a core theme of DNA damage response and transcription control. Some terms (intracellular protein transport, COPII cargo loading, morphogenesis) appear as outliers and may reflect annotation noise or multi-function proteins. With no edges connecting the proteins, the shared function is best interpreted as DNA damage response and transcription regulation rather than a single transport or developmental pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0019538","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0009432","count":1},{"id":"GO:0030420","count":1}]},{"hash":"1245890614818106182","title":"Unknown","description":"The enriched GO terms span glycosylation, ribosome assembly, cilium movement, vesicle transport, tRNA biosynthesis, and developmental processes (endoderm, mesoderm, ossification), showing no single cohesive function or pathway linking the proteins. Without a clear shared theme, a specific label is not supported.","confidence":"","size":12,"edges":23,"triangles":12,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":3},{"id":"GO:1990048","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0031412","count":1}]},{"hash":"100766029487505244","title":"Larval cuticle glycosylation","description":"The two GO terms point to O-linked glycosylation (including O-GlcNAc) and mannose-linked glycosylation, while the larval chitin-based cuticle development term suggests involvement in larval cuticle formation. Together, they indicate a cluster of proteins modified by glycosylation in the context of larval cuticle development.","confidence":"Medium","size":12,"edges":17,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0008363","count":2}]},{"hash":"1481604599383898896","title":"Capsule and cell wall polysaccharide biosynthesis","description":"This cluster is characterized by GO terms related to the biosynthesis and transport of surface polysaccharides, including capsule polysaccharide biosynthesis, teichoic acid biosynthesis, and cell wall polysaccharide biosynthesis, as well as UDP-galactose metabolism and related glycosylation processes. The combination of capsule, teichoic/cell wall polysaccharide pathways, and polysaccharide transport points to proteins working together to assemble and organize bacterial surface glycans and cell wall components.","confidence":"High","size":12,"edges":14,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0036108","count":2},{"id":"GO:0045227","count":2},{"id":"GO:0015774","count":2},{"id":"GO:0070592","count":2},{"id":"GO:0052573","count":2}]},{"hash":"1321502477578214724","title":"Gonadotropin Signaling and Reproductive Development","description":"The cluster is dominated by GO terms tied to reproductive hormone signaling, including LH and FSH pathways and related GPCR\u2013cAMP/PLC signaling, along with uterus development and sexual characteristic development, indicating a cohesive theme around reproductive endocrine signaling and development. An outlier item (TLR8 signaling) is present but does not override the core reproductive signaling pattern.","confidence":"High","size":12,"edges":33,"triangles":37,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0071373","count":12},{"id":"GO:0034158","count":12},{"id":"GO:0010738","count":12}]},{"hash":"458443809961070578","title":"Reproductive Hormone Signaling and Development","description":"Based on the prominent GO terms, the cluster centers on endocrine regulation of reproduction, with emphasis on FSH signaling, Sertoli cell development, ovarian follicle growth, and sexual characteristic development, suggesting a cohesive role in reproductive hormone signaling. Immune-related and calcium/IP3 signaling terms appear but are less central to the cluster\u2019s main theme. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":12},{"id":"GO:0002755","count":12},{"id":"GO:0007200","count":12},{"id":"GO:0032962","count":12},{"id":"GO:0034154","count":12}]},{"hash":"2277388090568899408","title":"Developmental signaling and differentiation","description":"This cluster contains GO terms spanning neuronal differentiation, cardiac and endothelial development, myeloid apoptosis, and general signaling (Wnt, intracellular signal transduction) as well as activity-related processes like synaptic plasticity regulation. The terms point to broad involvement in development and signaling rather than a single cohesive function, suggesting a label centered on developmental signaling and differentiation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"2009888281474118092","title":"GPCR Hormone Signaling and Reproductive Development","description":"The terms cluster around GPCR-mediated hormone signaling, including activation of adenylate cyclase and PLC pathways, with LH and FSH signaling, TSH-related responses, and developmental aspects like uterus development and secondary sexual characteristics, pointing to a cohesive endocrine signaling module; one outlier (TLR8 signaling) does not negate the overall theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":10},{"id":"GO:0007190","count":10},{"id":"GO:0071373","count":10},{"id":"GO:0034158","count":10},{"id":"GO:0010738","count":10}]},{"hash":"965146068729402702","title":"Ciliary transport and ciliogenesis proteins","description":"The top GO terms are centered on intraciliary transport, cilium assembly, and localization to cilium and centrosome, indicating a group of proteins involved in ciliogenesis and ciliary function. Additional terms for Golgi/plasma membrane localization and ciliary signaling (Smoothened, Wnt) suggest involvement in ciliary signaling pathways affecting neural precursor proliferation and cardiac differentiation. Overall, the cluster appears to represent ciliary assembly/transport with centrosomal localization.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042073","count":1},{"id":"GO:0055007","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0061512","count":1},{"id":"GO:0034067","count":1}]},{"hash":"840324624417862714","title":"Unknown","description":"The top GO terms cover glycosylation, multiple membrane transport processes, development, and stress response without a single cohesive function linking the proteins. With no edges and a mixed term set, there isn\u2019t a clear common theme to name the cluster definitively. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0071996","count":1},{"id":"GO:0060702","count":1}]},{"hash":"1514801776268169252","title":"Unknown","description":"The top GO terms span mechanotransduction, neurodevelopment, immune regulation, and vascular/cardiac differentiation, with no single unifying function evident across all proteins.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"26077108552427006","title":"Innate immune signaling and calcium-mediated exocytosis","description":"The prominent GO terms center on toll-like receptor signaling (MyD88-dependent and TLR7), cytokine production, and calcium-related signaling pathways (positive regulation of calcium-ion dependent exocytosis, IP3 biosynthesis, GPCR signaling), suggesting a module focused on innate immune responses with calcium-driven vesicle trafficking. Other terms related to protein transport and endocytosis fit within this trafficking context, while Sertoli and osteoclast differentiation terms are less central to the core theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":1},{"id":"GO:0050715","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0045806","count":1},{"id":"GO:0045670","count":1}]},{"hash":"1277273458009657288","title":"Plant telomere maintenance and chromatin remodeling","description":"The top terms are centered on telomere biology (D-loop disassembly, shelterin assembly, RNA localization to telomeres) and chromatin dynamics (chromatin remodeling, histone acetylation), suggesting a shared role in maintaining chromosome ends via chromatin state. The presence of plant hormone responses (ethylene, abscisic acid) and chlorophyll biosynthesis regulation implies a plant-specific regulatory context where telomere/chromatin processes intersect with stress or development signals.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":7,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":12},{"id":"GO:1905839","count":12},{"id":"GO:1904792","count":12},{"id":"GO:0010380","count":12},{"id":"GO:0009723","count":12}]},{"hash":"748002200037424311","title":"Muscle development and energy metabolism","description":"The top terms point to muscle/diaphragm function and cardiac development (diaphragm contraction, heart morphogenesis, neuromuscular process) along with energy metabolism (glucose response, glycogen regulation, cellular respiration). This suggests a theme of muscle-related development combined with metabolic regulation, with some terms (N-glycan processing, fungal beta-glucan biosynthesis) likely reflecting annotation noise rather than core cluster function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0043181","count":1},{"id":"GO:0000023","count":1},{"id":"GO:0050884","count":1}]},{"hash":"19930930778063643","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0031000","count":1},{"id":"GO:0006210","count":1}]},{"hash":"445394782484452200","title":"G1/S cell cycle transcription","description":"The sole GO term points to transcription regulation during the G1/S transition of the mitotic cell cycle (though obsolete), suggesting a possible link to cell-cycle\u2013related transcription control. Given the single, outdated annotation and no network edges, the evidence is weak, so this label is a cautious, potential theme rather than a definitive function.","confidence":"Low","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"77657387551381214","title":"Cellular morphogenesis and membrane trafficking","description":"The terms cluster around developmental morphogenesis (spermatid development, dendrite morphogenesis, epithelial\u2013mesenchymal signaling) and membrane dynamics (endosome localization, filopodium assembly, lipophagy), plus growth-related processes. This suggests a theme of cellular shape remodeling, protrusion formation, and vesicle trafficking rather than a single specific pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0061724","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0090334","count":1}]},{"hash":"1405150918787250933","title":"NF-kappaB regulation and RNA processing","description":"This cluster\u2019s top GO terms cluster around transcriptional control and RNA metabolism: regulation of NF-kappaB activity, mRNA processing, and regulation of mRNA stability. There are also signals related to responses to chemical stimuli (salicylic acid) and pain sensing, suggesting a broader stress/inflammatory signaling context. The strongest cohesive theme is gene expression regulation and RNA processing, with supportive hints of signaling involved in cellular stress responses, hence the label NF-kappaB regulation and RNA processing.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0010650","count":3},{"id":"GO:0071446","count":3},{"id":"GO:0072660","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1581161018935932562","title":"Unknown","description":"There are no GO terms provided (Top Terms are empty) and the cluster has no connections (Edges 0, Triangles 0, Max Degree 0), so there is no discernible common function to group the proteins. Without functional terms to tie them together, the safe label is Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2299155692571626322","title":"Centriole, centrosome, and cilium assembly","description":"The terms cluster around centriole replication/elongation, spindle pole/centrosome duplication, microtubule polymerization, and both motile/non-mile cilium assembly, with Hedgehog signaling linked to ciliary function. This points to a cohesive theme of centrosome/cilium biogenesis and mitotic spindle organization. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":2},{"id":"GO:0046599","count":1},{"id":"GO:0007099","count":1},{"id":"GO:1903087","count":1},{"id":"GO:0061511","count":1}]},{"hash":"1390166240342319902","title":"Unknown","description":"The top GO terms cover a mix of neural signaling (negative regulation of SNARE complex assembly; cerebellar granule cell differentiation; regulation of synaptic plasticity by receptor localization to synapse), signal transduction (intracellular signaling; Wnt pathway), and unrelated processes (immune IL-12 regulation, myeloid apoptosis, cardiac morphogenesis, telomere regulation). There isn\u2019t a single cohesive biological theme tying these proteins together, so a specific, representative label isn\u2019t apparent.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2}]},{"hash":"1220207836722182091","title":"PNS Myelination and Neural Development","description":"Dominant GO terms point to nervous system biology, especially myelination in the peripheral nervous system and sphingomyelin catabolism, which are central to myelin membrane formation. Additional signals like cell adhesion and neural development/response to neural activity support a developmental neural context; some cell-cycle terms may be incidental. Overall, the cluster most plausibly reflects PNS myelination and neural development.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":11},{"id":"GO:0007498","count":11},{"id":"GO:0005979","count":11},{"id":"GO:0006685","count":11},{"id":"GO:0043278","count":11}]},{"hash":"1799681273953057590","title":"Neural and Muscle Development with Cell-Cycle Regulation","description":"The cluster centers on processes related to neural and muscle lineage development (visual perception, axonogenesis, Schwann cell development, myoblast fusion, response to muscle activity) and cell-cycle control (mitotic cell cycle, G2/M transition). The combination suggests proteins involved in coordinating nerve and muscle development with cell division and signaling; note that abscisic acid signaling likely reflects annotation noise rather than a true plant-specific pathway.","confidence":"Medium","size":11,"edges":41,"triangles":82,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0007520","count":7},{"id":"GO:0014044","count":7},{"id":"GO:0010800","count":7}]},{"hash":"1092247603107075208","title":"Oxidative stress response and protein quality control","description":"The cluster shows strong enrichment for redox homeostasis, oxidative stress response, and detoxification, plus unfolded protein response and membrane-targeting processes, pointing to a theme of managing oxidative damage and ensuring proper protein folding/trafficking.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1635648152834032867","title":"Calcium signaling in Schwann cell development","description":"This cluster is dominated by GO terms related to peripheral nervous system myelination and Schwann cell development, plus calcium-signaling processes such as the calcineurin-NFAT cascade and regulation of postsynaptic calcium concentration. The presence of skeletal muscle fiber development also supports a broader calcium-dependent signaling theme in neural and muscular contexts. A few terms are obsolete or less coherent with the core theme (e.g., ascospore formation), suggesting some noise, but the core signal points to Schwann cell\u2013mediated myelination linked to calcium signaling.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022011","count":11},{"id":"GO:0014044","count":11},{"id":"GO:0033173","count":11},{"id":"GO:0060316","count":11},{"id":"GO:0007114","count":11}]},{"hash":"1685596973318893597","title":"Unknown","description":"The GO terms cover vastly different biology (reproduction, transcription, vision, brain development, biofilm formation, immune signaling, heart growth, apoptosis, and mitotic spindle attachment), with little unifying function. This makes it unclear to assign a specific, representative label for the cluster.","confidence":"","size":11,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048240","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0032092","count":6},{"id":"GO:0007601","count":5},{"id":"GO:0071109","count":5}]},{"hash":"2249380909124925005","title":"Broad Signaling Pathways and Neural Plasticity","description":"The terms emphasize intracellular signal transduction and GPCR-related signaling, along with neural differentiation and synaptic plasticity regulation, suggesting a core theme around signaling networks that influence neural plasticity, despite peripheral terms related to heart development and immune processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0071260","count":7},{"id":"GO:0021707","count":7},{"id":"GO:0035556","count":7},{"id":"GO:1900383","count":7}]},{"hash":"1928259805709996232","title":"Neural development and synaptic plasticity","description":"Genes in this cluster point to nervous system development and synaptic function, with axonogenesis, visual perception, Schwann cell development, and long-term potentiation/excitatory postsynaptic potential indicating neuronal maturation and plasticity. Some cell-cycle and apoptotic terms likely reflect developmental regulation in neural progenitors, and one plant-specific term may be annotation noise.","confidence":"High","size":11,"edges":25,"triangles":26,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0014044","count":8},{"id":"GO:0010800","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0007409","count":8}]},{"hash":"671057766315973235","title":"Unknown","description":"The listed GO terms reflect several unrelated biological areas (mRNA transport and nuclear import; cAMP signaling; visual perception; lung surfactant homeostasis; pituitary and kidney development; calcium transport; NF-kappaB signaling; protein sumoylation). The lack of a single coherent function linking these terms means a single meaningful label cannot be assigned.","confidence":"","size":11,"edges":14,"triangles":7,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051028","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0051591","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0043129","count":3}]},{"hash":"835392633652410637","title":"Neuronal migration and axonogenesis","description":"The cluster is dominated by GO terms linked to neural development, including lateral motor column neuron migration, peripheral nervous system neuron axonogenesis, and cerebellar Purkinje cell differentiation, along with supporting terms like cell-matrix adhesion and actin filament regulation that underpin neurite outgrowth and migration. Some non-neural terms (platelet aggregation, T cell homeostasis, female gonad development, and a fungal cell wall biosynthesis regulation) may reflect annotation noise or multi-function proteins, but they do not define the core signal. Overall, the theme centers on neural development and axon guidance.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0048936","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0021702","count":5}]},{"hash":"1076535941991446029","title":"Unknown","description":"Top GO terms span distinct biological areas: nuclear processes like DNA-templated transcription, DNA replication, meiotic DNA double-strand break processing, and regulation of nuclear export; immune signaling including cellular response to lipopolysaccharide and T cell receptor signaling; cytokine stimulus (GM-CSF); neural development and vision terms (visual perception, superior temporal gyrus development); and even bacterial biofilm formation. This heterogeneity suggests there is no single cohesive function tying the proteins together, so a concise, specific label is not apparent. Therefore, Unknown.","confidence":"","size":11,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0071222","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0097011","count":6},{"id":"GO:0046826","count":6}]},{"hash":"530820613073227651","title":"RNA processing and ribosome biogenesis","description":"Proteins show enrichment for spliceosome-driven mRNA splicing and stability, plus translation initiation and ribosomal subunit biogenesis with rRNA maturation. This points to a cohesive group centered on RNA processing and assembly of the translation machinery, with embryonic morphogenesis as a potential developmental context. ","confidence":"High","size":11,"edges":24,"triangles":22,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0002188","count":4}]},{"hash":"188953489194147336","title":"Bacterial fatty acid metabolism and energy biosynthesis","description":"This cluster centers on lipid metabolism and energy-related processes typical of bacteria: fatty acid biosynthesis and metabolism (long- and medium-chain), fatty acid import, and CoA-related metabolism. Additional GO terms for menaquinone and siderophore biosynthesis point to microbial energy generation, redox balance, and iron acquisition, while bioluminescence reinforces energy-related metabolic activity. A term like seed coat development appears noisy in this context. Overall, the cluster seems to group bacterial lipid metabolism with associated energy and secondary metabolite pathways.","confidence":"Medium","size":11,"edges":52,"triangles":141,"max_degree":10,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0008206","count":5},{"id":"GO:0019290","count":5},{"id":"GO:0036112","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0001676","count":5}]},{"hash":"87788085380030184","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for GO terms related to ribosome biogenesis and translation, including maturation of SSU rRNA, small subunit assembly, cytoplasmic translation, and formation/regulation of translation initiation. These signals point to proteins involved in assembling ribosomes and facilitating the initiation and execution of translation. A few outliers (e.g., viral capsid assembly) appear non-specific, but the dominant theme is ribosome biogenesis and protein synthesis.","confidence":"High","size":11,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0000028","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0002181","count":1}]},{"hash":"645552215004903435","title":"Neuronal signaling and dendrite morphogenesis","description":"Top terms include dendrite morphogenesis, adenosine GPCR signaling, cGMP biosynthesis, and potassium ion transport, which together point to neuron-specific signaling and morphology; additional transcriptional and intracellular signaling terms are compatible with neuronal function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046826","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0048813","count":3}]},{"hash":"1999299980046850273","title":"Membrane Transport and Stress Response","description":"The cluster\u2019s top GO terms are dominated by transmembrane transport (amino acids, methionine, monoatomic anions, oligopeptide export from mitochondrion) and stress/repair pathways (SOS response, nucleotide-excision repair, mercury ion response). This suggests proteins jointly involved in transporting small molecules and responding to cellular stress or DNA damage, with the stem cell proliferation term likely an outlier. ","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3},{"id":"GO:0072089","count":3},{"id":"GO:0099133","count":3}]},{"hash":"1424172948961639669","title":"Neuronal vesicle cycling and dendrite growth","description":"The top terms cluster around synaptic vesicle processes (regulation of exocytosis/endocytosis, vesicle maturation) and neuronal development (brain development, positive regulation of dendrite extension). This points to a common theme of neuronal vesicle trafficking coupled with dendritic growth, though a couple of outliers (stomatal closure, ribosomal export) may reflect annotation noise or cross-species data.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0010796","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0051301","count":2}]},{"hash":"674939680079740134","title":"RNA Processing and Translation Regulation","description":"The GO terms cluster around RNA metabolism and processing (mRNA export, splicing site recognition, and stability; processome assembly; polyadenylation regulation) as well as post-transcriptional control of translation (IRES-dependent initiation, viral termination-reinitiation, and miRNA-mediated silencing). This combination points to a group involved in RNA maturation and subsequent regulation of gene expression at the translation level.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1404543558770050291","title":"Unknown","description":"The GO terms span neural development, signaling, immune regulation, and organogenesis with no single unifying function, so a cohesive cluster label is not supported.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"1784968950472156555","title":"Developmental Signaling Across Tissues","description":"The proteins are tied to broad signaling and differentiation processes across multiple tissues (Wnt signaling, intracellular signal transduction, neuronal differentiation, endothelial and cardiac morphogenesis, and immune lineage signaling). This suggests a theme of development and intercellular communication rather than a single, specific function, hence a cross-tissue developmental signaling label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"2239314137686399862","title":"Unknown","description":"The top GO terms span immune homeostasis, DNA replication, fungal sporulation, xenobiotic and metal ion responses, neuronal apoptosis and learning, platelet formation, and development. This broad and diverse mix shows no single cohesive function tying the proteins together, so a generic unknown label with no confidence is appropriate.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0051402","count":2}]},{"hash":"1569431407594121485","title":"Endosomal MVB trafficking and autophagy","description":"These proteins are tied to endosomal sorting and vesicle trafficking, especially ESCRT-mediated intralumenal vesicle formation, MVB sorting and MVB-lysosome fusion, and regulation of autophagosome assembly. Additional terms for ER targeting and vacuolar transport support a broader secretory/lysosomal pathway role, making Endosomal MVB trafficking and autophagy a cohesive label.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902187","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0070676","count":2},{"id":"GO:1902902","count":2},{"id":"GO:0071454","count":2}]},{"hash":"1630174678780052518","title":"mRNA deadenylation and P-body decay","description":"The terms cluster around deadenylation-dependent decay, deadenylation and decapping, P-body assembly, and miRNA-mediated post-transcriptional gene silencing, all pointing to a shared function in cytoplasmic mRNA turnover and post-transcriptional regulation. A single outlier biosynthetic term is likely incidental to the main theme.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043928","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0033962","count":1},{"id":"GO:0000289","count":1}]},{"hash":"2227897128362714542","title":"Centromere chromatin assembly and mitotic machinery","description":"This cluster is dominated by terms related to centromeric chromatin assembly (CENP-A), cell division, and mitosis, including mitotic cell cycle and microtubule severing, suggesting a cohesive role in chromosome maintenance and segregation during cell division. Other terms point to general cellular processes, but the centromere/mitosis theme is the clearest through-line.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061641","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0051301","count":5}]},{"hash":"532735026413712765","title":"Neurodevelopmental signaling and endosomal trafficking","description":"This cluster\u2019s top GO terms cluster neural development (neural tube patterning; epithelial-mesenchymal signaling) and synaptic regulation (regulation of glutamatergic transmission), together with endosomal localization, suggesting proteins involved in trafficking-related modulation of neural development and synaptic signaling. Additional terms related to membrane remodeling and cytokinesis are consistent with broader cellular trafficking roles in morphogenesis, justifying a Neurodevelopmental and endosomal trafficking label.","confidence":"Medium","size":11,"edges":11,"triangles":2,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":9},{"id":"GO:0036010","count":9},{"id":"GO:0007119","count":9},{"id":"GO:0060684","count":9},{"id":"GO:0021532","count":9}]},{"hash":"920124648637680586","title":"Secretory trafficking and developmental signaling","description":"The top GO terms center on ER-to-Golgi vesicle transport, COPII vesicle coating regulation, and ER stress response, pointing to the secretory pathway, plus endosome localization and several developmental signals (neural tube patterning, epithelial-mesenchymal signaling) and synaptic regulation. This suggests a module of proteins involved in vesicle trafficking with roles in developmental signaling and neuronal function.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045453","count":6},{"id":"GO:0006888","count":4},{"id":"GO:0003400","count":4},{"id":"GO:1903206","count":4},{"id":"GO:0034976","count":4}]},{"hash":"1288928713887965240","title":"Unknown","description":"The top GO terms span a highly diverse set of processes\u2014from visual perception and brain development to immune cytokine production, heart muscle proliferation, apoptosis, mitotic spindle attachment, lung mesenchyme development, sodium ion transport, ERBB signaling, and even bacterial biofilm formation\u2014showing no single cohesive function or theme across the cluster. This heterogeneity suggests no reliable, unique label beyond Unknown.","confidence":"","size":11,"edges":52,"triangles":139,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":11},{"id":"GO:0071109","count":11},{"id":"GO:0090606","count":11},{"id":"GO:0032762","count":11},{"id":"GO:0060045","count":11}]},{"hash":"212140534147318362","title":"Unknown","description":"The terms point to multiple developmental and signaling themes across neural, cardiovascular, vascular, and immune contexts, with no clear common function. The single edge suggests weak connectivity, so there isn\u2019t a unifying mechanism to base a specific label on. Therefore, a distinct, representative name cannot be assigned.","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"2125720624244002384","title":"Unknown","description":"The top GO terms span brain development and function (visual perception, superior temporal gyrus development), signaling (ERBB pathway), immune and inflammatory responses (mast cell cytokine production), cell cycle and mitosis (kinetochore-microtubule attachment), development of various organs (lung mesenchyme, cardiac muscle proliferation), apoptosis, biofilm formation, and ion transport. There is no single cohesive biological theme across these terms, so a precise, representative label cannot be assigned.","confidence":"","size":11,"edges":42,"triangles":72,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":11},{"id":"GO:0071109","count":11},{"id":"GO:0090606","count":11},{"id":"GO:0032762","count":11},{"id":"GO:0060045","count":11}]},{"hash":"58759446589081492","title":"Neuroimmune Signaling and Synaptic Development","description":"The cluster combines innate immune responses (LPS response, dsRNA response, interferon-beta production) with neuronal processes (synapse assembly, corpus callosum development, dopamine response) and pain behavior, suggesting a theme where immune signaling within the nervous system influences neural development and sensory pathways.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":5},{"id":"GO:0043330","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0071222","count":4}]},{"hash":"1921705595328863732","title":"Skeletal development and ECM remodeling","description":"This cluster is dominated by terms tied to extracellular matrix (ECM) remodeling and developmental morphogenesis: intramembranous ossification, bone resorption, collagen catabolic process, basement membrane disassembly, and epithelial tube branching in lung morphogenesis all point to ECM dynamics guiding skeletal and organ development. Although immune-related terms (T cell cytotoxicity) and peptide metabolism (bradykinin catabolism) appear, the central theme is ECM remodeling during development.","confidence":"Medium","size":11,"edges":43,"triangles":83,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:2000179","count":4},{"id":"GO:0001913","count":4},{"id":"GO:0045453","count":4},{"id":"GO:0034769","count":4}]},{"hash":"425926220276903935","title":"Vesicle trafficking and protein turnover","description":"This cluster centers on intracellular trafficking: ER-Golgi vesicle transport, retrograde Golgi-ER transport, and endosome-to-melanosome transport, together with protein ubiquitination. The presence of epithelial polarity and cell cycle terms suggests regulation of cell organization and growth by trafficking and degradation pathways, with some apoptotic annotations reflecting stress responses linked to these processes. Overall, the dominant theme is vesicle trafficking coupled with protein turnover.","confidence":"Medium","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":2},{"id":"GO:0006888","count":2},{"id":"GO:2000171","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0097284","count":2}]},{"hash":"963958665913843512","title":"Unknown","description":"The terms span xenobiotic response, surfactant homeostasis, immune activity, basement membrane remodeling, and lung morphogenesis, with no clear shared function tying the proteins together. This lack of a cohesive signal makes a specific, confident label unlikely.","confidence":"","size":11,"edges":35,"triangles":54,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0043129","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0001913","count":1},{"id":"GO:1990236","count":1}]},{"hash":"630728460975332787","title":"Endomembrane Vesicle Trafficking and Protein Localization","description":"The top GO terms center on intracellular transport within the endomembrane system (ER to Golgi, endosome to Golgi, endosome localization, and vesicle transport between endosomes), plus routes like the Cvt pathway to vacuoles, which together indicate a shared function in vesicle trafficking and protein localization. A few terms (ribosome biogenesis, signaling) are less central and may reflect broader cellular context, but the core set supports a trafficking/localization theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0034498","count":2},{"id":"GO:0032258","count":2},{"id":"GO:1903078","count":2},{"id":"GO:0045022","count":2}]},{"hash":"1069234479626050561","title":"Oxidative stress response and autophagy with protein turnover control","description":"This cluster centers on oxidative stress response and autophagy, together with regulation of ubiquitin-dependent proteolysis, suggesting a role in cellular quality control under stress. Although a few terms (memory, aging, ethanol response) are less directly connected, the dominant theme ties to stress adaptation via autophagic and proteasomal pathways and modulation of metabolic activities.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007613","count":3},{"id":"GO:0006979","count":3},{"id":"GO:0006914","count":3},{"id":"GO:2000059","count":3},{"id":"GO:0055114","count":2}]},{"hash":"1153231853548407930","title":"Unknown","description":"The cluster shows only a single GO term (intron homing) with a count of 1, and there are no edges or shared functional signals among the proteins to suggest a cohesive theme. With such sparse, isolated annotations and no connectivity, a meaningful, specific label cannot be derived. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1}]},{"hash":"1666298721963975608","title":"Embryonic morphogenesis and organ development","description":"Top terms point to embryonic development across multiple organs (neural tube patterning, limb and nose morphogenesis, brain/eye development, liver and pericardium formation). The connections span various tissues rather than a single pathway, so a label focused on broad embryonic organogenesis best represents this cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":1},{"id":"GO:0021532","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0060039","count":1}]},{"hash":"458549014508671278","title":"MAPK and Wnt Signaling Regulators","description":"This cluster is dominated by GO terms for positive regulation of multiple signaling pathways, notably canonical Wnt signaling and MAPK cascades (ERK/JNK), plus ephrin receptor signaling and related phosphorylation/exocytosis regulation. The common thread is proteins that modulate kinase-driven signaling and receptor-mediated pathways, rather than downstream structural roles, making \u201cMAPK and Wnt Signaling Regulators\u201d an intuitive, specific label.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":10},{"id":"GO:0033138","count":9},{"id":"GO:0048013","count":9},{"id":"GO:0046330","count":9},{"id":"GO:0031532","count":9}]},{"hash":"584389415620314771","title":"Developmental processes and cell cycle regulation","description":"The top GO terms point to developmental programs across tissues (brain, neuron projections, skeletal, prostate) and to cell cycle control (spindle orientation, cytokinesis) with ubiquitin-protein turnover; together they suggest a theme of coordinating development with cell division and protein regulation, though the terms span multiple tissues.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1}]},{"hash":"63082263957742671","title":"Unknown","description":"The top GO terms span ER unfolded protein response, protein folding, immune antigen presentation, immune cell signaling, development, and various signaling/regulatory processes, with no single unifying function. This heterogeneity makes it unclear how these proteins form a cohesive functional cluster, so I label it Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0033144","count":1},{"id":"GO:1901224","count":1},{"id":"GO:0048488","count":1}]},{"hash":"1103907615889111683","title":"ER Proteostasis and Oxidative Stress Response","description":"The terms cluster around endoplasmic reticulum (ER) protein handling and stress responses, including ER-to-Golgi trafficking, ubiquitin-dependent ERAD, protein stabilization, and responses to hydrogen peroxide/ROS. This suggests a shared role in ER quality control and oxidative stress defense, with a few outlier terms (aging, neuron differentiation) contributing less to the core function.","confidence":"Medium","size":11,"edges":18,"triangles":15,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0007568","count":2}]},{"hash":"2295647200077194088","title":"ER-Golgi transport and COPII cargo loading","description":"The top GO terms cluster around intracellular transport, ER-to-Golgi vesicle transport, and COPII-coated vesicle cargo loading, indicating a cohesive function in vesicle formation and cargo trafficking between the ER and Golgi. Tissue morphogenesis terms appear but do not define the core function; overall, the cluster is best represented by COPII-mediated transport and cargo loading.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060982","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0060463","count":2},{"id":"GO:1901301","count":2}]},{"hash":"12708481454587127","title":"Plant glycolysis and stress response","description":"Most terms cluster around energy metabolism (glycolytic process, pyruvate fermentation to lactate, NADH-related processes) and plant-specific pathways (regulation of photorespiration), together with stress-responsive signals (response to xenobiotic stimulus, response to nutrient, response to cAMP) and apoptosis regulation, suggesting a group of proteins involved in energy production and stress signaling in plants.","confidence":"High","size":11,"edges":33,"triangles":50,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":9},{"id":"GO:0006096","count":9},{"id":"GO:0006734","count":9},{"id":"GO:0048569","count":9},{"id":"GO:0051591","count":9}]},{"hash":"491836252274067791","title":"Bacterial Metabolism and Lipopolysaccharide Biosynthesis","description":"This cluster centers on fundamental bacterial metabolic pathways, including amino acid biosynthesis (L-serine, L-alanine), TCA cycle, and catabolic/aromatic compound processing (organic phosphonates, stilbene degradation, N-acetylneuraminate biosynthesis), with a notable emphasis on lipopolysaccharide biosynthesis, suggesting coordinated metabolism and cell envelope production; some annotations (e.g., testosterone response, obsolete terms) appear noisy but do not override the core metabolic theme.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":4},{"id":"GO:0019700","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0006351","count":2}]},{"hash":"621999937653571630","title":"Axonogenesis and Microtubule Assembly","description":"This cluster shows strong signals for neuron projection extension and axonogenesis, coupled with terms for tubulin folding and tubulin complex assembly, indicating a shared function in neuronal process outgrowth supported by microtubule cytoskeleton assembly. Some endothelial-related terms are present but likely reflect broader developmental processes rather than the primary theme.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007023","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0048215","count":1},{"id":"GO:0050772","count":1}]},{"hash":"1562590347616675493","title":"Plant chromatin remodeling and DNA damage response","description":"This cluster centers on chromatin-level regulation (remodeling, heterochromatin formation, transcription regulation) and DNA maintenance activities (DSB repair via sister chromatid exchange, shelterin/telomere-related processes). The presence of plant-specific signaling terms (ethylene, abscisic acid) and chlorophyll biosynthesis regulation suggests these chromatin and genome-maintenance functions are integrated with plant stress responses and metabolism, supporting a cohesive plant chromatin/DNA maintenance module.","confidence":"High","size":11,"edges":37,"triangles":74,"max_degree":9,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":5},{"id":"GO:0000183","count":4},{"id":"GO:0000122","count":3},{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3}]},{"hash":"1637855749600165641","title":"Ribosome Biogenesis and rRNA Processing","description":"The top GO terms center on ribosome biogenesis, ribosomal subunit biogenesis/export from the nucleus, and rRNA processing (ITS1 cleavage), indicating the proteins group around ribosome assembly and maturation. Additional terms related to meiosis, polarity, and signaling are present but do not define the cluster. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0042274","count":1},{"id":"GO:0007056","count":1}]},{"hash":"936450289686793200","title":"Unknown","description":"The top GO terms describe several unrelated processes (defense against Gram-positive bacteria, fat cell differentiation, cell cycle regulation, mechanosensing, telomere maintenance, RNA processing, plasmid partitioning, etc.). No single biological theme or pathway ties these terms together, so there is no coherent label beyond Unknown.","confidence":"","size":11,"edges":15,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0016477","count":2}]},{"hash":"164285782518272875","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075732","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0075713","count":1}]},{"hash":"1958519970771598206","title":"Unknown","description":"The top GO terms span mitochondrial regulation (mitophagy, calcium import, ROS), ion transport, and several unrelated phenotypes (learning, fear, epithelial differentiation, cilium assembly). With no edges or cohesive functional theme, there isn\u2019t a clear shared function to label the cluster beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":1},{"id":"GO:1903959","count":1},{"id":"GO:0006820","count":1},{"id":"GO:0001662","count":1},{"id":"GO:0036444","count":1}]},{"hash":"2034719959192971460","title":"Unknown","description":"The proteins in this cluster show a highly disparate set of GO terms, including cholesterol biosynthesis, brain and lung development, biofilm formation, immune cytokine production, apoptosis, and meiotic spindle attachment. There is no clear, common functional theme or shared pathway linking these terms, suggesting the cluster is not functionally cohesive. Therefore, Unknown with None confidence.","confidence":"","size":11,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"2159264735663256444","title":"Plant telomere maintenance and chromatin regulation","description":"These terms cluster around telomere protection and chromatin regulation (shelterin assembly, D-loop regulation, rDNA heterochromatin), with supporting plant-development signals (ethylene and ABA responses, chlorophyll and seed-growth regulation), suggesting a plant-telomere/chromatin regulation theme.","confidence":"Medium","size":11,"edges":12,"triangles":4,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":5},{"id":"GO:0000183","count":5},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4}]},{"hash":"683060468654847063","title":"Ribosome biogenesis and translation regulation","description":"The cluster is enriched for rRNA maturation (SSU rRNA) and translation-related terms, including translation and regulation of translation, pointing to involvement in ribosome assembly and control of protein synthesis. While there are also transcriptional and DNA-related terms (and heterocyst development), the dominant signal centers on ribosome biogenesis and translation, making this the most representative label.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0031564","count":1},{"id":"GO:0043158","count":1},{"id":"GO:0006355","count":1}]},{"hash":"833083403093614088","title":"Development and Cell Cycle Regulation","description":"The cluster includes developmental processes (neuron projection development, skeletal system development, sebaceous gland development, prostate gland development) alongside cell division and ubiquitin-proteasome\u2013related terms (mitotic spindle orientation, negative regulation of cytokinesis, ubiquitin ligase activity, SCF-dependent proteasomal degradation). This suggests a broad theme centered on growth/development and control of the cell cycle, rather than a single specific function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":1},{"id":"GO:0048733","count":1},{"id":"GO:0018230","count":1},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1}]},{"hash":"705916582583191943","title":"Gonadal development and reproductive hormone signaling","description":"The top GO terms cluster around reproductive tissue development and hormone signaling: Sertoli cell development, primary ovarian follicle growth, and FSH signaling point to gonadal function, while terms like development of secondary sexual characteristics and TSH-related hormonal responses reflect broader endocrine signaling in reproduction. The presence of GPCR/IP3 signaling and MyD88/TLR pathways suggests signaling mechanisms that can intersect with hormonal regulation, but the strong representation of gonadal-associated processes supports a reproductive endocrine theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":11},{"id":"GO:0002755","count":11},{"id":"GO:0007200","count":11},{"id":"GO:0032962","count":11},{"id":"GO:0034154","count":11}]},{"hash":"1521531470087460050","title":"Nuclear import and export of RNAs and RNPs","description":"This cluster is dominated by GO terms tied to transporting RNAs and ribonucleoproteins into and within the nucleus (mRNA export, ribosomal protein import, splicing factor import, hnRNP import, and nuclear pore complex assembly). While a few terms touch on centrosome or microtubule-related processes, the prevailing signals point to nuclear transport machinery as the shared function of these proteins.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0035048","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0030953","count":1}]},{"hash":"810864241978428055","title":"Unknown","description":"There are no GO terms listed to define a shared function for this set, and while the network shows substantial connectivity (55 edges, 165 triangles), this does not reveal a clear biological theme. Therefore, the cluster is Unknown.","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[]},{"hash":"786488734845542806","title":"Developmental Signaling and Differentiation","description":"Consistent with a developmental signaling theme: several top terms point to signaling pathways and differentiation across tissues (Wnt signaling, cerebellar neuron differentiation, cardiac morphogenesis, venous endothelial differentiation, intracellular signal transduction, synaptic signaling). While a few terms touch on immune regulation, the dominant signal is development- and differentiation-related processes, suggesting these proteins share roles in signaling networks guiding tissue development rather than a single complex. Confidence: Medium","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"136019126501000465","title":"Unknown","description":"The GO terms span a broad, non-cohesive set of functions across organisms (protein\u2013protein interactions, ubiquitination, plant hormone signaling, immune/drug response, and metabolism), with several obsolete entries, and no single clear theme tying the cluster together. ASpecific, representative label is not reliably supported by the data.","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0009736","count":4},{"id":"GO:1903071","count":3},{"id":"GO:2000531","count":3},{"id":"GO:0071357","count":3}]},{"hash":"1978107777246261555","title":"Signaling, migration, and apoptosis components","description":"The top GO terms point to intracellular signal transduction (including small GTPase\u2013mediated signaling), cell migration and mechanical stimulus response, calcium ion\u2013dependent exocytosis, and epithelial polarity, with a couple of apoptotic processes. This suggests a theme of signaling pathways that regulate movement, vesicle trafficking, and cell fate in various contexts. Therefore, the label reflects a cohesive, high-level function of the cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1809504732060143466","title":"Neural development and axonogenesis","description":"The top GO terms cluster around neural development and neuronal architecture\u2014dendrite morphogenesis, neuron migration, CNS projection neuron axonogenesis, axon extension, and axoneme-related processes\u2014with supporting signals from Wnt and Hedgehog pathways and sensory contexts (neuromast hair cell development, visual perception). This combination suggests a group of proteins involved in neural differentiation, axon/dendrite morphogenesis, and related sensory-neural development events. Confidence: High","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0030111","count":1},{"id":"GO:0035082","count":1},{"id":"GO:0048675","count":1}]},{"hash":"65868534635975818","title":"Unknown","description":"The terms span neuronal development and synaptic regulation, immune signaling, cardiovascular differentiation, and other disparate processes (cerebellar granule cell differentiation, intracellular signal transduction, regulation of synaptic plasticity by receptor localization to synapse, IL-12 regulation, cardiac right atrium morphogenesis, venous endothelial cell differentiation, and Wnt signaling) with no evident common function or pathway linking them, and there are no edges connecting proteins. Therefore there is no cohesive theme to label beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"325331022262700063","title":"Regulatory signaling and secretion","description":"Although the proteins show no single direct pathway, the top GO terms point to broad regulatory roles: several entries involve modulation of signaling pathways (Wnt, NOD2, and salicylic acid signaling), while others pertain to vesicle trafficking and secretion (SNARE complex regulation, vasopressin secretion) and post-translational modification (ubiquitination). This suggests a cluster of proteins that participate in general regulatory control of signaling and secretion rather than a specific unified pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":6},{"id":"GO:0016055","count":6},{"id":"GO:1904743","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0030103","count":6}]},{"hash":"484808253595975580","title":"Splicing and microtubule organization","description":"The proteins cluster around core cellular processes: RNA processing via the spliceosome (mRNA splicing, second-step spliceosome formation) and cytoskeletal/trafficking functions (astral microtubule organization, microtubule anchoring, vesicle targeting) with ubiquitination as a regulatory layer. Some developmental GO terms appear, but they likely reflect broad contexts rather than a single pathway. Thus, the dominant theme seems to be RNA processing together with cytoskeletal dynamics and vesicle trafficking.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035214","count":1},{"id":"GO:0001700","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0000350","count":1},{"id":"GO:0010555","count":1}]},{"hash":"1464932709474394642","title":"Membrane trafficking and protein modification","description":"The terms center on endosomal transport and localization to the cell surface, combined with post-translational modifications such as palmitoylation and O-linked glycosylation, suggesting a theme of how proteins are processed and trafficked to membranes. Some developmental terms exist but do not define a single cohesive pathway. Therefore, the label reflects membrane trafficking and protein modification as the core shared theme.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060400","count":1},{"id":"GO:0032511","count":1},{"id":"GO:2000009","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0048733","count":1}]},{"hash":"387651143636132582","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006293","count":1},{"id":"GO:0070914","count":1},{"id":"GO:0007307","count":1},{"id":"GO:0000717","count":1},{"id":"GO:0042787","count":1}]},{"hash":"2191388908008036510","title":"Developmental signaling and neural differentiation","description":"The top GO terms cluster around intracellular signal transduction and signaling pathways (notably Wnt signaling), regulation of synaptic plasticity linked to neural differentiation, and cerebellar granule cell differentiation, suggesting a focus on signaling-mediated development with a neural emphasis. While some terms pertain to other tissues (heart morphogenesis, venous/endothelial differentiation), the dominant theme is signaling-driven development, including neural differentiation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"842550817631256507","title":"Developmental Signaling and Differentiation","description":"The top GO terms emphasize signaling pathways (e.g., Wnt signaling, intracellular signal transduction) and differentiation across neural, vascular, and cardiac lineages (cerebellar granule differentiation, venous endothelial differentiation, cardiac morphogenesis), with additional links to synaptic regulation. While immune-related terms are present, the prevailing pattern centers on signaling guiding developmental differentiation, making this label representative though not perfect.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5},{"id":"GO:0045083","count":5}]},{"hash":"2175761366507319203","title":"Spliceosome-driven mRNA processing and stress granule localization","description":"The cluster is enriched for terms related to RNA processing and transport, including spliceosome-mediated splicing, mRNA export, RNA\u2013protein cross-linking, and localization to cytoplasmic stress granules, along with regulation of mRNA stability in response to stress. While there are broader terms like SOS response and DNA replication present, the dominant signal centers on RNA metabolism and stress-associated processing, justifying a focused label.","confidence":"Medium","size":10,"edges":40,"triangles":84,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:1903608","count":4},{"id":"GO:0009432","count":4},{"id":"GO:0018144","count":4}]},{"hash":"1949946062908605527","title":"Redox Homeostasis and Oxidative Stress Signaling","description":"This cluster is dominated by GO terms related to redox balance and oxidative stress responses (cell redox homeostasis, oxidation-reduction processes, hydrogen peroxide catabolic process, cellular oxidant detoxification). It also includes signaling context such as regulation of stress-activated MAPK cascade and NF-kappaB signaling, indicating a common theme around redox-regulated stress responses, despite a couple of outlier terms like erythrocyte homeostasis or gonad development. Overall, the redox-centric functions best unify the cluster.","confidence":"High","size":10,"edges":35,"triangles":54,"max_degree":9,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045454","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0032872","count":7},{"id":"GO:0022417","count":7},{"id":"GO:0042345","count":7}]},{"hash":"2264843685123640180","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":8,"triangles":1,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0048568","count":4}]},{"hash":"194286644915465418","title":"Synaptic vesicle trafficking and exocytosis","description":"The cluster\u2019s top GO terms emphasize regulation of synaptic vesicle endocytosis, endocytic recycling, exocytosis, and excitatory synaptic activity, pointing to a cohesive theme of vesicle cycling at neuronal synapses. Some terms about development or stress appear, but the dominant signal is presynaptic/postsynaptic vesicle trafficking related to excitatory signaling.","confidence":"Medium","size":10,"edges":23,"triangles":20,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":8},{"id":"GO:0032456","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0035690","count":8},{"id":"GO:0021762","count":8}]},{"hash":"860090152468565133","title":"RNA Processing and Translation Regulation","description":"This cluster centers on the RNA lifecycle and post-transcriptional control: mRNA export, splicing site recognition, polyadenylation regulation, and mRNA stabilization, paired with translational control elements such as IRES-dependent initiation and miRNA-mediated silencing, plus small-subunit processome involvement in ribosome biogenesis. Together, these terms point to a cohesive theme of RNA maturation and regulation of translation.","confidence":"High","size":10,"edges":23,"triangles":20,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0075525","count":3}]},{"hash":"1383389355899152576","title":"Diverse membrane sugar/ion transporters","description":"This cluster is dominated by GO terms for transmembrane transport across membranes with a wide range of substrates, including sugars (arabinose, galactose, fucose, sialic acid), ions (sodium, potassium, nitrate, phosphate), and xenobiotics. The presence of a single metabolic term (fucose metabolic process) alongside broad transport terms suggests a group of transporter proteins with diverse substrate specificities rather than a single, cohesive metabolic pathway. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0035435","count":2}]},{"hash":"2112269104784968111","title":"Unknown","description":"The GO terms cover a wide range of processes\u2014from mechanosensing to neural differentiation, various signaling pathways, and developmental processes in heart and vessels\u2014without a common, dominant function linking the proteins. This lack of a cohesive theme makes it inappropriate to assign a more specific label beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1359645145713557436","title":"Unknown","description":"The terms span multiple distinct domains (cell cycle, immune regulation, cardiac morphogenesis, neural development, and general signaling) with no dominant shared function or tissue context. There isn\u2019t a cohesive theme tying these proteins together, so a specific, representative label isn\u2019t apparent beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1}]},{"hash":"438260300310432502","title":"Membrane receptor signaling and trafficking","description":"The cluster is dominated by terms related to cell surface receptor signaling, receptor internalization, and signaling pathway regulation (e.g., Notch and integrin pathways), pointing to proteins involved in membrane-associated signal transduction and endocytic trafficking. A couple of terms hint at visual system roles, but the core signal is membrane receptor activity and trafficking, making this a coherent functional theme.","confidence":"Medium","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0060219","count":1},{"id":"GO:0007601","count":1}]},{"hash":"1684578388617106082","title":"Central carbon metabolism and stress responses","description":"It shows strong representation of core metabolic pathways (TCA cycle, acetyl-CoA and succinyl-CoA metabolism) along with a storage/product biosynthetic process (poly-hydroxybutyrate) and diverse environmental response terms (xenobiotic, nutrient, hypoxia) plus sporulation, pointing to a cluster of proteins centered on metabolism with adaptive stress responses.","confidence":"Medium","size":10,"edges":10,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1928921868204996435","title":"Unknown","description":"The top GO terms span cardiac electrophysiology, GPCR/cAMP signaling, calcium transport, NF-kappaB signaling, and various developmental and organ-specific processes (eye, pituitary, kidney, lung). This diversity suggests no single cohesive function or theme tying the proteins together, so a specific, concise label cannot be confidently assigned.","confidence":"","size":10,"edges":23,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0051591","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0043129","count":2}]},{"hash":"1494717245101441921","title":"Neural and Muscle Development","description":"This cluster centers on development of the nervous system and muscles, supported by GO terms such as axonogenesis, Schwann cell development, and visual perception (neural differentiation and sensory pathways). It also includes myoblast fusion and response to muscle activity, indicating myogenesis. Additional terms related to the cell cycle and apoptosis are common during developmental remodeling and maturation. An outlier plant signaling term is present but does not negate the overall theme.","confidence":"Medium","size":10,"edges":7,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0007520","count":8},{"id":"GO:0014044","count":8},{"id":"GO:0010800","count":8},{"id":"GO:0000278","count":8}]},{"hash":"1552848018027105727","title":"Protein folding and Fe-S cluster biogenesis","description":"The cluster\u2019s GO terms cluster around protein maturation and quality control (unfolded protein response, chaperone activity, chaperone cofactor-dependent refolding, SRP-dependent targeting to membrane) and iron-sulfur cluster assembly, plus stress-related regulation (response to heat, oxidative stress). These point to a coherent theme of protein folding/targeting together with Fe-S cofactor biogenesis, with a few additional signals likely reflecting broader cellular stress and housekeeping roles. Hence the label emphasizes protein maturation pathways and Fe-S cluster biology as the core theme.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0034620","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0006616","count":2},{"id":"GO:0006880","count":2}]},{"hash":"2069639913738016741","title":"Unknown","description":"There are no GO terms to define a shared function, and the sparse network (4 edges, max degree 2, no triangles) provides no clear functional theme among the 10 proteins, so no reliable label can be assigned.","confidence":"","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"2296511580448144424","title":"CENP-A Chromatin Assembly and Cohesion","description":"The top GO terms cluster around centromeric chromatin assembly (CENP-A), pericentric heterochromatin formation, maintenance/regulation of mitotic sister chromatid cohesion, and related chromosomal localization processes, with plasmid partitioning also tying to DNA segregation. A few terms are unrelated (developmental/immunity), but the dominant theme is chromatin organization and chromosome segregation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":2},{"id":"GO:0030543","count":1},{"id":"GO:1904693","count":1},{"id":"GO:0034184","count":1},{"id":"GO:0031508","count":1}]},{"hash":"1597083407962186162","title":"Unknown","description":"The listed GO terms span neural differentiation and signaling (cerebellar granule differentiation, dendrite development, electrical coupling) but also immune, cardiac morphogenesis, telomere regulation, thermoception, and plant defense signaling, with several entries marked obsolete. There is no single cohesive function tying these terms together for this protein cluster, so a specific, high-confidence label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021707","count":6},{"id":"GO:0003213","count":6},{"id":"GO:1904743","count":6},{"id":"GO:0033028","count":6},{"id":"GO:2000031","count":6}]},{"hash":"1171564052589558274","title":"Unknown","description":"The terms span neuronal signaling, development, membrane trafficking, and behavior, with no single cohesive function linking them all. Without a clear theme, a specific label would be speculative.","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051966","count":8},{"id":"GO:0036010","count":8},{"id":"GO:0007119","count":8},{"id":"GO:0060684","count":8},{"id":"GO:0021532","count":8}]},{"hash":"1671545420109866589","title":"Unknown","description":"The top GO terms are highly diverse, including intron homing, phenylacetate catabolism, ATP synthesis coupled electron transport, various vascular-development regulators (negative regulation of endothelial differentiation and vasculogenesis/ VEGF signaling), nitrogen fixation, sodium ion transport, lactation, and ferredoxin metabolism. There is no clear common biological function linking these terms, and the cluster has no edges or cohesive theme, so a single representative function cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0010124","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0009399","count":1}]},{"hash":"763344210490133181","title":"Small GTPase Signaling and Actin Dynamics","description":"The terms point to a core connection between small GTPase\u2013mediated signaling and actin cytoskeleton organization, suggesting a focus on signaling-driven cytoskeletal remodeling. Additional terms touch endocytic recycling, leukocyte trafficking, and vascular permeability, which fit within membrane trafficking and cell movement regulated by cytoskeletal dynamics. A couple of terms appear less directly related (e.g., imaginal disc morphogenesis, certain cell wall processes), likely reflecting cross-species annotations or noise, but the predominant theme is signaling controlling cytoskeletal and trafficking processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090334","count":1},{"id":"GO:0060396","count":1},{"id":"GO:0007264","count":1},{"id":"GO:0043114","count":1},{"id":"GO:0043314","count":1}]},{"hash":"2093303788603290058","title":"Unknown","description":"The top terms show a mix of brain-development signals (forebrain development, superior temporal gyrus development) and unrelated processes (tRNA modification, biotin biosynthesis, biofilm formation, cytokine production, cardiac proliferation), with no single cohesive function tying the cluster together. Hence no clear, representative label can be assigned.","confidence":"","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0009102","count":2}]},{"hash":"1276762812025119097","title":"Oxidative stress response and redox regulation","description":"The cluster centers on GO terms related to responding to oxidative stress, regulation of antioxidant enzymes like SOD, and pathways linking redox state to cell fate (oxidative stress-induced apoptosis). It also includes proteostasis-related regulation (proteasomal degradation, sumoylation) and transcriptional activity, suggesting coordinated stress response and redox control of gene expression and protein homeostasis. Some terms are peripheral or obsolete, but the dominant theme is defense against oxidative damage and redox-regulated proteostasis.","confidence":"Medium","size":10,"edges":13,"triangles":8,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006979","count":5},{"id":"GO:0032435","count":4},{"id":"GO:0006351","count":4},{"id":"GO:1903197","count":3},{"id":"GO:2000825","count":3}]},{"hash":"1387229836388017576","title":"Neuronal Development and Signaling","description":"The cluster shows brain-related processes, with dendrite morphogenesis, visual perception, and superior temporal gyrus development among the top terms, and potassium ion transport supporting neuronal activity. Some terms appear unrelated (cadmium response, ubiquitin-dependent degradation, biofilm formation, mast cell cytokine production), likely reflecting annotation noise, but the dominant themes point to neuronal development and signaling.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0048813","count":8},{"id":"GO:0032436","count":7},{"id":"GO:0071276","count":7}]},{"hash":"1584879776728165092","title":"mRNA processing and translation control","description":"The cluster is dominated by GO terms for mRNA maturation (polyadenylation, splicing site recognition, export, stability) and a variety of translational regulatory processes (IRES-dependent initiation, miRNA-mediated silencing, viral translation mechanics, mRNA stabilization). Together these terms point to a cohesive set of proteins involved in mRNA life cycle and post-transcriptional gene expression regulation.","confidence":"High","size":10,"edges":17,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0034462","count":2}]},{"hash":"2239036878944591388","title":"Neural Differentiation and Synaptic Regulation","description":"The cluster is enriched for neural development and synaptic signaling terms\u2014cerebellar granule cell differentiation, regulation of synaptic plasticity by receptor localization to the synapse, and Wnt signaling-related intracellular pathways. Some non-neural terms are present, but the central pattern points to neuronal differentiation and synaptic control as the main function of these proteins.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1900383","count":2}]},{"hash":"1755814274158992759","title":"Unknown","description":"There are no GO terms or interactions (edges/triangles) to link these proteins, and ReCIPE added 20 proteins but no shared function signal is evident.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"241968028721969919","title":"Golgi-ER Secretory Vesicle Trafficking and Degranulation","description":"This cluster centers on the secretory pathway: ER-to-Golgi and Golgi-to-plasma membrane vesicle transport, vesicle targeting/fusion, and Golgi ribbon formation, with degranulation events in immune cells (NK cells, eosinophils) and mucus secretion. The common theme is secretory vesicle trafficking and granule exocytosis.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":2},{"id":"GO:0043308","count":1},{"id":"GO:0070254","count":1},{"id":"GO:0006903","count":1},{"id":"GO:0016079","count":1}]},{"hash":"1210477107157492576","title":"Unknown","description":"The top GO terms are very diverse (mitotic chromosome condensation, vesicle transport, organelle/melanosome organization, antigen processing, receptor internalization, tRNA clustering, gravitropism, zinc sequestration). With no clear, shared function and no edges linking proteins, a meaningful, confident label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007076","count":1},{"id":"GO:1990019","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0009959","count":1},{"id":"GO:0048007","count":1}]},{"hash":"582686978973181188","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":24,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060303","count":2},{"id":"GO:0031940","count":2},{"id":"GO:0060123","count":2},{"id":"GO:2000774","count":2},{"id":"GO:2000648","count":2}]},{"hash":"678145578478794314","title":"Neuroimmune Signaling and Synapse Development","description":"This cluster combines strong signals for innate and adaptive immune responses (lipopolysaccharide response, GM-CSF stimulus, T cell receptor signaling, dsRNA response, innate immunity) with neural development and synaptic formation terms (synapse assembly, corpus callosum development, pain-related behavior). This pattern suggests proteins involved in neuroimmune communication that influence neural development and circuit-level responses, including pain, rather than a purely immune or purely neural set.","confidence":"Medium","size":10,"edges":12,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":7},{"id":"GO:0097011","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0043330","count":4}]},{"hash":"915112927857082556","title":"Unknown","description":"The top terms cover a wide and unrelated mix: innate immune response, metal/cadmium ion response, mitotic cell cycle, vision, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, and kinetochore\u2013microtubule attachment. There is no single cohesive function tying these proteins together, suggesting a heterogeneous cluster. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0071276","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0007601","count":6},{"id":"GO:0071109","count":6}]},{"hash":"212362391348286424","title":"LDL receptor endocytosis and cholesterol transport regulation","description":"The terms cluster around LDL receptor\u2013associated catabolic processes and regulation of receptor recycling and endocytosis in cholesterol transport, indicating a shared function in LDL uptake and lipoprotein trafficking. Some outliers (nerve growth factor production, sporulation, pheromone maturation) may be incidental, but the dominant theme points to LDL receptor\u2013mediated endocytosis and cholesterol handling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":1},{"id":"GO:0001920","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0032804","count":1}]},{"hash":"574742729859113477","title":"TLR signaling and innate inflammatory response","description":"The top GO terms cluster around Toll-like receptor pathways (TLR signaling, TLR4 signaling, MyD88-independent signaling), detection of bacterial lipopeptides, and regulation of inflammatory responses, indicating an innate immune/inflammatory module. A few terms pertain to development or tissue responses (axon guidance, tooth mineralization, mechanical stimulus response) that may reflect broader pleiotropy or annotation overlap, but the dominant signal supports TLR-mediated immune signaling.","confidence":"Medium","size":10,"edges":14,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"318977857414838987","title":"Sensory signaling and developmental transcription regulation","description":"The terms cluster around sensory processes (pain perception, thermosensory behavior), core signaling via small GTPases and Ras pathways, and transcriptional control (DNA-templated transcription), with links to multicellular development and nuclear export regulation. This points to a shared theme where signaling cascades modulate transcription to guide development and sensory biology, with endocrine-related cortisol biosynthesis adding a regulatory layer. Overall, the proteins appear to coordinate signaling and gene expression in sensory development contexts.","confidence":"Medium","size":10,"edges":23,"triangles":25,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0051262","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0046580","count":7},{"id":"GO:0007264","count":7}]},{"hash":"979859418807456556","title":"Developmental Adhesion and Tissue Growth","description":"This cluster centers on developmental processes, including lung and cuticle development, and lymphangiogenesis, with a key emphasis on cell\u2013cell adhesion. Additional terms touch on tissue growth and protein modifications that can modulate development, though some GO terms are obsolete. The overall theme is developmentally linked processes and interactions between cells, rather than a single precise pathway.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006693","count":1},{"id":"GO:0051272","count":1},{"id":"GO:0016337","count":1},{"id":"GO:0001946","count":1},{"id":"GO:2000045","count":1}]},{"hash":"1258868264926057083","title":"RNA processing and translation regulation","description":"This cluster centers on multiple RNA processing steps and post-transcriptional control of gene expression: mRNA export, splicing, polyadenylation, and stabilization; plus translation-related terms such as IRES-dependent initiation and miRNA-mediated silencing, as well as ribosome biogenesis via small-subunit processome assembly. The common theme ties together mRNA maturation and subsequent translational control, suggesting a cohesive RNA-processing/translation-regulation cluster.","confidence":"High","size":10,"edges":11,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"253123735641477785","title":"Epigenetic Regulation of Ethylene-Driven Floral Senescence","description":"These proteins are linked to plant aging processes driven by ethylene, with supporting epigenetic signals (DNA methylation and histone modification) and chlorophyll biosynthesis regulation. The presence of floral senescence and ethylene response terms, alongside epigenetic modulation and chlorophyll-related regulation, suggests a coordinated epigenetic reprogramming during ethylene-induced flower aging. ","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0080187","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0090116","count":1},{"id":"GO:1990414","count":1}]},{"hash":"8266898713335301","title":"Auxin Transport and Root Development","description":"The cluster is driven by multiple auxin-related GO terms (auxin signaling, auxin export across the plasma membrane, ER to cytosol auxin transport, and adventitious root development), suggesting a cohesive theme around auxin transport and root growth. Translation and ribosome biogenesis terms appear but are less specific to this cluster\u2019s primary signal, possibly reflecting general cellular functions or annotation noise (e.g., the peptidoglycan term). Overall, the dominant signal points to auxin transport and development with a moderate level of confidence.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0009734","count":1},{"id":"GO:0009926","count":1},{"id":"GO:0055085","count":1}]},{"hash":"1679296359453237590","title":"TLR-Mediated Innate Immune Signaling","description":"This cluster is driven by GO terms centered on Toll-like receptor signaling, including TLR4 signaling and detection of bacterial lipopeptides, as well as inflammation (positive regulation of inflammatory response). These point to innate immune sensing and signaling as the core function. Some terms (neural development and mineralization) appear incidental to the main theme, but the dominant pattern supports TLR-mediated immune signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"1170605825491218187","title":"RNA Processing and Translation Control","description":"This cluster centers on post-transcriptional mRNA handling (deadenylation-dependent decay, spliceosome-related splicing) and broad translation-associated processes (initiation, termination regulation, translational fidelity, selenocysteine incorporation, and diphthamide formation on EF2). Together, these terms indicate a shared theme of RNA processing and translational regulation rather than a single metabolic pathway, justifying this label.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":1},{"id":"GO:0002244","count":1},{"id":"GO:0014009","count":1},{"id":"GO:0006449","count":1},{"id":"GO:0017183","count":1}]},{"hash":"1637463226531016557","title":"Fatty acid and lipid biosynthesis cluster","description":"The top GO terms are dominated by lipid-related metabolism (bile acid, long/medium-chain fatty acids, fatty acid biosynthesis, and related import), suggesting a focus on lipid biosynthesis pathways. Some terms (seed coat development, bioluminescence, siderophore/menaquinone biosynthesis) are less clearly related, indicating a broad metabolic theme rather than a tightly cohesive function. ","confidence":"Low","size":10,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008206","count":6},{"id":"GO:0019290","count":6},{"id":"GO:0036112","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0001676","count":6}]},{"hash":"615527956346798742","title":"Gonadal Development and Reproductive Hormone Signaling","description":"This cluster centers on reproductive development and endocrine signaling: Sertoli cell development, ovarian follicle growth, and secondary sexual characteristic development point to gonadal functions, supported by FSH signaling and GPCR-PLC-IP3 pathways. A few immune-related terms appear, but the dominant theme is reproductive hormonal signaling.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"1393936186899358781","title":"Cardiac and neural signaling and development","description":"The top terms point to signaling and development across heart (SA node regulation, right atrium morphogenesis, mechanical stimulus response, GPCR signaling) and neural systems (granule cell differentiation, synaptic localization affecting plasticity, general intracellular signaling, Wnt). This suggests a shared theme of signaling processes governing cardiac and neural development and function.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0071260","count":5},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5}]},{"hash":"1865255554830663200","title":"LDL receptor\u2013mediated endocytosis and cholesterol transport","description":"Most terms point to LDL receptor catabolic process and its regulation (GO:0032802, GO:0032804, GO:0032805) and related receptor trafficking/endocytosis in cholesterol transport (GO:0001920, GO:1905601). This suggests the cluster is centered on uptake and processing of LDL particles and cholesterol homeostasis. A few terms about embryo axis determination, pheromone maturation, and sporulation are less connected, likely representing broader annotations. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":2},{"id":"GO:0001920","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0032804","count":2}]},{"hash":"2174794722873830682","title":"Vacuolar amino acid transport","description":"The Top Terms are all amino acid transport across the vacuolar membrane (import of serine, arginine, histidine; export of histidine and lysine; transport of proline and asparagine), indicating a cluster of vacuolar amino acid transporters. A potassium starvation and an acidic pH transcription term appear incidental, but the dominant signal is vacuolar amino acid movement.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090516","count":1},{"id":"GO:2000487","count":1},{"id":"GO:0090518","count":1},{"id":"GO:0015824","count":1},{"id":"GO:0089708","count":1}]},{"hash":"1941942789196377037","title":"Unknown","description":"The top GO terms show two unrelated themes\u2014ER morphology (endoplasmic reticulum tubular network formation/maintenance) and diverse developmental/transcription processes (embryonic limb morphogenesis, transcription elongation, mRNA export). With no edges or clear common function linking them, there's no coherent single function for the cluster, so Unknown with None confidence.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071788","count":1},{"id":"GO:0042733","count":1},{"id":"GO:0071787","count":1},{"id":"GO:0050803","count":1},{"id":"GO:0032330","count":1}]},{"hash":"1308303603318001959","title":"DNA Transcription Regulation","description":"Dominated by GO:0006355 and GO:0006351, indicating regulation and execution of DNA-templated transcription; the other, more diverse terms appear incidental, so the cluster is best labeled as DNA transcription regulation.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1901766","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0031342","count":1}]},{"hash":"268569617896289620","title":"Unknown","description":"This cluster lacks any edges and has no GO terms to indicate a shared function, so there is no clear theme to name it after. The ReCIPE re-addition of 20 proteins does not provide functional context here, making a reliable label impossible.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"453893610230104480","title":"RNA Processing and Translation Regulation","description":"This cluster centers on post-transcriptional gene expression control, with overlapping GO terms for mRNA processing (polyadenylation, export, stability), mRNA maturation (processome-related), and translation regulation (IRES-dependent initiation, viral translation, miRNA-mediated silencing). The common theme is RNA maturation and subsequent control of translation rather than transcriptional activity.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2}]},{"hash":"2303547041974034877","title":"Unknown","description":"There are no enriched GO terms or connecting interactions (Top Terms is empty; Edges and Triangles are zero), so there is no clear shared function to name the cluster with confidence.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1522970984512983586","title":"TLR signaling and innate immune activation","description":"The cluster is driven by innate immune signaling terms, especially Toll-like receptor pathways (TLR signaling, MyD88-independent TLR signaling, TLR4 signaling) and detection of bacterial lipoproteptides, along with inflammation-related terms. The additional terms on tissue remodeling/export of inflammatory signals (angiogenesis, tooth mineralization) may reflect broader inflammatory modulation, but the core theme is Toll-like receptor\u2013mediated immune activation.","confidence":"High","size":10,"edges":25,"triangles":30,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"1698413232557352896","title":"RNA processing and cytoskeletal assembly","description":"Top terms include actin filament bundle assembly and spindle assembly, indicating cytoskeletal dynamics, alongside mRNA processing and telomere maintenance, which touch on gene expression and genome stability. Additional terms for ER-Golgi transport and glycosylation hint at general cellular output pathways supporting growth. Together, these suggest a cluster centered on basic cellular growth processes involving RNA processing and cytoskeletal organization.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0090501","count":2}]},{"hash":"2301958122182493969","title":"Cross-tissue Developmental Signaling","description":"The top GO terms point to signaling and differentiation across multiple tissues (nervous system, heart, vasculature) with pathways like Wnt signaling and intracellular signal transduction, plus mechanotransduction and synaptic regulation, suggesting a broad role in developmental signaling rather than a single, cohesive function. This makes a cross-tissue developmental signaling label the most representative, even though the cluster is diverse.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0035556","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045083","count":9}]},{"hash":"1603841381764956455","title":"Unknown","description":"There are no GO terms provided and no network connections (edges or triangles) to reveal a shared function, so no cohesive theme can be inferred. The cluster contains 10 proteins with some re-added by ReCIPE, but without annotations or interaction patterns a specific representative label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1920961310808327999","title":"Unknown","description":"There are 10 proteins with no interconnections (Edges: 0, Triangles: 0, Max Degree: 0) and no GO terms to tie them together, so there is no detectable shared function or process. Without a cohesive theme, the cluster cannot be given a meaningful label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1442428877461598229","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0006096","count":3},{"id":"GO:0006094","count":3},{"id":"GO:0009401","count":3},{"id":"GO:0006090","count":3}]},{"hash":"2236751163261489422","title":"Telomere maintenance with plant hormone signaling","description":"This cluster centers on telomere biology, with terms like telomeric loop formation, shelterin assembly, and replication-associated double-strand break repair, indicating roles in telomere protection and genome stability. The presence of GO terms for chlorophyll biosynthesis regulation, seed growth, and responses to ethylene and abscisic acid suggests a plant-specific context where telomere and chromatin processes may be coordinated with developmental and hormonal signaling.","confidence":"Medium","size":10,"edges":11,"triangles":0,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":10},{"id":"GO:1905839","count":10},{"id":"GO:1904792","count":10},{"id":"GO:0010380","count":10},{"id":"GO:0009723","count":10}]},{"hash":"1668449029051843316","title":"Plant telomere maintenance and chromatin assembly","description":"This cluster is strongly enriched for nucleosome assembly and telomere-associated processes (shelterin assembly, telomeric D-loop regulation, RNA localization to telomeres, and DSB repair via sister chromatid exchange), pointing to a core theme of chromatin organization and telomere maintenance in plants. Plant-specific terms like regulation of chlorophyll biosynthesis and seed growth suggest contextual roles in development, but the dominant signal remains chromatin/telomere regulation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0006334","count":6},{"id":"GO:1990414","count":5},{"id":"GO:1905839","count":5},{"id":"GO:1904792","count":5},{"id":"GO:0010380","count":5}]},{"hash":"613273895205177124","title":"Unknown","description":"The Top Terms are highly diverse, spanning immune homeostasis, development, neural myelination, metabolism, and drug response, with additional cell cycle terms. There is no clear, single functional theme tying these proteins together, and the lack of edges suggests little direct interaction within a common pathway. Therefore, no coherent label can be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0051321","count":1},{"id":"GO:0007498","count":1},{"id":"GO:0005979","count":1},{"id":"GO:0006685","count":1}]},{"hash":"2134770904814412753","title":"Multisubstrate membrane transporters","description":"The cluster is dominated by GO terms describing transport across membranes for a variety of substrates, especially sugars (fructose, glucose, galactose, trehalose) but also sialic acid, nitrate, dehydroascorbic acid, xenobiotics, and organic cations. This points to a cohesive group of membrane transporter proteins with broad substrate specificity, rather than a single metabolic enzyme, justifying a label of multisubstrate transporters within the membrane. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":6},{"id":"GO:0015706","count":6},{"id":"GO:1990539","count":6},{"id":"GO:0042908","count":6},{"id":"GO:0070837","count":6}]},{"hash":"993922878672982934","title":"Multisubstrate Transmembrane Transporters","description":"These proteins cluster around membrane transport activities for a variety of substrates, including xenobiotics, sugars (galactose, arabinose, fucose, sialic acid-containing), as well as ions (sodium, nitrate, phosphate). The term related to neurotransmitter loading into synaptic vesicles also appears, suggesting a broad spectrum of transporter roles across membranes rather than a single substrate. This justifies a label focused on multisubstrate transmembrane transporters.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":4},{"id":"GO:0015739","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0015751","count":2}]},{"hash":"304423259994070800","title":"ER-Golgi Vesicle Transport","description":"The strongest signals in the cluster are GO terms for vesicle transport between the endoplasmic reticulum and the Golgi (ER-to-Golgi and Golgi-to-ER), pointing to a shared function in ER-Golgi trafficking. Other terms appear heterogeneous (pigmentation, development, cell-cycle processes) and do not cohere as a single functional theme, so the ER\u2013Golgi transport focus best captures the cluster\u2019s core. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1}]},{"hash":"1521963374656318854","title":"Reproductive Hormone GPCR Signaling","description":"The top GO terms point to GPCR-mediated signaling in response to reproductive hormones (LH and FSH pathways, PLC and cAMP/PKA activation) and related developmental processes (uterus development, sexual characteristics). While a couple of terms (e.g., TLR8 signaling) are less related, the dominant pattern is hormone-driven GPCR signaling in reproduction, justifying a label centered on reproductive hormone signaling via GPCR pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":10},{"id":"GO:0007190","count":10},{"id":"GO:0071373","count":10},{"id":"GO:0034158","count":10},{"id":"GO:0010738","count":10}]},{"hash":"1464071919078494626","title":"Neural development with autophagy-lysosome trafficking","description":"The top GO terms cluster around nervous system development and axon extension, indicating a neural development theme. Supporting terms highlight lysosome organization and endosome-to-lysosome transport, along with autophagy-related processes, suggesting vesicular trafficking and autophagy are integral to these neurons or developmental contexts. Some immune and platelet-related terms appear but are less central to the main signal, so the primary interpretation is neural development linked to autophagy/lysosome pathways.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0045773","count":2},{"id":"GO:0007040","count":1},{"id":"GO:0032510","count":1}]},{"hash":"415438891011908195","title":"Deubiquitination and RNA Processing","description":"The GO terms center on diverse deubiquitination activities (K6/K48-linked, histone-related) and RNA-processing processes (mRNA processing, spliceosomal assembly, transcription), suggesting a functional theme of ubiquitin-mediated regulation linked to chromatin and RNA maturation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044313","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0000245","count":1},{"id":"GO:1990108","count":1}]},{"hash":"121483707713517266","title":"Ciliary Movement and Microtubule Transport","description":"The GO terms point to ciliary/flagellar motility (cilium movement, flagellated sperm motility, intraciliary retrograde transport) and microtubule-based vesicle transport, plus related developmental and cellular polarity processes (left/right determination, ventricle development) and spindle localization. This suggests proteins in the cluster function in cilia-related motility and intracellular transport along microtubules; a few terms (stress granule assembly, bioluminescence) may reflect peripheral or noisy annotations.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008218","count":1},{"id":"GO:0007368","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0021670","count":1}]},{"hash":"1192038489591532605","title":"Synaptic signaling and plasticity","description":"These proteins collectively show enrichment for GPCR-mediated signaling, intracellular signal transduction, and functions related to synapse localization and regulation of synaptic plasticity, with links to neuronal differentiation (cerebellar granule cells). While a few terms relate to non-neural processes, the dominant theme is neural signal transduction and synaptic modulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2}]},{"hash":"754416519015723617","title":"ER-Golgi vesicle trafficking and ubiquitin-regulated proteolysis","description":"The top GO terms cluster around ER-Golgi vesicle transport (both directions) and ubiquitin-related proteolysis, suggesting a shared theme of membrane trafficking coupled with protein turnover. Other terms like pigmentation and development are present but less cohesive with the core signal. Therefore the label emphasizes the strongest common function: ER-Golgi trafficking with ubiquitin-mediated degradation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1904668","count":1}]},{"hash":"576705912152818046","title":"RNA Pseudouridine Synthesis","description":"The GO terms point to RNA modification via pseudouridine synthesis across mRNA, tRNA, and snRNA, indicating RNA-modifying enzymes as the core function of this cluster. The intron homing term also ties to RNA processing, supporting a theme centered on RNA modification/processing activities. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990481","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0031120","count":1},{"id":"GO:0006314","count":1}]},{"hash":"2156116894671965734","title":"Plant Telomere Maintenance and Hormone Responses","description":"The top GO terms cluster around telomere biology, including shelterin complex assembly, telomeric loop formation, and RNA localization to telomeres, plus a replication-associated double-strand break repair term, suggesting a genome stability focus at telomeres. There are also plant-specific developmental signals such as responses to ethylene and abscisic acid, and regulation of chlorophyll biosynthesis and seed growth, indicating accompanying growth/regulatory roles in these proteins. The combination points to a plant telomere maintenance cluster with concurrent hormone- and development-related signals, though the non-telomere terms add some ambiguity. Confidence: Medium.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"607660922507900082","title":"Pain sensing and transcriptional-immune regulation","description":"This cluster shows enrichment for sensory pain terms (mechanical/chemical stimulus detection) and salicylic acid response, alongside regulatory processes like mRNA stability and transcription-related control, plus immune signaling terms (IL-12, NF-kappaB). The common thread appears to be signaling from stimulus detection to gene expression and immune regulation, justifying a label that combines pain sensing with transcriptional/immune regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071446","count":4},{"id":"GO:0072660","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0043488","count":4}]},{"hash":"1759892754361835230","title":"Unknown","description":"No GO terms or connecting edges provided, making it impossible to identify a common function for the cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"110688751286504324","title":"Unknown","description":"The GO terms are highly diverse (visual perception, development of adenohypophysis and ureteric bud, calcium transport, cAMP response, NF-kappaB signaling, protein modification, and regulation of heart rate and angiogenesis) with no single cohesive function tying them together, suggesting the cluster aggregately covers multiple unrelated processes rather than a specific pathway.","confidence":"","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0048855","count":1},{"id":"GO:0035502","count":1},{"id":"GO:0006816","count":1}]},{"hash":"2173851180699373395","title":"Neural and vascular developmental signaling","description":"The terms cluster around signaling and development across neural and cardiovascular contexts, including neural differentiation (cerebellar granule cell differentiation, synaptic plasticity regulation), Wnt signaling, endothelial/cardiac morphogenesis (venous endothelial differentiation, right atrium morphogenesis), and mechanotransduction (response to mechanical stimulus). While diverse tissues are represented, the common theme is developmental signaling guiding neural and vascular differentiation. ","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0021707","count":8},{"id":"GO:0035556","count":8},{"id":"GO:1900383","count":8},{"id":"GO:0045083","count":8}]},{"hash":"1263911927333858932","title":"Diverse carbon-source catabolism","description":"The top GO terms reveal multiple catabolic pathways for a variety of carbon sources (glycerol, methanol, propanediol, L-fucose, 3-chlorocatechol) alongside general carbon utilization. This points to a cluster of proteins involved in broad carbon-source metabolism rather than a single substrate-specific function, justifying a label centered on diverse carbon-catabolic pathways.","confidence":"Medium","size":9,"edges":21,"triangles":20,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019588","count":5},{"id":"GO:0042846","count":5},{"id":"GO:0051143","count":5},{"id":"GO:0071271","count":5},{"id":"GO:0042355","count":5}]},{"hash":"1311482590711763765","title":"Protein modification and ribosome assembly","description":"The top GO terms in this cluster center on post-translational modification (protein sumoylation and deubiquitination) and ribosome biogenesis (small subunit assembly and SSU-rRNA maturation). Although a few terms touch on other processes, the prominent themes are protein modification pathways and ribosome maturation, suggesting these proteins may link protein quality control with ribosome biogenesis.","confidence":"Medium","size":9,"edges":33,"triangles":64,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0021888","count":3},{"id":"GO:1903071","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0000028","count":3}]},{"hash":"1717689057548659405","title":"Developmental signaling and differentiation","description":"The top GO terms span signaling pathways (Wnt signaling, intracellular signal transduction, receptor localization affecting synaptic plasticity) and tissue differentiation (cerebellar granule cell differentiation, cardiac right atrium morphogenesis, venous endothelial cell differentiation), with additional immune and mechanosensory-related terms. This suggests a theme of signaling networks guiding development and tissue differentiation across multiple lineages, rather than a single specific function. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"198893242618637404","title":"Cell Cycle and Kinetochore Localization","description":"This cluster centers on cell division processes, with strong enrichment for meiotic and mitotic cell cycle terms, DNA replication, G1/S transition, and protein localization to the kinetochore, pointing to roles in chromosome replication/segregation. Some neural/developmental terms appear but are less representative of the core function.","confidence":"High","size":9,"edges":17,"triangles":11,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0034501","count":6},{"id":"GO:0060079","count":6}]},{"hash":"866023228437529202","title":"Unknown","description":"Top GO terms are sparse and many are obsolete, with no coherent shared function across the nine proteins. Only isolated hints like mitotic centrosome separation and cell adhesion appear, but there is no measurable connectivity or consistent functional theme to justify a specific label.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"1153624630493072726","title":"Protein folding and membrane targeting under stress","description":"This cluster centers on terms tied to protein quality control under stress (cellular response to unfolded protein; negative regulation of heat response; chaperone/refolding Related term) and SRP-dependent targeting to membranes, linked with Fe-S cluster assembly, all pointing to maintaining protein homeostasis and targeting during stress. Some terms (e.g., DNA replication, karyogamy) are less connected, and a couple are obsolete, but the core theme is proteostasis and trafficking under stress. ","confidence":"Medium","size":9,"edges":25,"triangles":27,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"330430170091100453","title":"Stress Response and Transporters","description":"This cluster includes multiple stress-related GO terms (SOS response, nucleotide-excision repair, mercury ion response, and regulation of endoribonuclease activity) alongside several transporter activities (amino acid and methionine transport, monoatomic anion transport, oligopeptide export from mitochondrion, and doxorubicin transport). The combination suggests proteins that participate in coping with stress while moving a variety of substrates across membranes, justifying a label that reflects both stress response and transport functions.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3},{"id":"GO:0072089","count":3},{"id":"GO:0099133","count":3}]},{"hash":"2158824750926937753","title":"Vesicle trafficking and Rab signaling regulation","description":"The GO terms cluster around intracellular transport and vesicle fusion, including regulation of vesicle fusion, COPII-coated vesicle loading, endosome transport, and Rab signaling. This points to a cohesive theme of vesicle trafficking and membrane fusion control, with peripheral terms like lens morphogenesis and host-virus interactions likely representing noise or broader context. Overall, the proteins appear to participate in regulated vesicle budding/fusion processes and Rab-mediated signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0031338","count":1},{"id":"GO:0070309","count":1},{"id":"GO:0032483","count":1}]},{"hash":"180714480952990158","title":"Immune signaling and transcription","description":"The top GO terms are dominated by immune-related responses (cellular response to GM-CSF, lipopolysaccharide, and T cell receptor signaling) alongside DNA-templated transcription and DNA replication, suggesting the proteins in this cluster participate in immune signaling coupled with transcriptional regulation. Some terms (visual perception, brain development) appear as broader annotations and may be less representative, but overall the cluster seems centered on immune signaling and gene expression. ","confidence":"Medium","size":9,"edges":10,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0006351","count":4}]},{"hash":"272726743173507740","title":"RNA processing and splicing machinery","description":"This cluster is dominated by RNA maturation and processing terms (tRNA processing, rRNA maturation, spliceosome-mediated splicing, snRNP assembly, mRNA decay pathways and P-body assembly), with supporting signals of nuclear import and related regulation, indicating a coherent RNA metabolism group.","confidence":"High","size":9,"edges":23,"triangles":26,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0051170","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1949060137555135288","title":"SNARE-Mediated ER-Golgi Vesicle Trafficking","description":"This cluster is dominated by GO terms for SNARE complex disassembly and ER-to-Golgi vesicle transport, plus Golgi vesicle docking, indicating a core vesicle trafficking module governed by SNARE machinery. While there are additional terms related to neuronal signaling and development, the strongest and most frequent signals point to vesicle transport and SNARE cycling between the ER and Golgi. ","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035494","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0048211","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0051966","count":5}]},{"hash":"423345678863551313","title":"Neural-Muscle Development and Angiogenesis","description":"The cluster shows strong representation of neural (axonogenesis, Schwann cell development), muscular (myoblast fusion, response to muscle activity), and vascular (angiogenesis) development, suggesting a coordinated developmental program across neuromuscular and vascular tissues. Some terms like visual perception and abscisic acid-activated signaling may reflect broader or cross-species annotations, but the dominant pattern is tissue development.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0007520","count":7},{"id":"GO:0014044","count":7},{"id":"GO:0010800","count":7}]},{"hash":"1293196212561930966","title":"Proteostasis and ubiquitin-mediated quality control","description":"This cluster's top GO terms center on the protein quality control system: ubiquitin-dependent ERAD, negative regulation of deubiquitination, chaperone-assisted protein handling, and responses related to protein folding and inclusion bodies. Although a couple terms touch on DNA replication and chromosome dynamics, the dominant signal is proteostasis and ubiquitin-associated regulation.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1900035","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0090084","count":2}]},{"hash":"783629267849743725","title":"Unknown","description":"The GO terms include DNA replication and cell cycle (G2/M), several development-related terms (heart, Schwann cell, visual perception), and innate immune/dsRNA responses, plus an odd plant ABA signaling item. The mix spans disparate organ systems and processes with no clear unifying function, so there is no coherent theme to label the cluster with a specific biological term.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0007601","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0010800","count":6},{"id":"GO:0009738","count":6}]},{"hash":"550136481123210639","title":"Neuronal signaling and vesicle trafficking","description":"The top GO terms center on glutamatergic synaptic transmission and endosome localization, with additional neural development cues (neural tube patterning, EMT signaling) and membrane trafficking (membrane addition at cytokinesis). This combination points to proteins involved in neuronal communication and vesicle/membrane trafficking, making the label Neuronal signaling and vesicle trafficking a concise, specific fit.","confidence":"Medium","size":9,"edges":28,"triangles":37,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":8},{"id":"GO:0036010","count":8},{"id":"GO:0007119","count":8},{"id":"GO:0060684","count":8},{"id":"GO:0021532","count":8}]},{"hash":"288198676009310495","title":"ECM Remodeling in Bone and Lung Morphogenesis","description":"The cluster shows strong signals for extracellular matrix remodeling and development, with terms like bone resorption, intramembranous ossification, collagen catabolic process, basement membrane disassembly, and epithelial tube branching in lung morphogenesis, plus surfactant homeostasis and extracellular region-related signaling. These point to coordinated ECM dynamics underpinning bone formation and lung development. Some terms (e.g., T cell\u2013mediated cytotoxicity, neural precursor proliferation) are less directly tied to this theme and may reflect broader signaling contexts, but do not redefine the core concept.","confidence":"Medium","size":9,"edges":12,"triangles":2,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045453","count":6},{"id":"GO:0043129","count":3},{"id":"GO:2000179","count":3},{"id":"GO:0001913","count":3},{"id":"GO:0034769","count":3}]},{"hash":"2229273304833431157","title":"Dendritic Spine Morphogenesis via Rac-Actin Remodeling","description":"This cluster is centered on neuronal actin dynamics and spine formation, with multiple terms related to Rac signaling, lamellipodium and ruffle assembly, and dendritic spine morphogenesis. The inclusion of hippocampus development supports a neuronal context, suggesting the proteins collaborate in Rac-driven actin remodeling that shapes dendritic spines, with some membrane trafficking aspects (Golgi to plasma membrane) as a broader cellular function.","confidence":"High","size":9,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045792","count":4},{"id":"GO:0016601","count":4},{"id":"GO:0060999","count":4},{"id":"GO:0097178","count":4},{"id":"GO:0043001","count":4}]},{"hash":"328188474904903479","title":"Neuroimmune Synapse Regulation","description":"This cluster combines strong innate-immunity signals (dsRNA response, LPS response, innate immune response, interferon-beta production, xenophagy) with neural development and synaptic processes (corpus callosum development, synapse assembly regulation, dopamine response, pain behavior), suggesting proteins involved in brain immune signaling that modulate synaptic function and development, potentially via microglia-mediated pathways.","confidence":"Medium","size":9,"edges":7,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043330","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0071222","count":9},{"id":"GO:0051965","count":9}]},{"hash":"39423619508030438","title":"Glutamatergic Synaptic Transmission and Vesicle Trafficking","description":"The top GO terms cluster around neuronal synaptic signaling and vesicle handling: regulation of synaptic vesicle exocytosis, glutamatergic transmission, synapse plasticity, ephrin receptor signaling, and brain development, with endosome localization supporting receptor trafficking. Some terms about mating projection growth or endothelial tube extension are less central, but overall the theme centers on synaptic function and vesicle trafficking. ","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:2000300","count":8},{"id":"GO:0048013","count":8},{"id":"GO:0097498","count":8}]},{"hash":"2128340621096317007","title":"Cross-Tissue Developmental Signaling","description":"Top GO terms suggest involvement in development across various tissues (brain, lung, heart) and signaling pathways (ERBB), with supporting roles in apoptosis and cell cycle processes. Although a couple of terms are less related (biofilm, visual perception), the dominant theme is developmental signaling across multiple tissues, supporting a cross-tissue development label.","confidence":"Medium","size":9,"edges":18,"triangles":10,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0071109","count":9},{"id":"GO:0090606","count":9},{"id":"GO:0032762","count":9},{"id":"GO:0060045","count":9}]},{"hash":"435816071734657470","title":"ER stress response and MHC class I antigen presentation","description":"The dominant GO terms cluster around the endoplasmic reticulum unfolded protein response and protein folding, and include peptide antigen assembly with MHC class I, suggesting a module linking ER quality control to antigen presentation and immune signaling. Additional terms such as dendritic cell chemotaxis and non-canonical NF-kappaB signaling support an immune-related context, while some other terms may reflect broader trafficking or development roles. Overall, the core theme is ER-associated protein folding with antigen processing and presentation.","confidence":"Medium","size":9,"edges":31,"triangles":53,"max_degree":8,"top_function":"protein folding","top_go_terms":[{"id":"GO:0030968","count":4},{"id":"GO:0006457","count":4},{"id":"GO:0033144","count":4},{"id":"GO:1901224","count":4},{"id":"GO:0048488","count":4}]},{"hash":"716701210262470026","title":"ER-Golgi trafficking and protein quality control","description":"The cluster is dominated by GO terms linked to intracellular trafficking and protein processing in the secretory pathway, including retrograde transport from Golgi to ER, ER-to-cytosol proteolysis, and unfolded protein response, pointing to ER-Golgi transport and quality control. A few outliers related to development and other processes appear incidental, but the main signal is trafficking and maturation within the ER\u2013Golgi axis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":3},{"id":"GO:1904211","count":1},{"id":"GO:0038005","count":1},{"id":"GO:0035311","count":1},{"id":"GO:0048515","count":1}]},{"hash":"1116098802115027704","title":"Unknown","description":"There are no GO terms listed to indicate a shared function among the proteins, and the cluster shows minimal connectivity, so a coherent functional label cannot be inferred from the given data.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1168017655039088453","title":"Nitric oxide signaling and nitrosylation","description":"The strongest shared signal among the terms is nitric oxide\u2013related biology: retrograde trans-synaptic signaling by nitric oxide and peptidyl-cysteine S-nitrosylation, suggesting a redox/NO-centered regulatory theme. Other terms in the set are diverse (xenobiotic response, hormone biosynthesis, cytokine production, SHH signaling), implying a loosely connected cluster rather than a single cohesive function. Thus the NO/nitrosylation thread provides the best, though not exclusive, explanation for the cluster\u2019s composition.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0098924","count":1},{"id":"GO:0072606","count":1},{"id":"GO:0060192","count":1},{"id":"GO:0051612","count":1}]},{"hash":"1996571817681550981","title":"Ribosome Biogenesis and RNA Processing","description":"This cluster is dominated by terms for translation, LSU-rRNA maturation, ribosome biogenesis, snoRNP assembly, and RNA modification (pseudouridine synthesis), indicating a core theme of ribosome production and RNA processing; auxiliary terms like ER\u2013Golgi transport and cell division are likely secondary. ","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000470","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0031120","count":1}]},{"hash":"1063863260515191873","title":"Vesicle trafficking and membrane transport","description":"This cluster features several membrane-traffic related terms: endosome-to-plasma membrane transport, COPI coating of Golgi vesicles, and calcium-dependent exocytosis, all pointing to vesicle formation, trafficking, and secretion. Additional terms like VLDL particle assembly and plant abscission can involve secretory pathways, while small GTPase signaling and phosphoinositide biosynthesis regulation support trafficking dynamics. Overall, the dominant theme is vesicle trafficking and membrane transport.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905751","count":1},{"id":"GO:0010227","count":1},{"id":"GO:0045956","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0034379","count":1}]},{"hash":"2039055700915812528","title":"Actin Cytoskeleton Organization and Dynamics","description":"Most terms center on actin cytoskeleton organization and dynamics: actin nucleation, cortical actin organization, and actin filament network formation, along with meiotic spindle localization and protein localization to microtubules. The inclusion of cardiac myofibril assembly also points to actin's role in muscle architecture. A couple of terms involve histamine response and ER polarization, which can feed into cytoskeletal remodeling. Overall, the cluster represents actin cytoskeleton dynamics in cell division and structural organization.","confidence":"High","size":9,"edges":15,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071420","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0007292","count":2},{"id":"GO:0055003","count":2},{"id":"GO:2000251","count":2}]},{"hash":"827261300309470833","title":"Unknown","description":"The GO terms span immune signaling, neural development, vision, biofilm formation, cardiac proliferation, apoptosis, and mitotic spindle attachment, with no single cohesive biological theme connecting all proteins; this makes a clear, representative label difficult to derive.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097011","count":7},{"id":"GO:0071222","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0007601","count":6},{"id":"GO:0071109","count":6}]},{"hash":"204480680418978358","title":"Diverse Membrane Solute Transporters","description":"The top GO terms indicate transport across membranes for a variety of substrates, including sugars (glucose, fructose, galactose, trehalose), sugar-related and other solutes (sialic acid, dehydroascorbic acid, nitrate), xenobiotics, and organic cations, pointing to a cluster of membrane transport proteins with broad substrate specificity rather than a single substrate. ","confidence":"High","size":9,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":1},{"id":"GO:0015706","count":1},{"id":"GO:1990539","count":1},{"id":"GO:0042908","count":1},{"id":"GO:0070837","count":1}]},{"hash":"432891818225701027","title":"Vesicle trafficking and cell cycle regulation","description":"The GO terms show strong enrichment for intracellular transport, especially ER-Golgi and retrograde Golgi-ER pathways, plus general intracellular transport and ribosomal/nuclear transport, suggesting a core role in vesicle trafficking. The presence of mitosis-related terms (mitotic chromosome condensation, cell division) and phosphatase activity hints at coordination between trafficking processes and cell-cycle progression, possibly with TORC1 signaling linking growth to these events. Overall, the cluster appears to cluster proteins involved in intracellular transport with concurrent regulation of cell division, rather than a single isolated function. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0051028","count":2}]},{"hash":"1286315484540791407","title":"Diverse Transmembrane Solute Transporters","description":"The top GO terms are dominated by various transmembrane transport activities for different substrates (nitrate, arabinose, galactose, sialic acid, phosphate ions, sodium, potassium, xenobiotics), indicating the proteins primarily function as membrane transporters handling diverse solutes. A peripheral metabolic term (fucose metabolic process) does not redefine the cluster\u2019s main role, so labeling it as transmembrane solute transporters is representative.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0015757","count":1},{"id":"GO:0035435","count":1}]},{"hash":"1232944911733343013","title":"Chromatin remodeling and transcription regulation","description":"This cluster centers on chromatin state control and epigenetic regulation of transcription, with GO terms for DNA-templated transcription, chromatin remodeling, heterochromatin formation, and negative regulation of transcription by RNA Pol II, along with nucleosome density and DNA methylation regulation, plus related methylation of proteins and replication-associated DNA repair. Sporulation is a secondary context but the dominant signal is chromatin-based transcription regulation.","confidence":"High","size":9,"edges":21,"triangles":22,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0060303","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2113053840489188318","title":"Reproductive hormone signaling and development","description":"The terms cluster around reproductive endocrine processes (FSH signaling, Sertoli cell development, primary ovarian follicle growth, development of secondary male sexual characteristics, thyrotropin-releasing hormone response) and related GPCR/IP3 signaling, with some innate immune/toll-like receptor pathways also present. This suggests a general focus on reproductive endocrinology and its signaling networks, rather than a single tight pathway, hence a reproductive signaling-centered label.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0032962","count":2},{"id":"GO:0034154","count":2}]},{"hash":"695100634620539308","title":"Aminoacyl-tRNA Synthetases","description":"Most of the top GO terms point to translation and tRNA charging activities (cysteinyl-, isoleucyl-, leucyl-, valyl-, methionyl-tRNA aminoacylation, and general translation/regulation of translational fidelity). This pattern suggests the proteins are predominantly aminoacyl-tRNA synthetases involved in charging tRNAs for protein synthesis, making this a cohesive \u201caminoacyl-tRNA synthetases and translation\u201d cluster. A couple of outlier terms (mycothiol biosynthesis, female genitalia development) are not aligned with this core function but do not override the main signal.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006423","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0010125","count":1},{"id":"GO:0006428","count":1}]},{"hash":"2292768642283609511","title":"Ribosome biogenesis and translation","description":"This cluster centers on translation and ribosome biology, with GO terms for translation, initiation/termination, ribosome biogenesis, export of ribosomal subunits from the nucleus, and even mitochondrial translation. The co-occurrence of these terms suggests a cohesive group of proteins involved in assembling and operating the protein-synthesis machinery, including translation-related processes like selenocysteine incorporation and translation-coupled mRNA decay. Overall, a clear theme around ribosome biogenesis and translation.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000055","count":3},{"id":"GO:0006415","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":2}]},{"hash":"2090536598220844023","title":"Epidermal Keratinocyte Differentiation and Barrier Functions","description":"This cluster shows a strong signal for epidermis development and keratinocyte differentiation, with peptide cross-linking suggesting keratin/epidermal structural assembly. While other terms touch on xenobiotic response, coagulation, and immune aspects, the dominant theme is skin/epidermal differentiation and barrier formation, with phagocytosis and toxic substance responses potentially reflecting epidermal immune function.","confidence":"Medium","size":9,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0008544","count":1},{"id":"GO:0018149","count":1},{"id":"GO:2001027","count":1},{"id":"GO:0030195","count":1}]},{"hash":"878335113479590499","title":"Unknown","description":"The GO terms are highly heterogeneous (mechanosensory response, neuronal differentiation, signaling, RNA processing/stability), with no dominant shared function or pathway across the proteins, and the cluster has no edges to indicate a cohesive group. Therefore a reliable, specific label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0071446","count":1},{"id":"GO:0035556","count":1},{"id":"GO:0072660","count":1}]},{"hash":"2038695954031086178","title":"Reproductive Hormone GPCR Signaling","description":"These proteins cluster around hormone-responsive signaling pathways, especially GPCRs that transduce follicle-stimulating hormone and luteinizing hormone stimuli into intracellular responses via pathways such as phospholipase C and adenylyl cyclase/PKA. Related processes include uterine development and sperm DNA condensation, reinforcing a theme of hormone-driven signaling in reproduction. Innate immune terms are present but appear secondary to the reproductive signaling core.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0071372","count":5},{"id":"GO:0035093","count":5},{"id":"GO:1905229","count":4},{"id":"GO:0007190","count":4}]},{"hash":"739285405325740048","title":"Unknown","description":"The terms hint at chromatin modification (histone acetylation, chromatin remodeling), but numerous unrelated processes (uterine development, sugar metabolism, macrophage differentiation, androgen signaling) prevent a single shared function; with no edges connecting the proteins, a clear cluster label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0060765","count":1}]},{"hash":"1540854199831519396","title":"Unknown","description":"The top GO terms are diverse and do not point to a single shared function: redox/oxidant processes, multiple biosynthetic pathways (menaquinone, threonine, cholesterol), carbohydrate metabolism (galactitol, GDP-L-fucose salvage), and transcription regulation, with some terms obsolete and no interactions among proteins. This scattered functional profile suggests no cohesive, identifiable cluster function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009086","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0009234","count":2}]},{"hash":"2132486697851300782","title":"RNA processing and post-transcriptional regulation","description":"The terms cluster around mRNA maturation and handling\u2014splicing via the spliceosome, mRNA export from the nucleus, stability and polyadenylation control, small-subunit processome assembly, and various forms of translational regulation and silencing (miRNA-mediated, IRES-dependent). Together they point to a cohesive theme of RNA processing and post-transcriptional gene regulation, with some viral translation aspects likely reflected by the subset of terms. ","confidence":"High","size":9,"edges":9,"triangles":5,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0006406","count":5},{"id":"GO:0010610","count":4},{"id":"GO:1900363","count":4}]},{"hash":"2268998628027528544","title":"Ribosome biogenesis and translation quality control","description":"This cluster centers on ribosome assembly and function: several terms point to rRNA maturation (5.8S, SSU/LSU) and general translation (translation, translational initiation). It also includes RNA surveillance and decay pathways (non-stop decay, no-go decay) and mRNA catabolic processes, all of which tie to maintaining proper translation and ribosome integrity. A single term about larval hematopoiesis appears incidental and does not override the core theme. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1901194","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0071025","count":1},{"id":"GO:0000463","count":1}]},{"hash":"407536916969523243","title":"Translation and ribosome biogenesis","description":"The top GO terms are translation and ribosome biogenesis, pointing to core protein synthesis machinery; the other terms hint at regulatory or stress-related aspects but do not outweigh the translation-focused theme. Overall, the cluster seems enriched for factors involved in making and regulating protein synthesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0046898","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1}]},{"hash":"589405052963479861","title":"Signaling and transcription regulation cluster","description":"The cluster shows enrichment for both transcription-related terms (DNA-templated transcription; negative regulation of transcription by RNA polymerase II) and various signaling pathways (intracellular signal transduction; phosphorelay; GPCR adenosine receptor signaling; cGMP biosynthesis) as well as related processes like membrane localization, dendrite morphogenesis, hyperosmotic response, and bone resorption, suggesting proteins that couple signaling cascades to transcriptional regulation and neuronal/bone remodeling contexts.","confidence":"Medium","size":9,"edges":8,"triangles":3,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0035556","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0006972","count":2}]},{"hash":"569807606725417449","title":"Unknown","description":"No GO terms were supplied to define a common function for these proteins, so a specific label can't be determined. The high edge density suggests a potential interaction module, but without functional annotations the cluster remains Unknown.","confidence":"","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"546067793772390176","title":"Starch, glycogen, and trehalose metabolism","description":"The top GO terms cluster around synthesis and breakdown of storage polysaccharides\u2014amylopectin/starch, alpha-glucans (including glycogen), maltose, and trehalose\u2014including both biosynthetic and catabolic processes as well as polysaccharide digestion. This points to a cohesive carbohydrate storage and utilization program.","confidence":"High","size":9,"edges":27,"triangles":41,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0010021","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0030979","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0000023","count":2}]},{"hash":"362232959124394663","title":"Unknown","description":"The terms cover a wide range of distinct processes (intracellular signal transduction, transcriptional regulation, hypoxia signaling, muscle differentiation, spore germination, neural development, cGMP synthesis, thyroid hormone response, phosphorelay signaling, and intestinal maturation) with no clear shared pathway or function among the proteins, and there are no reported interactions (Edges 0, Triangles 0). This makes it impossible to assign a cohesive, specific function to the cluster.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":1},{"id":"GO:0043619","count":1},{"id":"GO:0097411","count":1},{"id":"GO:2001016","count":1},{"id":"GO:1904359","count":1}]},{"hash":"487963213885278777","title":"Chromatin modification and transcription regulation","description":"Explanation: The cluster is dominated by terms tied to transcription and chromatin state, including DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and histone methylation (H3 and H4). Additional methylation events (peptidyl-arginine methylation), RNA processing (RNA capping), and tRNA methylation reinforce a core theme of transcription control through chromatin modification and RNA maturation. A few terms (like cobalamin biosynthesis) appear peripheral. Overall, the suite supports a chromatin-modification/transcription-regulation module.","confidence":"High","size":9,"edges":24,"triangles":26,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0019919","count":3},{"id":"GO:0034970","count":3},{"id":"GO:0043985","count":3},{"id":"GO:0002940","count":2}]},{"hash":"107102124563215698","title":"Secreted glycoproteins for larval cuticle development","description":"Top terms indicate protein glycosylation (O-GlcNAcylation and mannose-based O-linked glycosylation) and secretion/vesicle transport, plus larval cuticle development. This combination points to secreted, glycosylated proteins likely involved in larval cuticle formation in insects.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0009306","count":1},{"id":"GO:0016192","count":1}]},{"hash":"476719923276503743","title":"Unknown","description":"The top GO terms are highly heterogeneous: alginic acid biosynthesis and pectin catabolism relate to plant/algal carbohydrate metabolism, while Toll-like receptor signaling (TLR, MyD88-independent) and detection of diacyl lipopeptides point to innate immunity, and other terms touch on neural guidance or mineralization. There isn't a single cohesive biological process tying these terms together, so the cluster cannot be confidently assigned a specific function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042121","count":1},{"id":"GO:0045490","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1}]},{"hash":"350284274387703547","title":"NO-Mediated Angiogenesis and Vascular Signaling","description":"This cluster shows terms tied to nitric oxide\u2013mediated signaling, angiogenesis, and blood pressure regulation, all pointing to a vascular NO-driven signaling/theme. Some listed terms are obsolete, but the core connection among the remaining terms supports a vascular/NO signaling interpretation.","confidence":"Medium","size":9,"edges":15,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0019547","count":1},{"id":"GO:0019546","count":1},{"id":"GO:0003073","count":1}]},{"hash":"198230130310455348","title":"Mitochondrial lipids and energy metabolism","description":"The cluster is driven by lipid-related processes (ether lipid biosynthesis, cardiolipin remodeling, phosphatidylcholine remodeling, triglyceride biosynthesis, platelet activating factor biosynthesis) and mitochondrial ATP synthesis, suggesting a core theme of lipid remodeling supporting mitochondrial function and energy production. Immune signaling terms present (IL-2 production, regulation of T cell death) likely reflect broader lipid-mediated inflammatory signaling, not a distinct immune-activation cluster, while a plant-specific term (cutin biosynthesis) appears as noise. Overall, the dominant pattern ties lipid remodeling to mitochondrial energy processes.","confidence":"High","size":9,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070236","count":7},{"id":"GO:0008611","count":7},{"id":"GO:0035965","count":7},{"id":"GO:0070970","count":7},{"id":"GO:0019432","count":7}]},{"hash":"371183413463927179","title":"LPS and O-antigen biosynthesis and cell wall assembly","description":"Most prominent GO terms point to lipopolysaccharide and O-antigen biosynthesis, along with GDP-mannose and glucose-1-phosphate metabolism, all central to bacterial outer membrane polysaccharide production and cell wall organization. The presence of a couple of outlier terms (Notch signaling, gravity detection) likely reflects annotation noise, but the dominant theme is envelope biosynthesis.","confidence":"Medium","size":9,"edges":20,"triangles":18,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009243","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0097053","count":2}]},{"hash":"991818539739352994","title":"Embryonic morphogenesis and Hedgehog-ciliary signaling","description":"The terms cluster around embryonic development and tissue patterning, including eye and digit morphogenesis, neuroepithelial differentiation, and in utero development, with a strong link to cilium assembly and the Smoothened/Hedgehog signaling pathway. Additional terms on glycosylation and ER-Golgi transport likely reflect general protein processing needed during development. Together, these suggest a group of proteins involved in embryonic morphogenesis guided by ciliary Hedgehog signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0060563","count":1}]},{"hash":"1753933980313864689","title":"Unknown","description":"Not enough information to infer a shared function; without GO terms or enrichment, the nine proteins show no clear common pathway or process.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"1526472570095938092","title":"Salicylic acid response and RNA processing","description":"The top GO terms show a clear link to cellular response to salicylic acid stimulus, combined with RNA metabolism activities (mRNA processing and regulation of mRNA stability), suggesting a theme around SA-induced gene regulation at the RNA level. Some localization terms (membrane and chromosomal regions) may reflect broader regulatory processes during stress, but several terms are obsolete or non-specific, so the connection is moderate rather than definitive.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071446","count":3},{"id":"GO:0072660","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0050966","count":3},{"id":"GO:0000083","count":3}]},{"hash":"945334302469187201","title":"Muscle Structure and O-linked Glycosylation","description":"The top GO terms point to muscle architecture (sarcomere organization, somatic muscle development, muscle attachment) and protein O-linked glycosylation, suggesting a theme around muscle structural proteins that are post-translationally modified by O-linked glycosylation. Some terms related to lipid A/LPS biosynthesis appear unrelated to muscle function and may reflect annotation noise, but the dominant signal is muscle development/organization with glycosylation. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904100","count":1},{"id":"GO:0044845","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0007525","count":1},{"id":"GO:0007385","count":1}]},{"hash":"1576609632368468699","title":"Developmental signaling and differentiation","description":"The top GO terms cluster around signaling and development across multiple tissues: intracellular signal transduction and Wnt signaling point to core pathways; cerebellar differentiation, cardiac morphogenesis, and venous endothelial differentiation reflect tissue- and organ-specific development; synaptic receptor localization and mechanotransduction hint at broader signaling dynamics influencing function. While diverse, these terms collectively suggest a group of proteins involved in developmental signaling and differentiation rather than a single, narrow process.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0021707","count":5},{"id":"GO:0035556","count":5},{"id":"GO:1900383","count":5},{"id":"GO:0045083","count":5}]},{"hash":"1621739524037692599","title":"Unknown","description":"The top GO terms cover a broad mix of ubiquitin-proteasome regulation, cell division processes, multiple developmental contexts (neuron, skeletal, prostate), DNA repair, pigmentation, and apoptosis. This diversity does not point to a single cohesive function or pathway for the cluster, so a precise, representative label cannot be determined with confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"2236384767669855467","title":"Unknown","description":"The GO terms are highly diverse with no single shared process linking the proteins; terms touch on reproduction, metabolism, ciliogenesis, translation, and neural development, but nothing ties them into a coherent cluster. With no common function and no interactions among the proteins, Unknown is the appropriate label.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000253","count":1},{"id":"GO:0060296","count":1},{"id":"GO:0018095","count":1},{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1}]},{"hash":"851296871087226544","title":"Ciliary axoneme assembly and motility","description":"This cluster centers on cilium/axoneme biology and motility, with GO terms such as sperm flagellated motility, axoneme assembly, and positive regulation of cilium movement. It additionally includes tubulin post-translational modifications (polyglycylation and polyglutamylation) and microtubule severing, all of which are key features of the axonemal microtubule network that powers movement. Together, these terms point to a cohesive function in building and driving movement of cilia/flagella, particularly in contexts like sperm and epithelial cilia.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":4},{"id":"GO:0018094","count":4},{"id":"GO:1905419","count":4},{"id":"GO:0007288","count":4},{"id":"GO:0003353","count":4}]},{"hash":"1713311271149984801","title":"Unknown","description":"The GO terms span xenobiotic and caffeine responses, various nucleotide catabolic processes, and photosynthetic/electron transport activities. There isn\u2019t a clear, single cohesive function tying all proteins together, suggesting heterogeneous or broadly related roles rather than a specific cluster function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0009773","count":1},{"id":"GO:0042426","count":1}]},{"hash":"907562348861372292","title":"RNA processing and translational regulation","description":"The GO terms cluster around mRNA maturation and processing (export, splicing, polyadenylation, processome assembly), mRNA stability, and multiple layers of translational control (IRES-dependent initiation, miRNA-mediated silencing). This suggests a group tied to RNA metabolism from processing to translation, with some viral-related translation terms reflecting specialized initiation mechanisms.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"2176482824205780794","title":"Developmental signaling and differentiation","description":"These proteins\u2019 GO terms coalesce around signaling pathways and developmental differentiation: Wnt signaling, cerebellar granule cell differentiation, cardiac right atrium morphogenesis, and venous endothelial differentiation all point to embryonic or organ development guided by signaling cascades. Intracellular signal transduction and regulation of receptor localization to synapse further suggest a theme of signaling control during development. While there are some immune-related terms and an obsolete telomere-binding term that may reflect annotation noise, the dominant pattern is development-associated signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0021707","count":7},{"id":"GO:0035556","count":7},{"id":"GO:1900383","count":7},{"id":"GO:0045083","count":7}]},{"hash":"312527607522598494","title":"DNA Damage Response and Transport","description":"This cluster is dominated by DNA damage response terms (SOS response and nucleotide-excision repair), suggesting a core link to stress-induced DNA maintenance. The presence of various transport-related GO terms (amino acid and ion transport, drug/oligopeptide export) implies a broader role in moving molecules across membranes during stress, including potential export of toxic compounds. Together, these point to proteins involved in stress response with associated transport functions rather than a single, narrow function.","confidence":"Medium","size":8,"edges":22,"triangles":27,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":5},{"id":"GO:0006289","count":5},{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3}]},{"hash":"1056033344825941105","title":"Endosome-Lysosome Trafficking","description":"The top GO terms cluster around vesicle transport among the Golgi, endosomes, phagosomes, lysosomes, and vacuoles, as well as autophagosome maturation and phagosome-lysosome fusion. The presence of eye pigment granule organization suggests lysosome-related organelle biogenesis (melanosomes). Together, these terms indicate a cohesive role in endosome/lysosome\u2013related trafficking and fusion processes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008057","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0061008","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0006895","count":1}]},{"hash":"1690187772664917586","title":"Unknown","description":"The GO terms span vision, brain development, biofilm formation, immune cytokine production, cardiac muscle proliferation, apoptosis, meiotic spindle attachment, lung mesenchyme development, sodium transport regulation, and ERBB signaling, showing no single cohesive biological theme. This broad, disparate set makes it unlikely that the proteins share a common function or pathway, so a specific label is not supported. ","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0071109","count":2},{"id":"GO:0090606","count":2},{"id":"GO:0032762","count":2},{"id":"GO:0060045","count":2}]},{"hash":"1528204098326992045","title":"Developmental signaling and neural plasticity","description":"The cluster\u2019s GO terms point to broad signaling and developmental roles rather than a single pathway: intracellular signal transduction, Wnt signaling, and neural development terms such as cerebellar granule cell differentiation and regulation of synaptic plasticity by receptor localization to the synapse. There are also general processes like cell growth and xenobiotic response, suggesting regulatory roles across tissues. With no protein-protein interactions observed (edges 0), the label emphasizes signaling and developmental regulation with neural plasticity as a representative theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1}]},{"hash":"1068009623017167339","title":"DNA Damage Response and Transcription","description":"Proteins here show enrichment for DNA damage repair and genome maintenance (double-strand break repair in meiotic recombination, regulation of homologous recombination) and transcription-related steps (RNA polymerase II transcription and promoter clearance), plus responses to DNA-damaging agents such as hydroxyurea and bleomycin; a few developmental terms appear but are less central, pointing to a function that links transcription with genome integrity maintenance.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006796","count":2},{"id":"GO:0021510","count":1},{"id":"GO:0072711","count":1},{"id":"GO:0001111","count":1},{"id":"GO:0007064","count":1}]},{"hash":"555530162584404825","title":"Glutamatergic synaptic vesicle cycling","description":"The top GO terms cluster around regulation of synaptic vesicle endocytosis and exocytosis, regulation of synaptic transmission (glutamatergic), and excitatory postsynaptic potentials, indicating a cohesive role in vesicle trafficking and neurotransmitter release at glutamatergic synapses in neurons. While some terms touch broader areas (e.g., brain development), the synaptic vesicle cycling theme is dominant.","confidence":"High","size":8,"edges":9,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0021762","count":7},{"id":"GO:2000300","count":7}]},{"hash":"1194968121108174798","title":"Membrane Trafficking and Calcium Homeostasis","description":"The GO terms point to membrane-associated processes (phospholipid translocation, endocytosis, membrane repolarization, sodium export) and intracellular calcium ion homeostasis, suggesting a shared role in membrane transport and Ca2+ signaling. A few outlier terms (pre-B cell differentiation, inner ear development, fast-twitch muscle contraction) exist, but the dominant theme remains membrane trafficking and calcium regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0045332","count":4},{"id":"GO:0002329","count":3},{"id":"GO:0007033","count":3},{"id":"GO:0097755","count":3},{"id":"GO:0086009","count":3}]},{"hash":"1373942719634795202","title":"Rho signaling and Golgi trafficking in neural development","description":"The cluster\u2019s prominent GO terms center on Rho GTPase signaling (positive regulation of GTPase activity, Rho protein signal transduction), vesicle trafficking and Golgi localization (protein localization to Golgi, exocytosis), and developmental processes including nervous system development and post-embryonic development. This suggests proteins function together in Rho-mediated signaling that coordinates Golgi-associated trafficking and secretion, with notable emphasis on neural development, while other development terms reflect broader roles. Hence the label Focusing on Rho signaling and Golgi trafficking in neural development captures the main shared functions.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0001501","count":2}]},{"hash":"166709139298897654","title":"Unknown","description":"No clear GO terms or interaction signals are provided to tie the proteins to a common function, so a cohesive label cannot be inferred. The note about \u201c20 proteins re-added by ReCIPE\u201d does not establish a shared biological process.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1856219263747554832","title":"Gene Expression Regulation and Growth","description":"These terms collectively point to core processes of gene expression: transcription initiation (DNA-templated transcription initiation; RNA Pol II preinitiation complex assembly), translation setup and quality control (threonyl-tRNA aminoacylation, mitochondrial alanyl-tRNA aminoacylation; regulation of translational fidelity). The presence of histone modification terms (deubiquitination, acetylation) and growth/differentiation terms (multicellular organism growth, hepatocyte differentiation) also indicate chromatin-level regulation and developmental growth signals. Taken together, the cluster appears to group proteins involved in regulating gene expression and cellular growth/proliferation, rather than a single enzymatic pathway.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006435","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0070143","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0006352","count":1}]},{"hash":"981236811711543443","title":"Unknown","description":"The only GO term is an obsolete cytosine methylation term with a single occurrence, and the cluster has no edges or coherent functional signal, so there isn\u2019t a clear theme to tie the proteins together.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1}]},{"hash":"470580780516894803","title":"ERAD and Ubiquitin-Proteostasis with Interferon Signaling","description":"The terms cluster around ubiquitin-dependent ERAD, protein ubiquitination, ER-to-cytosol retrograde transport, ER stress\u2013induced apoptosis, and interferon-related signaling, suggesting a coherent theme of ER proteostasis and antiviral responses. A few terms (like nucleotide-excision repair) are less central to this core function.","confidence":"High","size":8,"edges":14,"triangles":10,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":5},{"id":"GO:0070911","count":4},{"id":"GO:1904153","count":4},{"id":"GO:0060340","count":4}]},{"hash":"666165587697466326","title":"Glutamatergic Vesicle Cycling and Transmission","description":"The cluster is dominated by GO terms related to synaptic vesicle endocytosis and exocytosis, regulation of synaptic transmission (glutamatergic), and excitatory postsynaptic potentials, which together point to coordinated vesicle cycling and glutamatergic signaling in neurons. While some terms (mitotic cycle, bud growth, EMT signaling) are less related, the core signal reflects neuronal synaptic vesicle trafficking and transmission.","confidence":"High","size":8,"edges":16,"triangles":10,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0035690","count":8},{"id":"GO:0021762","count":8},{"id":"GO:2000300","count":8}]},{"hash":"1399980767119145112","title":"Neuronal vesicle trafficking and synaptic signaling","description":"The GO terms emphasize membrane transport, endosome localization, and regulation of glutamatergic synaptic transmission, pointing to vesicle trafficking and synaptic signaling in neurons. Developmental terms like neural tube patterning further support a neural-context trafficking/signaling role, making this a coherent neuronal trafficking/synaptic cluster.","confidence":"High","size":8,"edges":26,"triangles":44,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071806","count":5},{"id":"GO:0000060","count":5},{"id":"GO:0051966","count":4},{"id":"GO:0036010","count":4},{"id":"GO:0007119","count":4}]},{"hash":"995834786587309726","title":"Neuronal vesicle trafficking and brain development","description":"The cluster shows strong ties to brain development and synaptic vesicle cycling (exocytosis and endocytosis), suggesting a role in neuronal function and synaptic transmission. While some terms point to general cellular stress responses (protein folding and ER unfolded protein response) and others to broader signaling pathways, the dominant signal is neural development and vesicle trafficking. A few yeast/pheromone-related terms and steroid signaling may be incidental noise rather than central themes. Overall, the set is best described by a neuronal vesicle trafficking and brain development theme. ","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033144","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0010796","count":2}]},{"hash":"821980017533889476","title":"Chromatin remodeling and histone acetylation","description":"This cluster\u2019s top GO terms cluster around chromatin-level regulation: histone acetylation and N-terminal acetylation, and general chromatin remodeling. Although other terms touch on diverse processes, the strongest signal is epigenetic regulation of chromatin structure and access, which justifies a label focused on chromatin remodeling and histone modification.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0060765","count":1}]},{"hash":"2248677717768675022","title":"Neural development and synaptic signaling","description":"This cluster is enriched for neural-related processes: neural tube patterning, regulation of glutamatergic synaptic transmission, and ERK/MAPK signaling, all core to neural development and synaptic function. Endosome localization hints at receptor trafficking essential for neuronal signaling. Although a few terms touch on broader morphogenesis or stress responses, the dominant theme is neural development and synaptic signaling, justifying the label.","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0051966","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0007119","count":3}]},{"hash":"261865247023249399","title":"Neuronal development and endosomal trafficking","description":"The top GO terms point to neuronal development and signaling (regulation of synaptic transmission, glutamatergic; neural tube patterning) as well as membrane trafficking and morphogenesis (endosome localization, membrane addition at cytokinesis, EMT signaling, cell migration). This combination suggests a cluster centered on neuronal development with concurrent endosomal trafficking and membrane dynamics.","confidence":"Medium","size":8,"edges":22,"triangles":28,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":8},{"id":"GO:0036010","count":8},{"id":"GO:0007119","count":8},{"id":"GO:0060684","count":8},{"id":"GO:0021532","count":8}]},{"hash":"1761310973230567478","title":"Neurodevelopmental signaling and trafficking","description":"These proteins show strongest links to neural development and signaling (neural tube patterning; regulation of glutamatergic synaptic transmission) with a component of membrane trafficking (protein localization to endosome). Other terms suggest stress or movement responses, but the core pattern points to developmental signaling in neurons and endocytic regulation, justifying a neurodevelopmental-trafficking theme. ","confidence":"Low","size":8,"edges":15,"triangles":7,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000186","count":5},{"id":"GO:0051966","count":4},{"id":"GO:0036010","count":4},{"id":"GO:0007119","count":4},{"id":"GO:0060684","count":4}]},{"hash":"1608359200492536833","title":"Unknown","description":"The top terms span ribosome biogenesis, lipophagy, endosome localization, filopodium assembly, cell signaling, and developmental patterning, indicating a mix of disparate cellular roles rather than a single cohesive function. With no clear shared pathway or connectivity (Edges 0, Triangles 0), there isn\u2019t a strong unifying theme to label the cluster beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0061724","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0090334","count":2}]},{"hash":"903645269014368729","title":"Endosomal Trafficking and Neural Development","description":"The cluster centers on endosome localization, glutamatergic synaptic regulation, and developmental signaling (neural tube patterning, EMT), suggesting a shared theme of vesicle trafficking guiding neural signaling and tissue patterning. Additional terms about cytokinesis membrane addition reinforce the trafficking function. Some terms reflect stress or behavior, but they are secondary to the dominant trafficking/development pattern.","confidence":"Medium","size":8,"edges":16,"triangles":12,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":4},{"id":"GO:0036010","count":4},{"id":"GO:0007119","count":4},{"id":"GO:0060684","count":4},{"id":"GO:0021532","count":4}]},{"hash":"2300536125432299876","title":"Vesicle trafficking and actin cytoskeleton dynamics","description":"This cluster is enriched for processes related to endocytosis (clathrin-dependent), actin cytoskeleton organization, filopodium assembly, and synaptic vesicle recycling, with supporting involvement of small GTPase signaling and ER-to-Golgi lipid transport, suggesting a coherent theme of membrane trafficking coordinated with cytoskeletal remodeling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051146","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0046847","count":1},{"id":"GO:0072583","count":1},{"id":"GO:0007264","count":1}]},{"hash":"399558310785917692","title":"ER-Golgi vesicle trafficking and cell division","description":"This cluster is enriched for COPII-coated vesicle budding and ER-Golgi transport, indicating a secretory pathway role, and also includes mitotic cell cycle and mitotic spindle assembly terms, plus growth/development terms. The combination suggests proteins involved in both vesicle trafficking and cell division/development, justifying a label that captures both aspects.","confidence":"High","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090114","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008283","count":2}]},{"hash":"589029089020808832","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006362","count":1},{"id":"GO:0006363","count":1},{"id":"GO:0006361","count":1},{"id":"GO:0006295","count":1}]},{"hash":"2164920133748974696","title":"Axon Guidance in Neural Development","description":"This cluster is dominated by GO terms related to axon guidance and neural development, including sensory neuron axon guidance, retinal ganglion cell and sympathetic neuron projection guidance, and facial nerve organization. It also includes regulation of axon extension and paranodal junction assembly, suggesting a cohesive role in axon pathfinding and neural circuit formation rather than general development. A single outlying term (coronary artery morphogenesis) may reflect broader developmental contexts but does not negate the core axon guidance theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097374","count":1},{"id":"GO:1904835","count":1},{"id":"GO:0016062","count":1},{"id":"GO:0030913","count":1},{"id":"GO:0048842","count":1}]},{"hash":"2119984581457749040","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0001707","count":1}]},{"hash":"860537032313403993","title":"Neuronal signaling and MAPK cascades","description":"The cluster centers on neural development and neurotransmission signaling, including calcium-dependent exocytosis regulation, dopamine response, ephrin receptor signaling, and activation of ERK/JNK cascades, with related phosphorylation events. These together suggest coordinated neuronal signaling and MAPK pathway activity, so a concise label capturing both synaptic signaling and MAPK regulation fits well.","confidence":"High","size":8,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045956","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0033138","count":6},{"id":"GO:0048013","count":6},{"id":"GO:0046330","count":6}]},{"hash":"2061303133630725156","title":"Unknown","description":"The GO terms for this cluster cover a wide range of processes (mechanical stimulus response, ubiquitination, surfactant homeostasis, neural precursor proliferation, T cell cytotoxicity, bone resorption, basement membrane disassembly, lung morphogenesis, Wnt signaling localization, and ossification) with no clear, unifying biological theme. Because there isn\u2019t a coherent, dominant function tying these proteins together, a concise, representative label cannot be reliably assigned. ","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0043129","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0001913","count":1}]},{"hash":"1853343780948340040","title":"Vesicle dynamics and signaling regulation","description":"The top GO terms center on regulatory roles in signaling (negative regulation of Ras and Rho pathways) and vesicle-related processes (synaptic vesicle priming, acrosome reaction), with additional terms pointing to broader regulatory activities (circadian rhythm, phototransduction, transcription). This suggests a theme around controlling signaling and vesicle-mediated functions rather than a single specific pathway, justifying a label focused on vesicle dynamics and signaling regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0016082","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007340","count":2}]},{"hash":"1941160524901416280","title":"Unknown","description":"There are no GO terms, edges, or other functional signals linking the proteins, so a cohesive function cannot be inferred; the appropriate label is Unknown with confidence None.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1026580316300066265","title":"Ribonucleotide Metabolism and Salvage","description":"The cluster is dominated by GO terms for nucleotide phosphorylation and ribonucleotide interconversion (ADP/AMP/CDP biosynthesis, AMP salvage, ITP metabolism, purine ribonucleotide interconversion). This points to a shared function in nucleotide biosynthesis and energy metabolism rather than a tissue-specific role, with occasional development terms likely reflecting general annotations rather than core activity.","confidence":"High","size":8,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":6},{"id":"GO:0006172","count":6},{"id":"GO:0046940","count":6},{"id":"GO:0046705","count":6},{"id":"GO:0044209","count":6}]},{"hash":"432876817490309255","title":"Immune Signaling and Transcription Regulation","description":"This cluster is dominated by immune-related signaling terms (cellular response to GM-CSF stimulus, response to lipopolysaccharide, T cell receptor signaling) and transcriptional control (DNA-templated transcription, protein autophosphorylation). Although there are some unrelated terms (ethylene signaling, smell), the core theme appears to be signaling pathways driving gene regulation in immune contexts.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0010105","count":4}]},{"hash":"37462214563791432","title":"Neuronal development and trafficking","description":"The GO terms cluster around neural development (substantia nigra development, neuron migration, regulation of synaptic plasticity) and intracellular trafficking processes (Golgi reassembly, protein targeting/export from nucleus, protein heterooligomerization). While a non-neural term (keratinocyte differentiation) appears, the dominant signal favors neural differentiation and associated protein trafficking. This supports a label centered on neural development combined with cellular trafficking functions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":1},{"id":"GO:0048167","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0008630","count":1},{"id":"GO:0021762","count":1}]},{"hash":"2168865110124895606","title":"Unknown","description":"The terms mix immune signaling (NOD2 pathway, NF-kappaB regulation), DNA damage response (SOS, nucleotide-excision repair), and various transport/metabolic processes, with no single clear function tying the proteins together. This heterogeneity prevents a specific, coherent cluster label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0060702","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0003333","count":1}]},{"hash":"8757210104603712","title":"Ubiquitin-mediated mitosis and signaling","description":"The cluster\u2019s terms are dominated by ubiquitination processes (histone H2A ubiquitination, autoubiquitination, ubiquitin-dependent ERAD) and mitotic cell cycle regulation, with additional signals pointing to cytokine and adhesion signaling (TNF, Rap, integrin). This suggests proteins that link ubiquitin modification to regulation of cell division and multiple signaling pathways, justifying a label centered on ubiquitin-mediated control of mitosis and signaling.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070535","count":2},{"id":"GO:0009190","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1902564","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1942574290623244417","title":"ER Stress\u2013Induced MAPK Signaling and Apoptosis","description":"These proteins are enriched for GO terms tied to ER stress\u2013triggered apoptotic signaling and MAPK pathways (ERK1/ERK2 cascade, JNK and p38 cascades), including intrinsic apoptosis in response to ER stress and positive regulation of JNK. Additional terms suggest broader stress responses (GM-CSF, PMA) and signaling crosstalk. Some outlier terms (visual perception, brain development) may reflect annotation noise. Overall, the cluster centers on stress-activated signaling leading to apoptosis, supporting the label.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0035329","count":3},{"id":"GO:0097011","count":3},{"id":"GO:1904628","count":3},{"id":"GO:0070371","count":3}]},{"hash":"1288174237066472819","title":"Plant telomere maintenance and shelterin regulation","description":"The top GO terms are centered on telomere biology\u2014telomeric loop formation, regulation/assembly of the shelterin complex, and replication-associated telomere repair\u2014suggesting these proteins co-function in maintaining telomere structure and chromatin at chromosome ends in plants. Some plant-hormone\u2013related terms appear but likely reflect broader regulatory roles rather than defining the cluster\u2019s core function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"794740990628851227","title":"Unknown","description":"Top Terms are empty and network connectivity is minimal (one edge, no triangles), giving no common functional theme to label.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"2163723067716857699","title":"Chromatin modification & remodeling","description":"This cluster is dominated by GO terms for histone and protein acetylation (e.g., histone H2B acetylation, N-terminal peptidyl-lysine acetylation) and chromatin remodeling, pointing to epigenetic regulation of gene expression. Although a couple of terms relate to uterus development and androgen signaling, those likely reflect tissue context rather than core function. Overall, the shared theme is chromatin modification and remodeling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":2},{"id":"GO:0010835","count":2},{"id":"GO:0018076","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0060765","count":2}]},{"hash":"1666920368377076463","title":"Gonadal Hormone Signaling and Follicle Development","description":"This cluster\u2019s top GO terms center on reproductive endocrinology and gonadal development: Sertoli cell development, FSH signaling, primary ovarian follicle growth, and development of secondary male sexual characteristics, plus a thyrotropin-releasing hormone response. While there are some immune signaling terms present, the dominant pattern points to gonadal hormone signaling and follicle development as the core theme. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"1520963839335355268","title":"RNA processing and post-transcriptional regulation","description":"The terms cluster around mRNA splicing regulation, export, stability, and silencing, plus components of the small-subunit processome and viral translational steps. This suggests the proteins participate in RNA maturation and post-transcriptional control, including ncRNA/miRNA-mediated regulation and translation processes, even in viral contexts.","confidence":"High","size":8,"edges":22,"triangles":35,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0006406","count":5},{"id":"GO:0010610","count":5},{"id":"GO:1900363","count":5}]},{"hash":"863155750933734916","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0000395","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0006458","count":1}]},{"hash":"736168532751323777","title":"Endosomal trafficking and receptor signaling regulation","description":"These terms converge on endosomal transport and regulation of receptor localization/signaling rather than core metabolic activity. The presence of a late endosome to vacuole transport term points to vesicular trafficking, while negative regulation of growth hormone receptor signaling and negative regulation of protein localization to the cell surface suggest modulation of receptor availability and signaling. The mix hints at a cohesive theme of trafficking-linked signal regulation, despite limited term counts.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060400","count":1},{"id":"GO:0032511","count":1},{"id":"GO:2000009","count":1},{"id":"GO:0071931","count":1}]},{"hash":"2200106355688120873","title":"RNA processing and translation regulation","description":"This cluster centers on RNA metabolism and control of mRNA translation, with terms for mRNA export, stability, splicing, polyadenylation, and processome assembly, plus translation initiation/termination and miRNA-mediated silencing, indicating a cohesive group involved in RNA maturation and translational control, including viral contexts.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":8},{"id":"GO:0010610","count":8},{"id":"GO:1900363","count":8},{"id":"GO:0034462","count":8},{"id":"GO:0075525","count":8}]},{"hash":"2145189926594388664","title":"Unknown","description":"The GO terms are highly diverse, spanning various transport functions, stress responses, DNA repair, and regulatory activities, with little cohesive overlap to define a single biological theme. This makes it hard to assign a concise, representative label.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0003333","count":1},{"id":"GO:0072089","count":1},{"id":"GO:0099133","count":1}]},{"hash":"2197008333153483977","title":"mRNA processing and post-transcriptional regulation","description":"This cluster is dominated by GO terms tied to RNA metabolism: splicing regulation via the spliceosome, mRNA export from the nucleus, mRNA stabilization, and regulation of mRNA polyadenylation; plus ncRNA- and miRNA-mediated gene silencing, and involvement in small-subunit processome assembly. The inclusion of viral translation initiation/termination terms suggests links to translational control of RNA as well. Overall, the proteins appear to function in RNA processing and post-transcriptional regulation.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1900363","count":3}]},{"hash":"1424242222956393950","title":"TLR-MyD88 Calcium Signaling in Immunity","description":"The cluster centers on innate immune signaling (MyD88-dependent TLR signaling and TLR7 signaling) and pathways that drive calcium mobilization (phospholipase C-activating GPCR signaling and IP3 biosynthesis), suggesting a cohesive theme of TLR-driven immune responses linked to calcium signaling. Some other terms are obsolete or peripheral, but the core set points to this immune-calcium signaling axis.","confidence":"Medium","size":8,"edges":12,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"372356323925835722","title":"Unknown","description":"Top Terms are empty and there are no edges or triangles to reveal a shared function among the 8 proteins, so no coherent theme can be inferred. ReCIPE's re-added proteins do not provide interaction or functional enrichment signals to tie the cluster together.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1130697997937679556","title":"Chromatin modification in reproductive development","description":"Reasoning: The top terms converge on chromatin regulation\u2014histone acetylation, chromatin remodeling, and related acetylation processes\u2014suggesting an epigenetic control theme. Additionally, terms related to uterus morphogenesis and uterine gland development imply a reproductive tissue-specific context. Other terms reflect metabolic or immune processes but are less central. Overall, chromatin modification with reproductive development signals best describes the cluster.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":3},{"id":"GO:0010835","count":3},{"id":"GO:0018076","count":3},{"id":"GO:0061038","count":3},{"id":"GO:0060765","count":3}]},{"hash":"1775300805981607838","title":"Notch signaling with amino acid metabolism","description":"The cluster shows a clear representation of Notch signaling (Notch signaling pathway) alongside multiple amino acid\u2013related metabolic processes (L-kynurenine and quinolinate pathways, L-alanine catabolic process, L-serine biosynthesis, oxaloacetate metabolism). The presence of signals like response to cAMP and response to glucocorticoid suggests regulatory cross-talk between signaling pathways and metabolism, and the Fe-S cluster assembly term hints at cofactor-related metabolic enzymes. Together, these terms point to a theme where Notch signaling interfaces with amino acid metabolism and related metabolic pathways.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0007219","count":6},{"id":"GO:0051591","count":5},{"id":"GO:0006564","count":5}]},{"hash":"1811668460669141595","title":"Zinc Transport and Homeostasis","description":"The cluster is dominated by GO terms related to zinc handling: zinc ion import across membranes, intracellular zinc ion homeostasis, response to zinc ion starvation, and detoxification of zinc, with an additional term for cadmium transport suggesting broader metal transport. A vacuolar processing term may reflect storage/sequestration of metals, reinforcing a zinc/metals homeostasis theme; one embryonic development term is likely incidental. ","confidence":"Medium","size":8,"edges":20,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042733","count":2},{"id":"GO:0006624","count":1},{"id":"GO:0006831","count":1},{"id":"GO:0034224","count":1},{"id":"GO:0010312","count":1}]},{"hash":"1496057527391220246","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning host response to symbionts, chromatin/nuclear functions (euchromatin regulation, ribosomal import into nucleus, mitotic membrane reassembly, centromeric cohesion), cytokinesis, translation-related clustering, developmental processes (cranial skeletal system), viral processes, and even gravitropism. There is no single coherent function uniting these proteins, so a robust, specific label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080034","count":1},{"id":"GO:1904793","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0032467","count":1},{"id":"GO:0009959","count":1}]},{"hash":"1546182497406648428","title":"Nuclear import/export machinery","description":"This cluster is enriched for GO terms related to moving molecules across the nucleus and assembling the nuclear pore, including ribosomal protein import, mRNA export, splicing factor import, and nuclear pore complex assembly; a few terms touch centrosome/microtubule organization, but the dominant theme is nuclear transport and RNA processing.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0035048","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0030953","count":1}]},{"hash":"2037660309522029923","title":"Unknown","description":"There are no top GO terms provided to define a shared function, so a cohesive theme cannot be inferred from this cluster. The eight proteins may represent a small interaction module rather than a single process.","confidence":"","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[]},{"hash":"360750993413608784","title":"Prohormone and Neuropeptide Processing","description":"The top GO terms point to maturation and processing of peptide hormones and neuropeptides (insulin, enkephalin, nerve growth factor, peptide pheromones) and related dibasic site processing, suggesting a shared function in producing/activating secreted signaling molecules and related secretory pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007354","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0032804","count":2},{"id":"GO:0007323","count":2},{"id":"GO:0032902","count":2}]},{"hash":"1275871449356617891","title":"Telomere maintenance and chromatin dynamics","description":"This cluster\u2019s top terms cluster around telomere biology: maintenance and protection of telomeres, shelterin complex assembly, telomeric loop formation, and regulation of RNA localization to telomeres, along with replication-associated repair. While there are also plant-development signals (ethylene/abscisic acid responses, chlorophyll biosynthesis, seed growth), the strongest cohesive theme is telomere integrity and chromatin dynamics. Therefore the name emphasizes genome stability at chromosome ends, with a note that plant growth signals may reflect broader regulatory roles in these proteins. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"286070668435472994","title":"Autophagy and vesicle trafficking","description":"This cluster is dominated by GO terms for autophagy-related processes (autophagosome maturation, late endosomal microautophagy, intralumenal vesicle formation) and various vesicle transport steps (ER-to-Golgi transport, dense-core vesicle transport), with an additional link to protein quality control (aggresome assembly). The recurring theme is intracellular vesicle dynamics and autophagy/quality-control pathways, making this a cohesive label.","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0070914","count":1}]},{"hash":"41359672186155048","title":"Core Metabolism and Transcription","description":"This cluster combines terms for central carbon metabolism (pyruvate metabolism, gluconeogenesis) with multiple transcription and ribosome biogenesis processes (RNA polymerases II/III, transcription elongation, ribosome biogenesis), pointing to a set of essential housekeeping functions rather than a single pathway.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006090","count":1},{"id":"GO:0006094","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009401","count":1},{"id":"GO:0006366","count":1}]},{"hash":"1542107793074709954","title":"Endomembrane trafficking and autophagy","description":"The top GO terms cluster around intracellular membrane trafficking and degradation pathways, including autophagosome maturation, intralumenal vesicle formation, late endosomal microautophagy, and ER-to-Golgi transport, along with related vesicle transport activities. While a few terms span other cellular processes (cilium movement, mRNA export, UV repair), the dominant theme is endomembrane trafficking and autophagy-related processes. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0070914","count":1}]},{"hash":"2204160365684168711","title":"TLR signaling and inflammatory response cluster","description":"The top GO terms converge on Toll-like receptor signaling, TLR4 signaling, detection of bacterial lipoproteptides, and positive regulation of inflammatory responses, indicating a cohesive innate immune signaling function. A few other terms about mechanotransduction or development appear less central, so the primary theme remains TLR-mediated immunity.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0021972","count":1},{"id":"GO:0008063","count":1}]},{"hash":"1245761006143104370","title":"Diverse sugar and related substrate transporters","description":"The Top Terms show membrane transport for a variety of substrates, dominated by sugars (glucose, fructose, galactose, trehalose) and related compounds (sialic acid, dehydroascorbic acid), plus nitrate, xenobiotics, and organic cation transport, indicating a cluster of transport proteins with broad substrate specificity across membranes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":5},{"id":"GO:0015706","count":5},{"id":"GO:1990539","count":5},{"id":"GO:0042908","count":5},{"id":"GO:0070837","count":5}]},{"hash":"1824166911493923108","title":"Neural development and glial fate","description":"The dominant GO terms point to neural development: neural plate development, cranial ganglion development, and glial cell fate determination. These recurring terms suggest a cluster enriched for neural lineage specification and glial differentiation, with other terms (Wnt signaling in apoptosis regulation, oocyte localization) likely reflecting broader developmental signaling contexts or noise. Overall, the theme centers on neural development and glial differentiation.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0080034","count":1},{"id":"GO:0001840","count":1},{"id":"GO:0071681","count":1},{"id":"GO:0061550","count":1},{"id":"GO:1904793","count":1}]},{"hash":"607391000595495036","title":"Plant telomere regulation and hormone-driven growth","description":"This cluster centers on telomere biology, with terms like telomeric loop formation, shelterin complex assembly, RNA localization to telomere, and replication-associated double-strand break repair, combined with plant-growth signals such as responses to ethylene and abscisic acid, regulation of chlorophyll biosynthesis, and seed growth. The mix suggests a plant-specific context where telomere maintenance intersects with hormone-regulated development.","confidence":"Medium","size":8,"edges":17,"triangles":17,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":7},{"id":"GO:1905839","count":7},{"id":"GO:1904792","count":7},{"id":"GO:0010380","count":7},{"id":"GO:0009723","count":7}]},{"hash":"2062696809875526545","title":"Plant telomere maintenance and chromatin remodeling","description":"This cluster is strongly enriched for chromatin remodeling terms and telomere-related regulation (shelterin assembly, D-loop disassembly, RNA localization to telomeres), suggesting a core function in chromatin state and telomere maintenance. The presence of plant-specific terms (chlorophyll biosynthesis regulation, ethylene and ABA responses, seed growth) points to a plant context, indicating these processes may be linked to development and stress signaling in plants.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":8},{"id":"GO:1990414","count":7},{"id":"GO:1905839","count":7},{"id":"GO:1904792","count":7},{"id":"GO:0010380","count":7}]},{"hash":"1935146884033869727","title":"Unknown","description":"These GO terms span translation, ribosomal RNA processing, tRNA export, metabolism, immune signaling, and protein degradation with no evident shared function or pathway among the eight proteins, and there are no edges to tie them into a cohesive module.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0000463","count":1},{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1}]},{"hash":"1216587484957948513","title":"Unknown","description":"The terms span cellular responses to mechanical stimulus, neural differentiation, developmental pathways (Wnt), cardiovascular and vascular differentiation, and immune regulation, with no single cohesive function emerging for the cluster. Because the proteins do not share a clear, dominant biological theme, a concise, representative label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"937124150990928842","title":"Unknown","description":"The top GO terms span plant development, multiple biosynthetic pathways, various protein post-translational modifications, and chromatin-related processes, with no single coherent function linking all terms. Therefore, there isn\u2019t a clear, unified role for this cluster based on the GO terms provided.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":7},{"id":"GO:0030187","count":7},{"id":"GO:2000025","count":7},{"id":"GO:0019491","count":7},{"id":"GO:0061606","count":7}]},{"hash":"430869385692658671","title":"Macrophage activation and cytokine signaling","description":"This cluster centers on immune signaling in myeloid cells, with strong representation for macrophage activation, cytokine production, and LPS-related signaling pathways, suggesting a coherent role in macrophage-mediated immune responses; a couple of terms are more general or metabolic but do not override the dominant immune theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050918","count":2},{"id":"GO:0070207","count":1},{"id":"GO:0032572","count":1},{"id":"GO:0007166","count":1},{"id":"GO:0050715","count":1}]},{"hash":"502892066991661755","title":"Telomere maintenance and shelterin regulation in plants","description":"This cluster centers on telomere biology, with terms for shelterin complex assembly, telomeric loop formation, and replication-associated repair, indicating a telomere maintenance theme. The presence of plant-specific processes (response to abscisic acid and ethylene, chlorophyll biosynthesis regulation, seed growth regulation) suggests these proteins participate in telomere biology within a plant context, linking structural telomere maintenance to broader growth and hormone responses.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"1218425562868303901","title":"Unknown","description":"The terms are highly diverse, covering development (cardiac morphogenesis, endothelial differentiation), neural differentiation (cerebellar granule cell differentiation), signaling (Wnt, intracellular signal transduction), immune modulation (IL-12), synaptic plasticity, apoptosis, and mechanical stimulus response. There's no clear unifying function or pathway linking these proteins, so a specific label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"2046645387725611733","title":"Toll-like receptor signaling","description":"The cluster's top GO terms converge on Toll-like receptor signaling and innate immune recognition: Toll signaling pathway, TLR4 signaling pathway, MyD88-independent toll-like receptor signaling pathway, and detection of diacyl/triacyl lipoproteptides. This points to a shared function in sensing microbial lipids and propagating innate immune responses. A few terms (cellular response to mechanical stimulus, corticospinal neuron axon guidance, negative regulation of tooth mineralization, regulation of retrograde transport) are more divergent, possibly reflecting secondary roles or annotations in shared protein families, but do not override the dominant TLR-related theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0021972","count":1},{"id":"GO:0008063","count":1}]},{"hash":"1432153095424969504","title":"Unknown","description":"The GO terms are diverse (mitotic cell cycle, development of adenohypophysis and ureteric bud, visual perception, calcium transport, and signaling regulation) with no single dominant function, and there are no edges linking proteins, so there is no cohesive shared theme to assign a specific label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051591","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0048855","count":1},{"id":"GO:0035502","count":1}]},{"hash":"1228202403268436532","title":"Neural and cardiac development signaling","description":"The top GO terms show neural development (cerebellar granule cell differentiation, regulation of synaptic plasticity), cardiovascular development (cardiac right atrium morphogenesis, venous endothelial cell differentiation), and central signaling pathways (Wnt signaling, intracellular signal transduction), suggesting a shared developmental signaling module spanning nervous and heart/vasculature tissues. While some terms are broader or immune-related, the dominant theme is development through signaling in these two systems.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"1373117739093757798","title":"Gonadal Development and Innate Immune Signaling","description":"The GO terms show a mix of gonadal development processes (Sertoli cell development, primary ovarian follicle growth, FSH signaling, secondary male sexual characteristics) and innate immune signaling (MyD88-dependent and TLR pathways, PLC-GPCR/IP3 signaling). This suggests a cluster where signaling pathways relevant to reproductive biology intersect with innate immune signaling, rather than a single, cohesive pathway. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"1399787605314097300","title":"Telomere maintenance and shelterin assembly","description":"The top GO terms are dominated by telomere-related processes (telomeric loop formation, shelterin complex assembly, D-loop regulation, and telomere maintenance), indicating a cohesive core function in telomere protection and genome stability, despite a few unrelated plant-related terms that appear incidental.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"571354126122816106","title":"Lipid metabolism and lipoprotein remodeling","description":"The proteins in this cluster are characterized by GO terms tied to lipid storage, triglyceride biosynthesis, cholesterol homeostasis, and remodeling/assembly of HDL particles, suggesting a coherent role in lipid metabolism and lipoprotein regulation. An outlier term about insect cuticle development and an obsolete O-GlcNAcylation term appear incidental, but the dominant lipid-related signals support this interpretation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":3},{"id":"GO:0035269","count":3},{"id":"GO:0008363","count":3},{"id":"GO:0019915","count":2},{"id":"GO:0006672","count":2}]},{"hash":"2214002147114664086","title":"Neural development and signaling","description":"The GO terms show a focus on nervous system-related processes, notably peripheral nervous system myelination and neuronal signaling (response to morphine, cell-cell adhesion), with additional developmental context (mesoderm development) and some cell-cycle/metabolic terms that are broader cellular functions. This suggests a cluster centered on neural development and signaling, with some ancillary processes. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":7},{"id":"GO:0007498","count":7},{"id":"GO:0005979","count":7},{"id":"GO:0006685","count":7},{"id":"GO:0043278","count":7}]},{"hash":"1542557527071245993","title":"Cell signaling regulation and proteostasis","description":"These proteins are tied to signaling regulation (GTPase activity, kinase activity, autophosphorylation) and ubiquitin-mediated turnover (SCF complex). They also relate to RNA processing (mRNA transport, NMD), cell cycle/embryonic development, and stress responses (hypoxia), suggesting a coordinated role in signaling, protein turnover, and RNA quality control during development and mitosis.","confidence":"Medium","size":7,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0031954","count":2}]},{"hash":"960193688484442779","title":"Neuronal development and protein complex assembly","description":"This cluster is enriched for GO terms related to brain development and neuron projection development, suggesting a neuronal differentiation/structure formation theme. There are also terms tied to protein complex formation (protein oligomerization) and ubiquitin-mediated proteolysis, which may reflect regulatory processes during neuronal development. While there are other scattered terms (cell cycle, tissue-specific development), the dominant signal points to neuronal development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1}]},{"hash":"1726940492239838081","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The top GO terms point to ubiquitin ligase activity and SCF-dependent proteasomal degradation, suggesting a central theme of ubiquitin-mediated protein turnover. Some terms relate to cell division (mitotic spindle orientation, cytokinesis) and DNA damage response (HR repair) or apoptosis, all of which can be modulated by ubiquitin signaling. Other terms about development or pigmentation are likely ancillary. Overall, the cluster appears to reflect ubiquitin-regulated control of cell cycle and related pathways. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"1458878981726819024","title":"Neuronal Synaptic Vesicle Cycling and Neurotransmitter Release","description":"Reasoning: The top GO terms cluster around presynaptic vesicle exo/endocytosis, neurotransmitter secretion, and excitatory postsynaptic potential, which together point to neuronal synaptic function and vesicle cycling. The mention of substantia nigra development supports a brain-specific context. Some terms (mitotic cycle, ABA signaling, xenobiotic response) may reflect general cellular processes or annotation noise rather than core function.","confidence":"Medium","size":7,"edges":6,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":7},{"id":"GO:1900242","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0035690","count":6},{"id":"GO:0021762","count":6}]},{"hash":"2186174951260121750","title":"Unknown","description":"This cluster has no listed Top Terms to indicate a shared function, and the modest connectivity (2 edges, 0 triangles) offers little evidence of a common biological role. Without GO term signals to tie the proteins together, the safest label is Unknown.","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1367843891475311540","title":"Pain and mechanosensory signaling","description":"The top GO terms cluster around detection of mechanical and chemical stimuli and cellular responses to mechanical stimulus, i.e., nociception, with accompanying intracellular signaling and protein localization processes. A couple terms (cerebellar granule cell differentiation and telomeric protein localization) seem incidental, but overall the theme is pain/ mechanosensory signal transduction.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0071446","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0072660","count":2}]},{"hash":"469042831504818663","title":"Developmental Cytoskeleton Dynamics and Ubiquitination","description":"The GO terms cluster around cytoskeletal remodeling (actin depolymerization, spindle orientation, cytokinesis), cilium assembly, and various developmental processes (neuron projection development, skeletal system development, prostate gland development). The concurrent presence of ubiquitin ligase activity regulation and ubiquitin-dependent proteolysis suggests a link between cytoskeleton dynamics and protein turnover in development. This combination supports a label centered on developmental cytoskeleton dynamics with ubiquitin regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050731","count":4},{"id":"GO:0060271","count":4},{"id":"GO:0030042","count":4},{"id":"GO:1904668","count":3},{"id":"GO:0031146","count":3}]},{"hash":"1908117123564953775","title":"Unknown","description":"The GO terms are highly diverse, spanning mechanical response, neural development, signaling pathways (including Wnt), immune regulation, cardiac morphogenesis, and endothelial differentiation, with no single shared function uniting the cluster. This heterogeneity makes it unclear to assign a concise, representative label beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"498750908611782594","title":"Unknown","description":"The top GO terms are a mix of development (mesoderm, skeletal muscle, substantia nigra), metabolism (riboflavin biosynthesis, glycogen regulation, sphingomyelin catabolism), and nervous system signals (response to morphine), with no single cohesive function tying all seven proteins together. Because the terms don\u2019t point to a shared pathway or process, there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009231","count":3},{"id":"GO:0048741","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0051321","count":1}]},{"hash":"4582174313349098","title":"Glutamatergic Synaptic Transmission and Plasticity","description":"The top GO terms cluster around neuronal communication and plasticity, notably glutamatergic synaptic transmission, long-term potentiation, and regulation of synaptic plasticity, with supporting links to membrane lipid biosynthesis that can influence synaptic signaling. Some terms (myoblast fusion, ABA signaling) are less directly related and may reflect annotation noise, but the dominant pattern is neuronal synaptic function. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031914","count":3},{"id":"GO:0090153","count":3},{"id":"GO:0035249","count":3},{"id":"GO:0007520","count":3},{"id":"GO:0001324","count":3}]},{"hash":"1767315961807149867","title":"Cell signaling and membrane trafficking","description":"These proteins show GO terms centered on endosomal localization, membrane remodeling during cytokinesis, and signaling pathways (Ras regulation, EMT signaling), with additional stress/response terms (drug response, hyperosmotic, mineralocorticoid stimulus, chemotaxis). The shared theme points to signaling coupled with membrane trafficking rather than a single precise function, so the label captures the core clique while remaining general.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036010","count":2},{"id":"GO:0007119","count":2},{"id":"GO:0060684","count":2},{"id":"GO:0097327","count":2},{"id":"GO:0006972","count":2}]},{"hash":"980383139537484692","title":"Protein folding stress and Fe-S cluster assembly","description":"The GO terms are dominated by protein quality control and targeting (cellular response to unfolded protein, SRP-dependent cotranslational targeting to membrane) alongside iron-sulfur (Fe-S) cluster biogenesis and iron ion sequestration. This points to a cohesive theme of maintaining protein homeostasis under stress and assembling Fe-S cofactors, with a few unrelated terms likely incidental. Overall, a clear label is a cluster of protein folding/quality-control functions linked to Fe-S cluster assembly.","confidence":"Medium","size":7,"edges":16,"triangles":13,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0034620","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0006616","count":2},{"id":"GO:0006880","count":2}]},{"hash":"995264837915599733","title":"Chromatin regulation and transcription control","description":"The cluster shows GO terms centered on chromatin organization (nucleosome density, nucleosome positioning, heterochromatin maintenance, chromatin silencing at telomeres) and transcriptional regulation (transcriptional control during the cell cycle and miRNA transcription), with additional hints at cohesin loading and proteostasis-related aggresome assembly. The common thread is epigenetic/chromatin-based regulation of gene expression, rather than a specific metabolic or signaling pathway, though several terms are obsolete. Overall, the proteins appear to co-function in chromatin remodeling and transcription control.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060303","count":1},{"id":"GO:0000083","count":1},{"id":"GO:0031397","count":1},{"id":"GO:0006344","count":1},{"id":"GO:0070842","count":1}]},{"hash":"2216155067869845601","title":"NF-\u03baB signaling and ubiquitination in immunity","description":"The terms point to immune signaling pathways (NF-\u03baB activation, regulation of LPS signaling, chemokine production) and ubiquitination events (various linkages and actin ubiquitination) as central themes, along with host defense functions like suppression of viral release and symbiont invasion. This suggests the cluster centers on how ubiquitination modulates NF-\u03baB\u2013driven immune responses and related signaling.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:1902187","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0031664","count":4},{"id":"GO:0070535","count":4},{"id":"GO:0051092","count":4}]},{"hash":"257188557347553915","title":"Unknown","description":"The top GO terms are highly diverse (vision, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, meiosis attachment, lung mesenchyme development, sodium transport, ERBB signaling) with no shared functional theme or pathway. There are no edges or coherent enrichment tying the proteins together, so there is no clear common function to name this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1},{"id":"GO:0032762","count":1},{"id":"GO:0060045","count":1}]},{"hash":"66990786923920292","title":"Proteolysis and Antigen Processing","description":"The GO terms show a strong emphasis on proteolysis and protein processing (proteolysis, membrane protein proteolysis, protein autoprocessing, digestion) and antigen processing/presentation via MHC class II, with APP-related processing and amyloid-beta metabolism. A few terms (mesonephros development, xylan catabolic process, response to cGMP) appear incidental, but the dominant signal is proteolytic protein processing and antigen handling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070305","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0033619","count":1},{"id":"GO:0001823","count":1},{"id":"GO:0042985","count":1}]},{"hash":"733444822390603628","title":"Mitotic division and ER-Golgi transport","description":"This cluster shows strong representation of cell division terms (mitotic cell cycle, mitotic spindle assembly, cell division) together with vesicle trafficking between ER and Golgi (COPII budding, ER-to-Golgi and Golgi-to-ER transport). The combination suggests proteins involved in coordinating mitosis with secretory pathway trafficking.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0090307","count":2}]},{"hash":"920281806854371114","title":"Virus-host interaction and autophagy pathways","description":"The top GO terms cluster around viral manipulation of host cells (host cycle arrest during G2/M, viral DNA replication, host membrane permeabilization for entry) and host cell quality-control/trafficking processes (autophagosome maturation, intralumenal vesicle formation, late endosomal microautophagy, aggresome assembly). Additional terms related to mRNA export and peroxisomal protein import fit into the broader theme of host-cell remodeling during infection. Taken together, the cluster seems to reflect virus\u2013host interaction with associated autophagy and vesicle-trafficking pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039592","count":1},{"id":"GO:0039685","count":1},{"id":"GO:0039665","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0006406","count":1}]},{"hash":"1720564236621135696","title":"Plant development and proteostasis","description":"These proteins show GO terms spanning plant developmental processes (seed morphogenesis, plant ovule morphogenesis, chlorophyll biosynthesis) along with proteostasis and trafficking functions (misfolded-protein response, proteasome assembly, K48-linked deubiquitination, intracellular protein transport), suggesting a theme of coordinating development with protein quality control and trafficking in plants.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":1},{"id":"GO:0048317","count":1},{"id":"GO:0035640","count":1},{"id":"GO:1904669","count":1},{"id":"GO:0071108","count":1}]},{"hash":"1815458603457432346","title":"Fatty acid biosynthesis and acyl-CoA catabolism","description":"This cluster shows a cohesive pattern around fatty acid metabolism, with multiple terms for biosynthetic and acyl-CoA\u2013related catabolic processes (medium- and long-chain) suggesting a lipid metabolism role in bacteria. Other terms (enterobactin biosynthesis, transcription-related) appear less central and may reflect incidental associations.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051792","count":1},{"id":"GO:0045717","count":1},{"id":"GO:0010124","count":1},{"id":"GO:1900535","count":1},{"id":"GO:0036114","count":1}]},{"hash":"458757175609652798","title":"Neuronal development and synaptic signaling","description":"Based on the prominent GO terms, the cluster centers on neural development and neural signaling: neural tube patterning, regulation of glutamatergic synaptic transmission, and associated cellular processes like endosomal trafficking and membrane remodeling that support signaling and morphogenesis. While some terms reflect broader cell biology, the neural development and synaptic themes are most evident, supporting a label focused on neuronal development and signaling.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":6},{"id":"GO:0036010","count":6},{"id":"GO:0007119","count":6},{"id":"GO:0060684","count":6},{"id":"GO:0021532","count":6}]},{"hash":"2212948795785153473","title":"Unknown","description":"The GO terms span vascular regulation, synaptic signaling, endosome localization, budding yeast growth, EMT signaling, neural patterning, drug response, osmotic stress, and locomotion/chemotaxis, which do not converge on a single shared function or pathway. This suggests the proteins come from diverse contexts rather than a cohesive cluster.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003100","count":7},{"id":"GO:0051966","count":6},{"id":"GO:0036010","count":6},{"id":"GO:0007119","count":6},{"id":"GO:0060684","count":6}]},{"hash":"493917329704160555","title":"Neuronal signaling and development","description":"This cluster centers on neural signaling (glutamatergic synaptic regulation) and developmental patterning (neural tube patterning, EMT signaling), suggesting proteins involved in neural development and communication. Trafficking-related terms (endosome localization) and membrane addition at cytokinesis imply membrane dynamics and vesicle routing that support signaling and cell movement, aligning with observed locomotion and chemotaxis-related terms. Overall, the set appears to connect neuronal signaling with developmental and migratory processes rather than a single isolated function.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":6},{"id":"GO:0036010","count":6},{"id":"GO:0007119","count":6},{"id":"GO:0060684","count":6},{"id":"GO:0021532","count":6}]},{"hash":"2266170034698182468","title":"Lung development and ECM remodeling","description":"In this cluster, several top GO terms point to lung development and function (surfactant homeostasis; epithelial tube branching in lung morphogenesis) along with processes tied to extracellular matrix remodeling (basement membrane disassembly; collagen catabolic process; intramembranous ossification and bone resorption). Although there are a few immune-related terms, the strongest and most coherent theme centers on developmental morphogenesis and ECM remodeling, particularly in the lung, suggesting a label focused on lung development with associated matrix remodeling. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043129","count":7},{"id":"GO:2000179","count":7},{"id":"GO:0001913","count":7},{"id":"GO:0045453","count":7},{"id":"GO:0034769","count":7}]},{"hash":"182568513839097559","title":"Neural differentiation and synaptic signaling","description":"The GO terms point mainly to neural development and synaptic communication, with cerebellar granule cell differentiation, intracellular signal transduction, regulation of synaptic plasticity via receptor localization to the synapse, and Wnt signaling as core themes. Although other terms touch on immune and vascular processes, the strongest signal is neural differentiation and synaptic signaling, supporting this label. ","confidence":"Medium","size":7,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1899284679513002245","title":"Golgi-Vacuole Trafficking and Autophagy","description":"This cluster shows a strong signal for vesicle transport between the ER, Golgi, and vacuole, including ER-to-Golgi transport, intra-Golgi transport, Golgi ribbon formation, vacuole fusion, and Golgi-to-vacuole trafficking, plus macroautophagy. A couple of terms (cell cycle and muscle movement) are less representative, but the dominant theme centers on Golgi/vacuolar trafficking and autophagy.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0006896","count":1},{"id":"GO:0006623","count":1},{"id":"GO:0050882","count":1},{"id":"GO:0006891","count":1}]},{"hash":"2067683791945698337","title":"Neuronal development and synaptic plasticity","description":"Based on the enrichment of GO terms related to brain development and synaptic function, including substantia nigra development, neuron migration, and regulation of synaptic plasticity, the cluster appears to consist of proteins involved in neuronal development and synaptic regulation. A few terms like keratinocyte differentiation and Golgi reassembly are present but are less central. The strongest signals point to neural development and plasticity.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":2},{"id":"GO:0030307","count":1},{"id":"GO:0048167","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0008630","count":1}]},{"hash":"23987487719226585","title":"Epithelial polarity and RTK signaling","description":"Top GO terms center on establishing and maintaining epithelial cell polarity, tight junction/assembly processes, and cytoskeletal dynamics driven by small GTPases, along with receptor tyrosine kinase signaling (EGFR, ephrin). These themes together point to a cluster of proteins coordinating cell polarity, junction formation, and membrane-ckeletal remodeling. Some apoptosis-related terms appear but are less central to the core function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097345","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0043525","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0007264","count":3}]},{"hash":"1304491435391489689","title":"Unknown","description":"The cluster contains a mix of neural development terms (visual perception, superior temporal gyrus development), development in other tissues (lung mesenchyme, cardiac muscle proliferation), signaling (ERBB pathway), and other processes (apoptosis, spindle\u2013kinetochore attachment, ion transport, biofilm formation, mast cell cytokine production). There isn\u2019t a single cohesive function that clearly unites these terms, so a specific, representative label cannot be confidently assigned.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0071109","count":7},{"id":"GO:0090606","count":7},{"id":"GO:0032762","count":7},{"id":"GO:0060045","count":7}]},{"hash":"220045775095092305","title":"Unknown","description":"There are no GO terms or shared functional signals for this cluster\u2014the Top Terms field is empty and the network shows zero edges or triangles, offering no basis to group the proteins by function. The mention that 20 proteins were re-added by ReCIPE does not imply a common role. Consequently, I cannot assign a meaningful label to this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"743666796045012839","title":"Unknown","description":"Unknown: no shared GO terms or interactions are evident (no edges, no triangles, max degree 0, and no enriched terms), so there is no clear common function to summarize.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2107908812616203609","title":"Neural development and ion transport","description":"Most top GO terms center on neural-specific processes: dendrite morphogenesis, visual perception, and potassium ion transport, suggesting roles in neuronal differentiation and signaling. While there are also general processes like transcription and cell cycle, they are less defining for this cluster. Overall, the dominant neural-related terms support labeling this cluster as neural development and ion signaling.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048813","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006813","count":4},{"id":"GO:0007601","count":3}]},{"hash":"698339869848348380","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":1},{"id":"GO:0009561","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0000480","count":1}]},{"hash":"123932475790495867","title":"Auxin transport and signaling proteins","description":"The top GO terms are dominated by auxin-related processes: auxin-activated signaling, auxin polar transport, auxin export across the plasma membrane, and ER-to-cytosol auxin transport. This points to a core function in plant hormone transport and signaling, including transmembrane transport and root development. Some terms (e.g., intracellular signal transduction, cellular response to mechanical stimulus) align with hormone response pathways, reinforcing a cohesive auxin-centered cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009734","count":1},{"id":"GO:0009926","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0010315","count":1},{"id":"GO:0080162","count":1}]},{"hash":"1086283560023343189","title":"Secretory vesicle trafficking and degranulation","description":"This cluster is enriched for GO terms related to vesicle transport between ER and Golgi, Golgi ribbon formation, vesicle targeting, and exocytosis, including eosinophil and NK cell degranulation, pointing to a shared role in regulated secretory granule trafficking and release.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043308","count":1},{"id":"GO:0070254","count":1},{"id":"GO:0006903","count":1},{"id":"GO:0016079","count":1},{"id":"GO:1990668","count":1}]},{"hash":"2305616456965206435","title":"Plant chromatin remodeling and telomere maintenance","description":"This cluster is dominated by GO terms tied to chromatin remodeling and telomere biology (chromatin remodeling; shelterin assembly; telomere D-loop regulation; telomere maintenance and related DNA repair), suggesting a nucleus-centered program for genome stability at telomeres in plants, with additional plant-growth signaling terms (ethylene, ABA) indicating developmental context.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043044","count":5},{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3}]},{"hash":"725051158196714667","title":"Unknown","description":"The top GO terms span neural development, synaptic signaling, endosome trafficking, cell growth, EMT signaling, stress responses, behavior, translation initiation, and chemotaxis, with each term represented by a single protein. There is no clear, single functional theme tying these proteins together, so a cohesive, high-level label cannot be determined.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1},{"id":"GO:0060684","count":1},{"id":"GO:0021532","count":1}]},{"hash":"1664305420584360565","title":"Unknown","description":"The terms span neural development, immune signaling, tissue development, cell division, apoptosis, ion transport, and ERBB signaling, with no single cohesive function linking all proteins. A concise, representative label cannot be drawn from these diverse GO terms, so the cluster is Unknown.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0071109","count":5},{"id":"GO:0090606","count":5},{"id":"GO:0032762","count":5},{"id":"GO:0060045","count":5}]},{"hash":"2251752306819251688","title":"Ion and metabolite transmembrane transport","description":"The top GO terms converge on transport across membranes for ions (Na+, K+) and metabolites (succinate, citrate, malate, arsenite), indicating the proteins likely function as transporters or transporter-related components. A single outlier term about extracellular matrix regulation does not change the overall theme. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000185","count":2},{"id":"GO:0015744","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0098656","count":2},{"id":"GO:0006813","count":2}]},{"hash":"1846886290657768862","title":"Unknown","description":"The top GO terms span metabolism, development, cell cycle, immunity, and signaling with little overlap, suggesting no single cohesive function links these proteins.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0060693","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0002467","count":1}]},{"hash":"911376991232354747","title":"Unknown","description":"The Top Terms are dispersed across reproduction (sperm capacitation), signaling (insulin receptor pathway), DNA replication, various transport processes, and stress responses, with no single pathway or process linking the proteins. The absence of edges and the weak, scattered functional signals imply there is no cohesive function defining this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071996","count":1},{"id":"GO:0060702","count":1}]},{"hash":"1399221250142691520","title":"Unknown","description":"There is no shared functional signal among the proteins (no GO terms, no edges, no triangles), so a coherent theme cannot be inferred. The safest label is Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1876988159499225417","title":"Unknown","description":"No GO terms are listed and there are no interactions among the proteins (Edges/Triangles = 0), so a common function cannot be inferred. Therefore the cluster is Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"278690047516640003","title":"DNA replication and repair cluster","description":"Dominant GO terms center on DNA metabolism and cell-cycle processes (DNA repair, DNA-templated transcription, DNA replication, mitotic cell cycle), suggesting this cluster represents proteins involved in maintaining genome integrity and cell division. A few terms such as visual perception and neural development appear among the top terms, but they are less represented and may reflect annotation noise rather than a coherent functional theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0007601","count":5}]},{"hash":"1185923103129253419","title":"Unknown","description":"The top GO terms cover diverse metabolic pathways (several biosynthetic and catabolic processes), a zinc ion transporter, dephosphorylation, and even unrelated hormonal/vascular responses, giving no single coherent function for the cluster. Therefore a concise, representative label cannot be confidently assigned.","confidence":"","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019700","count":6},{"id":"GO:0006564","count":6},{"id":"GO:0033574","count":5},{"id":"GO:0046380","count":5},{"id":"GO:0097755","count":5}]},{"hash":"253320034453597004","title":"Ribosome assembly and translation regulation","description":"The terms cluster around translation processes: IRES-dependent initiation, preinitiation complex formation, translation reinitiation, ribosome disassembly, regulation of translation, and translational fidelity\u2014together pointing to ribosome function and control of protein synthesis. A single outlier term about dosage compensation appears unrelated and may be an annotation artifact, but the core theme remains translational regulation. ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032790","count":1},{"id":"GO:0002192","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0002188","count":1},{"id":"GO:0009048","count":1}]},{"hash":"494307387249662663","title":"Ribosome biogenesis and translation regulation","description":"The cluster shows strong signals for ribosome biogenesis/export and translation, with related regulation of translation. This points to a cohesive module centered on ribosome assembly and protein synthesis control, justifying a label that emphasizes ribosome biogenesis and translation regulation.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006407","count":3},{"id":"GO:0033119","count":2},{"id":"GO:0042274","count":1},{"id":"GO:1905053","count":1}]},{"hash":"1127405971734085077","title":"Nuclear import and RNA processing machinery","description":"This cluster is dominated by GO terms for importing proteins into the nucleus (ribosomal proteins, splicing factors, snRNPs), exporting mRNA, and assembling the nuclear pore complex, with supporting links to GTPase regulation and centrosome/microtubule-related processes. The cohesive core points to nucleocytoplasmic transport and RNA processing as the primary function.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0035048","count":2},{"id":"GO:0006610","count":2}]},{"hash":"1811953458300889796","title":"RNA processing and translation regulation","description":"The top GO terms cluster around RNA metabolism and processing (mRNA export, stability, splicing site recognition, polyadenylation, and processome assembly) and extend to translation control (IRES-dependent initiation, miRNA-mediated silencing, and viral translation mechanisms). This suggests the proteins function together in RNA maturation and regulation of translation rather than a single, tightly defined pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"2299901705031151286","title":"Unknown","description":"There are no shared GO terms or interactions to link the proteins, and with 0 edges/triangles the cluster lacks a cohesive function. Without functional signals, a specific label can't be inferred.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1300102696306711548","title":"Unknown","description":"The top terms span plant-specific sieve element differentiation, acetylcholine biosynthesis/secretion (neural signaling), and cilium-dependent cell motility, with only one instance each and no evident shared pathway. This heterogeneity provides no coherent functional theme for the cluster, so the label Unknown with no confidence is appropriate.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090603","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0061526","count":1},{"id":"GO:2000155","count":1}]},{"hash":"1170394246471305021","title":"Sperm flagellum axoneme and ciliary motility","description":"This cluster is dominated by GO terms related to the ciliary/axonemal machinery and motility (sperm axoneme assembly, flagellated sperm motility, cilium movement) and supported by tubulin modifications (polyglutamylation, polyglycylation) that regulate microtubule-based movement, indicating proteins involved in sperm flagellum formation and broader ciliary motility.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0018094","count":2},{"id":"GO:1905419","count":2},{"id":"GO:0007288","count":2},{"id":"GO:0003353","count":2}]},{"hash":"1447919539754783503","title":"Gene Expression and Metabolic Biosynthesis","description":"This cluster combines GO terms tied to core gene expression processes (DNA-templated transcription, cytoplasmic translation, ribosomal large subunit assembly) with a range of distinct biosynthetic pathways (amino acid, porphyrin, cobalamin, sphingomyelin, etc.), suggesting a mix of transcription/translation machinery plus diverse metabolic capabilities. The label attempts to reflect both themes without overfitting to one, giving it balanced relevance.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0002181","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0009862","count":1},{"id":"GO:0006532","count":1}]},{"hash":"900249704760756018","title":"Gonadal Hormone Signaling and Development","description":"This cluster is dominated by GO terms tied to reproductive biology and hormone signaling: Sertoli cell development, primary ovarian follicle growth, FSH signaling, and development of secondary male sexual characteristics, indicating a theme of gonadal development and endocrine control. While there are some immune-related terms (TLR signaling) present, the strongest signal centers on reproductive hormone pathways and gonadal maturation, with GPCR and IP3 signaling as common mechanisms. Overall, the label reflects the core pattern more than the peripheral terms. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":7},{"id":"GO:0002755","count":7},{"id":"GO:0007200","count":7},{"id":"GO:0032962","count":7},{"id":"GO:0034154","count":7}]},{"hash":"675934226709817285","title":"Secretory peptide production and processing","description":"The proteins in this cluster are mainly linked to production, maturation, and secretion of signaling peptides and hormones (nerve growth factor production, cytokine production, renin secretion, islet amyloid polypeptide processing, granule transport), as well as general protein autoprocessing. While a few terms touch on development or behavior, the dominant theme centers on neuroendocrine/secretory signaling pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904810","count":1},{"id":"GO:0034231","count":1},{"id":"GO:0032902","count":1},{"id":"GO:0042089","count":1},{"id":"GO:0002001","count":1}]},{"hash":"78481887524837736","title":"Unknown","description":"The cluster lacks any connections (edges/degree 0) and only has an obsolete GO term with a single annotation, providing no clear shared function to group these proteins.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"1067060564041351898","title":"Iron transport and homeostasis","description":"This cluster is enriched for terms related to iron handling, including transferrin transport, iron ion import, and intracellular iron ion homeostasis, alongside endocytosis and vacuolar protein processing that can influence metal trafficking. While glycosylation and larval cuticle development appear among the terms, the iron transport/homeostasis signal is the strongest cohesive theme. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097370","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0042135","count":1},{"id":"GO:0006879","count":1}]},{"hash":"442251895789736389","title":"Polysaccharide metabolism: starch, glycogen, trehalose","description":"Top GO terms cluster around starch/glycogen biosynthesis and catabolism, maltose metabolism, trehalose pathways, and polysaccharide digestion, indicating a shared carbohydrate metabolism function. This coherent theme supports labeling the cluster as polysaccharide metabolism related to starch, glycogen, and trehalose.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010021","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0030979","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0000023","count":2}]},{"hash":"2177068296114020693","title":"Unknown","description":"This cluster has seven proteins but shows no edges or GO term signals to link them by function, so there is no clear shared theme to label; without annotation, the appropriate label is Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"311244139522840924","title":"RNA turnover and ribosome biogenesis","description":"These GO terms cluster around RNA metabolism and ribosome production: mRNA deadenylation/degradation, mRNA destabilization, post-transcriptional gene silencing, rRNA processing, ribosomal subunit export, and large subunit biogenesis, with stress granule assembly reflecting RNA handling under stress. Together, they suggest a role in RNA quality control and ribosome assembly coordination.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0001308","count":1},{"id":"GO:0061157","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0000056","count":1}]},{"hash":"630146593884317702","title":"Unknown","description":"The GO terms span neural development, cardiovascular/vascular differentiation, signaling pathways (intracellular and Wnt), synaptic regulation, and immune-related processes, with no clear unifying function and no interactions linking the proteins, so a confident, specific label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"2051237960511501808","title":"Intracellular vesicle transport and fusion","description":"The proteins cluster around intracellular transport and vesicle trafficking functions. Top GO terms include intracellular protein transport, regulation of vesicle fusion, COPII-coated vesicle cargo loading, regulation of Rab signaling, and various endosome-Golgi/ endosome transport processes, pointing to a shared role in sorting and trafficking of vesicles within the secretory and endomembrane pathways. Some terms (e.g., lens fiber morphogenesis, host-mediated activation of viral genome replication) are less directly connected, but the dominant theme is vesicle trafficking and Rab-regulated transport.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0031338","count":1},{"id":"GO:0070309","count":1},{"id":"GO:0032483","count":1}]},{"hash":"1645198614642568691","title":"Capsule and cell wall polysaccharide biosynthesis","description":"The GO terms point to biosynthesis and transport of polysaccharides linked to the bacterial capsule and cell wall (capsule polysaccharide biosynthetic process, cell wall polysaccharide biosynthetic process, teichoic acid biosynthesis, polysaccharide transport, cell wall organization), plus related glycosylation and UDP-galactose metabolism pathways. Altogether, they describe a coherent theme of assembling and exporting capsule and other cell wall polysaccharides. A single outlier term (immunoglobulin production) is unlikely to redefine the cluster's core function. ","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036108","count":1},{"id":"GO:0045227","count":1},{"id":"GO:0015774","count":1},{"id":"GO:0070592","count":1},{"id":"GO:0052573","count":1}]},{"hash":"1552429145776056183","title":"Far-Red Light-Regulated Circadian Transcription","description":"The top GO terms point to far-red light phototransduction and signaling, together with regulation of circadian rhythm and transcription, suggesting these proteins connect far-red light perception to transcriptional control of circadian processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042753","count":1},{"id":"GO:0009585","count":1},{"id":"GO:0010018","count":1},{"id":"GO:0006355","count":1}]},{"hash":"552499722129651099","title":"Unknown","description":"The GO terms indicate a variety of processes from ubiquitin-proteasome degradation to development, DNA repair, pigmentation, and apoptosis. There\u2019s no single shared function or pathway tying all six proteins, and there are no edges linking them, so a coherent, specific label isn\u2019t supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"1693178617408601117","title":"Developmental Signaling and Neuronal Differentiation","description":"The terms point to broad intracellular signaling and developmental pathways, with specific emphasis on neuronal differentiation (cerebellar granule cell differentiation) and synaptic regulation, alongside general signaling (Wnt, GPCR-related signaling). While immune-related and other tissue terms appear, the strongest overlap is developmental signal transduction guiding neuronal differentiation and synaptic function, suggesting a developmental signaling cluster with a neural emphasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3}]},{"hash":"811614969266890364","title":"Chromatin Regulation and Nucleosome Dynamics","description":"The terms emphasize nucleosome density and positioning, heterochromatin maintenance/silencing, cohesin loading, and transcriptional regulation during the cell cycle, pointing to a cohesive role in chromatin architecture and control of gene expression. An outlier term (aggresome assembly) likely reflects ancillary protein quality control connections but does not override the dominant chromatin-focused theme.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060303","count":6},{"id":"GO:0000083","count":6},{"id":"GO:0031397","count":6},{"id":"GO:0006344","count":6},{"id":"GO:0070842","count":6}]},{"hash":"1472213235878171361","title":"RNA processing and decay machinery","description":"This cluster centers on RNA metabolism: tRNA processing, rRNA maturation, mRNA splicing via the spliceosome, snRNP and spliceosomal assembly, nuclear import of RNA, and deadenylation-dependent decapping with P-body assembly. The ABA and water-deprivation responses suggest stress-regulated RNA processing/translation, tying these functions together as a coherent RNA metabolism module.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051170","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0000387","count":3}]},{"hash":"309508578412428864","title":"Unknown","description":"The GO terms are highly diverse (unfolded protein response, SRP-dependent targeting to membrane, iron-sulfur cluster assembly, DNA replication, apoptotic regulation, etc.) with no clear, single functional theme tying the proteins together, suggesting mixed or non-specific annotations rather than a cohesive cluster function.","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"1595204292955084487","title":"DNA replication and transcription regulation","description":"Among the top GO terms, the most prominent are DNA replication (GO:0006260) and several transcription-related processes (RNA polymerase II promoter clearance, open complex formation, and termination). This suggests the proteins are enriched for nucleic acid metabolism and transcription regulation, with additional signals for DNA damage response (SOS) and DNA repair/incision terms, and some RNA processing events. The presence of MDA-5 signaling is unusual for a transcription/DNA repair cluster and may reflect broader roles or annotation noise. Overall, the cluster appears to represent nucleic acid replication/transcription machinery with associated damage response.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0001111","count":2},{"id":"GO:0033683","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0018144","count":2}]},{"hash":"1702376259096619236","title":"Nuclear Transport and Cell Cycle Regulation","description":"The set centers on nuclear-related processes: RNA export from the nucleus, protein localization to the nuclear inner membrane, SMAD signaling regulation, and G1/S transition/mitosis, suggesting a theme of nucleocytoplasmic control and cell cycle progression. Some metabolic terms appear as outliers, but do not define the core function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035392","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0033132","count":1},{"id":"GO:0046604","count":1},{"id":"GO:1901181","count":1}]},{"hash":"310303972038163243","title":"Unknown","description":"The GO terms span diverse areas (protein complex assembly, brain development, unfolded protein response, heat stress regulation, SRP-dependent membrane targeting, DNA replication, and cell fusion), with no single cohesive function tying the cluster together, suggesting annotation noise or multi-functional proteins rather than a specific shared role.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1}]},{"hash":"139903844713105848","title":"Mitochondrial lipid metabolism and membrane organization","description":"This cluster's proteins are linked to mitochondrial processes (protein import into mitochondrial matrix, regulation of mitochondrial membrane permeability) and lipid handling (fatty acid catabolic process, triglyceride biosynthetic and synthesis), with an additional note on ER organization. This combination suggests a theme around mitochondrial function in lipid metabolism and related membrane dynamics.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0046902","count":2},{"id":"GO:0010867","count":2},{"id":"GO:1903740","count":2},{"id":"GO:2000134","count":2}]},{"hash":"228963107929000400","title":"TORC1-regulated autophagy and ribosome biogenesis","description":"The GO terms point to a core theme of nutrient sensing and growth control: TORC1 signaling (positive regulation) modulating autophagy (both positive and negative regulation, plus microautophagy), and transcription by RNA polymerases I and III linked to ribosome biogenesis, with related transport and stress response processes. These collectively suggest a coherent cluster centered on TORC1-driven regulation of autophagy and ribosome production.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0034198","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0006817","count":1}]},{"hash":"1889680786847330601","title":"Proteostasis and Cadmium Stress Response","description":"The terms show a theme of post-translational modification and proteasomal degradation (sumoylation, autoubiquitination, proteasomal catabolic regulation) together with a cadmium-stress response and apoptosis signaling, which points to a small module controlling protein quality and stress signaling under metal exposure.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043433","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0032436","count":2}]},{"hash":"846953196419315571","title":"Nerve and muscle development with angiogenesis","description":"This cluster shows strong representation of neural development terms (axonogenesis, Schwann cell development, visual perception) alongside muscle formation (myoblast fusion, response to muscle activity) and vascular growth (angiogenesis), suggesting a coordinated program governing nerve, muscle, and blood vessel formation. Some items (mitotic cell cycle, signaling) reflect general growth processes accompanying these developmental roles, supporting a cohesive developmental theme.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0010800","count":6},{"id":"GO:0000278","count":6}]},{"hash":"756734305407983506","title":"Pollen development and carbohydrate transport","description":"The GO terms point to plant reproductive processes, with strong signals for pollen development: anther dehiscence and pollen exine formation. Supporting terms involve carbohydrate metabolism and transport (fructose import, UDP/GDP/CDP catabolism) and protein glycosylation, which are consistent with pollen wall formation and glycoprotein biosynthesis during pollen development. The lack of network edges, yet recurrent pollen- and metabolism-related terms, suggests a functional theme around pollen biology and carbohydrate-associated processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":1},{"id":"GO:0071405","count":1},{"id":"GO:0046032","count":1},{"id":"GO:0009901","count":1},{"id":"GO:0006256","count":1}]},{"hash":"407367021867394375","title":"Broad metabolic diversity: catabolism and detoxification","description":"The Top Terms cover a wide range of metabolic activities\u2014catabolic processes for triglycerides, chlorophyll, glucuronosides, uracil, and poly-hydroxybutyrate, along with detoxification and response to toxic substances. There isn\u2019t a single cohesive function linking all terms, suggesting these proteins participate in diverse, general metabolic roles rather than a specific pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0015996","count":1},{"id":"GO:0019391","count":1}]},{"hash":"1953832622146754858","title":"Unknown","description":"The top GO terms span diverse processes (RNA processing, DNA replication, development of cranial skeleton and brain regions, vision, biofilm formation, immune signaling, cardiac proliferation, apoptosis, and mitotic spindle attachment) with no single cohesive theme. This diversity suggests no clear shared function for the cluster, so a generic Unknown label is appropriate.","confidence":"","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3}]},{"hash":"1533594640420040337","title":"Oxidative Stress Response and Redox Homeostasis","description":"This cluster is dominated by GO terms for cellular redox homeostasis and cellular response to oxidative stress, with occasional hints from endoplasmic reticulum stress and oxidation-reduction processes. The absence of edges and presence of obsolete terms reduce certainty, but the shared redox/oxidative-stress theme is the most coherent interpretation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"358648473333293077","title":"Chaperone-mediated microtubule assembly and proteostasis","description":"The GO terms point to chaperone-assisted protein folding, chaperone-mediated complex assembly, and the tubulin/tubulin complex assembly driving cortical microtubule organization, plus cytoplasmic proteostasis via the ubiquitin-proteasome system. An outlier term on transcription elongation exists but does not override the core theme of chaperone-driven folding/assembly and microtubule organization.","confidence":"High","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043622","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0071629","count":1}]},{"hash":"490992401231942475","title":"Plant Telomere Maintenance and Shelterin Regulation","description":"Most GO terms cluster around telomere biology in plants: telomeric loop formation, shelterin complex assembly, and replication-linked telomere repair. A few terms touch on hormone responses and chlorophyll biosynthesis, but the dominant theme is telomere maintenance and chromatin-associated regulation in plant cells.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"486279796724576648","title":"Neural development and glutamatergic signaling","description":"The included GO terms cluster around neural development and synaptic function (regulation of glutamatergic transmission, neural tube patterning) with supporting roles in endosomal trafficking and signaling; while some terms relate to cytokinesis, EMT, or behavior, the strongest signal is neural development and synaptic regulation, suggesting these proteins participate in neuronal maturation and synaptic communication.","confidence":"Medium","size":6,"edges":9,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":6},{"id":"GO:0036010","count":6},{"id":"GO:0007119","count":6},{"id":"GO:0060684","count":6},{"id":"GO:0021532","count":6}]},{"hash":"1109238408351769545","title":"Lung morphogenesis and ECM remodeling","description":"The proteins cluster around extracellular matrix remodeling and tissue morphogenesis, with recurring GO terms for lung branching, basement membrane disassembly, collagen catabolic processes, and Wnt signaling localization to the extracellular region. While there are some immune and bone-related terms present, the dominant pattern supports a role in developmental morphogenesis driven by ECM remodeling, particularly in the lung.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000179","count":4},{"id":"GO:0001913","count":4},{"id":"GO:0045453","count":4},{"id":"GO:0034769","count":4},{"id":"GO:0060441","count":4}]},{"hash":"382024798446409412","title":"G1/S Cell Cycle Transcription Regulators","description":"The only top GO term points to transcriptional regulation associated with the G1/S transition of the mitotic cell cycle, suggesting these proteins may function together to control entry into S phase. Despite the term being obsolete, the underlying concept of cell-cycle\u2013related transcriptional control explains the cluster\u2019s coherence.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071931","count":1}]},{"hash":"1691014184812154501","title":"Neural signaling and apoptosis pathways","description":"This cluster shows a mix of neuronal-related processes (anterograde synaptic vesicle transport, olfactory learning, eye pigment granule organization) alongside apoptosis-related events (extrinsic death receptor signaling, mitochondrial outer membrane permeabilization, lysosome localization). The combination points to modules involved in neural signaling and intracellular stress responses that can culminate in apoptosis. The limited connectivity (one edge, no triangles) suggests a small, functionally diverse group rather than a single cohesive pathway, hence a broad label focusing on neural signaling with apoptosis components.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:0032418","count":1},{"id":"GO:0097345","count":1},{"id":"GO:0008625","count":1},{"id":"GO:0008057","count":1}]},{"hash":"1774398367535937708","title":"Unknown","description":"This set of GO terms touches neuronal signaling (glutamatergic transmission), neural development (neural tube patterning), cell trafficking (endosome localization) and general cell processes (cytokinesis membrane addition, bud growth), plus behavior and stress responses. The terms don\u2019t converge on a single, coherent function or pathway, so I can\u2019t assign a precise label beyond Unknown.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1},{"id":"GO:0060684","count":1},{"id":"GO:0021532","count":1}]},{"hash":"967091750607423875","title":"Unknown","description":"There are no top GO terms, no reported interactions (Edges: 0, Triangles: 0), and no evident shared function among the six proteins, so a clear, representative label cannot be determined.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"277896056683763001","title":"ER Stress and Antigen Presentation","description":"The top GO terms cluster around endoplasmic reticulum functions\u2014unfolded protein response, protein folding, and MHC class I peptide antigen assembly\u2014indicating ER-associated quality control and antigen processing. Other terms point to related signaling and developmental processes, but the ER-centric terms provide a coherent theme for this cluster.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"protein folding","top_go_terms":[{"id":"GO:0030968","count":3},{"id":"GO:0006457","count":3},{"id":"GO:0033144","count":3},{"id":"GO:1901224","count":3},{"id":"GO:0048488","count":3}]},{"hash":"1205000011479414053","title":"Synaptic vesicle exocytosis and plasticity","description":"Top GO terms indicate a strong focus on synaptic vesicle trafficking and exocytosis (regulation of synaptic vesicle exocytosis, synaptic vesicle maturation) and synaptic plasticity (long-term potentiation), with supporting signals from vesicle dynamics and dendrite development. The presence of acrosome reaction reflects a shared exocytosis mechanism but the dominant neuronal signals point to synaptic function and vesicle cycling as the core theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0043087","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0016188","count":1}]},{"hash":"1006627131017643564","title":"RTK/GTPase signaling and actin dynamics","description":"The top GO terms point to receptor tyrosine kinase pathways (EGFR, ephrin receptor) and small GTPase\u2013mediated signaling, coupled with regulation of GTPase activity, cell shape/polarity, and filopodium formation. This suggests a coherent theme of receptor-driven signaling coordinating cytoskeletal remodeling and cell adhesion, despite an outlier term related to heterochromatin. Therefore the cluster is best described as RTK/GTPase signaling guiding cytoskeletal dynamics.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071963","count":2}]},{"hash":"962619628631451528","title":"Unknown","description":"GO terms in this cluster are highly diverse, including transcription regulation (RNA polymerase II), various metabolic processes (phenylacetate catabolism, ferredoxin metabolism), energy production (ATP synthesis coupled electron transport), and distinct vascular-related regulations (negative regulation of endothelial differentiation, vasculogenesis, VEGF signaling). The lack of a unifying biological theme suggests these proteins do not share a single coherent function, so Unknown is the appropriate label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":2},{"id":"GO:0010124","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0009399","count":1}]},{"hash":"258495317656421551","title":"ER and Oxidative Stress Response","description":"This cluster centers on responses to endoplasmic reticulum stress and oxidative stress, with terms for cellular redox homeostasis, suggesting a shared role in managing protein-folding stress and redox balance. Some terms are less connected (viral process or obsolete terms), but the core signal points to stress response and redox regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":3},{"id":"GO:0034976","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0016032","count":2}]},{"hash":"412339368724287373","title":"Cholinergic Synaptic Signaling and Ion Transport","description":"The top terms highlight potassium ion transport and cholinergic synaptic transmission, with a thread of regulating ion transporter activity, pointing to neural signaling and ion flux control. Some terms are peripheral or obsolete, but the core theme supports a label around cholinergic neurotransmission and ion transport regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0032414","count":3},{"id":"GO:0043086","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0045471","count":3}]},{"hash":"639341783081739959","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019243","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0017001","count":1},{"id":"GO:0031126","count":1},{"id":"GO:0090503","count":1}]},{"hash":"1015827717692707840","title":"Intron Homing Proteins","description":"Based on the single GO term intron homing (GO:0006314) among these proteins, the cluster appears linked to intron mobility or homing-related processes. However, with only one annotation and no interaction edges, the association is weak and could be incidental. The label 'Intron Homing Proteins' reflects the main functional hint but remains tentative.","confidence":"Low","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1}]},{"hash":"1076189782620511003","title":"Vesicle trafficking and autophagy","description":"The set is dominated by GO terms related to intracellular transport and degradation pathways: ER\u2013Golgi and COPII vesicle formation, endosome to lysosome transport, multivesicular body sorting, lysosome organization, and aggrephagy, plus regulation of synaptic vesicle exocytosis. Some terms like brain development or mating projection initiation appear tangential, but the core theme ties to vesicle trafficking and autophagic/lysosomal processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0010796","count":2},{"id":"GO:2000300","count":2}]},{"hash":"1925940598310600833","title":"Golgi vesicle trafficking","description":"The proteins are linked to multiple steps of vesicle traffic centered on the Golgi, including ER-to-Golgi transport, intra-Golgi transport, Golgi ribbon formation, vesicle fusion with the Golgi, and retrograde transport from endosomes to the Golgi. Some terms also touch secretion-related processes, which rely on Golgi vesicle trafficking. This suggests a cohesive Golgi-centered vesicle trafficking module.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0006891","count":2},{"id":"GO:0048280","count":2},{"id":"GO:0042144","count":2}]},{"hash":"2209233486450995370","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms cluster around chromatin remodeling, nucleosome assembly, DNA-templated chromatin assembly, heterochromatin formation, and various aspects of transcription by RNA polymerase II (elongation, transcription, preinitiation complex assembly). Together they point to proteins involved in chromatin dynamics and the regulation of transcription, with a secondary, possibly noisy, signal from an unrelated collagen catabolic term. Therefore, the cluster is best characterized as chromatin remodeling and transcription regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006338","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0006335","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0006261","count":1}]},{"hash":"459288858640782412","title":"Chromatin remodeling and transcription control","description":"Most of the top GO terms point to chromatin remodeling (nucleosome density/positioning) and transcription-related processes (termination of RNA polymerase I/II transcription), suggesting a shared role in regulating chromatin state and gene expression. A few developmental terms (nose, genitalia, ventricular morphogenesis) may reflect broader roles of chromatin regulators in development or annotation noise, but the dominant signal is chromatin dynamics coupled to transcription control.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:0030540","count":2},{"id":"GO:0060303","count":2},{"id":"GO:0036091","count":2},{"id":"GO:0003222","count":2}]},{"hash":"1441166179830140986","title":"RNA processing and translation regulation","description":"The GO terms cluster around mRNA maturation and handling (export, splicing, polyadenylation, stability) and also include translation control aspects (IRES-dependent initiation, miRNA-mediated silencing) plus small-subunit processome assembly related to ribosome biogenesis, indicating a cohesive role in RNA metabolism and post-transcriptional regulation of translation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"61413590143462108","title":"Unknown","description":"The proteins show GO terms spanning neuronal development and signaling (e.g., dendrite development, dendrite morphogenesis, ephrin receptor signaling, neuronal stem cell maintenance) as well as plant-specific processes (leaf development, adaxial/abaxial pattern specification) and general hormonal signaling. There is no coherent, single function or context connecting all terms, so a narrow, representative label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016358","count":1},{"id":"GO:1902213","count":1},{"id":"GO:0097150","count":1},{"id":"GO:1900170","count":1},{"id":"GO:0050775","count":1}]},{"hash":"2154997102457610590","title":"Unknown","description":"The listed GO terms span diverse tissues and processes (vision, brain and organ development, immune signaling, apoptosis, cell division, biofilm formation, ion transport, and ERBB signaling), with no clear single function tying the proteins together. Confidence: None","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0071109","count":6},{"id":"GO:0090606","count":6},{"id":"GO:0032762","count":6},{"id":"GO:0060045","count":6}]},{"hash":"1104609187337975317","title":"Oxidative and ER stress response","description":"The top GO terms center on cellular redox homeostasis and oxidative stress response, plus endoplasmic reticulum stress response, suggesting the proteins function together in managing oxidative damage and ER-related stress. While a viral process term and some obsolete terms appear, the dominant theme is redox balance and stress signaling related to protein folding in the ER.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:1903206","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0055114","count":2}]},{"hash":"685937232484514832","title":"Unknown","description":"The proteins show a mix of chromatin-related processes (histone acetylation, chromatin remodeling, N-terminal acetylation) and diverse developmental, signaling, and metabolic terms (uterus/uterine gland development, androgen receptor signaling, sucrose catabolism, glucose signaling) with no evident shared function or interactions. Because there is no coherent theme or network connectivity, a single interpretable biological label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0060765","count":1}]},{"hash":"1755849656316380586","title":"COPII vesicle transport","description":"This cluster is dominated by GO terms for ER-to-Golgi vesicle transport and regulation of COPII vesicle coating, pointing to a shared role in anterograde cargo trafficking along the secretory pathway. Additional terms related to protein localization and vesicle dynamics support a vesicle trafficking theme, even though some terms pertain to development or signaling. Overall, the strongest link among the functions is vesicle transport within the endomembrane system, justifying the COPII vesicle transport label.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0003400","count":3},{"id":"GO:0051966","count":2},{"id":"GO:0036010","count":2}]},{"hash":"765114426322193995","title":"Neuronal signaling and developmental patterning","description":"The terms center on neural communication (regulation of glutamatergic synaptic transmission) and patterning/development (neural tube patterning, epithelial-mesenchymal signaling), with supporting roles in trafficking and membrane dynamics (endosome localization, membrane addition at cytokinesis) that underpin signaling and morphogenesis. This suggests a cluster tied to neuronal signaling and developmental regulation, aided by intracellular trafficking processes.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0007119","count":2},{"id":"GO:0060684","count":2},{"id":"GO:0021532","count":2}]},{"hash":"1403812317396521948","title":"Ciliary/Flagellar Assembly and Spermatogenesis","description":"Based on the GO terms, the cluster centers on building and organizing cilia/flagella (cilium/axoneme assembly, inner dynein arm assembly, ciliary transition zone localization) and processes tied to sperm development (spermatid development, sperm axoneme assembly). Additional terms about planar polarity and Wnt signaling regulation align with ciliary signaling roles. Some differentiation terms appear incidental, but the dominant theme is ciliary/flagellar function linked to spermatogenesis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000574","count":1},{"id":"GO:0036159","count":1},{"id":"GO:0007286","count":1},{"id":"GO:1904491","count":1},{"id":"GO:0007367","count":1}]},{"hash":"1814435782519890497","title":"Unknown","description":"The terms span DNA replication, ribosome biogenesis, rRNA maturation, spindle pole body duplication, ubiquitin-related processes, autophagy, calcium signaling, and even neurodevelopment, with no single convergent function or pathway dominating the cluster. The lack of edges and the inclusion of obsolete terms further support a non-cohesive collection rather than a interpretable, theme-driven cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0021888","count":1},{"id":"GO:1903071","count":1},{"id":"GO:0016579","count":1},{"id":"GO:0000028","count":1}]},{"hash":"1878846917811854343","title":"Vacuolar transport of metals and xenobiotics","description":"The cluster\u2019s GO terms are mainly about transmembrane transport into or across the vacuolar membrane, including glutathione import, amino acids, metal ions (cadmium), and xenobiotics. This points to a shared role in vacuolar sequestration and detoxification. A few terms (e.g., SOS response, stem cell proliferation) are less aligned and likely incidental. ","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071996","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0003333","count":1},{"id":"GO:1902161","count":1}]},{"hash":"26714872596930592","title":"Unknown","description":"The GO terms span diverse processes from angiogenesis and synaptic plasticity to various biosynthetic and chromatin-related activities, with no clear shared function uniting the cluster. The scattered, multi-domain terms and minimal connectivity suggest a heterogeneous group rather than a cohesive pathway.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0042144","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0030187","count":2},{"id":"GO:2000025","count":2}]},{"hash":"862397738885872662","title":"Unknown","description":"The top terms include mitotic centrosome separation and cell adhesion, but several entries are obsolete and there is no clear, cohesive shared function linking these six proteins. The cluster lacks a strong common theme to name a specific biological process.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"712155754456596186","title":"Unknown","description":"The terms include neuronal differentiation and signaling (cerebellar granule cell differentiation, regulation of synaptic plasticity by receptor localization to synapse), developmental signaling (Wnt signaling, intracellular signal transduction), vascular/heart development (cardiac right atrium morphogenesis, venous endothelial cell differentiation), and immune regulation (negative regulation of IL-12 production). These span multiple unrelated biological processes, giving no single cohesive functional theme for the cluster.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0045083","count":3}]},{"hash":"1907275074579247502","title":"TLR and Hormonal Signaling","description":"Proteins in this cluster appear tied to receptor-mediated signaling, spanning innate immune pathways (MyD88-dependent TLR signaling, TLR7 signaling) and various hormonal pathways (FSH signaling, Sertoli cell development, ovarian follicle growth, thyrotropin-releasing hormone response). There are also GPCR-PLC-IP3 signaling terms and osteoclast differentiation regulation, suggesting cross-talk between immune signaling, endocrine signals, and bone remodeling. Taken together, the common theme is signaling cascades initiated by diverse receptors, rather than a single, cohesive biological process, so a label reflecting both TLR- and hormone-signaling is appropriate. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0007200","count":3},{"id":"GO:0032962","count":3},{"id":"GO:0034154","count":3}]},{"hash":"2271581021093915570","title":"LDL receptor trafficking and cholesterol transport regulation","description":"The top GO terms cluster around LDL receptor catabolic and endocytic processes and regulation of receptor recycling, all tied to cholesterol transport. A few terms (embryo axis, sporulation, pheromone maturation) appear but seem incidental noise, so the core theme is LDL receptor\u2013mediated cholesterol handling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":2},{"id":"GO:0001920","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0032804","count":2}]},{"hash":"510083165225003965","title":"Ribosome biogenesis and Translation","description":"This cluster is strongly enriched for translation (GO:0006412) and ribosome biogenesis terms, indicating a core set of proteins involved in protein synthesis and ribosome assembly. Additional transcription-related terms point to broader RNA synthesis/processing functions that accompany gene expression machinery. The gamma radiation response term appears infrequently and is not central to the theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":2},{"id":"GO:1902164","count":1},{"id":"GO:0045727","count":1},{"id":"GO:0032784","count":1}]},{"hash":"1313081726380067597","title":"Reproductive Hormone GPCR Signaling","description":"Most GO terms point to hormone-driven reproductive processes (FSH signaling, Sertoli cell development, ovarian follicle growth, sex characteristic development, thyrotropin-releasing hormone response) and GPCR/PLC/IP3 signaling. While a few immune-related terms (TLR signaling) appear, the dominant theme is endocrine reproductive signaling via GPCR pathways. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"2093078796769522222","title":"Unknown","description":"The GO terms associated with these proteins are highly diverse, including antibiotic biosynthesis, response to toxic substances, brain/visual development, biofilm formation, immune signaling, cardiac proliferation, apoptosis, and meiotic spindle attachment. This lack of a cohesive, shared function or pathway suggests there is no clear common theme linking the cluster, so a specific functional label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0009636","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"1060937907679286090","title":"GPCR Hormone Signaling (LH, FSH, TRH)","description":"The cluster\u2019s top GO terms center on G protein-coupled receptor signaling that activates adenylate cyclase and phospholipase C, including cellular responses to thyrotropin-releasing hormone, luteinizing hormone, and follicle-stimulating hormone. This points to GPCR-driven hormone signaling pathways governing reproductive and endocrine responses, with related developmental phenotypes. The signal is coherent but includes a few outliers (e.g., TLR8 signaling) that may reflect annotation noise, so a Medium confidence is appropriate.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":4},{"id":"GO:0007190","count":4},{"id":"GO:0071373","count":4},{"id":"GO:0034158","count":4},{"id":"GO:0010738","count":4}]},{"hash":"150476892542427810","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":12,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":3},{"id":"GO:0051593","count":3},{"id":"GO:0006307","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0045007","count":2}]},{"hash":"1682509074164760676","title":"Unknown","description":"The GO terms span xenobiotic and drug response, multiple biosynthetic processes (biotin, antibiotic, heparin proteoglycan), plant-specific xylogalacturonan metabolism, and several embryonic development processes (endoderm, fin morphogenesis, skeletal joint development). They do not converge on a single coherent function or pathway for the cluster, suggesting a mix of disparate biological roles or annotation noise. Therefore, there is no reliable unifying label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0010398","count":1}]},{"hash":"1868820445654395361","title":"Unknown","description":"The six proteins show a very heterogeneous mix of GO terms, spanning pigment biosynthesis, nitrogen fixation, iron-sulfur cluster assembly, DNA segregation, plasmid partitioning, metabolism, and redox processes, with some obsolete annotations. There is no single dominant function or coherent pathway tying them clearly together, so a representative label cannot be confidently assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0036070","count":1},{"id":"GO:0006859","count":1},{"id":"GO:0051782","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0018108","count":1}]},{"hash":"314835316278412912","title":"Unknown","description":"The listed GO terms span visual perception, neural development, biofilm formation, immune signaling, cardiac proliferation, apoptosis, spindle attachment, lung mesenchyme development, ion transport, and ERBB signaling. This mix shows no coherent, shared biological function or pathway across the proteins, suggesting the cluster is heterogeneous or not functionally cohesive. Hence no clear, representative label can be assigned with confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1},{"id":"GO:0032762","count":1},{"id":"GO:0060045","count":1}]},{"hash":"842732507062893858","title":"Developmental signaling and tissue differentiation","description":"These GO terms cluster around signaling pathways (Wnt, intracellular signal transduction) and tissue-specific differentiation events (cerebellar granule cell differentiation, cardiac right atrium morphogenesis, venous endothelial cell differentiation). The inclusion of neuronal synaptic plasticity regulation and mechanotransduction further supports a theme of signaling controlling development and differentiation across tissues. An outlier immune term may reflect cross-talk or broader signaling contexts, but overall the group points to developmental signaling rather than a single narrow function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"1283831156723084790","title":"Reproductive endocrine and innate immune signaling","description":"The terms point to hormonal control of reproductive development (Sertoli cell development; ovarian follicle growth; FSH signaling; secondary sexual characteristics) and broader endocrine responses (thyrotropin-releasing hormone signaling). They also include innate immune pathways (MyD88-dependent TLR signaling; TLR7 signaling) and common signaling cascades like GPCR-driven PLC activation and IP3 biosynthesis. Together, the cluster seems to connect reproductive endocrine signaling with innate immune signaling, suggesting proteins that operate at the interface of hormonal control in reproduction and immune sensing. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":6},{"id":"GO:0002755","count":6},{"id":"GO:0007200","count":6},{"id":"GO:0032962","count":6},{"id":"GO:0034154","count":6}]},{"hash":"2071934537570940367","title":"Intracellular and Nuclear Protein Trafficking","description":"The top GO terms cluster around intracellular transport and nuclear import (e.g., ER-Golgi trafficking, ribosomal protein import, and nuclear pore assembly), indicating a common theme of protein movement within the cell. Some terms are more peripheral (mitosis, development, TORC1 signaling), but the dominant signal is intracellular trafficking.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0060976","count":1},{"id":"GO:0038202","count":1}]},{"hash":"2094490098390258046","title":"Microtubule organization and dynamics","description":"This cluster is dominated by GO terms related to microtubule organization and dynamics (astral microtubule organization, microtubule nucleation, anchoring, and regulation of polymerization/depolymerization), with supporting signals from centromeric sister chromatid cohesion in meiosis. A few terms touch vesicle targeting and developmental processes, but the strongest pattern points to cytoskeletal/microtubule\u2013associated functions that could underpin spindle/centrosome activity and related cellular architecture during development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":2},{"id":"GO:0030953","count":1},{"id":"GO:0006903","count":1},{"id":"GO:0034453","count":1},{"id":"GO:0031112","count":1}]},{"hash":"6960491987373904","title":"Unknown","description":"The GO terms cover a very broad and disparate set of processes (meiotic cell cycle, mesoderm development, glycogen biosynthesis regulation, sphingomyelin catabolism, response to morphine, peripheral nervous system myelination, cell-cell adhesion, mitotic checkpoint signaling), with little overlap or a unifying function across the six proteins. The absence of shared pathways or dominant themes, plus zero edges, suggests there is no cohesive cluster signal to anchor a specific function. Therefore, Unknown with none confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051321","count":1},{"id":"GO:0007498","count":1},{"id":"GO:0005979","count":1},{"id":"GO:0006685","count":1},{"id":"GO:0043278","count":1}]},{"hash":"1850127682341216630","title":"Vesicle trafficking and organelle acidification","description":"The cluster shows strong signals for endomembrane transport and organelle function: Golgi to endosome transport, intracellular protein transport, proton transmembrane transport, vacuolar acidification, and related processes like autophagosome maturation and eye pigment granule organization. Together these imply a cohesive role in vesicle trafficking, membrane transport, and organelle acidification (with some developmental terms possibly reflecting tissue-specific contexts in fish). ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":1},{"id":"GO:0033336","count":1},{"id":"GO:0060036","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0042777","count":1}]},{"hash":"156682639846493965","title":"Ubiquitin-Dependent Regulation and Cell Cycle","description":"The top GO terms are dominated by K11-linked ubiquitination and the metaphase/anaphase transition, pointing to roles in ubiquitin-proteasome\u2013mediated protein turnover and mitotic control. Additional related terms for ER-associated ubiquitin-dependent degradation and transcription regulation reinforce a cohesive theme of proteostasis linked to cell cycle progression, with a few other annotations likely incidental.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0007091","count":3},{"id":"GO:1903071","count":2},{"id":"GO:2000531","count":2},{"id":"GO:0071357","count":2}]},{"hash":"1876649422843275504","title":"Mechanosensation and signaling","description":"The top GO terms point to cellular responses to mechanical stimuli and detection of mechanical stimuli in pain, plus intracellular signal transduction and membrane-associated processes, indicating a mechanosensory signaling theme. Some RNA processing and stability terms appear, likely reflecting broader regulatory roles, but the core signal centers on mechanosensation and downstream signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0071446","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0072660","count":4}]},{"hash":"2218659438966023998","title":"Unknown","description":"The six proteins are annotated with a diverse mix of developmental, chromatin remodeling, transcription termination, and calcium signaling terms, including obsolete annotations, with no clear common function, suggesting an Unknown cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030540","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0036091","count":1},{"id":"GO:0003222","count":1},{"id":"GO:0016584","count":1}]},{"hash":"1348663212449740758","title":"Development and Differentiation Regulation","description":"The top GO terms are dominated by developmental and differentiation processes across multiple lineages (oligodendrocyte differentiation, peripheral nervous system development, myoblast differentiation) plus somatic stem cell maintenance and tissue structure maintenance, suggesting the proteins act as regulators of cell fate decisions and tissue development. Some terms are outliers or obsolete, but the overall theme points to developmental regulation rather than a single, tight molecular function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0006268","count":2},{"id":"GO:0007422","count":1},{"id":"GO:0035019","count":1}]},{"hash":"1942434461842726941","title":"Unknown","description":"The terms span DNA replication, protein folding/quality control, membrane targeting, iron-sulfur cluster assembly, and several unrelated regulatory processes (including karyogamy and stem cell differentiation); there is no clear, common function uniting these proteins, and several GO terms are obsolete or out of place. Therefore no cohesive label can be confidently assigned.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0034620","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0006616","count":3},{"id":"GO:0006880","count":3}]},{"hash":"515543908215831223","title":"Unknown","description":"There are no GO terms provided to define a shared function, so no clear theme emerges from the cluster. Without a GO-based connection, the appropriate label is Unknown.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"1319637676701959926","title":"Neural development and cytoskeleton dynamics","description":"The top GO terms cluster around cytoskeletal processes (actin filament polymerization; sarcomere organization) and intracellular inheritance/organization (mitochondrion and vacuole inheritance), paired with calcium-responsive signaling, all of which fit cellular architecture and transport in developing neural tissues. Retina development and substantia nigra development reinforce a neural context, while a couple chromatin-related terms appear as less central noise. Overall, the dominant theme is cytoskeletal dynamics supporting neural development and intracellular organization.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":5},{"id":"GO:0051592","count":5},{"id":"GO:0000001","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0001895","count":5}]},{"hash":"1552570250087023002","title":"mRNA export and translation regulation with ER-Golgi trafficking","description":"The terms include mRNA export from the nucleus, mRNA stability and processing, and translation-related terms, alongside vesicle fusion events involving the ER and Golgi. This points to a theme of RNA metabolism and translation regulation linked to ER-Golgi trafficking, even though the cluster shows limited connectivity (no edges). ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016320","count":1},{"id":"GO:0048280","count":1},{"id":"GO:0048279","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1}]},{"hash":"911687329979353722","title":"Post-transcriptional mRNA processing and translation control","description":"The GO terms are dominated by mRNA maturation and export processes (nuclear export, splice site recognition, polyadenylation) and by mRNA stability/processing machinery (small-subunit processome assembly), indicating a core of post-transcriptional regulation. In addition, there are translational control terms, including viral IRES-dependent initiation and termination-reinitiation, as well as miRNA-mediated translational inhibition and stabilization activities, suggesting involvement in regulating translation with potential viral interactions. Overall, the cluster appears to group proteins involved in mRNA processing, export, stability, and translation control. Confidence: High","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1513954116175238838","title":"PKC-mediated lipid signaling and regulatory pathways","description":"The top GO terms point to lipid-second-messenger\u2013driven signaling (diacylglycerol metabolism and PIP2 catabolism) and direct involvement of protein kinase C signaling, along with various regulatory roles on signaling cascades (Ral, NF-kappaB, phosphorylation) and related biosynthetic processes. The set seems to capture a shared theme of modulating signaling activity via lipid signaling and phosphorylation rather than forming a single cohesive complex, hence a PKC-lipid signaling/regulatory cluster is most representative.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":1},{"id":"GO:0046339","count":1},{"id":"GO:1902414","count":1},{"id":"GO:0032485","count":1},{"id":"GO:1902634","count":1}]},{"hash":"15174627935484914","title":"Viral infection cycle and host response","description":"The cluster includes GO terms tied to viral entry, uncoating, membrane fusion, and overall viral life cycle, plus host responses such as leukocyte migration and host-driven activation of viral replication, with lipid droplet organization potentially linked to viral replication platforms. Together, these terms indicate processes of virus-host interaction and infection progression, justifying a label focused on the viral life cycle and host response.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071492","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0030260","count":1},{"id":"GO:0019061","count":1},{"id":"GO:0019064","count":1}]},{"hash":"1673782176118310005","title":"RNA Pol II transcription initiation and promoter clearance","description":"Most top GO terms cluster around RNA polymerase II promoter clearance, promoter opening, and initiation steps, suggesting the proteins are involved in forming and initiating transcription by RNA Pol II. The other terms (DNA repair, replication, mRNA decay, immune signaling) may reflect ancillary roles or annotation noise in a mixed cluster, but the dominant theme is transcription initiation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001111","count":5},{"id":"GO:0033683","count":5},{"id":"GO:0009432","count":5},{"id":"GO:0018144","count":5},{"id":"GO:0039530","count":5}]},{"hash":"2017118249288716351","title":"Tubulin Folding and Microtubule Assembly","description":"The top GO terms cluster around tubulin biogenesis\u2014translation (protein synthesis of tubulin), post-chaperonin tubulin folding, and tubulin complex assembly\u2014pointing to proteins involved in producing and assembling tubulin for microtubule formation. The single immune-like term about apoptosis is peripheral to this core function. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0007023","count":1},{"id":"GO:0007021","count":1},{"id":"GO:2000270","count":1}]},{"hash":"94837115490202000","title":"Unknown","description":"The top GO terms span DNA replication, ribosome assembly, protein folding and unfolded protein response, membrane targeting, vesicle transport, cilium movement, and gas vesicle organization, with little cohesive overlap. The sparse connectivity (one edge) and mixed functions suggest no single shared function for the cluster, so a generic Unknown label is appropriate.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0070389","count":2},{"id":"GO:0003341","count":2},{"id":"GO:1990048","count":2},{"id":"GO:0000027","count":2}]},{"hash":"280185917562749952","title":"Chromatin Modification and Acetylation","description":"The top GO terms are dominated by chromatin-related processes: histone acetylation, chromatin remodeling, and acetylation of N-terminal residues, which together point to epigenetic regulation of gene expression. Additional terms mentioning ADP-ribosylation regulation and signaling modulation can intersect with chromatin state, but the clearest common theme across the terms is chromatin modification via acetylation/remodeling. Some listed terms about development (uterus/uterine gland) appear peripheral to this core theme, but do not override the central signal of chromatin regulation.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0060765","count":1}]},{"hash":"2256638912378521981","title":"Cell Cycle and Chromosome Segregation","description":"The top GO terms are dominated by cell cycle and chromosome segregation (GO:0007049, GO:0007059) with related negative regulation of division, indicating a focus on cell division control and DNA handling. Proteasome assembly supports regulated protein turnover during division, while the other terms reflect broader housekeeping processes that accompany replication and segregation. Overall, the cluster centers on cell division and chromosome dynamics.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0070682","count":2},{"id":"GO:0006859","count":2},{"id":"GO:0051782","count":2}]},{"hash":"1068205437440573067","title":"Neurogenesis and neuronal remodeling with autophagy","description":"The top terms center on neuronal development and remodeling (neurogenesis; positive regulation of neuron remodeling), suggesting a core theme of neuronal differentiation and structural changes. Autophagy and apoptotic processes appear alongside, indicating cellular turnover that can accompany neuronal remodeling. While there are general cellular processes (ER-Golgi transport, nuclear pore assembly, microtubule anchoring) present, the strongest link is to neuronal development and remodeling with autophagy involvement.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0051292","count":1},{"id":"GO:0000132","count":1},{"id":"GO:0006914","count":1}]},{"hash":"520651970248554941","title":"RNA metabolism and translation control","description":"Based on GO terms, the proteins cluster around RNA maturation and processing (mRNA export, splicing, polyadenylation, processome assembly) as well as post-transcriptional regulation of translation (IRES-dependent initiation, viral termination-reinitiation, miRNA-mediated silencing), indicating a theme of RNA processing and subsequent translation control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1688279968219155618","title":"Neural development and synaptic signaling","description":"The GO terms cluster around brain development, neural tube patterning, regulation of synaptic vesicle exocytosis and glutamatergic transmission, and endosomal localization, suggesting a cohesive theme of neural development paired with synaptic function, with a few more general/developmental terms accompanying it.","confidence":"High","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0010796","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0051966","count":4}]},{"hash":"720420850444336957","title":"Developmental signaling and neural patterning","description":"This cluster centers on developmental processes (liver development, neural tube patterning, budding growth, EMT signaling) and neural function (regulation of glutamatergic synaptic transmission), with an additional theme of intracellular trafficking (protein localization to endosome). Together, these terms suggest proteins involved in developmental signaling pathways with neural development and cell-organization roles, hence a label reflecting developmental and neural patterning.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0051966","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0007119","count":2},{"id":"GO:0060684","count":2}]},{"hash":"857367191479069320","title":"Neural development and synaptic vesicle trafficking","description":"These proteins show enrichment for brain development and neural tube patterning, plus terms tied to synaptic vesicle exocytosis and glutamatergic transmission, with endosome localization, suggesting a common role in neuronal development and synaptic trafficking. Some terms about mating projection growth and budding are likely cross-species annotations or incidental, but the main pattern points to neural development and synaptic function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0010796","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0051966","count":3}]},{"hash":"696321168353129079","title":"Muscle Development and Sarcomere Organization","description":"The GO terms cluster around muscle biology\u2014sarcomere organization, somatic muscle development, and muscle attachment\u2014suggesting a muscle structural/developmental theme, while glycosylation and LPS terms may be background noise or misannotations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904100","count":1},{"id":"GO:0044845","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0007525","count":1},{"id":"GO:0007385","count":1}]},{"hash":"1697935546167604522","title":"Unknown","description":"The GO terms span unrelated processes including neuronal signaling, neural development, endosomal trafficking, cytokinesis, and broad developmental signaling, with no single cohesive function dominating the cluster. Because there isn\u2019t a clear common theme connecting the proteins, the cluster is best labeled Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1},{"id":"GO:0060684","count":1},{"id":"GO:0021532","count":1}]},{"hash":"2028019910449193245","title":"Heterochromatin Formation and Silencing","description":"Top terms repeatedly point to heterochromatin formation, chromatin silencing (including pericentric regions), and associated histone/DNA modification processes, indicating a coherent role in establishing or maintaining condensed, transcriptionally repressed chromatin. Despite some obsolete terms, the core theme is chromatin silencing and heterochromatin assembly, justifying this label for the cluster.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090309","count":1},{"id":"GO:0031507","count":1},{"id":"GO:0031940","count":1},{"id":"GO:0006343","count":1},{"id":"GO:1900111","count":1}]},{"hash":"1973763015753116586","title":"Neural development and endosomal trafficking","description":"This cluster prominently features GO terms tied to neural development and synaptic signaling, such as regulation of glutamatergic synaptic transmission and neural tube patterning, alongside terms for intracellular trafficking to endosomes. While there are also growth and stress-related terms, the neural development and endosomal trafficking themes best unify the majority of the terms, supporting a label centered on neuronal signaling with endocytic localization.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":5},{"id":"GO:0036010","count":5},{"id":"GO:0007119","count":5},{"id":"GO:0060684","count":5},{"id":"GO:0021532","count":5}]},{"hash":"692904708169781143","title":"Unknown","description":"With 0 edges, 0 triangles, and no GO terms to anchor a shared function, the proteins show no coherent functional theme. Re-added proteins by ReCIPE do not provide a basis for confident naming.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"716037299952397577","title":"Plant cell wall biosynthesis and glycosylation","description":"The top GO terms are dominated by plant-specific cell wall processes: secondary cell wall biogenesis, glucuronoxylan and homogalacturonan biosynthesis, mucilage biosynthesis, and cell wall organization, all pointing to construction and modification of plant cell walls. Also present are plant glycosylation pathways (O-linked glycosylation via GalNAc and mannose) and related carbohydrate metabolism terms, which support cell wall polysaccharide assembly. Some outliers (e.g., skeletal muscle regeneration) appear, but the core signal aligns with plant cell wall biosynthesis and glycoprotein formation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006012","count":1},{"id":"GO:0043403","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0010192","count":1},{"id":"GO:0016266","count":1}]},{"hash":"1229265373843862506","title":"Unknown","description":"The top GO terms are highly diverse and span xenobiotic response, neuronal apoptotic process, platelet formation, glucocorticoid response, cobalt ion response, cell fate commitment, learning or memory, amino acid response, erythrocyte differentiation, and an obsolete apoptotic activation term. With no edges or shared pathways evident, there isn't a coherent common function tying these proteins together. Most terms point to general stress or differentiation processes rather than a single biological theme, suggesting annotation noise or multi-functional proteins. Therefore the cluster cannot be confidently assigned a specific, concise function.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0051402","count":1},{"id":"GO:0030220","count":1},{"id":"GO:0051384","count":1},{"id":"GO:0032025","count":1}]},{"hash":"2265864167977676260","title":"Cell cycle and kinetochore function","description":"The dominant GO terms (DNA replication, protein localization to kinetochore, and spindle microtubule attachment to the kinetochore) point to core cell division machinery; a few development- or process-related terms appear incidental, but do not define the cluster\u2019s primary signal.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0071109","count":2}]},{"hash":"1496003373679413699","title":"Neuronal development and synaptic organization","description":"The cluster\u2019s top GO terms center on neuronal growth and connectivity, with positive regulation of dendrite extension, synapse organization, and apoptotic signaling, alongside Hippo pathway regulation. Some terms appear unrelated noise (e.g., outer membrane assembly), but the core theme supports neuronal development and synaptic regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030579","count":2},{"id":"GO:0035331","count":2},{"id":"GO:0060242","count":1},{"id":"GO:1903861","count":1},{"id":"GO:2000203","count":1}]},{"hash":"884179741429522621","title":"Glycerolipid Biosynthesis and Energy Metabolism","description":"These proteins cluster around lipid metabolism: several GO terms point to glycerol-3-phosphate shuttle and glycerol-3-phosphate biosynthesis, glycerophospholipid and phospholipid biosynthesis, and triglyceride biosynthesis, all indicative of glycerolipid metabolism and related energy production. While there are a few peripheral terms (TNF response, sodium transport, cardiac action potential), the predominant signal is lipid biosynthesis and glycerolipid\u2013linked energy processes.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":1},{"id":"GO:2000010","count":1},{"id":"GO:0046167","count":1},{"id":"GO:0071356","count":1},{"id":"GO:0019432","count":1}]},{"hash":"1094419690217553119","title":"Unknown","description":"The GO terms are too diverse to converge on a single clear function: neuronal development and dendrite morphogenesis, autophagy/vesicle trafficking (lipophagy, endosome localization), cytoskeletal remodeling (filopodium assembly), and general signal transduction (small GTPase signaling) appear with minimal overlap, giving no cohesive theme for a specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0051966","count":1},{"id":"GO:0061724","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0090334","count":1}]},{"hash":"87084293026150690","title":"Cell-cycle and nuclear signaling regulators","description":"The top terms cluster around regulation of the cell cycle, proliferation, and nuclear signaling (e.g., regulation of cell cycle, mitotic centrosome separation, SMAD signal transduction) with an additional emphasis on nuclear localization. While there are a few metabolic or chromatin-related terms that are less clearly connected, the strongest coherent theme is regulators of cell division and nuclear processes, suggesting a loose regulatory module rather than a single pathway. Confidence reflects a moderate connection given the diverse terms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000495","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0002318","count":1},{"id":"GO:0035392","count":1},{"id":"GO:0090526","count":1}]},{"hash":"1145170252753137444","title":"Telomere maintenance and shelterin regulation (plants)","description":"The top GO terms center on telomere structure and shelterin regulation (telomeric loop formation, D-loop disassembly, shelterin assembly), suggesting a telomere maintenance theme in plants; other terms (chlorophyll biosynthesis, seed growth, hormone responses) appear as background processes but do not outweigh the telomere-focused signal.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"779566459947687017","title":"Telomere maintenance and shelterin regulation (plants)","description":"This cluster is driven by telomere biology terms (shelterin assembly, D-loop regulation, telomeric loop formation) indicating a shared role in genome stability and chromatin regulation; plant-specific growth/hormone terms appear as ancillary signals rather than core functions. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904792","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0009723","count":2}]},{"hash":"2023376482692758925","title":"ER Stress and Oxidative Stress Response","description":"The top GO terms converge on redox homeostasis, oxidative stress response, and endoplasmic reticulum stress, indicating proteins involved in managing cellular stress related to protein folding and reactive oxygen species. A viral process term is present but does not override the dominant ER/oxidative stress theme, so this cluster is best labeled accordingly.","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"2030630049884989602","title":"Oxidative Stress and ER Stress Response","description":"This cluster is driven by GO terms related to redox homeostasis and cellular responses to oxidative and ER stress (cellular redox homeostasis, cellular response to oxidative stress, response to endoplasmic reticulum stress). A few outlier terms (viral process, nuclear transport regulation) are present but do not define the main theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1973285458593396057","title":"Unknown","description":"The GO terms are very diverse and largely unrelated (DNA replication, apoptosis, spindle attachment, multiple developmental processes, sensory perception, biofilm formation, cytokine production, cardiac proliferation, and ion transport). With no edges connecting the proteins and no clear shared function, there isn\u2019t a coherent theme to assign a meaningful label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007601","count":2},{"id":"GO:0071109","count":2},{"id":"GO:0090606","count":2},{"id":"GO:0032762","count":2}]},{"hash":"1017878458232345153","title":"ERAD and ubiquitin-dependent protein degradation","description":"Closest coherence comes from GO terms centered on ubiquitin-mediated proteolysis and ER-associated degradation (ERAD): positive regulation of ubiquitin-dependent protein catabolic process, protein autoubiquitination, ubiquitin-dependent ERAD pathway, and deubiquitination. Together these suggest a set of proteins involved in ER quality control and ubiquitin-proteasome\u2013mediated degradation. A few terms on TNF signaling and GnRH neuron development are likely incidental annotations. Overall, the cluster represents ubiquitin-related proteostasis in the ER.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":2},{"id":"GO:0051865","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0030433","count":2},{"id":"GO:1904153","count":1}]},{"hash":"1161136959582238920","title":"Unknown","description":"The Top Terms are highly diverse and each occurs once; there is no dominant biological process linking them. Terms span signaling (STAT phosphorylation), cell adhesion, melanosome transport, hair cycle regulation, complement regulation, lung morphogenesis, cardiac action potential regulation, cell polarity, and presynaptic assembly, with no shared theme and no edges connecting proteins. Therefore there is no coherent function to name the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903263","count":1},{"id":"GO:0007156","count":1},{"id":"GO:1902910","count":1},{"id":"GO:0051796","count":1},{"id":"GO:0001869","count":1}]},{"hash":"999820876759485113","title":"Unknown","description":"The GO terms are heterogeneous (mRNA processing, spindle assembly, actin filament bundle assembly, telomere maintenance regulation), with no clear single function tying the proteins together. This spread suggests no cohesive cluster function can be confidently labeled beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0090501","count":1},{"id":"GO:0051225","count":1},{"id":"GO:0051017","count":1},{"id":"GO:0032212","count":1}]},{"hash":"513768464269008772","title":"Developmental Signaling and Differentiation","description":"The top GO terms cluster around signaling pathways (Wnt, intracellular signal transduction) and differentiation of several tissues (cerebellar granule neurons, heart/right atrium, venous endothelium), plus mechanosensory response. Although an immune-related term is present, the dominant pattern is developmental signaling and tissue differentiation, suggesting this cluster reflects signaling events guiding development and organogenesis.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1819290448749296054","title":"Heavy metal detox and xenobiotic transport","description":"The top GO terms cluster around detoxification of cadmium and mercury, glutathione transport into vacuoles, cadmium import into vacuoles, and general xenobiotic transport, suggesting the proteins function together in heavy metal detox and related transport of foreign compounds. Some terms are peripheral (transcription/stem cell related) but do not outweigh the detox/transport signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098849","count":4},{"id":"GO:0071996","count":3},{"id":"GO:0060702","count":3},{"id":"GO:0046689","count":3},{"id":"GO:0003333","count":3}]},{"hash":"1433769736093908922","title":"Reproductive Hormone GPCR Signaling","description":"This cluster is dominated by GO terms related to hormonal signaling pathways involved in reproduction, including LH/FSH signaling, hypothalamic TRH signaling, and GPCR-mediated PLC/PKA cascades. The compilation of reproductive development terms (uterus development and sexual characteristic development) supports a cohesive theme around reproductive endocrine signaling, despite one outlier term (TLR8 signaling). Overall, the proteins appear to function in GPCR-driven hormonal signaling relevant to reproduction.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905229","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0071373","count":5},{"id":"GO:0034158","count":5},{"id":"GO:0010738","count":5}]},{"hash":"498196901071035515","title":"Actin Cytoskeleton Dynamics and Vesicle Trafficking","description":"The top GO terms cluster around actin cytoskeleton organization, filopodium assembly, and endocytosis, with links to small GTPase signaling and vesicle transport; together these point to cytoskeleton-driven membrane trafficking and vesicle recycling as the shared theme, despite some terms being less related.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051146","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0046847","count":1},{"id":"GO:0072583","count":1},{"id":"GO:0007264","count":1}]},{"hash":"1827197916743986829","title":"RNA transcription and translational regulation under stress","description":"This cluster centers on RNA metabolism and gene expression control, with GO terms spanning RNA-templated transcription, transcription termination, mRNA processing, and translation initiation, including negative regulation of translation initiation in response to stress. The combination suggests proteins that coordinate transcription and translation in response to cellular stress (e.g., amino acid starvation), rather than a single, narrow function. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":1},{"id":"GO:2000676","count":1},{"id":"GO:0046777","count":1},{"id":"GO:0000291","count":1},{"id":"GO:0060213","count":1}]},{"hash":"863454025316966840","title":"Unknown","description":"The Top Terms mix innate immune signaling (MyD88-dependent TLR, TLR7 pathways, GPCR-IP3 signaling) with reproductive endocrine processes (Sertoli cell development, FSH signaling, ovarian follicle growth, sexual characteristics) and thyroid-related signaling, but there is no clear, single biological function tying all proteins together, and the cluster has no interactions (Edges 0). Therefore, Unknown with None confidence.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"862408593726302606","title":"Cardiac Muscle Differentiation and Growth","description":"Based on the GO terms, the strongest signal centers on cardiac muscle biology, with positive regulation of cardiac muscle cell differentiation and positive regulation of cardiac muscle cell proliferation appearing in the top terms. This suggests a core theme of cardiac muscle development and growth, even though several other, unrelated terms (visual perception, brain development, biofilm formation, apoptotic process) are also present, likely reflecting annotation noise or multifunctional proteins. Overall, the cluster appears to be best described by cardiac muscle lineage regulation.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000727","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"95049769473410317","title":"Unknown","description":"The listed GO terms cover a wide range of processes\u2014from apoptosis and differentiation to brain development and signaling pathways (Hippo, Wnt)\u2014and even include visual perception, biofilm formation, and cytokine production, with no clear, shared function connecting the proteins. Because there is no cohesive theme linking these terms, a specific, representative label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0030216","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0035329","count":5},{"id":"GO:0090263","count":5}]},{"hash":"1055467965753041580","title":"Immune and Reproductive Signaling Pathways","description":"This cluster shows diverse signaling roles spanning innate immune pathways (TLR/MyD88, TLR7) and hormone-receptor signaling (FSH, Sertoli cell development, ovarian follicle growth), plus common second-messenger signaling (GPCR-PLC and IP3). This suggests a general theme of signaling across immune and reproductive contexts rather than a single specific pathway.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"1782006018732695750","title":"Bacterial homeostasis and DNA uptake competence","description":"The GO terms indicate cellular homeostasis (redox balance and pH regulation) and, separately, DNA uptake competence; together they suggest a cluster of proteins involved in maintaining internal conditions in bacteria and, in some cases, participating in transformation-related DNA uptake.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0030420","count":2},{"id":"GO:0006885","count":2}]},{"hash":"467438786065170638","title":"Mitotic centrosome separation and cell adhesion","description":"The two most represented GO terms are mitotic centrosome separation and cell adhesion, indicating a plausible cluster around cell division mechanics and cell\u2013cell interactions. The presence of obsolete terms and a very sparse network (one edge) reduce cohesion, so the theme is plausible but not strongly cohesive.","confidence":"Low","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0052014","count":2},{"id":"GO:1902769","count":2},{"id":"GO:0036523","count":2}]},{"hash":"1885391805374534612","title":"Photoreceptor development and maintenance","description":"These terms converge on photoreceptor and visual system biology, including embryonic eye development, detection of light, photoreceptor maintenance and outer segment localization, and ciliary trafficking. Additional references to phagocytosis and Hedgehog/Smoothened signaling can reflect retinal development processes and homeostasis. Overall, the cluster is best described as photoreceptor/visual system function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031076","count":1},{"id":"GO:0050908","count":1},{"id":"GO:1901621","count":1},{"id":"GO:0060831","count":1},{"id":"GO:0097500","count":1}]},{"hash":"352203448993611188","title":"Developmental transcription factors","description":"Core GO term DNA-templated transcription plus several development-related terms (stem cell differentiation, dendrite morphogenesis, thyroid gland development) suggest proteins that regulate transcription during development across multiple lineages. The cluster appears to group broad regulatory functions rather than a single pathway, making \u201cDevelopmental transcription factors\u201d a concise, representative name.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0015966","count":3},{"id":"GO:2000738","count":3},{"id":"GO:0047484","count":3},{"id":"GO:0007601","count":3}]},{"hash":"1805049056383627850","title":"Developmental and transcriptional processes","description":"Although the terms span diverse processes, the strongest shared theme is development across multiple organs (forebrain, superior temporal gyrus, lung mesenchyme, cardiac muscle proliferation) coupled with DNA-templated transcription. Some outliers (biofilm formation, mast cell cytokine production) likely reflect annotation noise or pleiotropy. Overall, the proteins appear associated with developmental programs governed by transcriptional regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"1853908135461111246","title":"Ribosome dynamics and translation regulation","description":"This cluster is driven by GO terms related to translation and ribosome function: ribosome disassembly, formation of the translation preinitiation complex, IRES-dependent initiation, translation reinitiation, and general regulation of translation, with additional notes on translation fidelity. While there is a minor signal for cell cycle processes, the dominant theme centers on how ribosomes are assembled/disassembled and how translation is controlled, making \"Ribosome dynamics and translation regulation\" the most representative concise label.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0032790","count":1},{"id":"GO:0002192","count":1},{"id":"GO:0001731","count":1}]},{"hash":"1142546652034014342","title":"Iron-sulfur cluster assembly and metal detox response","description":"The cluster\u2019s top GO terms center on iron-sulfur cluster assembly and responses to arsenic and metal ions, suggesting a theme around Fe-S biogenesis coupled with metal detox pathways. Other terms in the set (like plasmid partitioning, ER targeting, and tRNA modification) appear peripheral and may reflect annotation noise. Overall, the core signal points to a function in Fe-S cluster biosynthesis and metal ion detoxification.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016226","count":2},{"id":"GO:0046685","count":1},{"id":"GO:0006859","count":1},{"id":"GO:0071722","count":1},{"id":"GO:0010038","count":1}]},{"hash":"705938878032688637","title":"RNA Processing and Translation Regulation","description":"The proteins show GO terms linked to mRNA processing and export (nuclear export, splice-site recognition, processome assembly, polyadenylation), mRNA stability, and translation control (viral translation initiation/termination and miRNA-mediated silencing), suggesting a cohesive role in post-transcriptional regulation from RNA maturation to translation.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1829833178706014867","title":"RNA processing and translational regulation","description":"The top GO terms cluster around mRNA maturation (polyadenylation, splicing, export, stability) and ribosome-related processes (subunit processome), plus translational control (IRES-dependent initiation, viral termination-reinitiation, and miRNA-mediated silencing). This suggests proteins involved in RNA processing and subsequent regulation of translation, especially in stress contexts. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0006406","count":4},{"id":"GO:0010610","count":4},{"id":"GO:1900363","count":4},{"id":"GO:0034462","count":4}]},{"hash":"689856287920745853","title":"Chromatin modification and transcription regulation","description":"The top GO terms point to regulation of gene expression through chromatin state: DNA-templated transcription, histone H2B acetylation, N-terminal peptidyl-lysine acetylation, and chromatin remodeling. While a few terms touch on unrelated processes, the convergent emphasis on histone modifications and chromatin remodeling strongly supports a role in transcriptional regulation via chromatin dynamics.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0043969","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1}]},{"hash":"1369101358264627826","title":"Sulfur metabolism and amino acid biosynthesis","description":"The proteins in this cluster are annotated with several sulfur-related biosynthetic and metabolic processes (hydrogen sulfide biosynthesis, homocysteine catabolism, cyanide metabolism, coenzyme M biosynthesis) and general amino acid biosynthesis terms (tryptophan, pyruvate). While a few terms are obsolete or peripheral (e.g., morphine response), the dominant theme centers on sulfur metabolism linked to amino acid biosynthesis. This suggests a cohesive function around sulfur-containing metabolite production and amino acid biosynthesis pathways.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":5},{"id":"GO:0019499","count":5},{"id":"GO:0018871","count":5},{"id":"GO:0043418","count":5},{"id":"GO:0019295","count":5}]},{"hash":"794805404126033892","title":"Post-transcriptional mRNA processing and silencing","description":"The GO terms cluster around post-transcriptional RNA handling: splicing via the spliceosome, mRNA export, stability regulation, and ncRNA/miRNA-mediated gene silencing, with additional notes on translation control pathways. This suggests a cohesive theme centered on RNA maturation, regulation, and silencing after transcription.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2}]},{"hash":"1446559172739235791","title":"Interferon-driven innate immune response","description":"GO terms point to innate immunity and interferon signaling (innate immune response; cellular response to interferon-alpha; cellular response to type I interferon). These suggest a module involved in interferon-driven antiviral defense. A few other terms reference cell cycle regulation that may reflect multifunctional proteins or dataset noise, but the core signal is consistent with interferon-mediated innate immunity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:1903071","count":1},{"id":"GO:2000531","count":1},{"id":"GO:0045842","count":1},{"id":"GO:0035457","count":1}]},{"hash":"881795555619415216","title":"Nucleotide biosynthesis and metabolism","description":"The GO terms are dominated by nucleotide and nucleotide-derived cofactor biosynthesis and interconversion (ADP, CDP, dUDP, dTDP, ITP, purine ribonucleotide interconversion, nucleotide phosphorylation), pointing to a shared role in nucleotide biosynthesis and metabolism across the cluster. A few terms pertain to general stress or signaling responses, which may reflect multifunctionality or annotation noise rather than core function. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":1},{"id":"GO:0046705","count":1},{"id":"GO:0046041","count":1},{"id":"GO:0071363","count":1},{"id":"GO:0006172","count":1}]},{"hash":"2089302549113953554","title":"Neuronal differentiation and synaptic signaling","description":"Top GO terms cluster around neural development and synaptic function, with cerebellar granule cell differentiation, regulation of synaptic plasticity by receptor localization to the synapse, and Wnt signaling highlighting neural development and synaptic signaling pathways. Other terms like cardiac morphogenesis or immune regulation are less directly connected, indicating a central neural theme with some broader terms. Confidence: Medium","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2}]},{"hash":"1740534548839987780","title":"RNA metabolism and ribosome biogenesis","description":"This cluster centers on mRNA decay, post-transcriptional regulation, stress granule assembly, rRNA processing, and ribosome subunit export/biogenesis, signaling a cohesive RNA-processing/ribosome biology theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001308","count":1},{"id":"GO:0061157","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0000056","count":1},{"id":"GO:0016441","count":1}]},{"hash":"901635538736297537","title":"Amino acid and sugar metabolism","description":"This cluster centers on amino acid and sugar metabolic processes, including L-serine biosynthesis, L-alanine catabolism, glycolate and N-acetylglucosamine biosynthesis, and lipopolysaccharide biosynthesis, indicating a broader theme of metabolic biosynthesis and processing. A few terms related to insulin signaling and calcium homeostasis suggest additional regulatory or signaling roles, but the dominant theme is metabolism. The low connectivity reinforces a collection of related, but diverse, metabolic functions rather than a single, tight pathway.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0031247","count":1}]},{"hash":"700297246460599877","title":"Diverse Biosynthetic Pathways","description":"The proteins appear linked to multiple biosynthetic and catabolic processes\u2014heme, cobalamin, sphingomyelin, amino acid derivatives\u2014suggesting a cluster of metabolic activities rather than a single pathway. A plant defense signaling term is present, but the dominant theme is broad biosynthesis across pathways, so the name emphasizes metabolic synthesis breadth rather than a specific route.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009862","count":5},{"id":"GO:0006532","count":5},{"id":"GO:0006782","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0006686","count":5}]},{"hash":"1308221526696138723","title":"Neural development and synaptic signaling","description":"The cluster includes terms tied to neural differentiation (cerebellar granule cell differentiation), synaptic regulation (regulation of synaptic plasticity by receptor localization to synapse), and signaling pathways (Wnt signaling, intracellular signal transduction). While there are also developmental and immune terms, the strongest and most coherent theme across the terms is neural development and synaptic signaling, supporting a label focused on neural differentiation and synaptic communication. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":4},{"id":"GO:0045083","count":4}]},{"hash":"654554735382621094","title":"LDL receptor endocytosis regulation","description":"The cluster's GO terms center on LDL receptor catabolic processes and their regulation, plus receptor recycling and cholesterol transport, suggesting involvement in LDL receptor trafficking and cholesterol homeostasis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032802","count":1},{"id":"GO:0001920","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0032804","count":1}]},{"hash":"1035562715960507603","title":"Unknown","description":"There are no GO terms listed for this cluster and no edges, so there is no evidence of a shared function among the five proteins. Although they were re-added by ReCIPE (degree 0.75), this does not reveal a common biological role. Therefore the appropriate label is Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2064954075793005167","title":"Golgi-ER vesicle trafficking and Golgi organization","description":"These proteins show strong enrichment for GO terms involving vesicle fusion with the Golgi, ER-to-Golgi transport, Golgi ribbon formation and Golgi organization, as well as regulation of protein localization to membranes and to the cell surface. The dominant theme is vesicle trafficking and structural maintenance centered on the Golgi/ER system, with related autophagosome maturation. This points to a cluster of Golgi-ER trafficking and Golgi organization components.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":3},{"id":"GO:0097352","count":2},{"id":"GO:1903078","count":2},{"id":"GO:2000010","count":2},{"id":"GO:1903358","count":2}]},{"hash":"620275370771843621","title":"O-mannosylation and ER unfolded protein response","description":"The top GO terms point strongly to O-linked mannose glycosylation and ER quality control/unfolded protein response (with an obsolete chain elongation term as corroborating evidence), suggesting the proteins are involved in glycosylation and ER stress management. Other terms like muscle development or lipid biosynthesis likely reflect annotation noise, given the lack of interaction edges. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044845","count":2},{"id":"GO:0007525","count":2},{"id":"GO:0007385","count":2},{"id":"GO:0009245","count":2},{"id":"GO:0060025","count":2}]},{"hash":"493867603048635325","title":"Oxidative stress response and redox homeostasis","description":"The top GO terms cluster around cellular redox homeostasis and oxidative stress response (with related ER stress and redox-related processes), suggesting a shared function in managing reactive oxygen species and maintaining redox balance. Although the network is sparse (no edges/triangles), the dominant oxidative stress-related signals justify this label as representative of the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1487048367350484533","title":"Unknown","description":"The GO terms span transcription regulation (RNA Pol II/III), SMAD signaling, fungal sporulation, mitotic chromosome condensation, vesicle transport, vacuole organization, and gravitropism, with no single unifying function across the five proteins. There isn\u2019t a clear, cohesive theme to name the cluster definitively.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060261","count":1},{"id":"GO:0060395","count":1},{"id":"GO:0075297","count":1},{"id":"GO:0045945","count":1},{"id":"GO:0070898","count":1}]},{"hash":"1108634051427085294","title":"Bacterial cell wall synthesis and antibiotic response","description":"This cluster is dominated by GO terms related to peptidoglycan biosynthesis, cell wall organization, regulation of cell shape, cell division, and antibiotic response, pointing to a bacterial envelope biogenesis and antibiotic response theme. Some terms about DNA repair or telomere maintenance appear divergent and may be annotation noise given the small cluster size, but the strongest cohesive signal is cell wall\u2013related processes and antibiotic interaction.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009252","count":1},{"id":"GO:0017001","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0008360","count":1},{"id":"GO:0071555","count":1}]},{"hash":"666262007663681588","title":"Unknown","description":"This cluster has no GO terms or network connections provided (Edges: 0, Triangles: 0) and no discernible shared function among the listed proteins. Without functional signals, I cannot infer a common theme, so label as Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"79255980647234807","title":"Developmental differentiation and signaling","description":"Several GO terms point to developmental cell fate decisions across tissues (wing cell fate specification, compound eye cone cell fate commitment, spermatid differentiation) and signaling related to epidermal growth factor receptor ligand maturation. Although there are other terms like unfolded protein response and NK cell regulation, the dominant theme appears to be differentiation and maturation processes, with some related cellular quality control aspects. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:1904211","count":1},{"id":"GO:0038005","count":1},{"id":"GO:0035311","count":1},{"id":"GO:0048515","count":1}]},{"hash":"2057156349127374882","title":"Unknown","description":"No shared GO terms or network connections are provided, so there is no clear functional theme to assign a specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1151971883813226","title":"Unknown","description":"There are no top GO terms to anchor a functional theme, and the cluster has no edges or triangles (Edges: 0, Triangles: 0, Max Degree: 0). With 7 proteins re-added but no connectivity, there is no shared pathway or process evident to group these proteins; thus a meaningful function label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"483798091289740125","title":"Telomere maintenance and shelterin regulation","description":"This cluster's GO terms cluster around telomere biology (telomeric loop formation, shelterin complex assembly, telomere maintenance) and related DNA repair processes, suggesting a shared function in maintaining telomere integrity; a few terms pertain to chlorophyll biosynthesis and hormone responses, but they appear less central.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"1459605467962049467","title":"Unknown","description":"Top terms are diverse and span adhesion regulation, signal transduction, transcription regulation, plant hormone biosynthesis, neuronal structure, and chromatin modification, with no dominant shared function across the five proteins. This lack of a coherent theme makes it impossible to assign a specific, representative function to the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033624","count":1},{"id":"GO:0090419","count":1},{"id":"GO:0032487","count":1},{"id":"GO:0090282","count":1},{"id":"GO:0007249","count":1}]},{"hash":"2045752642474695479","title":"Transcriptional repression and chromatin regulation","description":"The cluster is dominated by terms related to controlling gene expression at the transcription level and chromatin state, including negative regulation of transcription by RNA polymerase II, DNA methylation\u2013mediated repression, and nuclear body organization (PML bodies). While a few terms touch on autophagy and protein turnover or organelle dynamics, the strongest signal ties to transcriptional regulation and chromatin modification.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":4},{"id":"GO:0030578","count":4},{"id":"GO:0071816","count":4},{"id":"GO:0043433","count":4},{"id":"GO:1905366","count":4}]},{"hash":"2274901922384220230","title":"Unknown","description":"The GO terms cover broad developmental processes (skeletal system, neural tube, forebrain development) and assorted cellular activities (transcription, mitotic cycle, ER-stress\u2013related apoptosis, cadmium response, immune defense) without a unifying mechanism, and the absence of edges supports a lack of cohesive function among these proteins. Therefore, there is no clear, specific label to assign beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0030900","count":2}]},{"hash":"1425160819685252798","title":"Unknown","description":"The GO terms span nervous system development, visual perception, plant hormone signaling, cell cycle regulation, phosphorylation, and heart/kidney development, showing no single cohesive function tying the proteins together. Because there is no clear common theme, a precise informative label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0000086","count":3}]},{"hash":"717376307552016441","title":"Unknown","description":"The GO terms cover a wide, unrelated mix of transcription, nuclear transport, brain/visual development, immune signaling, cardiac growth, apoptosis, meiosis, biofilm formation, and mesenchyme development, with no clear shared function. This makes a specific, coherent label unlikely, so the appropriate designation is Unknown.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3},{"id":"GO:0090606","count":3}]},{"hash":"437701394224191369","title":"GTPase- and Kinase-Mediated Signaling Regulation","description":"This cluster is dominated by GO terms for positive regulation of GTPase activity and serine/threonine kinase activity (including autophosphorylation), pointing to phosphorylation-driven signaling; other terms hint at neural/photoreceptor signaling and development, but the core theme is signaling regulation via GTPases and kinases.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0035502","count":1}]},{"hash":"833353820902739704","title":"Unfolded Protein Response and SRP Targeting","description":"This cluster centers on proteostasis: unfolded protein response and SRP-dependent cotranslational targeting to membranes, indicating roles in protein folding quality control and directing nascent proteins to membranes. Other terms such as iron-sulfur cluster assembly and DNA replication are present but seem tangential, so the core theme is proteostasis and membrane targeting.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"1623431075627911373","title":"Unknown","description":"The top GO terms span meiotic cell cycle, mesoderm development, glycogen biosynthetic regulation, sphingomyelin catabolic process, response to morphine, cell-cell adhesion, myelination, and DNA damage checkpoints. There is no single coherent biological process linking these terms, and the cluster shows no interactions (edges) to support a specific function. Therefore, no representative label can be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051321","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0005979","count":2},{"id":"GO:0006685","count":2},{"id":"GO:0043278","count":2}]},{"hash":"1518256708622145725","title":"Muscle contraction and Ca2+-mediated ion homeostasis","description":"The top GO terms indicate a focus on muscle physiology (fast-twitch skeletal muscle contraction, membrane repolarization) and on ion handling (calcium ion homeostasis, sodium export) with links to cardiac/vascular signaling (blood vessel diameter regulation, cardiac muscle hypertrophy regulation, NOS activity). This suggests a shared theme of excitation-contraction coupling and ion balance that connects skeletal muscle function with vascular and cardiac regulation, justifying a label centered on muscle and ion homeostasis.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903416","count":1},{"id":"GO:0097755","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0086009","count":1},{"id":"GO:0031448","count":1}]},{"hash":"1490047692652189102","title":"Telomere-Associated Heterochromatin Formation","description":"The top GO terms cluster around heterochromatin maintenance and formation, especially at subtelomeric regions and silent mating-type loci, indicating a shared role in establishing or maintaining repressive chromatin at telomeres. An aggresome-related term appears ancillary but does not redefine the main theme. Overall, these proteins likely participate in telomere-associated chromatin silencing.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006344","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0031939","count":3},{"id":"GO:0061186","count":3},{"id":"GO:0006348","count":3}]},{"hash":"137037737866052330","title":"Protein folding and ER targeting under stress","description":"The dominant GO terms point to management of protein folding and targeting to membranes in the secretory pathway (unfolded protein response, SRP-dependent cotranslational targeting, chaperone-related refolding). This suggests a cluster centered on protein quality control and processing in the endoplasmic reticulum under stress. A few terms (DNA replication, karyogamy) appear unrelated, likely annotation noise, but do not define the core theme. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0006616","count":2},{"id":"GO:0006880","count":2},{"id":"GO:1903751","count":2}]},{"hash":"124864380176809387","title":"Sumoylation-Linked DNA Damage Response","description":"The top GO terms cluster around post-translational modification by sumoylation (autosumoylation and positive regulation of protein sumoylation) and several DNA damage response processes (DNA double-strand break attachment to the nuclear envelope, error-prone translesion synthesis regulation, and mitotic DNA damage checkpoint regulation), suggesting a theme where sumoylation modulates DNA repair/tolerance pathways. Some terms (keratinocyte apoptotic process, vitellogenesis, membrane potential, androgen receptor signaling) are less clearly connected and may reflect broader or off-target functions in this small cluster. Overall, the most coherent thread is sumoylation-influenced DNA damage response, with some outliers.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902174","count":1},{"id":"GO:1990466","count":1},{"id":"GO:0033235","count":1},{"id":"GO:0007296","count":1},{"id":"GO:0016049","count":1}]},{"hash":"559755394146558201","title":"Unknown","description":"This cluster's GO terms span wildly disparate biological themes, including visual perception, pituitary morphogenesis, ureteric bud development, dendrite extension, calcium transport, cAMP signaling, NF-kappaB signaling, protein sumoylation regulation, and heart rate regulation. There is no single coherent function or pathway that ties these terms together, so a meaningful specific label cannot be assigned.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0043129","count":1},{"id":"GO:0048855","count":1},{"id":"GO:1903861","count":1}]},{"hash":"1874416700635212256","title":"Urmylation and tRNA wobble thiolation in cell division","description":"The top GO terms center on Urmylation and tRNA wobble uridine thiolation, pointing to RNA modification and translation-related processes. Alongside these, there are cell division and cytoskeletal organization terms (cytoplasmic microtubule organization, mitotic cytokinesis, spindle pole body duplication), suggesting a link between RNA modification/translation and cell division machinery. This supports a theme around RNA modification impacting translation during cell division, hence a label focused on Urmylation and tRNA wobble thiolation in cell division.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032447","count":2},{"id":"GO:0002143","count":2},{"id":"GO:0031122","count":1},{"id":"GO:1902408","count":1},{"id":"GO:1903087","count":1}]},{"hash":"2038673801929574585","title":"Ubiquitin-Proteasome Regulation & Cell Cycle","description":"This set emphasizes ubiquitin ligase activity and SCF-dependent proteasomal degradation, plus CENP-A chromatin assembly and cell-cycle related processes (spindle orientation, DNA repair, apoptosis). The recurring theme is regulated protein turnover linked to mitosis and genome maintenance, which justifies a label around ubiquitin-proteasome control of the cell cycle. Some development-related GO terms appear tangentially but do not define a distinct functional module here.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"1826595339859867940","title":"Unknown","description":"Top terms are not provided and there are no edges or interactions among the proteins, so no shared function can be inferred; label remains Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1161076673683969509","title":"Proteostasis and genome maintenance","description":"The cluster\u2019s highlighted terms center on ubiquitin-proteasome\u2013mediated protein turnover (positive regulation of ubiquitin ligase activity; SCF-dependent proteasomal degradation), paired with cell cycle control (mitotic spindle orientation, cytokinesis) and DNA damage response (homologous recombination repair) plus apoptosis. While some developmental terms appear, the strongest common theme ties protein degradation to genome maintenance and cell-cycle regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"2118567227585409509","title":"Protein folding stress response and SRP targeting","description":"The top GO terms cluster around protein homeostasis: unfolded protein response, chaperone-dependent refolding, and SRP-dependent cotranslational targeting to membranes. This points to a role in protein quality control under stress and directing nascent proteins to membranes. Some terms (iron-sulfur cluster assembly, DNA replication, apoptosis regulation) are broader or peripheral, but the dominant signal reflects protein folding and targeting under stress.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1}]},{"hash":"832224205493752923","title":"RNA maturation and modification","description":"Most terms point to RNA processing/modification (snoRNP assembly, tRNA wobble modification, and mRNA capping), with supporting signals from related methylation processes. While other terms are more general or metabolic, the RNA-centric terms dominate, suggesting this cluster centers on RNA maturation activities.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":1},{"id":"GO:0000492","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0009236","count":1}]},{"hash":"1855202243530849379","title":"ECM remodeling and developmental morphogenesis","description":"This cluster shows strong enrichment for extracellular matrix remodeling processes (basement membrane disassembly, collagen catabolic, bone resorption, intramembranous ossification) and branching/morphogenesis (lung development, epithelial tube branching). Some terms like immune or neural proliferation appear, but the dominant theme is matrix turnover and morphogenesis during development.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000179","count":3},{"id":"GO:0001913","count":3},{"id":"GO:0045453","count":3},{"id":"GO:0034769","count":3},{"id":"GO:0060441","count":3}]},{"hash":"1325613848269040981","title":"Unknown","description":"There are no GO terms or connections given for this cluster (no edges, no top terms to guide a shared function), so a meaningful label cannot be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1312366922942320266","title":"LPS and lipid A biosynthesis","description":"These proteins cluster around biosynthetic processes for surface/envelope components, notably lipid A and lipopolysaccharide biosynthesis, plus related polysaccharide assembly (undecaprenyl phosphate carrier). The inclusion of biofilm formation and antibiotic response terms supports a broader envelope/surface biogenesis theme. Overall, the module likely represents bacterial cell envelope and surface polysaccharide production. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036108","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0042710","count":1},{"id":"GO:0045493","count":1},{"id":"GO:0009245","count":1}]},{"hash":"1534820371740836316","title":"Membrane trafficking and signal transduction","description":"The top GO terms cluster around endosome localization and membrane trafficking (endosome localization, membrane addition at cytokinesis) alongside core signaling pathways (Ras signaling, epithelial-mesenchymal signaling, mineralocorticoid/steroid response) and various stimulus/drug responses. This pattern suggests proteins that function at membranes to coordinate trafficking with signaling, rather than a single narrowly defined function.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0036010","count":2},{"id":"GO:0007119","count":2},{"id":"GO:0060684","count":2},{"id":"GO:0097327","count":2},{"id":"GO:0006972","count":2}]},{"hash":"610600314651053558","title":"Nuclear transport and intracellular trafficking","description":"The top GO terms emphasize nuclear import/export (protein import into nucleus, poly(A)+ mRNA export from nucleus) and vesicle transport (retrograde Golgi to ER, protein transmembrane transport), with ribophagy suggesting intracellular quality control. Together they suggest a theme of nucleocytoplasmic trafficking and intracellular cargo movement, though a few terms appear unrelated and may reflect annotation noise in this small cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016037","count":1},{"id":"GO:0006606","count":1},{"id":"GO:0034517","count":1},{"id":"GO:0071806","count":1},{"id":"GO:0045571","count":1}]},{"hash":"2229696351013351003","title":"Unknown","description":"The top GO terms span diverse biological areas\u2014from angiogenesis and organ development to brain function, immune signaling, apoptosis, cell division, biofilm formation, and ion transport\u2014yet the cluster has only a single connection and no clear shared function among most members. This lack of a cohesive theme makes it inappropriate to assign a specific functional label.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1},{"id":"GO:0032762","count":1}]},{"hash":"2177955487692594283","title":"Neural development and ciliary signaling","description":"The top GO terms include mushroom body development (neural development) along with positive regulation of GTPase activity, positive regulation of TOR signaling, cellular response to amino acid stimulus, and intraciliary transport involved in cilium assembly. Together, these suggest a cluster centered on neural development with linked signaling regulation and ciliary transport processes, even though there are no reported edges among the proteins. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016319","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0032008","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0000186","count":1}]},{"hash":"1247636301823608975","title":"Broad cell signaling and stress responses","description":"GO terms cover T cell receptor signaling, endosome localization, isotropic bud growth, EMT signaling, drug response, hyperosmotic stress, negative chemotaxis, membrane addition at cytokinesis, Ras signaling, and mineralocorticoid response\u2014together pointing to a broad role in signal transduction and cellular responses to diverse stimuli rather than a single pathway.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0036010","count":3},{"id":"GO:0007119","count":3},{"id":"GO:0060684","count":3},{"id":"GO:0097327","count":3}]},{"hash":"1436583016697839737","title":"Neural development and trafficking","description":"The top GO terms cluster around neural development and signaling (neural tube patterning, regulation of glutamatergic transmission) combined with intracellular trafficking and membrane remodeling (endosome localization, membrane addition during cytokinesis) and cell movement processes (EMT signaling, chemotaxis, locomotion). This suggests the proteins participate in developmentally regulated signaling and trafficking affecting neural connectivity and cell migration.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051966","count":4},{"id":"GO:0036010","count":4},{"id":"GO:0007119","count":4},{"id":"GO:0060684","count":4},{"id":"GO:0021532","count":4}]},{"hash":"1054565219284679207","title":"Unknown","description":"The GO terms span diverse processes from small-m molecule catabolism and energy metabolism (phenylacetate/xanthine catabolic processes, ferredoxin metabolism, ATP-dependent electron transport), to transport (sodium ion transport), to development and regulation of blood vessels (negative regulation of endothelial differentiation, VEGF signaling, vasculogenesis), and even lactation or nitrogen fixation. This combination does not suggest a single cohesive function or pathway for the cluster, and the modest size with many only single-term associations supports labeling as Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0009399","count":1},{"id":"GO:1900747","count":1}]},{"hash":"696108437046306611","title":"GTPase-driven actin remodeling and cell polarity","description":"The top GO terms cluster around small GTPase signaling and actin cytoskeleton dynamics: positive regulation of GTPase activity; small GTPase-mediated signal transduction; filopodium and ruffle assembly; barbed-end actin filament capping; and processes governing cell shape, polarity, and junction assembly. The presence of TGF-beta signaling and T cell receptor signaling suggests cross-talk between signaling pathways that modulate cytoskeletal rearrangements and cell adhesion. Together, these terms point to proteins coordinating actin organization controlled by GTPases and impacting cell polarity and intercellular contacts.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0046847","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0071560","count":2}]},{"hash":"155040335623875126","title":"Unknown","description":"The GO terms are scattered across signaling (GTPase regulation), ubiquitin\u2013proteasome pathways, various developmental processes, and cell cycle/DNA repair, with no single shared function linking these four proteins. This lack of a cohesive theme makes a specific, informative label inappropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1}]},{"hash":"204862111455654371","title":"Neuronal development and signaling","description":"The top GO terms cluster around neural development and synaptic function (glutamatergic synaptic transmission, neural tube patterning, locomotory behavior), with supporting terms for endosomal trafficking and neuronal signaling. While there are a few non-neural terms present (e.g., cytokinesis membrane addition, isotropic bud growth), the dominant theme is neural development and synaptic regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":4},{"id":"GO:0036010","count":4},{"id":"GO:0007119","count":4},{"id":"GO:0060684","count":4},{"id":"GO:0021532","count":4}]},{"hash":"1704775702689128590","title":"Rab GTPase\u2013driven membrane trafficking","description":"The GO terms center on Rab protein signal transduction, activation of GTPase activity, and protein geranylgeranylation, all key components of Rab-mediated vesicle trafficking and membrane targeting, with supporting terms for protein transport. Some pigment-related terms may be incidental to the cluster, but the Rab/GTPase/geranylgeranylation theme is the strongest shared signal.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0050935","count":1},{"id":"GO:0090315","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0055114","count":1}]},{"hash":"2208855406610377176","title":"Immune signaling and transcription","description":"Based on the top GO terms, the proteins are enriched for immune-related processes: cellular response to LPS, GM-CSF stimulus, T cell receptor signaling, and mast cell cytokine production, indicating activation and signaling in immune cells. The presence of DNA-templated transcription suggests concurrent transcriptional regulation. Although a few terms are non-immune (visual perception, biofilm formation), they are low-frequency, so the dominant theme is immune signaling and transcriptional regulation.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0097011","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0046826","count":2},{"id":"GO:0050852","count":2}]},{"hash":"554655318317316636","title":"Unknown","description":"The GO terms span sensory perception, neural and organ development, immune signaling, cardiac growth, apoptosis, cell division machinery, biofilm formation, ion transport, and ERBB signaling, which do not cohere into a single clear biological function or pathway. This makes it difficult to assign a concise, representative label to the cluster. ","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3},{"id":"GO:0090606","count":3},{"id":"GO:0032762","count":3},{"id":"GO:0060045","count":3}]},{"hash":"61106943586531471","title":"GTPase-regulated vesicle trafficking","description":"This cluster's terms converge on vesicle trafficking and secretion regulated by small GTPases. The presence of small GTPase-mediated signaling and positive regulation of GTPase activity points to GTPase control of trafficking. Terms for synaptic vesicle budding and calcium-dependent exocytosis highlight exocytic processes, while Golgi-related transport and lysosomal membrane organization indicate broader membrane trafficking within secretory and endolysosomal pathways. Epithelial polarity establishment aligns with directed vesicle delivery and membrane organization. Some apoptosis terms exist but the dominant theme is vesicle transport and membrane dynamics governed by GTPases.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":2},{"id":"GO:0070142","count":2},{"id":"GO:0034379","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1197699415395182422","title":"Unknown","description":"The listed GO terms span visual perception, brain development, immune signaling, cardiac proliferation, apoptosis, meiosis, lung development, ion transport, and ERBB signaling, which cover unrelated biological contexts. There isn\u2019t a single coherent functional theme linking these proteins, so the cluster lacks a meaningful, specific label beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0071109","count":4},{"id":"GO:0090606","count":4},{"id":"GO:0032762","count":4},{"id":"GO:0060045","count":4}]},{"hash":"860728829735548760","title":"Unknown","description":"There are no shared GO terms, no edges or triangles, and an empty top terms list, so no coherent functional theme emerges among the four proteins. Unknown is the appropriate label with no confidence in a specific function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"205736450336034183","title":"Unknown","description":"There are no observed interactions (edges/triangles) and no shared GO terms to suggest a common function for the four proteins; lacking a functional signal, I cannot assign a meaningful label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1204410529407147951","title":"Lignan biosynthesis and catabolism","description":"Top GO terms show both (+)-lariciresinol and (-)-pinoresinol catabolic processes and (+)-secoisolariciresinol biosynthetic process, along with phenylpropanoid biosynthesis, pointing to lignan/phenylpropanoid metabolism as the unifying theme. A few other terms (GDP-mannose metabolism, lipopolysaccharide biosynthesis, poly-hydroxybutyrate biosynthesis) appear peripheral or noisy, but the core signal is lignan biosynthesis and breakdown.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902131","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0019305","count":1},{"id":"GO:0009699","count":1},{"id":"GO:1902123","count":1}]},{"hash":"1201187938865482450","title":"Unknown","description":"The top GO terms span diverse processes from neuronal signaling and neural tube development to endosome localization, epithelial\u2013mesenchymal signaling, and general stress/behavioral responses, with no single dominant function tying the proteins together. This makes it hard to assign a cohesive, specific label to the cluster.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1},{"id":"GO:0060684","count":1},{"id":"GO:0021532","count":1}]},{"hash":"962262832781113010","title":"Neuronal Cytoskeleton Remodeling and Trafficking","description":"The GO terms point to actin-driven processes like filopodium assembly and dendrite morphogenesis, supported by small GTPase signaling and endosomal localization, which together reflect cytoskeletal dynamics and membrane trafficking in neurons affecting morphology and synaptic function. Some terms appear less related (lipophagy, cell wall biosynthesis), but the core theme centers on cytoskeleton remodeling and trafficking relevant to neuronal development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0051966","count":1},{"id":"GO:0061724","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0090334","count":1}]},{"hash":"743436453456069908","title":"Unknown","description":"This cluster has no edges or shared GO terms (Edges 0, Triangles 0, Max Degree 0) and no top terms listed, so there is no clear functional theme to label. The ReCIPE re-added set provides no cohesive signal to assign a specific function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1463027421861136352","title":"Unknown","description":"The GO terms are highly diverse and include nuclear-related processes (ribosomal protein import into nucleus, mitotic nuclear membrane reassembly, cytokinesis), membrane transport, plant-specific growth responses (gravitropism), and viral processes, plus some obsolete terms. This lack of a cohesive functional theme suggests no single representative function for the cluster.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0080034","count":2},{"id":"GO:1904793","count":2},{"id":"GO:0061509","count":2},{"id":"GO:0006610","count":2}]},{"hash":"2157705399321648043","title":"MAPK signaling and cytoskeletal remodeling","description":"The enriched GO terms center on small GTPase\u2013driven signaling, ephrin receptor pathways, and MAPK cascades (ERK/JNK), all tying to cytoskeletal dynamics such as filopodium assembly and actin remodeling, with a possible neuronal signaling context (GABAergic transmission).","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0045792","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0046847","count":3}]},{"hash":"1417738825535200015","title":"Unknown","description":"The top GO terms are highly diverse, ranging from potassium ion transport and dendrite morphogenesis to visual perception, cytokine production, apoptosis, and spindle attachment, with no single coherent biological function tying them together. The cluster also has no edges (Edges: 0, Max Degree: 0) and notes about re-adding proteins, suggesting it is not a connected functional module but an artifact or mixture of disparate functions. Therefore there is no clear representative function for this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0048813","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3}]},{"hash":"2112645981795664245","title":"Chromatin remodeling in reproductive development","description":"The top GO terms cluster around chromatin modification (histone acetylation, chromatin remodeling) and reproductive development (uterus morphogenesis, uterine gland development), with links to hormone signaling (regulation of androgen receptor signaling) and transcriptional regulation. This suggests a functionally coherent group of proteins involved in chromatin-based regulation that influences reproductive tissue development and associated pathways. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":2},{"id":"GO:0010835","count":2},{"id":"GO:0018076","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0060765","count":2}]},{"hash":"747205503238311626","title":"Unknown","description":"The four proteins show a scattered mix of GO terms across immunity, reproduction, vision, development, cell cycle, and apoptosis. With no edges connecting them and no single shared biological theme, there is no coherent process to name. Therefore, this cluster is best labeled Unknown with no confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0071372","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1}]},{"hash":"269063215844460867","title":"Ubiquitin-Proteasome Regulation and Cell Cycle","description":"This cluster centers on ubiquitin-dependent protein degradation and turnover, including SCF- and APC/C-mediated proteolysis, as well as protein deubiquitination and related regulation of mRNA stability. The dominant GO terms map to ubiquitination, proteasomal catabolism, and cell-cycle control, suggesting a cohesive theme around targeted protein degradation governing cell division.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0051437","count":2},{"id":"GO:0031145","count":2}]},{"hash":"680503584842167380","title":"Neuronal morphology and membrane trafficking","description":"This cluster is anchored by terms related to shaping cellular protrusions and neural connectivity (dendrite morphogenesis, filopodium assembly), along with vesicle trafficking and degradation pathways (protein localization to endosome, lipophagy) and regulatory signaling (small GTPase-mediated signal transduction, regulation of glutamatergic synaptic transmission). Together these terms point to a gene set involved in cytoskeletal remodeling and membrane trafficking that supports neuronal morphology and synaptic function. A few terms are more general cell signaling, but the dominant theme is neuronal structure and trafficking.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0051966","count":1},{"id":"GO:0061724","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0090334","count":1}]},{"hash":"1221781361446223291","title":"ERAD-Mediated Glycoprotein Degradation","description":"This cluster is dominated by processes related to glycoprotein quality control and disposal via ER-associated degradation (ERAD). The prominent GO terms point to retrograde transport from the ER to the cytosol for degradation and the ubiquitin-dependent ERAD pathway, while additional terms describe trimming of N-glycan mannose residues and related glycan processing in the ER/Golgi, linking glycoprotein maturation with targeted degradation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904154","count":2},{"id":"GO:0036509","count":1},{"id":"GO:0036511","count":1},{"id":"GO:0006486","count":1},{"id":"GO:1904381","count":1}]},{"hash":"1829566201700014267","title":"Endolysosomal trafficking and autophagy regulation","description":"The top GO terms cluster around endosomal sorting and degradation pathways: intralumenal vesicle formation, multivesicular body sorting, MVB-lysosome fusion, and protein transport to vacuoles/lysosomes, all pointing to endosome-to-lysosome trafficking. The inclusion of negative regulation of autophagosome assembly links autophagy to these trafficking processes. While there are a few disparate terms (e.g., mitotic chromosome condensation, follicle cell formation), the shared theme is intracellular vesicle trafficking toward degradation compartments and its regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902187","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0070676","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0071454","count":1}]},{"hash":"1731187952990397403","title":"Telomere maintenance and shelterin assembly","description":"The top GO terms are dominated by telomere-related processes, including shelterin complex assembly, telomeric loop formation, and replication-associated telomere repair, suggesting a coherent cluster focused on telomere maintenance. A few other terms (chlorophyll biosynthesis, seed growth, hormone responses) appear, but they are likely incidental annotations; the strongest signal is nuclear telomere biology.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"764459653452717618","title":"Centrosome cycle and DNA replication","description":"This cluster is dominated by GO terms related to the centrosome cycle (GO:0007098), positive regulation of nuclear cell cycle DNA replication (GO:0010571), and DNA replication (GO:0006260), pointing to core cell cycle and replication machinery. Additional terms touch on transcription and DNA damage response (e.g., SOS response), and a developmental context is suggested by embryonic cranial skeleton morphogenesis, but the central theme remains genome duplication and cell-cycle control. Confidence: High","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007098","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0009432","count":3}]},{"hash":"127236684086560421","title":"Unknown","description":"The GO terms are highly diverse, spanning immune signaling (GM-CSF response, mast cell cytokine production), transcription, brain development and function (visual perception, superior temporal gyrus development), biofilm formation, apoptosis, and cell division, with no single cohesive theme linking them. Therefore, a specific functional label is not discernible.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"29787522627024642","title":"Redox Homeostasis and ER Stress Response","description":"This cluster is best described by GO terms related to oxidative stress and protein maintenance, including cellular oxidant detoxification, cell redox homeostasis, and response to endoplasmic reticulum stress, plus protein repair. The presence of biosynthesis and viral-process terms appears incidental; the core shared function seems to be managing redox balance and proteostasis under stress.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0045454","count":1}]},{"hash":"487365403507134047","title":"Unknown","description":"Top terms are highly diverse, spanning antibiotic response, protein deneddylation, embryonic development, viral translation control, and germline development, with no clear unifying function. This lack of a cohesive theme makes a more specific label inappropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0000338","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1902416","count":1}]},{"hash":"1166810189881543838","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006314","count":1},{"id":"GO:0090669","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0032790","count":1},{"id":"GO:0002192","count":1}]},{"hash":"692234942547871317","title":"Unknown","description":"The GO terms are heterogeneous, ranging from neural tube development and uterus morphogenesis to inositol phosphate metabolism, histone acetylation, and transcription initiation, with no clear shared function tying the proteins together. Because of this lack of a cohesive theme, a specific functional label is not justifiable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021915","count":2},{"id":"GO:0032957","count":1},{"id":"GO:0052746","count":1},{"id":"GO:0010264","count":1},{"id":"GO:0043969","count":1}]},{"hash":"203064012244923734","title":"Viral entry and replication with host response","description":"The top GO terms point to stages of viral infection, including entry (fusion of viral membrane with host, uncoating), early replication (viral life cycle, host-mediated activation of viral genome replication), and host interactions (symbiont/virus entry into host, leukocyte migration). While a few terms like pinocytosis and lipid droplet organization are more general cellular processes, the dominant signal centers on viral entry, early replication steps, and the host immune response, which justifies a viral-entry/early-replication cluster label.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006907","count":2},{"id":"GO:0071492","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0030260","count":1},{"id":"GO:0019061","count":1}]},{"hash":"2091409896862078720","title":"DNA-templated transcription and mRNA splicing","description":"Top GO terms indicate core involvement in DNA-templated transcription and spliceosome-mediated mRNA splicing, suggesting the cluster centers on transcriptional and RNA processing machinery. The few ubiquitin-protein ligase and proteasomal degradation terms imply additional regulation of protein turnover, possibly touching on transcription factor turnover, while development-related terms appear less central. Overall, the data point to a cohesive theme around transcription and RNA processing with supplementary proteostasis signals.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000398","count":2},{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1}]},{"hash":"1618432849056911686","title":"Cell Cycle Regulation and Proliferation","description":"Based on GO terms such as mitotic cell cycle phase transition, cell division, regulation of mitotic cell cycle, and regulation of transcription by RNA polymerase II, these proteins appear to participate in coordinating cell cycle progression and transcriptional control during proliferation. There are no reported edges among the four proteins, suggesting a small, possibly core set rather than a fully interconnected complex.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044772","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0045737","count":1}]},{"hash":"1791104618739201439","title":"Oxidative Stress and ER Stress Response","description":"The top GO terms cluster around cellular response to oxidative stress, redox homeostasis, and endoplasmic reticulum (ER) stress response, indicating a cohesive theme of managing redox balance and ER-related stress. Some terms like viral process or obsolete oxidation-reduction terms are less central, but the core signal is oxidative/ER stress handling.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:1903206","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0055114","count":2}]},{"hash":"778412146275723255","title":"Chromatin regulation and DDR signaling","description":"The top GO terms cluster around chromatin maintenance and modification (heterochromatin maintenance, histone monoubiquitination), ubiquitin-proteasome\u2013dependent protein turnover, and DNA damage response (double-strand break repair by homologous recombination). Signaling pathways linked to stress responses (JNK cascade, NF-kappaB activation) further tie chromatin state to cellular signaling. A few terms like prolactin secretion and viral process may be peripheral or annotation noise, but the core theme points to chromatin regulation intertwined with genome stability and stress signaling.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006344","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0010390","count":3},{"id":"GO:0070459","count":3},{"id":"GO:0043123","count":3}]},{"hash":"2228102135492687615","title":"Oxidative and ER Stress Response","description":"GO terms cluster around cellular responses to oxidative stress, redox homeostasis, and ER stress, suggesting a functional theme in managing oxidative damage and protein-folding stress; the presence of DNA replication and viral process terms appears less coherent, making the connection weaker.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1029694315612520295","title":"Unknown","description":"The top GO terms span very different biology, including insulin signaling, chromatin remodeling, visual perception and brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, spindle\u2013kinetochore attachment, and lung mesenchyme development. With only 4 proteins and no edges linking them, there is no coherent shared function or theme tying these terms together, suggesting the cluster is heterogeneous or noisy. Therefore no reliable label beyond Unknown can be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1}]},{"hash":"879462758377443801","title":"Mitochondrial Translation Machinery","description":"This cluster is characterized by GO terms for mitochondrial translation (GO:0032543), ribosomal large subunit assembly (GO:0000027), and translational termination (GO:0006415), indicating involvement in mitochondrial protein synthesis and ribosome assembly.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000027","count":1},{"id":"GO:0006415","count":1},{"id":"GO:0032543","count":1}]},{"hash":"1038935087964808391","title":"Developmental signaling and differentiation","description":"The GO terms point to a range of developmental processes (cardiac morphogenesis, venous endothelial differentiation, cerebellar granule cell differentiation) and broad signaling pathways (Wnt signaling, intracellular signal transduction, regulation of synaptic plasticity). Because each term appears only once and there is no single dominant function, the cluster appears to collect diverse developmental signaling roles rather than a specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1589931025116730555","title":"O-mannosylation and ER quality control","description":"Based on the top terms, the cluster centers on O-linked mannose glycosylation (O-mannosylation) and ER-associated processes, including regulation of the ER unfolded protein response and misfolded protein degradation. This suggests a cohesive theme around protein maturation in the secretory pathway and quality control, even though there are a few outlier terms related to development or bacterial biosynthesis that may reflect annotation noise. Therefore, a glycosylation/ER quality-control theme is the most representative label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044845","count":1},{"id":"GO:0007525","count":1},{"id":"GO:0007385","count":1},{"id":"GO:0009245","count":1},{"id":"GO:0060025","count":1}]},{"hash":"1941288645525392044","title":"mRNA processing and translation regulation","description":"The top GO terms point to RNA maturation and handling (export from nucleus, splicing, polyadenylation, stability) and post-transcriptional control of translation (miRNA silencing, IRES-dependent initiation), plus small-subunit ribonucleoprotein assembly. This pattern indicates a cluster of proteins involved in RNA processing, export, and regulation of mRNA fate and translation. ","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2}]},{"hash":"42775948320231328","title":"TLR signaling and innate immune response","description":"The top GO terms point to Toll-like receptor signaling, detection of bacterial lipoproteptides, and inflammatory regulation, indicating a coherent innate immune signaling module. Despite occasional unrelated terms, the dominant pattern is TLR-mediated recognition and downstream inflammation, including MyD88-independent pathways. Therefore this cluster is best described as a Toll-like receptor\u2013driven innate immune signaling cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0002756","count":4},{"id":"GO:0021972","count":4},{"id":"GO:0008063","count":4}]},{"hash":"701051513606405823","title":"Reproductive Hormone Signaling Cluster","description":"The top GO terms point to hormone signaling and gonadal development, including FSH signaling, Sertoli cell development, ovarian follicle growth, and sex characteristic development, suggesting a cluster centered on reproductive endocrine pathways. Some terms also reflect general GPCR-PLC signaling, indicating shared signal-transduction mechanisms, but the reproductive-focused terms are most representative. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":4},{"id":"GO:0002755","count":4},{"id":"GO:0007200","count":4},{"id":"GO:0032962","count":4},{"id":"GO:0034154","count":4}]},{"hash":"817457373568244634","title":"Toll-like receptor signaling and inflammation","description":"Based on the top GO terms, the cluster centers on innate immune signaling through Toll-like receptors, especially detection of bacterial lipopeptides and TLR4 pathways, with a consistent signal for inflammatory response. While a few terms touch on development and mineralization, the strongest and most frequent signals are TLR-mediated innate immunity and inflammation, justifying a Toll-like receptor\u2013driven immunity label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0002756","count":4},{"id":"GO:0021972","count":4},{"id":"GO:0008063","count":4}]},{"hash":"2137175639157614273","title":"GPCR Hormone Signaling (LH/FSH/TRH)","description":"This cluster centers on G-protein coupled receptor signaling triggered by hypothalamic and pituitary hormones, with frequent terms for adenylyl cyclase activation and phospholipase C\u2013activating GPCR pathways. The presence of LH/FSH signaling and TRH response terms, along with reproductive development terms (uterus development, secondary sexual characteristics), supports a theme of hormone-driven GPCR signaling in reproduction. An outlier term for TLR8 signaling may reflect noise or cross-annotation rather than a core function of these proteins.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905229","count":4},{"id":"GO:0007190","count":4},{"id":"GO:0071373","count":4},{"id":"GO:0034158","count":4},{"id":"GO:0010738","count":4}]},{"hash":"1302090897556436146","title":"Methionine cycle and one-carbon metabolism","description":"Top GO terms indicate SAM biosynthesis, methionine catabolism, and one-carbon metabolism, suggesting the proteins participate in the methionine cycle and its one-carbon metabolic network.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006556","count":2},{"id":"GO:0009087","count":2},{"id":"GO:0006730","count":2},{"id":"GO:0033353","count":2}]},{"hash":"1961090596278790955","title":"Oxidative Stress, Protein Repair, and Ribosome Biogenesis","description":"The cluster\u2019s top functional hints include cellular response to hydrogen peroxide, protein repair and modification, protein modification processes, and ribosome biogenesis with RNA Pol I\u2013related transcription. Taken together, these terms point to a theme of maintaining protein quality and supporting ribosome production under stress conditions, suggesting a coordinated stress-response and protein-homeostasis role that links protection, repair, and growth. However, the small size and some obsolete terms indicate a loose connection, so the label should be used cautiously.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:1990355","count":1},{"id":"GO:0070301","count":1},{"id":"GO:0030091","count":1},{"id":"GO:0006464","count":1}]},{"hash":"732311346769667763","title":"Unknown","description":"The listed GO terms are heterogeneous: cellular response to mechanical stimulus; neuronal differentiation and synaptic signaling; Wnt pathway; immune and cardiovascular development terms. There is no clear unifying function across the cluster, and with no edges the proteins likely participate in distinct processes. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"8775459027161932","title":"Unknown","description":"There are no GO terms to indicate a shared function and only a single edge in a very small cluster, so there is no clear biological theme to name. Without functional signals, the appropriate label is Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1616023280835839347","title":"Sugar and Organic Compound Transport","description":"The top GO terms are centered on membrane transport activities for various sugars and related compounds (fructose, glucose, trehalose, dehydroascorbic acid) and xenobiotic transport, suggesting a cohesive role in transmembrane nutrient and small-molecule transport rather than a single substrate pathway. Some terms appear unrelated (e.g., lactose biosynthesis, quorum sensing), likely noise, but the overall theme points to transporter functions. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990539","count":1},{"id":"GO:0042908","count":1},{"id":"GO:0070837","count":1},{"id":"GO:0070715","count":1},{"id":"GO:0015771","count":1}]},{"hash":"2279078785715290741","title":"Plant telomere maintenance and chromatin regulation","description":"This cluster is dominated by telomere-related terms: telomeric loop formation, shelterin complex assembly, and replication-associated telomere repair, indicating a core function in telomere maintenance and chromatin regulation in plants. While there are a few plant-development and hormone-response GO terms (chlorophyll biosynthesis regulation, ethylene/ABA responses), these appear peripheral to the main telomere-focused theme. Overall, the strongest signal points to telomere maintenance and chromatin regulation, with some ancillary plant-growth associations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4},{"id":"GO:0009723","count":4}]},{"hash":"546556476688892453","title":"Telomere maintenance and chromatin regulation in plants","description":"The Top Terms show a clear focus on telomere dynamics: shelterin assembly, telomeric loop formation, D-loop regulation, and replication-linked repair near telomeres, with hints of chromatin regulation via histone acetylation. Several plant-specific GO terms (ethylene/ABA responses, seed growth, chlorophyll biosynthesis) place these telomere-related processes in a plant developmental context, suggesting a cluster of telomere maintenance functions with plant biology relevance.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:1905839","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0010380","count":4},{"id":"GO:0009723","count":4}]},{"hash":"633161934597938672","title":"Unknown","description":"There are no GO terms to connect the four proteins, and the network has no edges or triangles, so no common function can be inferred. Without functional signals, the appropriate label is Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"412249850741109249","title":"TLR and GPCR-PLC Signaling Cluster","description":"This set centers on toll-like receptor signaling (MyD88-dependent and TLR7) and phospholipase C\u2013activating GPCR signaling, with accompanying IP3 biosynthesis regulation, pointing to core signal transduction roles. The hormonal/reproductive GO terms appear as broader signaling context or annotation overlap, not a single, cohesive pathway, but the dominant theme is signaling cascades. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045670","count":4},{"id":"GO:0002755","count":4},{"id":"GO:0007200","count":4},{"id":"GO:0032962","count":4},{"id":"GO:0034154","count":4}]},{"hash":"1736826970785249456","title":"Cajal Body Trafficking and Protein Folding","description":"Rationale: The enriched GO terms cluster around Cajal bodies (scaRNA localization to Cajal body; protein localization to Cajal body), nucleocytoplasmic transport (pore complex assembly; translocation into host cell cytoplasm), and protein homeostasis (protein refolding; protein stabilization). This suggests a theme of nuclear/cajal body trafficking and chaperone-like maintenance of proteins, rather than a single signaling pathway. Some inflammatory-cytokine terms appear peripheral to the core theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":3},{"id":"GO:0044053","count":3},{"id":"GO:1903427","count":3},{"id":"GO:2000778","count":3},{"id":"GO:1904469","count":3}]},{"hash":"476380982685160348","title":"Cajal body localization and nuclear transport","description":"The strongest signals are GO terms for scaRNA localization to Cajal body and protein localization to Cajal body, plus related nuclear pore complex assembly, which together point to nuclear trafficking and Cajal body dynamics. Other terms (translocation into host cell cytoplasm, cytokine production, toxin transport) are more peripheral or broad, so I treat this as primarily a Cajal body/nuclear trafficking cluster with some noise.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":3},{"id":"GO:0044053","count":3},{"id":"GO:1903427","count":3},{"id":"GO:2000778","count":3},{"id":"GO:1904469","count":3}]},{"hash":"2297257015397817053","title":"Unknown","description":"The top terms span neural development (cerebellar granule cell differentiation, regulation of synaptic plasticity), signaling pathways (Wnt signaling, intracellular signal transduction), and a mix of cardiac, vascular, and immune processes, with no single unifying function. This diversity suggests no coherent theme for the cluster, so I label it Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0045083","count":2}]},{"hash":"1371661656254953262","title":"Nucleotide Metabolism and RNA Editing","description":"These proteins show GO terms focused on nucleotide metabolism (UMP salvage, uridine/cytosine metabolism, deoxycytidine catabolism, guanine catabolic, riboflavin biosynthesis) and RNA modification (tRNA wobble A-to-I editing, cytidine deamination). While a couple of unrelated terms exist (antibiotic response, unfolded protein response), the dominant signal is nucleotide metabolism and RNA editing, justifying this label.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009972","count":1},{"id":"GO:0002100","count":1},{"id":"GO:0019858","count":1},{"id":"GO:0044206","count":1},{"id":"GO:0006147","count":1}]},{"hash":"2007444447397181042","title":"Mitotic spindle and cytokinesis","description":"The top GO terms are dominated by mitosis-related processes: centrosome separation, spindle midzone assembly, kinetochore microtubule attachment, minus-end directed microtubule sliding, and actomyosin contractile ring assembly. A few terms touch on integrin/Rap signaling or development, but the strongest signal points to spindle organization and cell division. This cluster likely groups proteins involved in mitosis and cytokinesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033624","count":3},{"id":"GO:0032487","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0000073","count":3},{"id":"GO:0048364","count":3}]},{"hash":"1361032932342162453","title":"Actin Cytoskeleton and Sarcomere Organization","description":"The Top Terms show strong signals for actin filament polymerization and sarcomere organization, indicating a focus on cytoskeletal dynamics and muscle-related structure. The calcium response term also aligns with actin remodeling, supporting this theme. Other terms appear more varied (development, inheritance, chromatin), suggesting additional processes in the set but not overpowering the core cytoskeletal signal.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":1},{"id":"GO:0051592","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0001895","count":1}]},{"hash":"1489896831961107315","title":"Unknown","description":"The top GO terms span ubiquitin-mediated proteolysis, neuronal development, multiple developmental programs (egg chamber, skeletal system, prostate gland), cell cycle events (mitotic spindle orientation, cytokinesis), DNA repair, and pigmentation. There is no clear unifying function or pathway linking the proteins, and the terms appear scattered across distinct biological contexts. Therefore I cannot assign a cohesive label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904668","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0060770","count":1},{"id":"GO:0000132","count":1}]},{"hash":"933585993083737854","title":"Mitotic spindle assembly and centrosome separation","description":"The three proteins show a strong enrichment for mitosis-related GO terms (spindle pole separation, centrosome separation, spindle midzone assembly, and kinetochore-microtubule attachments), indicating a core role in mitotic spindle assembly and chromosome segregation, with a couple terms related to other processes that are likely incidental.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033624","count":3},{"id":"GO:0032487","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0000073","count":3},{"id":"GO:0048364","count":3}]},{"hash":"1484776098675252578","title":"Unknown","description":"The GO terms in this cluster are highly diverse, spanning meiotic cell cycle, mesoderm development, glycogen biosynthesis regulation, lipid catabolism, nervous system development, cell adhesion, and DNA damage checkpoints. With only a single edge and no triangles, there isn\u2019t a clear, cohesive biological function binding these terms into a single module. This makes it difficult to assign a meaningful, specific label beyond Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051321","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0005979","count":2},{"id":"GO:0006685","count":2},{"id":"GO:0043278","count":2}]},{"hash":"1230928494263284018","title":"Protein Folding and Stress Response","description":"The top GO terms cluster around protein quality control: unfolded protein response, stress-related regulation, and chaperone/cofactor-assisted refolding, plus SRP-dependent targeting to membranes, suggesting a shared role in folding and trafficking of proteins under stress. Some terms about DNA replication and iron-sulfur cluster assembly appear less central, but the dominant theme is protein folding/targeting under cellular stress.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034620","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0006616","count":3},{"id":"GO:0006880","count":3},{"id":"GO:1903751","count":3}]},{"hash":"1294680513776917001","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0048254","count":1},{"id":"GO:1990258","count":1},{"id":"GO:0000494","count":1}]},{"hash":"1568991202907907285","title":"Autophagy and Vesicle Trafficking","description":"This cluster is dominated by GO terms related to vesicle formation and trafficking associated with autophagy, including autophagosome maturation, late endosomal microautophagy, intralumenal vesicle formation, aggresome assembly, and ER-to-Golgi vesicle transport. Together, these indicate a program focused on intracellular protein turnover and membrane trafficking driving autophagic and proteostasis processes, with supporting terms on ubiquitin-related regulation. Confidence: High","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097352","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0070914","count":3},{"id":"GO:0070842","count":3}]},{"hash":"50062096216092797","title":"Actin Cytoskeleton and Calcium Response","description":"This cluster is dominated by actin-related terms (actin filament polymerization and sarcomere organization) and a clear calcium-response term, suggesting a shared theme of actin-driven cytoskeletal dynamics modulated by calcium signaling. Other GO terms here (involving inheritance, development, and chromatin processes) are more peripheral, making the core connection only moderately strong, hence a moderate level of confidence.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:0051592","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0001895","count":3}]},{"hash":"830930772020286811","title":"Protein folding, targeting, and iron-sulfur cluster biogenesis","description":"The cluster\u2019s terms predominantly point to protein biogenesis and quality control: cellular response to unfolded proteins, SRP-dependent cotranslational targeting to membranes, and chaperone-related protein folding, complemented by iron-sulfur cluster assembly. Some stress-related annotations (negative regulation of heat response, regulation of apoptotic signaling under oxidative stress) fit a broader proteostasis/stress response context. A few terms (DNA replication, karyogamy) are less connected and may reflect annotation noise or multifunctional roles, but the dominant theme centers on protein folding/targeting and cofactor biogenesis.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034620","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1903751","count":1}]},{"hash":"2059065127298028873","title":"Unknown","description":"The top GO terms span multiple, unrelated processes (DNA replication, protein refolding and unfolded protein response, heat stress regulation, SRP-dependent membrane targeting, iron handling, apoptosis, karyogamy, hematopoietic regulation, and iron-sulfur cluster assembly), with no clear single theme linking all proteins. Therefore there is no cohesive functional cluster to name beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0034620","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0006616","count":2}]},{"hash":"1695704202337388256","title":"Unknown","description":"The proteins show a broad, heterogeneous mix of GO terms (mechanical stimulus response, cerebellar differentiation, intracellular signaling, synaptic plasticity regulation, immune signaling, cardiac morphogenesis, Wnt signaling, endothelial differentiation), with no single, cohesive function connecting them. This makes a confident, representative label impossible.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1692505027168412957","title":"DNA Replication and Chromosome Maintenance","description":"The cluster centers on core genome maintenance activities: DNA replication, replication fork dynamics, telomere and rDNA maintenance, chromosome segregation, and recombination-related processes. These terms consistently point to genome replication and stability rather than signaling or metabolism, with only one outlier term about viral RNA replication likely noise.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045870","count":1},{"id":"GO:0051304","count":1},{"id":"GO:0007004","count":1},{"id":"GO:0030263","count":1},{"id":"GO:0000712","count":1}]},{"hash":"1403196023879062545","title":"Neuronal signaling and vesicle trafficking","description":"These terms cluster around neuronal signaling and vesicle trafficking, with endosome localization and membrane addition at cytokinesis pointing to vesicle trafficking, together with neural development cues (neural tube patterning, epithelial-mesenchymal signaling). The pattern supports a coherent theme of how vesicle trafficking modulates synaptic function and developmental signaling. Given the small cluster size and diverse terms, the confidence is Medium.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051966","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0007119","count":3},{"id":"GO:0060684","count":3},{"id":"GO:0021532","count":3}]},{"hash":"983399672853624453","title":"Neural development and signaling","description":"The GO terms with the strongest neural signals include neural tube patterning and glutamatergic synaptic transmission, supported by epithelial-mesenchymal signaling and JNK cascade regulation common in developmental and stress-response pathways; additional terms like endosome localization and translation reflect cellular processes that accompany development and neuronal function. Overall, the cluster appears to skew toward neural development and signaling rather than a single metabolic process.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046330","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051966","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0007119","count":1}]},{"hash":"33579641372384245","title":"Developmental signaling and membrane trafficking","description":"These proteins appear to be involved in both developmental signaling (neural tube patterning, epithelial-mesenchymal signaling) and movement-related processes, alongside vesicle/membrane dynamics (endosome localization, membrane addition during cytokinesis) and synaptic regulation. The common thread is the coordination of signaling with membrane trafficking in development and cell migration, rather than a single narrow function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0007119","count":2},{"id":"GO:0060684","count":2},{"id":"GO:0021532","count":2}]},{"hash":"313779547026104366","title":"RNA Processing and Translation Regulation","description":"This cluster centers on RNA metabolism and translation control: mRNA export, splice site recognition, and regulation of mRNA stability/polyadenylation, plus components linked to mRNA stabilization and translation initiation/termination (including viral contexts) and small-subunit processome assembly. The shared theme appears to be RNA processing/processing complex activity coupled with regulation of translation, rather than a single narrow function. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"701530361214747580","title":"Rab GTPase-Mediated Vesicle Transport","description":"This cluster is dominated by GO terms for protein transport and Rab signaling, including activation of GTPase activity and Rab-related processes, plus protein geranylgeranylation, which is a key post-translational modification for Rab membrane anchoring. These features together point to Rab-driven vesicle trafficking and membrane targeting as the core function of the cluster, with a few auxiliary terms that are less central but not conflicting.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0032482","count":2},{"id":"GO:0050771","count":2},{"id":"GO:0050935","count":1},{"id":"GO:0090315","count":1}]},{"hash":"1132418428820666936","title":"Unknown","description":"The GO terms span diverse processes (dephosphorylation, chromatin organization, apoptosis regulation, ribosome biogenesis, UV response, and trafficking) with no clear shared function, so a cohesive cluster label isn\u2019t apparent.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":1},{"id":"GO:0035067","count":1},{"id":"GO:0002903","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0034644","count":1}]},{"hash":"1617748835053072956","title":"Potassium Ion Transport and Transporter Regulation","description":"The top GO terms are centered on potassium ion transport and the regulation of ion transporter activity, pointing to a core function in moving potassium ions and modulating transporter activity. Other terms (e.g., synaptic transmission and responses) are secondary contextual associations, but the primary signal is ion transport and its regulatory control, justifying the chosen name.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0032414","count":2},{"id":"GO:0043086","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1836223033133640558","title":"Unknown","description":"This cluster has only three proteins with a mix of GO terms, of which only mitotic centrosome separation and cell adhesion are current, while several terms are obsolete or unrelated (symbiont-host interactions). With no interactions indicated (edges/triangles) and no cohesive functional theme, there isn\u2019t enough evidence to assign a specific, representative function to the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"706027455707145892","title":"Mitotic Centrosome Separation and Cell Adhesion","description":"Top GO terms include mitotic centrosome separation and cell adhesion, with several other entries marked obsolete, suggesting annotation noise. The two core processes hint at proteins involved in cell division and cell\u2013cell interactions, but the cluster\u2019s sparse connectivity (one edge, max degree 1) makes the link tentative. A more cohesive theme would require more consistent, non-obsolete terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"950126382567322005","title":"Unknown","description":"The GO terms are too diverse to pin a single function: brain development and vision terms coexist with immune signaling, cardiac proliferation, apoptosis, spindle attachment, biofilm formation, ion transport, and ERBB signaling. There is no clear shared theme across the proteins.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3},{"id":"GO:0090606","count":3},{"id":"GO:0032762","count":3},{"id":"GO:0060045","count":3}]},{"hash":"522024854634999369","title":"Neural and Epidermal Development","description":"The top GO terms include skin development and keratinocyte differentiation (epidermal) and neuron-related terms such as substantia nigra development and neuron migration (neural). There are also broader cellular processes like Golgi reassembly and protein targeting, which support development and differentiation. Together, these terms suggest a developmental theme spanning neural and epidermal lineages rather than a single cell type, making \"Neural and Epidermal Development\" a concise, representative label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0030307","count":1},{"id":"GO:0048167","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0008630","count":1}]},{"hash":"1092629568134908810","title":"Unknown","description":"The proteins show a highly diverse mix of GO terms across mechanosensory response, neural differentiation, intracellular signaling, synaptic regulation, cytokine control, cardiac development, Wnt signaling, immune cell apoptosis, and endothelial differentiation. There is no single unifying function or pathway that clearly ties the cluster together, so a specific label cannot be confidently assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0035556","count":1},{"id":"GO:1900383","count":1},{"id":"GO:0045083","count":1}]},{"hash":"474402321015250518","title":"Unknown","description":"This cluster has no shared GO terms or network connections (no edges, triangles, or high degree), and the Top Terms field is empty. Without a discernible functional signal, there is no clear common function to label; it likely reflects heterogeneous or noise-driven grouping from ReCIPE.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"634498135110147823","title":"Tissue morphogenesis and ECM remodeling","description":"This cluster centers on development and remodeling of tissues, highlighted by lung morphogenesis (epithelial tube branching) and surfactant homeostasis, as well as extracellular matrix remodeling (basement membrane disassembly, collagen catabolic processes) and skeletal processes (intramembranous ossification, bone resorption). While some terms touch immune or signaling contexts, the dominant theme is morphogenesis coupled with ECM turnover across tissues.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043129","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0001913","count":1},{"id":"GO:0045453","count":1},{"id":"GO:0034769","count":1}]},{"hash":"1563647518613135089","title":"Unknown","description":"No common GO terms or functional signal across the proteins; the cluster has no edges, no triangles, and the Top Terms are empty, so a meaningful label cannot be inferred.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2144792906073858915","title":"Chromatin remodeling and transcription regulation","description":"This cluster is dominated by chromatin-associated terms (chromatin remodeling, heterochromatin formation, nucleosome density/positioning, histone modification) and transcription-related term (termination of RNA polymerase II transcription), suggesting the core shared function is epigenetic control of gene expression. A few development terms appear, but the primary signal is chromatin regulation; despite sparse connections (max degree 1), the grouping reflects a cohesive chromatin- and transcription-centric theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030540","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0034773","count":1},{"id":"GO:0036091","count":1},{"id":"GO:0006343","count":1}]},{"hash":"19784728245456455","title":"Telomere maintenance and shelterin regulation","description":"The top GO terms point to telomere biology, including telomeric loop formation, shelterin complex assembly, and replication-associated repair at telomeres, suggesting a coherent theme of telomere protection/maintenance. Plant hormone and chlorophyll-related terms appear as peripheral signals, but do not outweigh the core telomere-focused pattern.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0010380","count":1},{"id":"GO:0009723","count":1}]},{"hash":"539182015812992054","title":"Metabolic and Renal Function","description":"Top GO terms are a mix of diverse metabolic processes (D-sorbitol biosynthesis, arabinose and D-xylose catabolism, retinol metabolism, cellular response to methylglyoxal) and kidney-related functions (renal water homeostasis and inner medullary collecting duct development). The shared thread appears to be broad metabolism with partial specialization toward kidney physiology, rather than a single conserved pathway. Therefore \"Metabolic and Renal Function\" seems the most representative concise label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0044598","count":2},{"id":"GO:0003091","count":2},{"id":"GO:0006061","count":2},{"id":"GO:0072061","count":2}]},{"hash":"1924184807682719167","title":"Unknown","description":"There are no GO terms shown to tie the proteins together, and the network has very few connections, with no clear functional theme. Without shared functional annotations, I cannot assign a meaningful label beyond Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"2084825780876931821","title":"Unknown","description":"There are no GO terms or interactions to link the listed proteins into a shared function; with no edges, terms, or clustering signal, a meaningful label cannot be inferred.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1760005321396280317","title":"Unknown","description":"The top GO terms are scattered across DNA replication/repair and various development and sensory terms with no clear, cohesive biological theme linking the proteins. With only a single edge and diverse annotations, there isn\u2019t a consistent function to label the cluster meaningfully.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0045003","count":2},{"id":"GO:0006268","count":2}]},{"hash":"2231966199032085374","title":"Unknown","description":"There are no GO terms listed and no interactions among the proteins (Edges: 0; Top Terms empty), so there is no clear shared function to group this cluster. Without functional signals, a meaningful label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"10885207607705424","title":"Unknown","description":"No GO terms are shown for this cluster (Top Terms list is empty), and the low connectivity with only one edge provides no clear shared function among the proteins.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"239913509805330592","title":"Unknown","description":"Three proteins are listed but no GO terms or shared functional signals are provided, so there is no basis to assign a specific function to the cluster; Unknown is the appropriate label. ","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1408188463275168470","title":"Endolysosomal trafficking and autophagy","description":"The GO terms mainly point to vesicle formation and trafficking within the endosomal/lysosomal system (intralumenal vesicle formation, multivesicular body sorting, MVB-lysosome fusion) and to autophagy-related processes (autophagosome assembly regulation, ubiquitin-dependent degradation). While there are additional terms about ER targeting and a host-virus interaction note, the shared theme across terms is endolysosomal vesicle trafficking and protein turnover via autophagy-related pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902187","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0070676","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0071454","count":1}]},{"hash":"1099111311687223644","title":"Unknown","description":"The GO terms are extremely diverse, spanning vision, brain development, immune signaling, apoptosis, cell division, biofilm formation, ion transport, and ERBB signaling, with no single cohesive function linking the proteins.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3},{"id":"GO:0090606","count":3},{"id":"GO:0032762","count":3},{"id":"GO:0060045","count":3}]},{"hash":"1085195612328764390","title":"Neuronal development and signaling","description":"The top GO terms cluster around neural processes: dendrite morphogenesis, visual perception, and brain region development, with potassium ion transport supporting neuronal excitability. Although there are some general cellular terms (DNA-templated transcription and replication), the neural-related terms are prominent, suggesting the cluster reflects neural development and signaling functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006260","count":2}]},{"hash":"566938944141396576","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":2},{"id":"GO:0018144","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0016441","count":2},{"id":"GO:0042255","count":2}]},{"hash":"2049607176388373912","title":"Unknown","description":"The Top Terms span highly diverse and unrelated biological processes (visual perception, brain region development, biofilm formation, immune signaling, cardiac proliferation, apoptosis, spindle-kinetochore attachment, lung mesenchyme development, sodium transport, and ERBB signaling), with no clear unifying function or pathway. The lack of edges and cohesive GO themes supports labeling this cluster as Unknown. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0071109","count":3},{"id":"GO:0090606","count":3},{"id":"GO:0032762","count":3},{"id":"GO:0060045","count":3}]},{"hash":"2133925419560180844","title":"Unknown","description":"This cluster lists only very sparse GO terms (mitotic centrosome separation and cell adhesion) with single counts, and several obsolete or nonspecific terms about symbiont-host interactions, with no edges or coherent shared function across proteins. There isn\u2019t a clear, interpretable theme tying the proteins together, so a reliable label cannot be determined.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0052014","count":1},{"id":"GO:1902769","count":1},{"id":"GO:0036523","count":1}]},{"hash":"530174119052179411","title":"Unknown","description":"Top GO terms span chromatin organization, mitosis, signaling, development, and immunity, with no single cohesive function tying the three proteins together; the diverse functions and the small cluster size make a specific label unreliable.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030543","count":1},{"id":"GO:1904693","count":1},{"id":"GO:0034184","count":1},{"id":"GO:0031508","count":1},{"id":"GO:1904815","count":1}]},{"hash":"54411600494945074","title":"Diverse small-molecule metabolism and detoxification","description":"The top GO terms span metabolism of various small molecules (D-sorbitol, arabinose, D-xylose, retinol) and redox/detoxification processes (oxidation-reduction, methylglyoxal response, doxorubicin metabolism). Although a couple terms touch on kidney development, the dominant signal is diverse metabolic and detoxification-related functions, suggesting a cluster of proteins involved in small-molecule metabolism and redox stress responses.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044598","count":2},{"id":"GO:0003091","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006061","count":2},{"id":"GO:0072061","count":2}]},{"hash":"2245129256398400673","title":"DNA Replication and Chromosome Maintenance","description":"The GO terms cluster around core nuclear processes: DNA-templated replication, replication fork progression, telomere maintenance, chromosome condensation/segregation, and recombination resolution, indicating a genome maintenance role during replication and cell division.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045870","count":1},{"id":"GO:0051304","count":1},{"id":"GO:0007004","count":1},{"id":"GO:0030263","count":1},{"id":"GO:0000712","count":1}]},{"hash":"279899906483204322","title":"Muscle development and sarcomere organization","description":"The top GO terms are dominated by somatic muscle development, sarcomere organization, and muscle attachment, suggesting the proteins share roles in muscle structure and formation. Some terms related to glycosylation and lipid biosynthesis appear, likely noise or multifunctional annotations, but the muscle-related signals provide the strongest common theme. With only 3 proteins and no interactions, this label is a best-effort reflection of the cluster\u2019s apparent function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904100","count":1},{"id":"GO:0044845","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0007525","count":1},{"id":"GO:0007385","count":1}]},{"hash":"24934193369059470","title":"Muscle development and sarcomere organization","description":"Based on terms like sarcomere organization, somatic muscle development, muscle attachment, and segmental identity specification, the proteins appear tied to muscle formation and the architecture of muscle fibers. A few glycosylation-related terms are present, which may reflect post-translational modifications of muscle proteins rather than a primary glycosylation pathway. Overall, the cluster most coherently maps to muscle development and structural organization.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904100","count":1},{"id":"GO:0044845","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0007525","count":1},{"id":"GO:0007385","count":1}]},{"hash":"988215524694460169","title":"Unknown","description":"There are no GO terms listed to link the three proteins, and with no shared functional signal, there is no basis for a cohesive label. ","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"624963613822812063","title":"Symbiont entry into host","description":"The only prominent GO term is symbiont entry into host (GO:0085027), suggesting these proteins share a role in facilitating host entry during symbiosis. Despite no observed interactions (edges) and a single-term signal, this label captures the main functional theme of the cluster. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085027","count":1}]},{"hash":"1142566132123561553","title":"TLR signaling and inflammatory response","description":"This cluster is dominated by GO terms related to Toll-like receptor signaling, including Toll signaling pathway, TLR4 signaling, and MyD88-independent TLR pathways, plus detection of bacterial lipopeptides. Together with positive regulation of inflammatory response, these point to innate immune sensing via Toll-like receptors and the ensuing inflammation. A few terms about neuron guidance or mineralization appear as secondary associations but do not define the primary function of the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0021972","count":2},{"id":"GO:0008063","count":2}]},{"hash":"2272433693082684111","title":"Ribosome biogenesis and translational fidelity","description":"This cluster is driven by translation and ribosome biogenesis/assembly signals, including translation, ribosome biogenesis, and fidelity maintenance in protein synthesis. While a few outlier terms like antibiotic response and interleukin-4 signaling appear, the core terms point to ribosome production and accurate translation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0045903","count":2},{"id":"GO:0006407","count":2},{"id":"GO:0046677","count":2}]},{"hash":"516440155718167096","title":"Cell envelope polysaccharide biosynthesis","description":"Most terms point to biosynthesis of cell wall and surface polysaccharides (peptidoglycan, slime layer, GDP-mannose\u2013linked glycans, lipid A). Some entries reflect broader carbohydrate synthesis (glycogen, lactose) that feed envelope components. Overall, the cluster appears to group proteins involved in building the bacterial cell envelope rather than cytosolic metabolism.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":1},{"id":"GO:0000032","count":1},{"id":"GO:0009252","count":1},{"id":"GO:0009298","count":1},{"id":"GO:0005989","count":1}]},{"hash":"1108350364835609937","title":"RNA processing and translation regulation","description":"The top GO terms center on mRNA export, stability, polyadenylation, and processing, plus ribosome assembly and various translation initiation/termination processes (including viral and miRNA-mediated regulation). Together these indicate a cluster tied to RNA metabolism and control of translation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0010610","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0035039","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1414100832558746486","title":"Unknown","description":"The GO terms are highly heterogeneous (meiotic cell cycle, mesoderm development, glycogen and sphingomyelin metabolism, neuronal/morphine response, cell adhesion, myelination, and DNA damage checkpoints) with no single function tying the proteins together, and there are no interactions among them in this cluster. Because there isn't a clear shared biological role, the appropriate label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051321","count":1},{"id":"GO:0007498","count":1},{"id":"GO:0005979","count":1},{"id":"GO:0006685","count":1},{"id":"GO:0043278","count":1}]},{"hash":"1225686127259664881","title":"Neuronal development and synaptic plasticity","description":"These proteins show strongest association with neural development and synaptic function, as seen in terms like substantia nigra development, neuron migration, and regulation of synaptic plasticity. Although some terms relate to general cellular processes (Golgi reassembly, protein targeting), the dominant neural-related signals support a label focused on neuronal development and synaptic regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":1},{"id":"GO:0048167","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0008630","count":1},{"id":"GO:0021762","count":1}]},{"hash":"1377624678133672701","title":"Reproductive Hormone Signaling and Gonadal Development","description":"This cluster is driven by terms related to Sertoli cell development, FSH signaling, ovarian follicle growth, and sexual characteristic development, indicating a core theme of gonadal development and reproductive hormone signaling. Immune signaling GO terms (TLR pathways) are present but appear less central to the main pattern.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"869175532315339064","title":"Synaptic Vesicle Transport","description":"Top GO terms indicate vesicle trafficking processes, including anterograde synaptic vesicle transport, clathrin-coated vesicle cargo loading, neurotransmitter receptor internalization, and ER-Golgi/endosome-to-lysosome transport. This points to a cohesive theme of intracellular membrane trafficking with a strong emphasis on neuronal/synaptic vesicle dynamics, making \"Synaptic Vesicle Transport\" a representative label for the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":1},{"id":"GO:0035652","count":1},{"id":"GO:0099590","count":1},{"id":"GO:1900126","count":1},{"id":"GO:0051138","count":1}]},{"hash":"2118609272213629979","title":"Vacuolar Metal and Xenobiotic Transport","description":"Most of the top GO terms point to transmembrane transport into the vacuole and handling of xenobiotics and metals (glutathione transmembrane import into vacuole; cadmium ion import into vacuole; xenobiotic transport; amino acid transmembrane transport; monoatomic anion transmembrane transport). This coherence supports a cluster centered on vacuolar transport and detoxification processes. Other terms (response to mercury ion, SOS response, stem cell proliferation, negative regulation of endoribonuclease activity) are present but less representative of the main theme, likely reflecting incidental associations or annotation noise.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071996","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0003333","count":1},{"id":"GO:1902161","count":1}]},{"hash":"1550263605256803523","title":"Polysaccharide biosynthesis and degradation","description":"The GO terms point to carbohydrate metabolism, including alginate biosynthesis and pectin degradation, suggesting the cluster centers on polysaccharide metabolism. With only three proteins and no connectivity, this label is the best concise summary.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042121","count":1},{"id":"GO:0045490","count":1}]},{"hash":"1198725113356568420","title":"Unknown","description":"The GO terms are diverse and only loosely related to one another (maltose metabolism; neuromuscular and diaphragm contraction; N-glycan processing; fungal beta-glucan biosynthesis; an obsolete vacuolar sequestering term), with no single dominant function tying the proteins together. This makes it unclear to assign a coherent, specific cluster label, so Unknown with None confidence.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043181","count":1},{"id":"GO:0000023","count":1},{"id":"GO:0050884","count":1},{"id":"GO:0002086","count":1},{"id":"GO:0006491","count":1}]},{"hash":"700087875761118922","title":"Unknown","description":"The top GO terms are very diverse, including phosphorylation, visual perception, brain development, biofilm formation, cytokine production, cardiac proliferation, apoptosis, spindle-kinetochore attachment, lung mesenchyme development, and ion transport, with no clear shared function or pathway linking the proteins. Edges are zero, suggesting no cohesive interaction pattern to define a specific biological theme, so a single representative label cannot be reliably assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0071109","count":1},{"id":"GO:0090606","count":1},{"id":"GO:0032762","count":1}]},{"hash":"2161044449955092669","title":"Chromatin remodeling and transcription regulation","description":"This cluster is driven by chromatin-related processes, with terms like histone acetylation, chromatin remodeling, and RNA Polymerase II promoter clearance pointing to epigenetic control of transcription. The presence of unrelated terms suggests some noise, so the signal is moderate rather than definitive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043969","count":1},{"id":"GO:0001111","count":1},{"id":"GO:0010835","count":1},{"id":"GO:0018076","count":1},{"id":"GO:0061038","count":1}]},{"hash":"2132219970803697626","title":"DNA Repair and Chromatin Maintenance","description":"The cluster\u2019s top GO terms cluster around genome maintenance\u2014DSB repair via sister chromatid exchange, homologous recombination regulation, and NER-based pyrimidine dimer repair\u2014plus rDNA heterochromatin formation and nucleosome density regulation. These point to coordinated roles in DNA damage response and chromatin organization; additional terms touch on stress or senescence, but the core theme is genome integrity through repair and chromatin maintenance.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0060303","count":1},{"id":"GO:2000774","count":1},{"id":"GO:0042595","count":1}]},{"hash":"1124634226497968994","title":"Unknown","description":"The GO terms are highly diverse, spanning cell cycle, immune signaling, development, and unrelated processes, with no clear shared function tying the proteins together. Therefore there is no cohesive theme to label the cluster meaningfully.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":2},{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0051348","count":1}]},{"hash":"552708199642146359","title":"N-terminal Methylation and Amino Acid Biosynthesis","description":"The top GO terms point to N-terminal methylation events (serine, glycine, arginine) and tRNA wobble uridine modification, alongside amino acid biosynthesis processes (serine, cobalamin, sarcosine). This suggests a cohesive theme around post-translational N-terminal methylation coupled with amino acid metabolic pathways, with a minor representation of stress-related responses.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":2},{"id":"GO:0035572","count":1},{"id":"GO:0018013","count":1},{"id":"GO:0006972","count":1},{"id":"GO:0002347","count":1}]},{"hash":"1115838385092505010","title":"Viral replication and host entry","description":"The top GO terms describe virus-driven manipulation of the host cell cycle (G2/M arrest), a rolling hairpin DNA replication mechanism used by certain viruses, and membrane permeabilization facilitating viral entry. These together indicate a cluster of proteins involved in viral infection processes and virus-host interactions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039592","count":2},{"id":"GO:0039685","count":2},{"id":"GO:0039665","count":2}]},{"hash":"1494898307991684146","title":"TLR signaling and inflammatory response","description":"Most terms converge on Toll-like receptor signaling (TLR4, MyD88-independent pathway) and the ensuing inflammatory response, including detection of diacyl/triacyl lipoproteptides. This suggests a cluster linked to innate immune sensing and signaling. A few terms (axon guidance, tooth mineralization, mechanical stimulus, angiogenesis) are less related and may reflect broader annotations, but the dominant theme is TLR-mediated immune signaling.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0002756","count":3},{"id":"GO:0021972","count":3},{"id":"GO:0008063","count":3}]},{"hash":"2168268405151265635","title":"Gonadal Development and Reproductive Hormone Signaling","description":"Proteins in this cluster are most strongly linked to gonadal maturation and hormone-driven signaling: Sertoli cell development, FSH signaling, ovarian follicle growth, and development of secondary sexual characteristics. Additional terms reflect broader endocrine GPCR signaling and related pathways, but the dominant pattern centers on reproductive hormone regulation and gonadal development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0007200","count":3},{"id":"GO:0032962","count":3},{"id":"GO:0034154","count":3}]},{"hash":"2279714263282920085","title":"tRNA Aminoacylation and Translation","description":"The cluster shows GO terms for multiple aminoacyl-tRNA synthetases (glycyl, prolyl, histidyl, seryl, including mitochondrial variants) and general translation, plus regulation of translational fidelity. This points to a core theme of tRNA charging and protein synthesis, with mitochondrial-specific contexts highlighted. Some terms like embryonic development or DNA biosynthetic process are likely incidental annotations rather than core signals of this cluster. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0006433","count":1}]},{"hash":"841303602391350862","title":"Translation and translational regulation","description":"The cluster\u2019s top GO terms center on translation (GO:0006412) and regulation of translational fidelity (GO:0006450), suggesting a shared involvement in protein synthesis and its accuracy. Other terms appear less representative and may reflect incidental signals, but translation-related terms dominate, supporting a translation-focused cluster name.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0046685","count":1},{"id":"GO:0052046","count":1},{"id":"GO:0035335","count":1}]},{"hash":"432837182383103937","title":"Diverse Metabolic Pathways","description":"Based on the top GO terms, the proteins map to a broad set of metabolic activities\u2014ranging from drug and carbohydrate metabolism (doxorubicin, sorbitol, arabinose, xylose) to retinol metabolism and androgen biosynthesis\u2014plus some kidney-related physiology. The lack of a single cohesive pathway or process suggests a cluster of proteins involved in diverse metabolic functions rather than a specific function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044598","count":3},{"id":"GO:0003091","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006061","count":3},{"id":"GO:0072061","count":3}]},{"hash":"1987839346025925077","title":"Unknown","description":"The top GO terms are scattered across immune signaling (interferon responses), cell cycle regulation (mitotic transition, APC-dependent catabolic processes), and other unrelated processes (morphine response, tyrosine sulfation), with several terms marked obsolete. There are no apparent shared functions or interaction signals among the three proteins, and the network shows zero edges, suggesting no cohesive functional cluster. Therefore a concise, meaningful label cannot be inferred from the available terms.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":2},{"id":"GO:2000531","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0035457","count":2},{"id":"GO:0031145","count":2}]},{"hash":"1765794089884545634","title":"Arsenic Detox and Metal Ion Transport","description":"This cluster centers on GO terms tied to arsenic response and detoxification, and to metal ion transport, suggesting a shared function in metal handling and detox. While there are a few unrelated annotations (like tRNA modification and cobalamin biosynthesis), the strongest signals are arsenic detox and metal ion/monoatomic ion transport, which provides a cohesive, metal-focused theme for the group.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046685","count":2},{"id":"GO:0071722","count":2},{"id":"GO:0010038","count":2},{"id":"GO:0018108","count":2},{"id":"GO:0099133","count":2}]},{"hash":"1896048442999274586","title":"Immune cell differentiation and inflammatory regulation","description":"The top GO terms highlight adaptive immune development (germinal center B cell differentiation, T cell differentiation in thymus) and suppression of inflammation, with additional developmental/process terms. This combination suggests a theme around immune cell maturation and its regulatory aspects, justifying a concise label focused on immune differentiation and inflammation control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0050728","count":1},{"id":"GO:0002636","count":1},{"id":"GO:0002314","count":1},{"id":"GO:0001701","count":1}]},{"hash":"1080281040482556553","title":"DNA Transposition","description":"The only prominent GO term in this cluster is DNA transposition (GO:0006313), which hints that the proteins may be related to transposase activity or DNA transposable elements. Given the small size, lack of edges, and single annotation, this label is a tentative grouping around transposition-related function.","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":1}]},{"hash":"1020117399229918683","title":"Mitotic progression and chromosome segregation","description":"The top GO terms in this cluster are dominated by mitosis and cell cycle processes (cell division, sister chromatid cohesion, APC-dependent catabolic process, cytokinesis regulation, and mitotic DNA-related events), indicating a core theme around mitotic progression and chromosome segregation. Some scattered terms are unrelated, but the overall functional signal supports a mitotic focus.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007064","count":1},{"id":"GO:0031145","count":1},{"id":"GO:0032466","count":1},{"id":"GO:0031915","count":1}]},{"hash":"1590166056435897213","title":"Unknown","description":"The GO terms are diverse and only loosely connected (UV-A and interferon responses, cell cycle regulation, mitochondrial distribution, lipid biosynthesis, and brain development), with several terms obsolete, giving no coherent single function for the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":1},{"id":"GO:0071492","count":1},{"id":"GO:2000531","count":1},{"id":"GO:0048312","count":1},{"id":"GO:0045842","count":1}]},{"hash":"1748411027267534680","title":"Telomere maintenance and shelterin assembly","description":"The dominant GO terms point to telomere biology: sister chromatid exchange repair at telomeres, regulation/assembly of the shelterin complex, telomeric loop formation, and RNA localization to telomeres. While a few terms relate to plant development and chlorophyll/abscisic acid/ethylene responses, the strongest signal is telomere maintenance and end-protection machinery, justifying a telomere-focused label with moderate confidence due to some noisy or dual-function annotations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"2072150982395757103","title":"Unknown","description":"No common GO terms or interactions are shown for this cluster (no edges, no top terms), so there is no clear functional theme to tie the proteins together. Therefore a meaningful label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1412454395822682128","title":"Smooth muscle\u2013driven organ development","description":"The top GO terms point to development of organs rich in smooth muscle (uterus, urinary bladder, vascular smooth muscle, and cardiac ventricle), suggesting the proteins group around smooth muscle\u2013related organ differentiation. A few DNA repair terms appear but do not dominate, so the core theme is developmental programs for smooth muscle\u2013containing organs.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":2},{"id":"GO:0035886","count":1},{"id":"GO:0030263","count":1},{"id":"GO:0003257","count":1},{"id":"GO:1990683","count":1}]},{"hash":"53124183221858109","title":"Plant telomere maintenance and shelterin regulation","description":"The top GO terms cluster around telomere biology: replication-associated double-strand break repair via sister chromatid exchange, regulation of telomeric D-loop disassembly, shelterin complex assembly, and telomeric loop formation, indicating a cohesive theme of telomere maintenance and chromatin regulation in plants. Some plant-development signals (chlorophyll biosynthesis, ABA/ethylene responses) appear, but the strongest signal is telomere/shelterin\u2013related functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:1905839","count":3},{"id":"GO:1904792","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0009723","count":3}]},{"hash":"122332918032154056","title":"Unknown","description":"The GO terms span a wide, non-overlapping mix of catabolic processes (lactose, glucosinolate, cellulose) and diverse signaling pathways (cytokinin, insulin receptor, FGFR-MAPKKK regulation) plus a yeast-specific glycolytic fermentation term, with an obsolete entry. There is no single coherent function tying these proteins together, so no specific label is justified.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019512","count":1},{"id":"GO:0019762","count":1},{"id":"GO:0009736","count":1},{"id":"GO:0008286","count":1},{"id":"GO:0030245","count":1}]},{"hash":"1088893812169972299","title":"Oxidative and ER stress response","description":"Based on the top GO terms, the proteins are associated with cellular redox homeostasis and oxidative stress, and with the endoplasmic reticulum stress response, suggesting a role in managing oxidative damage and ER-associated protein folding. Other terms (viral process, transcription regulation) are less central to the core theme, but do not override the strongest signal of redox/ER stress.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0055114","count":1}]},{"hash":"213247033670553442","title":"Immune and Hormonal Signaling","description":"The GO terms point to broad signal transduction, spanning immune pathways (TLR/MyD88 signaling, TLR7) and GPCR/IP3 signaling, as well as hormonal processes (FSH signaling, Sertoli cell development, ovarian follicle growth) and TRH response. This suggests a cluster characterized by general signaling cross-talk across immune and endocrine contexts rather than a single cohesive function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045670","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0034154","count":1}]},{"hash":"345510575777170441","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0098507","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0006353","count":1}]}]