[{"hash":"906778151123812534","title":"Metabolic biosynthesis and RNA methylation","description":"This cluster is enriched for diverse biosynthetic pathways (antibiotic, biotin, vitamin E, sterol) indicating a metabolic focus, and also includes RNA-related methylation/modification terms (tRNA methylation, mRNA capping, histone methylation), suggesting roles in RNA processing/modification alongside metabolism; peripheral terms like nodulation and cell growth are less central. ","confidence":"Medium","size":29,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0009102","count":8},{"id":"GO:0010189","count":6},{"id":"GO:0043985","count":6},{"id":"GO:0009877","count":6}]},{"hash":"1837354490770700691","title":"Developmental and Stress-Response Gene Regulation","description":"This cluster centers on developmental processes (cartilage condensation, multicellular development) and neural/axon-related functions (axon regeneration, sensory perception of pain), while also highlighting broad gene expression control and stress responses (transcription, translation initiation regulation by eIF2\u03b1 phosphorylation, responses to ionizing radiation and toxic substances). Together, these terms suggest proteins involved in development that toggle gene expression under cellular stress.","confidence":"Medium","size":29,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001502","count":7},{"id":"GO:0009636","count":7},{"id":"GO:0006939","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0048680","count":7}]},{"hash":"1154054991362625868","title":"Developmental Angiogenesis and Signaling","description":"The top GO terms point to developmental processes and signaling, especially angiogenesis, morphogenesis (optic nerve), ECM remodeling, and receptor tyrosine kinase\u2013linked signaling (FGFR pathways and tyrosine autophosphorylation). While a couple of terms (e.g., pollen recognition, general transcriptional regulation) seem peripheral or noisy, the core pattern is developmental signaling connected to vascular and neural tissue remodeling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0048544","count":2}]},{"hash":"538102204507813996","title":"Myogenesis and heart development","description":"The cluster is driven by muscle-related development terms (heart development, myoblast fusion, response to muscle activity) and cell-cycle regulation consistent with muscle precursor differentiation and cardiogenesis; other terms like axonogenesis or visual perception suggest broader developmental roles but do not override the dominant muscle/heart theme.","confidence":"High","size":29,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014850","count":16},{"id":"GO:0045736","count":16},{"id":"GO:0034501","count":16},{"id":"GO:0007409","count":15},{"id":"GO:0007507","count":15}]},{"hash":"1595341931406147671","title":"Unknown","description":"The top terms span neural development (axon fasciculation, optic nerve morphogenesis), vascular signaling (endothelial chemotaxis), ECM remodeling, hematopoietic differentiation, kinase signaling, and even plant pollen recognition, with no single shared process or interaction connecting them. The cluster also has no edges, suggesting a lack of cohesive functional module. Therefore, I cannot assign a specific, representative label. ","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":9},{"id":"GO:0097155","count":9},{"id":"GO:2001028","count":9},{"id":"GO:0031532","count":8},{"id":"GO:0038083","count":8}]},{"hash":"339350252973557526","title":"Neuronal synaptic signaling and endosomal trafficking","description":"This cluster is enriched for terms like regulation of Rho signaling (cytoskeleton), endosome size regulation, receptor recycling, and glutamatergic synaptic transmission, pointing to roles in neuronal signaling and endosomal trafficking; less representative terms (bone development, innate immune response) are present but weaker.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0034968","count":2},{"id":"GO:0051036","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0001881","count":2}]},{"hash":"956343015877762630","title":"Neurodevelopmental signaling and axon guidance","description":"This cluster highlights proteins associated with neuron development and axonogenesis regulation (neuron development; negative regulation of axonogenesis), as well as phosphorylation-based signaling events (peptidyl-serine phosphorylation; peptidyl-tyrosine autophosphorylation) that are common in developmental signaling pathways. While there are some terms from immune signaling and pollen recognition that may reflect annotation noise, the core theme appears to be neural development and related signaling/cytoskeletal processes. Confidence: Medium","confidence":"","size":29,"edges":18,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000186","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0050771","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0033138","count":3}]},{"hash":"2008220662164265336","title":"Ribosome quality control","description":"The top GO terms are strongly centered on ribosome rescue and ribosome-associated ubiquitin-dependent catabolic processes, indicating a core theme of translation quality control within the cluster. Other terms related to insulin signaling and development appear peripheral, suggesting some functional diversity but not a unifying theme as strong as ribosome QC. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072344","count":1},{"id":"GO:0018937","count":1},{"id":"GO:1902167","count":1},{"id":"GO:1990116","count":1},{"id":"GO:0051898","count":1}]},{"hash":"191999558903893787","title":"Ribophagy and ubiquitin recycling","description":"With GO terms pointing to ribophagy and ubiquitin recycling, the most coherent theme is autophagic turnover of ribosomes involving ubiquitin-related processes. The cluster has no observed edges, and only two sparse annotations, so this label is tentative and primarily data-driven from the available terms.","confidence":"Low","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010992","count":1},{"id":"GO:0034517","count":1}]},{"hash":"2048961418822906484","title":"Telomere maintenance and shelterin assembly","description":"The top GO terms cluster around chromosome end protection and telomere architecture\u2014shelterin complex assembly, telomeric loop formation, subtelomeric heterochromatin, and G-quadruplex DNA formation\u2014pointing to telomere maintenance as the core function. Some terms (Wnt/cytokinin signaling) are less coherent with this theme and may be incidental annotations, but the dominant signal is telomere protection and chromatin state at chromosome ends.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:1905839","count":2},{"id":"GO:1904850","count":2},{"id":"GO:0072362","count":2},{"id":"GO:1904792","count":2}]},{"hash":"126552249788608711","title":"Translation Initiation and Preinitiation Complex Components","description":"The top GO terms are dominated by translation initiation-related processes (regulation of translational initiation, formation of translation preinitiation complex, IRES-dependent viral translational initiation, viral translational termination-reinitiation), suggesting these proteins are tied to the translation machinery. Other terms like Notch signaling and cell cycle appear less prominent, possibly reflecting peripheral annotations or multifunctionality. The lack of observed edges further implies the cluster groups proteins by shared annotation themes rather than direct interactions. Overall, the label captures the central theme of translation initiation machinery.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1178775520436082932","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":218,"triangles":759,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0016925","count":7},{"id":"GO:0001957","count":6},{"id":"GO:0097067","count":6},{"id":"GO:0046697","count":6}]},{"hash":"1653371717531238931","title":"Vitamin biosynthesis and xenobiotic response","description":"The dominant GO terms point to biosynthetic processes for several vitamins and related metabolites (biotin, cobalamin, vitamin E) as well as antibiotic biosynthesis, alongside cellular responses to xenobiotics and toxic substances. This suggests a cohesive theme around metabolite production and detoxification in a microbial context, with DNA replication and cell division reflecting general cellular maintenance rather than a separate function. Overall, the label captures the main functional signals of the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035690","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0042220","count":5},{"id":"GO:0009236","count":4}]},{"hash":"1590106010116831570","title":"Plant light sensing and signaling","description":"This cluster centers on plant photoreception and light- and hypoxia-related sensing, with signaling components such as ethylene pathway regulation and phosphorelay systems, plus tetrapyrrole chemistry tied to chlorophyll/heme biology. There are also gene-regulatory processes (ncRNA silencing and mRNA splicing) and protein phosphorylation present, suggesting a cohesive plant photoreception-to-signaling-to-regulation module. Confidence: Medium","confidence":"","size":28,"edges":25,"triangles":1,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0018298","count":2},{"id":"GO:0010105","count":2},{"id":"GO:0017006","count":2}]},{"hash":"2137790256530630697","title":"Unknown","description":"The GO terms are extremely diverse, including metabolism (glycolytic fermentation, thiamine biosynthesis), RNA processing (spliceosome, snRNP assembly, rRNA maturation), and intracellular trafficking (Golgi retention, transport), plus development and chromatin localization terms. There isn\u2019t a single coherent function or pathway tying these proteins together, so no specific, representative label emerges beyond Unknown. The zero edges further suggest a non-cohesive set rather than a unified biological module.","confidence":"","size":28,"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:0045585","count":1},{"id":"GO:0045292","count":1}]},{"hash":"11945541205961001","title":"Ribosome biogenesis and translation regulation","description":"This set is dominated by terms tied to the protein synthesis machinery: ribosome biogenesis, ribosomal export, initiation/elongation/termination of translation, tRNA modification, and even selenocysteine incorporation. It spans both mitochondrial and cytoplasmic translation, indicating a core theme of translation machinery and its regulation. The lone salt-stress term appears incidental to this core function.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001514","count":1},{"id":"GO:1901001","count":1},{"id":"GO:0070125","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0006415","count":1}]},{"hash":"541497217236367184","title":"Endosomal trafficking and antigen presentation","description":"This cluster is dominated by GO terms tied to intracellular transport and endosomal pathways, including endosome-to-melanosome transport, clathrin-coated vesicle loading, and retrograde Golgi-to-ER transport, as well as antigen processing via MHC class Ib. While a couple of metabolic terms appear, the strongest signal is vesicle trafficking and processing related to immune functions, suggesting a cohesive theme around intracellular transport linked to antigen presentation.","confidence":"Medium","size":28,"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:0048007","count":1},{"id":"GO:0006890","count":1}]},{"hash":"102630390374466807","title":"Unknown","description":"There are no GO terms provided to reveal a shared function, and with only one edge and no triangles plus many proteins re-added by ReCIPE, there is no clear functional theme to summarize.","confidence":"","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"819847135909217069","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2}]},{"hash":"798700940635274627","title":"Placental Development and Immune Epigenetics","description":"This cluster centers on embryonic placental morphogenesis and immune/epigenetic regulation, with GO terms like placental development, vitamin D receptor signaling, MHC I biosynthesis, and miRNA silencing, plus epigenetic regulation of DNA demethylation. Additional terms on membrane repair and antiviral transport support a theme of developmental-immune-epigenetic control, even though the network edges are absent in this dataset. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060669","count":2},{"id":"GO:0070562","count":2},{"id":"GO:1901536","count":2},{"id":"GO:0045869","count":2},{"id":"GO:2000637","count":1}]},{"hash":"1440767720771014272","title":"Ubiquitin signaling and Golgi trafficking","description":"The cluster prominently features ubiquitination and deubiquitination terms (K63- and K29-linked) and intra-Golgi vesicle-mediated transport, suggesting a shared function in ubiquitin-regulated protein sorting/trafficking within the Golgi. Some terms (e.g., RNA splicing, development) may reflect broader roles or noise but do not override the dominant theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":2},{"id":"GO:0070536","count":1},{"id":"GO:0035523","count":1},{"id":"GO:0006977","count":1},{"id":"GO:0045023","count":1}]},{"hash":"2299374166034083931","title":"RNA Polymerase Complex Assembly & Transcription Regulation","description":"The top terms are dominated by RNA polymerase I, II, and III assembly and transcription elongation control, indicating a cluster focused on transcription machinery assembly and regulation of gene expression. Other terms (protein folding, deubiquitination, apoptosis regulation) appear secondary noise relative to the transcription-related signals.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043392","count":1},{"id":"GO:0016579","count":1},{"id":"GO:0042981","count":1},{"id":"GO:0032968","count":1},{"id":"GO:1990114","count":1}]},{"hash":"1541712249871402081","title":"Chromatin organization and cell cycle regulation","description":"These proteins cluster around chromatin control and how gene expression is coordinated with cell division: histone methylation and CENP-A\u2013dependent chromatin assembly point to chromatin structure and centromere function, while DNA-templated transcription and mRNA export regulation indicate gene expression processes. Co-occurring terms about cell cycle checkpoints and mitotic spindle control, along with TORC1 signaling, suggest integration of growth signals with chromosome segregation. Some terms like neuron projection development and GPCR signaling may be broader roles or less connected but do not override the core theme of chromatin- and cell cycle\u2013related regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051567","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000920","count":1},{"id":"GO:1901976","count":1},{"id":"GO:2000728","count":1}]},{"hash":"1518676523686667493","title":"Plant metabolism and defense","description":"The cluster features GO terms tied to plant-specific processes such as negative gravitropism, chloroplast stroma protein import, and defense responses to Gram-positive bacteria, complemented by metabolic regulation terms (glycolytic fermentation to ethanol, thiamine biosynthesis). While there are some non-plant or general terms present, the strongest signal points to plant growth, metabolism, and defense programs. Confidence: Medium","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":3},{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:0050830","count":2},{"id":"GO:2000641","count":1}]},{"hash":"1580021082664815176","title":"Organogenesis and developmental signaling","description":"The top GO terms cluster around embryonic development of multiple organs (fungiform papillae, metanephros, dorsal root ganglion, renal vesicles) and signaling pathways (Wnt) with related processes like apoptosis regulation, mitochondrial calcium regulation, and cell proliferation. The set spans several organ systems but centers on developmental processes and signaling rather than a single biochemical function, so the name reflects a broad organogenesis/developmental signaling theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061198","count":2},{"id":"GO:0003338","count":2},{"id":"GO:0044336","count":2},{"id":"GO:0051561","count":2},{"id":"GO:0086091","count":2}]},{"hash":"4716446494994737","title":"Chromatin regulation during the cell cycle","description":"The terms cluster around chromatin regulation (histone methylation and deubiquitination), transcription and RNA processing, with emphasis on mitotic cell cycle activity. This suggests a functional group involved in coordinating chromatin state with gene expression as cells divide.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0070651","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1831488349558489577","title":"Gene expression and ribosome biogenesis","description":"Proteins here cluster around transcription, mRNA processing/export, and translation initiation/assembly (DNA-templated transcription, mRNA export, splicing regulation, translation initiation, ribosome biogenesis). This points to a cohesive role in gene expression from RNA synthesis to protein assembly rather than a single metabolic task. Some metabolism-related GO terms appear incidental but don\u2019t undermine the main theme.","confidence":"High","size":27,"edges":326,"triangles":2357,"max_degree":26,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0006406","count":4},{"id":"GO:2001172","count":3},{"id":"GO:1903212","count":3}]},{"hash":"462573013085618449","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0002181","count":6},{"id":"GO:0042273","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000027","count":4}]},{"hash":"2110141705677954961","title":"Unknown","description":"The GO terms span diverse processes across development (kidney morphogenesis, renal vesicle formation, dorsal root ganglion development, fungiform papilla formation), signaling (Wnt pathway and apoptotic regulation), physiology (innate immune response, heart rate regulation), and basic cellular functions (proton transport, mitochondrial calcium). There is no single cohesive theme linking all terms, so a concise, representative label cannot be confidently assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0061198","count":2},{"id":"GO:0003338","count":2}]},{"hash":"832287408673062494","title":"Cardiac development and metabolic signaling","description":"This cluster centers on heart-related development and function, with terms like heart trabecula formation and regulation of cardiac conduction, alongside insulin secretion and calcium handling (calcium release from the sarcoplasmic reticulum and regulation of insulin signaling). These suggest a shared theme of cardiometabolic signaling and Ca2+-dependent processes. Some terms (e.g., amyloid fibril formation, obsolete maturation) may be incidental annotations or noise. Overall, the strongest coherent theme is cardiac development/function with metabolic coupling.","confidence":"Medium","size":27,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0060347","count":9},{"id":"GO:0032925","count":9},{"id":"GO:0061179","count":9},{"id":"GO:0022417","count":9}]},{"hash":"416067875581124691","title":"Ubiquitin-Dependent Protein Quality Control","description":"The cluster is dominated by GO terms tied to protein ubiquitination/deubiquitination and ERAD, plus autophagy-related processes (aggrefagy and autophagosome maturation regulation), suggesting a core role in protein quality control and selective degradation. While a DNA repair term (NER) appears, it seems peripheral to the main theme of proteostasis via ubiquitin and autophagy. ","confidence":"High","size":27,"edges":324,"triangles":2553,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":15},{"id":"GO:0030433","count":12},{"id":"GO:0006289","count":12},{"id":"GO:0006517","count":12},{"id":"GO:1901097","count":11}]},{"hash":"667962772175688223","title":"Unknown","description":"The terms cover neural regeneration, heart development and conduction, endocrine insulin secretion, calcium release, immune cell proliferation, protein folding and amyloid formation, showing no single cohesive function. With no network edges to connect proteins into a shared pathway, there isn't a clear common theme to label the cluster beyond Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0060347","count":2},{"id":"GO:0032925","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0022417","count":2}]},{"hash":"1095127220465436856","title":"Meiosis and Chromosome Segregation","description":"The cluster\u2019s top GO terms cluster around meiotic processes and chromosome segregation (synaptonemal complex assembly, meiotic chromosome condensation, centromeric cohesion, and mitotic spindle assembly), indicating proteins involved in chromosome organization during meiosis and cell division. A subset of terms related to RNA metabolism (P-body assembly, deadenylation) is present but appears less central, suggesting these may reflect additional regulatory roles or annotation overlap.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007130","count":2},{"id":"GO:0010032","count":2},{"id":"GO:0051754","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0006468","count":1}]},{"hash":"1201478600401898322","title":"Tyrosine kinase signaling and development","description":"The terms point to tyrosine autophosphorylation and related signaling pathways (peptidyl-tyrosine autophosphorylation, its positive regulation, FGFR apoptotic signaling, and PI3K signaling), coupled with development-related processes (optic nerve morphogenesis, myeloid differentiation, neuron death). There is also an outlier pollen recognition term and a note of cytoskeletal remodeling, but the core theme is growth-factor receptor\u2013mediated signal transduction impacting development and cytoskeletal dynamics. The connections are plausible but somewhat loose (low edge count), so I judge the label as Medium confidence.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0038083","count":3},{"id":"GO:0048544","count":3},{"id":"GO:0010715","count":3},{"id":"GO:0021631","count":3}]},{"hash":"1681925975656313561","title":"Innate immunity and cellular housekeeping","description":"This cluster centers on innate immune response terms, with additional signals for proteostasis (ubiquitin/ERAD and proteasomal degradation), mitochondrial functions (inner membrane insertion and oxidative phosphorylation), and nuclear maintenance (DNA recombination, CENP-A chromatin assembly). The mix suggests a set of proteins involved in general cellular maintenance and stress responses, rather than a single, cohesive pathway, hence a broad label that captures both immune signaling and housekeeping roles.","confidence":"Low","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0001319","count":1},{"id":"GO:0032979","count":1}]},{"hash":"2046141604049353212","title":"Clathrin-Mediated Endocytosis and Actin Dynamics","description":"Top GO terms cluster around endocytosis (endocytosis, receptor-mediated endocytosis, clathrin coat assembly) with components of actin remodeling (Arp2/3 regulation, actin cortical patch assembly, synaptic vesicle maturation). This suggests the proteins function together in internalization and vesicle trafficking processes that depend on actin dynamics, with some miscellaneous terms likely reflecting broader cellular contexts. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0055123","count":1},{"id":"GO:0034316","count":1}]},{"hash":"185797690152675129","title":"Unknown","description":"This cluster shows no clear shared function: GO terms span metabolism, signaling, developmental processes, and even obsolete annotations, with no edges or cohesive pathway linking the proteins. The lack of a common theme and the presence of disparate, outdated terms suggest the proteins do not form a functionally cohesive group. Therefore, the label Unknown with None confidence.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1}]},{"hash":"1804914475013258818","title":"Unknown","description":"The terms span mechanosensory response, Wnt signaling, adipogenesis, telomere maintenance, cell migration, RNA processing, and phosphorylation, with no single dominant function connecting them. This cluster appears heterogeneous, lacking a unifying theme to label it more specifically.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035994","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0045444","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0016477","count":2}]},{"hash":"2280833499079052921","title":"Ubiquitin-Proteasome System Components","description":"The cluster is dominated by GO terms for ubiquitination and ubiquitin-dependent proteasomal protein catabolic processes (including SCF-dependent and K48-linked ubiquitination) and even deubiquitination, with additional terms for transcriptional regulation, cell cycle control, apoptosis suppression, glucokinase activity regulation, and histone catabolism. This points to proteins functioning in the ubiquitin tagging and proteasomal degradation pathway, i.e., the ubiquitin-proteasome system, with related regulatory roles.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0070936","count":5},{"id":"GO:0035523","count":4}]},{"hash":"1798277750102461663","title":"DNA replication and cell cycle regulation","description":"The cluster is dominated by terms for mitotic cell cycle, DNA replication, DNA-templated transcription, and DNA repair, pointing to core nuclear processes that ensure genome duplication and maintenance. While signaling pathways (Wnt, ephrin) and calcium-dependent exocytosis appear among the terms, they likely reflect regulatory cross-talk rather than defining the primary function, which centers on DNA replication/repair and cell cycle control.","confidence":"High","size":26,"edges":29,"triangles":7,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":20},{"id":"GO:0006260","count":19},{"id":"GO:0006351","count":18},{"id":"GO:0090263","count":18},{"id":"GO:0006281","count":17}]},{"hash":"2135390087812635218","title":"Bacterial lipid/quinone biosynthesis and NAD salvage","description":"The top GO terms point to bacterial-specific pathways, notably lipid A biosynthesis and menaquinone biosynthesis, plus nicotinate nucleotide salvage (NAD) and related lipid turnover. This suggests a cohesive theme of prokaryotic lipid and cofactor biosynthesis and metabolism, despite some noisy or obsolete annotations. ","confidence":"Medium","size":26,"edges":172,"triangles":578,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0009245","count":4},{"id":"GO:0019358","count":4},{"id":"GO:0009234","count":4}]},{"hash":"1405263219288548256","title":"mRNA Splicing and ncRNA-Mediated Gene Silencing","description":"The top terms cluster around mRNA splicing and spliceosome-mediated processing (GO:0006376, GO:0045292, GO:0000380, GO:0048026) and ncRNA-mediated regulation of gene expression, including miRNA-mediated silencing (GO:0031047, GO:0035278). This points to a coherent theme of post-transcriptional RNA processing and RNA silencing pathways, with some related notes on splicing regulation and alternative splicing. The viral translation term is ancillary but does not override the core RNA-processing theme.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4}]},{"hash":"1197789550100476238","title":"Unknown","description":"No GO terms are shown for this cluster and the connectivity is sparse (4 edges, 0 triangles), so there is no clear shared function to assign a label.","confidence":"","size":26,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"369074334304814527","title":"Unknown","description":"The top GO terms span mRNA splicing, T cell immune regulation, lipid remodeling (phosphatidylcholine and cardiolipin), triglyceride biosynthesis, and mitochondrial energy production, with no single shared function dominating the cluster. This dispersion makes it impossible to assign a meaningful, specific label.","confidence":"","size":26,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0070236","count":1},{"id":"GO:0006663","count":1},{"id":"GO:0002071","count":1},{"id":"GO:0070970","count":1}]},{"hash":"2028577939701628706","title":"Optic nerve and retinal axon guidance","description":"The top GO terms cluster around neural development of optic/retinal pathways and CNS connections: optic nerve morphogenesis, retinal ganglion cell axon guidance, fasciculation of sensory neuron axons, corpus callosum development, and regulation of synapse assembly/trans-synaptic signaling. While a single term on immune response appears, the dominant signal is axon guidance, synaptogenesis, and neural circuit formation in the optic and CNS tracts. Confidence: High","confidence":"","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":7},{"id":"GO:0021631","count":6},{"id":"GO:0031290","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0001806","count":6}]},{"hash":"1687412978598778647","title":"Transcriptional Regulation and Chromatin Remodeling in Innate Immunity","description":"This set centers on transcription and chromatin dynamics (DNA-templated transcription, nucleosome assembly, transcriptional regulation) alongside innate immune signaling (NF-kappaB regulation, IL-1\u03b2 production, innate immune response). The mix suggests proteins that coordinate gene expression changes during immune responses, rather than a single pathway. A label combining transcriptional regulation, chromatin remodeling, and innate immunity captures the theme; incidental terms like cornea development may reflect broad annotations.","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:0015031","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0043388","count":2},{"id":"GO:0061303","count":2}]},{"hash":"1545344412724155473","title":"Development and Vesicle Transport","description":"The top GO terms point to broad developmental processes (multicellular development, cell differentiation, inner cell mass proliferation, adipocyte differentiation) alongside intracellular trafficking and signaling components (COPI vesicle coating, lysosomal membrane organization, small GTPase signaling) and neural development elements (dendritic spine development), suggesting a cluster of proteins involved in development with connected transport/signaling roles rather than a single cohesive function. Edges are absent, indicating weak network cohesion, so the name reflects a developmental context intertwined with vesicle transport. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045598","count":1},{"id":"GO:0043966","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0051457","count":1}]},{"hash":"96031126519640629","title":"Developmental Morphogenesis with Immune/Angiogenic Signaling","description":"The top GO terms span glomerular basement membrane development, glomerular filtration, and cell polarity/morphogenesis, along with immune-related functions (T cell migration and T cell mediated immunity) and VEGF signaling (angiogenesis). This mix points to a broad theme of developmental and morphogenic processes that intersect immune and vascular signaling, rather than a single, cohesive pathway. Given the diversity across organ systems and processes, a high-level label focused on development with immune and vascular signaling seems most representative.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032836","count":2},{"id":"GO:0071976","count":1},{"id":"GO:0003094","count":1},{"id":"GO:0071963","count":1},{"id":"GO:0031276","count":1}]},{"hash":"737488447935247769","title":"Ribosome Biogenesis and Translation Initiation","description":"Dominant GO terms include translation reinitiation, formation of translation preinitiation complex, maturation of rRNA (both LSU and SSU), and RNA (guanine-N7)-methylation, all pointing to ribosome assembly and protein synthesis. Some terms touch actin cytoskeleton dynamics and Wnt signaling, or skeletal development, which may reflect broader cellular regulation or moonlighting functions, but the core theme remains ribosome biogenesis and translation. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0001501","count":2}]},{"hash":"201117403728974957","title":"Nuclear RNA Processing and Transcription Regulation","description":"The top GO terms cluster around nuclear RNA metabolism and transcription control\u2014rRNA processing, mRNA surveillance, Pol II transcription regulation, and chromatin-related regulation\u2014suggesting a module tied to nuclear gene expression. Some terms like muscle differentiation and meiosis appear incidental, but the core signal points to nuclear RNA processing and transcriptional regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0000338","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1946119417025888783","title":"Ubiquitin-Dependent Antiviral Innate Immunity","description":"The cluster shows strong enrichment for ubiquitin-mediated processes (ubiquitin-dependent protein catabolic process, polyubiquitination) alongside innate immune and antiviral defense terms, suggesting proteins here function in ubiquitin-regulated innate antiviral responses. The presence of regulatory terms for JNK signaling and cell fate (necroptosis) further supports a role in immune signaling during viral challenges.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0060546","count":1},{"id":"GO:0097039","count":1}]},{"hash":"469416782694823704","title":"Ubiquitin-Dependent ERAD and Autophagy Control","description":"Enrichment for protein deubiquitination, ERAD, and autophagy-related regulation indicates a cohesive role in ubiquitin-mediated protein quality control. The presence of vesicle trafficking and signaling-related terms (GPCR internalization, TNF signaling) suggests this cluster coordinates degradation, trafficking, and signal modulation through ubiquitin pathways.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":24},{"id":"GO:0030433","count":20},{"id":"GO:1901097","count":19},{"id":"GO:1902283","count":19},{"id":"GO:1904049","count":19}]},{"hash":"1289608864489249227","title":"Neurodevelopmental transcription and apoptotic signaling","description":"Top GO terms indicate a neural development focus (forebrain development, neural tube closure) together with transcriptional regulation and apoptosis pathways (DNA-templated transcription, apoptotic process, ER stress\u2013related apoptotic signaling). The mix of development, transcription, and cell death suggests a coordinated neurodevelopmental program that governs gene expression and cell fate decisions. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007275","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0046826","count":4},{"id":"GO:0001403","count":3}]},{"hash":"1373423006672727732","title":"Unknown","description":"The terms are varied and largely obsolete, with no consistent biological process or location represented by multiple proteins. Instances include photoreceptor outer segment localization, striatum development, ubiquitination, glucocorticoid signaling, cytokinin signaling, and blood pressure regulation, but no common theme or interaction pattern stands out (no edges). As such, no reliable cluster function can be inferred.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":1},{"id":"GO:1903546","count":1},{"id":"GO:0021756","count":1},{"id":"GO:0035955","count":1},{"id":"GO:1901215","count":1}]},{"hash":"924688678834809324","title":"Ubiquitin-Dependent Proteolysis and Chromatin Regulation","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes and autoubiquitination, with supporting terms for histone catabolic processes and dosage compensation. The recurrent theme is ubiquitin-mediated proteolysis linked to chromatin maintenance and regulation of signaling pathways (e.g., JNK, I-kappaB) and apoptosis. This suggests a module of proteins involved in ubiquitin-driven proteolysis and chromatin regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":9},{"id":"GO:0033151","count":8},{"id":"GO:0009048","count":8},{"id":"GO:0036205","count":8}]},{"hash":"1129413699758614973","title":"Ciliary and Flagellar Motility with Cytoskeletal Regulation","description":"This cluster centers on the assembly and movement of cilia/flagella and the regulation of cytoskeletal components, including actin structures (lamellipodium) and microtubule-based axonemes. The presence of lamellipodium and actin organization terms alongside axoneme assembly, sperm motility, and cilium movement indicates a cohesive theme of motility driven by cytoskeletal dynamics in ciliated/flagellated cells, particularly sperm and epithelial contexts. The post-translational modifications of tubulin (polyglutamylation/polyglycylation) further support microtubule regulation within these motile structures.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0051013","count":1},{"id":"GO:0003353","count":1},{"id":"GO:0030516","count":1}]},{"hash":"610229133646086422","title":"Vacuolar amino acid transport","description":"The top GO terms are dominated by transmembrane import and export of various amino acids (lysine, arginine, serine, tyrosine, histidine) into and out of the vacuole, indicating transporter activity across the vacuolar membrane. A few unrelated/obsolete terms appear, but the consistent theme is amino acid movement within the vacuole, suggesting these proteins function as vacuolar amino acid transporters.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061402","count":1},{"id":"GO:0089707","count":1},{"id":"GO:1901482","count":1},{"id":"GO:0051365","count":1},{"id":"GO:0090516","count":1}]},{"hash":"371324282069743014","title":"Vesicle trafficking and microtubule movement","description":"This cluster centers on endosome organization, microtubule-based movement, and vesicle docking/exocytosis, suggesting a cohesive set of proteins involved in intracellular transport and cytoskeletal dynamics. Additional terms related to membrane transport and development may reflect broader roles in trafficking across cellular contexts and during organismal development.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007032","count":2},{"id":"GO:0000132","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007018","count":2}]},{"hash":"2059364007590714036","title":"Virus-host interaction and replication","description":"The cluster is enriched for terms related to viral processes (virion attachment to host cell, viral protein processing, genome entry into host cells) along with host DNA-templated transcription, DNA replication, and ribosome biogenesis. This combination suggests proteins involved in viral infection and the hijacking of host transcription/translation and replication machinery, forming a cohesive virus-host interaction theme.","confidence":"High","size":25,"edges":272,"triangles":1814,"max_degree":24,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0039611","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0019062","count":4}]},{"hash":"1658311768325943632","title":"Ribosome biogenesis and ER-Golgi trafficking","description":"The cluster shows strong representation of ribosome biogenesis and rRNA maturation, indicating active protein synthesis machinery. It also includes vesicle-mediated transport between the ER and Golgi, along with TORC1 signaling and mRNA transport, pointing to growth and nutrient-sensing coordination. GTPase regulation and serine dephosphorylation further suggest regulatory control of these biosynthetic and trafficking processes, collectively linking ribosome production with the secretory pathway and cell growth.","confidence":"Medium","size":25,"edges":6,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0006890","count":2}]},{"hash":"380854577637560997","title":"ER Stress and Innate Immune Signaling","description":"This cluster is enriched for endoplasmic reticulum unfolded protein response and innate immune activation terms, including NF-kappaB regulation and dendritic cell chemotaxis, suggesting a core theme of stress-induced immune signaling. Additional terms related to cell signaling, adhesion, and development hint at broader regulatory processes that connect stress responses to cellular communication and organization, supporting a cohesive, though broad, signaling module.","confidence":"Medium","size":25,"edges":44,"triangles":105,"max_degree":9,"top_function":"protein folding","top_go_terms":[{"id":"GO:0030968","count":5},{"id":"GO:2000510","count":5},{"id":"GO:0010204","count":5},{"id":"GO:0048916","count":5},{"id":"GO:0007339","count":5}]},{"hash":"503799262204367360","title":"Phosphorylation-Driven Signaling and Cell Cycle Regulation","description":"The proteins show strong representation of phosphorylation control (kinase activity, autophosphorylation, dephosphorylation) and mitotic cell cycle processes, with additional links to GTPase regulation, protein oligomerization, and related trafficking and stress-response pathways, suggesting a core role in signaling that governs cell cycle progression.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071902","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0070317","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":3}]},{"hash":"571650527943077334","title":"Mitotic Cell Cycle and Chromosome Cohesion","description":"The cluster is dominated by GO terms tied to mitosis and chromosome handling: mitotic cell cycle, centriole replication, and negative regulation of sister chromatid cohesion, plus related processes like translation regulation under stress. While a few terms like visual perception and pseudohyphal growth are present, the strongest signals point to mitotic progression and chromosome cohesion/dynamics as the core theme.","confidence":"Medium","size":25,"edges":287,"triangles":2015,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0046827","count":20},{"id":"GO:0000278","count":20},{"id":"GO:0010998","count":17},{"id":"GO:0071479","count":17}]},{"hash":"765727155052592718","title":"Mitochondrial stress and apoptosis signaling","description":"This cluster centers on mitochondrial pathways involved in cellular stress and apoptosis, highlighted by terms such as positive regulation of protein insertion into the mitochondrial outer membrane, hydrogen peroxide\u2013mediated programmed cell death, and release of cytochrome c from mitochondria. While there are a few additional terms related to translation, cytoskeleton, and signaling (e.g., actin organization, TGF-beta response), the dominant theme is mitochondrial stress\u2013driven apoptotic signaling rather than a single cohesive process. Confidence: Medium","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903645","count":1},{"id":"GO:1903638","count":1},{"id":"GO:0010421","count":1},{"id":"GO:0090200","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1687195267287884145","title":"Mitotic spindle assembly and vesicle trafficking","description":"This cluster centers on mitosis and microtubule dynamics, with multiple terms for tubulin complex assembly, mitotic spindle assembly, and the mitotic cell cycle, plus cell division and proliferation. It also includes endomembrane trafficking terms (Golgi-to-ER and endosome-to-lysosome transport), suggesting a related set of proteins involved in intracellular membrane trafficking that may be active during development (brain, skin, multicellular organism development). Overall, the proteins appear to link mitotic machinery with vesicular transport processes in developmental contexts.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007021","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0008283","count":2}]},{"hash":"466812205543862269","title":"Unknown","description":"Top terms are not provided, so there is no clear functional theme shared by the 25 proteins. With no GO enrichments or common processes to anchor a label, and only modest connectivity (8 edges, 0 triangles), I cannot assign a specific function; thus Unknown.","confidence":"","size":25,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"10310821846869769","title":"Wnt-regulated organogenesis","description":"This cluster features multiple organogenesis-related terms (fungiform papilla formation, metanephros morphogenesis, dorsal root ganglion development, renal vesicle formation) and canonical Wnt signaling linked to regulation of apoptosis, suggesting a group of proteins centered on developmental signaling and tissue formation. Additional terms related to heart rate regulation, mitochondrial calcium, and cell cycle processes align with broad developmental programs and growth control, reinforcing a theme of Wnt-driven organ development rather than a single tissue specificity.","confidence":"Medium","size":25,"edges":236,"triangles":1202,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061198","count":10},{"id":"GO:0003338","count":10},{"id":"GO:0044336","count":10},{"id":"GO:0051561","count":10},{"id":"GO:0086091","count":10}]},{"hash":"942519587594164287","title":"GTPase signaling in cell movement and development","description":"The cluster highlights GO terms centered on small GTPase\u2013mediated signal transduction, cell migration, and developmental processes (e.g., neural tube closure and dendritic spine development), with additional hints from exocytosis regulation and cytoskeletal dynamics. While some terms like DNA repair and apoptosis appear, the dominant signal points to signaling pathways that drive motility and morphogenesis. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0001843","count":2}]},{"hash":"2239918464351048216","title":"Unknown","description":"The cluster has no top GO terms and only two edges with a low overall connectivity, offering no clear shared function or enrichment to define a specific label; without a common theme, Unknown is the appropriate designation.","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"734440280926758627","title":"Unknown","description":"The Top Terms include RNA processing/export (ta-siRNA processing; mRNA export) and transcriptional regulation (positive regulation of transcription elongation by RNA polymerase I), but also terms tied to DNA damage response, replication fork processing, plant hormone signaling (ethylene), and viral RNA export. The mix of diverse processes with no single cohesive function makes it difficult to assign a specific, representative label for the cluster, so Unknown is most appropriate.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000002","count":1},{"id":"GO:0009873","count":1},{"id":"GO:2001209","count":1},{"id":"GO:0031990","count":1},{"id":"GO:0048297","count":1}]},{"hash":"1725343969850676788","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":1},{"id":"GO:0034414","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0019243","count":1},{"id":"GO:0098789","count":1}]},{"hash":"1879316260554113134","title":"Unknown","description":"These proteins show a scattered set of functions across reproduction (sperm binding, meiotic regulation), signaling (Ras and cAMP pathways), nuclear export, immune regulation, and even learning or drug response, with no clear single theme tying them together. The diverse GO terms do not point to one cohesive biological process, so a concise, representative label cannot be confidently assigned. ","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051447","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0046580","count":1},{"id":"GO:0046827","count":1},{"id":"GO:0046007","count":1}]},{"hash":"1141957230142405864","title":"Chromosome Condensation in Meiosis and Mitosis","description":"This cluster is dominated by GO terms tied to chromosome condensation and chromosomal dynamics in both mitosis and meiosis, including mitotic chromosome condensation, mitotic sister chromatid separation, meiotic chromosome condensation, and synaptonemal complex assembly, as well as meiotic regulation of DSB formation. These together point to a coherent theme of chromosome structure remodeling during cell division, with a strong emphasis on meiosis-related organization. Some other terms (e.g., intraciliary transport, rDNA maintenance) are present but do not override the central condensation/meiosis/mitosis pattern.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051306","count":1},{"id":"GO:0071230","count":1},{"id":"GO:2001241","count":1},{"id":"GO:0042518","count":1},{"id":"GO:0007076","count":1}]},{"hash":"1353930322456657275","title":"DNA integration and genome replication during the cell cycle","description":"The dominant terms center on DNA integration (including proviral latency), transposition, and core DNA replication/cell-cycle processes, plus chromosome segregation. This points to a cluster of proteins involved in genome integration and the coordination of replication with cell division. The mention of symbiont entry and regulatory signaling terms is secondary but consistent with broader host\u2013genome interaction and growth signaling contexts.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0007059","count":2},{"id":"GO:0006313","count":2}]},{"hash":"817543932175708694","title":"Vascular development and metabolic regulation","description":"The dominant terms relate to vascular biology: angiogenesis in wound healing, regulation of endothelial cell migration, and blood pressure regulation, with the kallikrein-kinin cascade linking vascular function and inflammation. Additional terms point to systemic metabolism and hormone signaling (glucose and energy homeostasis, thyroid hormone receptor signaling). Together these suggest a cluster centered on coordinating vascular development and function with metabolic regulation, though some terms reflect general regulatory processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000377","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0097009","count":1},{"id":"GO:0060055","count":1},{"id":"GO:0043535","count":1}]},{"hash":"462281203082413911","title":"Transcription initiation and cell cycle regulation","description":"Based on the core GO terms, the proteins cluster around RNA polymerase II preinitiation complex assembly and DNA-templated transcription initiation, with supporting chromatin regulation signals (histone acetylation) and cell-cycle control processes (G1/S transition regulation, proteasomal degradation). While a few terms are peripheral or obsolete, the dominant theme ties transcription initiation to cell-cycle regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0006352","count":1}]},{"hash":"311798647249851216","title":"Ribosome assembly and translational control","description":"This cluster is dominated by terms on ribosome biogenesis, ribosomal subunit assembly, and translation initiation/regulation (including translation reinitiation and IRES-dependent translation), plus preinitiation complex formation, pointing to a core role in making ribosomes and controlling protein synthesis. Peripheral terms about RNA processing and ncRNA silencing may reflect broader RNA metabolism but do not outweigh the central theme of ribosome function and translation control. ","confidence":"High","size":24,"edges":130,"triangles":202,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:1901407","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3}]},{"hash":"1708120606423117507","title":"Ubiquitin-Mediated Signaling and Mitotic Regulation","description":"The top GO terms point to protein ubiquitination (K48- and K6-linked), cell cycle and mitosis (cell division, mitotic cycle, exit from mitosis), and immune signaling (NF-kappaB and T cell receptor pathways), suggesting a theme where ubiquitin controls signaling and mitotic processes. Some terms related to vesicle trafficking and neuronal signaling appear but are less central, making the overall theme best described as ubiquitin-dependent regulation of signaling and cell cycle, with immune signaling involvement.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903542","count":4},{"id":"GO:0090394","count":4},{"id":"GO:0071287","count":4},{"id":"GO:0070936","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1931069810325360489","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0097222","count":1},{"id":"GO:0071035","count":1}]},{"hash":"216141013786026707","title":"Growth factor receptor tyrosine kinase signaling","description":"The top GO terms center on tyrosine autophosphorylation and FGFR-related signaling, with downstream developmental/differentiation contexts (optic nerve morphogenesis, myeloid progenitor differentiation, neuron death regulation). Despite some obsolete terms, the common thread is receptor tyrosine kinase\u2013driven signaling and growth-factor\u2013mediated development.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":8},{"id":"GO:0038083","count":8},{"id":"GO:0048544","count":8},{"id":"GO:0010715","count":8},{"id":"GO:0021631","count":8}]},{"hash":"922275607064678763","title":"Virus-host genome integration and transcription regulation","description":"The GO terms cluster around viral processes: symbiont (virus) entry into host cells, proviral latency establishment, DNA integration, and transcription regulation by RNA polymerase II, including preinitiation complex assembly. These points together suggest a theme of virus\u2013host interactions involving genome integration and transcription control. Some outlier terms (glycogen catabolic process, cardiac development) may reflect annotation noise or pleiotropy but do not override the main theme.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0005980","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2}]},{"hash":"19085992426290118","title":"Unknown","description":"There are no GO terms or connections to reveal a common function, and the graph shows no edges (Max Degree 0, Triangles 0). With 20 of 24 proteins re-added by ReCIPE and no enrichment signal, a meaningful functional label cannot be inferred.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1585321481433946434","title":"Neuronal vesicle trafficking and morphogenesis","description":"The top GO terms cluster around vesicle transport and cytoskeleton-driven processes (ER-to-Golgi transport, microtubule-based movement, synaptic vesicle budding) as well as neuronal development (neuron projection morphogenesis, adult locomotory behavior). These suggest a cohesive theme of neuronal growth and synaptic function, despite a couple of terms that are less aligned (pigmentation, placenta development). Overall, the common thread is neuronal vesicle trafficking coupled with morphogenesis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0001893","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0048812","count":2},{"id":"GO:0007018","count":2}]},{"hash":"1050957119769668623","title":"Unknown","description":"The terms span vesicle trafficking (ER-Golgi and Golgi-ER), RNA splicing, pigment-related processes, histone methylation, GTPase regulation, protein oligomerization, cell division, and ER stress\u2013related apoptosis. With no cohesive functional theme and no network connections, there isn\u2019t a clear representative function for this cluster.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0043473","count":3}]},{"hash":"2298403421545195660","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":18,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0071031","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0048701","count":2}]},{"hash":"19401660724439255","title":"Developmental differentiation and signaling","description":"The Top Terms include schwann cell development, axonogenesis, multicellular organism development, and various differentiation cues (lung epithelial cell differentiation), plus signaling/transcription-related terms such as regulation of the calcineurin-NFAT cascade and positive regulation of DNA binding. This pattern suggests proteins involved in broad developmental differentiation programs and signaling that modulate gene expression, rather than a single molecular complex or tissue-specific function. No direct interactions are present, indicating a dispersed set of regulators across developmental and neuronal/muscle contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0014044","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0060487","count":4}]},{"hash":"1391391749572680763","title":"ER Protein Folding and UPR","description":"This cluster is dominated by GO terms related to endoplasmic reticulum protein folding and the unfolded protein response (e.g., protein folding in ER, response to unfolded protein), indicative of ER stress management and chaperone-assisted folding; a few terms appear unrelated, but the core theme is ER protein quality control and UPR.","confidence":"High","size":24,"edges":16,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0001707","count":1}]},{"hash":"1384256361057100861","title":"Meiosis I spindle assembly and oocyte maturation","description":"The strongest signals are oocyte maturation (GO:0001556) and spindle assembly in female meiosis I (GO:0007057), supported by microtubule polymerization (GO:0046785) and ubiquitin-proteasome\u2013related protein turnover (GO:0031146). Some terms (neural tube development) are less connected, but the core theme centers on meiosis/oocyte development and microtubule dynamics.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0007057","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0051436","count":1}]},{"hash":"519269696945099393","title":"Ubiquitin-Dependent Autophagy","description":"The top GO terms point to ubiquitination processes (protein monoubiquitination, autoubiquitination) and autophagy-related pathways (engulfment by autophagosome, type 2 mitophagy), suggesting these proteins are linked to proteostasis via ubiquitin signaling feeding into autophagy. Some other terms are unrelated developmental or regulatory processes, but the autophagy-ubiquitination connection is the most coherent theme here.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006513","count":1},{"id":"GO:0002669","count":1},{"id":"GO:2000009","count":1},{"id":"GO:0061736","count":1},{"id":"GO:0051865","count":1}]},{"hash":"998802399004295864","title":"ER-Golgi Vesicle Trafficking and Endocytosis","description":"This cluster's GO terms are dominated by processes in the secretory pathway and vesicle transport (ER to Golgi, retrograde transport, endocytosis, and vesicle-mediated transport) plus protein targeting to vacuoles, all pointing to a cohesive role in membrane trafficking. Some terms (bone resorption, dendrite development, viral replication) are more peripheral annotations but do not override the central theme of vesicle trafficking and ER\u2013Golgi dynamics.","confidence":"Medium","size":24,"edges":61,"triangles":55,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902236","count":16},{"id":"GO:0045453","count":16},{"id":"GO:0006897","count":15},{"id":"GO:0006890","count":15},{"id":"GO:0006623","count":15}]},{"hash":"590188071212345561","title":"Unknown","description":"The top GO terms are diverse and only single counts each, covering ER unfolded protein response, innate immune signaling, dendritic cell chemotaxis, zebrafish lateral line development, sperm-egg binding, synaptic vesicle endocytosis, NF-kappaB signaling, cell spreading, retinoic acid signaling, and general cell cycle regulation. There is no single cohesive function or pathway linking the cluster, and there are no edges or dense connections to suggest a shared module. Therefore, there is no confident, representative label beyond Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":1},{"id":"GO:2000510","count":1},{"id":"GO:0010204","count":1},{"id":"GO:0048916","count":1},{"id":"GO:0007339","count":1}]},{"hash":"98236496718636241","title":"Unknown","description":"The GO terms span diverse, loosely related processes (toxic-substance response, multiple catabolic pathways, detoxification) and regulatory activities, with no apparent shared pathway or interactions (Edges 0, Triangles 0, Max Degree 0). This lack of a cohesive theme makes it inappropriate to assign a specific functional label.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0032435","count":2},{"id":"GO:0051534","count":2},{"id":"GO:0046839","count":1},{"id":"GO:1990577","count":1}]},{"hash":"979227414625103026","title":"Unknown","description":"The Top Terms span plant cell wall remodeling, bacterial cell wall turnover/biosynthesis, basic cell cycle processes, acetylcholine biosynthesis/secretion, and sieve element differentiation, with no single cohesive function tying them together. This mixture suggests an unclear or misannotated cluster rather than a focused molecular theme. ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0009254","count":1},{"id":"GO:0008360","count":1},{"id":"GO:0051301","count":1}]},{"hash":"326824889195180158","title":"Deubiquitination and ubiquitin signaling","description":"The top GO terms are dominated by ubiquitin-related processes: multiple specific deubiquitinase activities (K6-, K29-, K63-linked), free ubiquitin chain depolymerization, and general deubiquitination, pointing to a cluster of deubiquitinases and ubiquitin-regulated signaling. A few terms about development and apoptosis appear but are less central to the core function, suggesting the main theme is ubiquitin processing. Confidence is Medium.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006919","count":1},{"id":"GO:1901532","count":1},{"id":"GO:1902035","count":1},{"id":"GO:0035616","count":1},{"id":"GO:0010995","count":1}]},{"hash":"1655745275483309184","title":"Unknown","description":"Top GO terms span mitosis (chromosome alignment and condensation), septum digestion after cytokinesis, vesicle trafficking (MVB-lysosome fusion and sorting), ubiquitin-dependent degradation, and development-related processes, with little overlap among them. With no edges or network connectivity, there\u2019s no clear shared function linking these proteins, so a specific, intuitive label cannot be assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0061763","count":1},{"id":"GO:1902188","count":1},{"id":"GO:0007076","count":1}]},{"hash":"492704065197485464","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0042273","count":2}]},{"hash":"1731094472099707628","title":"Unknown","description":"The set of top GO terms is highly heterogeneous, covering xenobiotic response, chromatin and histone-related processes, metabolism, signaling, development, and nodulation, with no clear shared pathway or function tying them together. The absence of edges and a cohesive theme suggests no single, interpretable label; term diversity and cross-domain terms (including obsolete ones) undermine a unified cluster function.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0000183","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0050774","count":3}]},{"hash":"1164467769307866651","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":30,"triangles":21,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000463","count":7},{"id":"GO:0042273","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0000462","count":5}]},{"hash":"1921185661991848379","title":"Spliceosome-driven mRNA splicing","description":"The proteins are predominantly annotated with GO terms for mRNA splicing and spliceosome-mediated processing (cis/splicing, alternative splicing, and regulation of splicing), along with regulatory RNA-mediated gene silencing. This indicates a cohesive functional theme centered on pre-mRNA processing via the spliceosome and its regulation, despite a few peripheral terms. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0031047","count":2}]},{"hash":"1527371608490212590","title":"Organogenesis and developmental signaling","description":"The top GO terms cluster around organogenesis and development across multiple tissues (tongue fungiform papillae, kidney: metanephros and renal vesicles, dorsal root ganglia) and involve signaling pathways (canonical Wnt; regulation of apoptosis) along with growth and cell division control (mitotic cytokinesis, negative regulation of proliferation) and physiological modulation (heart rate). This points to a theme of developmental organ formation and growth signaling rather than a single specific process, producing a medium confidence label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061198","count":6},{"id":"GO:0003338","count":6},{"id":"GO:0044336","count":6},{"id":"GO:0051561","count":6},{"id":"GO:0086091","count":6}]},{"hash":"1508298329384775083","title":"Innate immunity and endocytic trafficking","description":"The proteins show a cohesive pattern of innate immune signaling (innate immune response, NK/NKT-related activities, NF-kappaB-related regulation) together with vesicle trafficking and antigen-processing roles (clathrin-coated vesicles, endosome-to-ER transport, MHC class Ib antigen presentation, NK cell degranulation). This suggests a functional link between immune signaling and endocytic/trafficking processes that enable antigen processing and NK-related responses. Note that some terms are marked obsolete, but the central theme remains coherent.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0048007","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0099590","count":1}]},{"hash":"171788733346790766","title":"Ubiquitin-Proteasome Regulation in Meiosis and Neural Development","description":"The cluster is enriched for ubiquitin-dependent protein catabolic processes (SCF-dependent proteasomal degradation) and meiotic/spindle assembly activities (oocyte maturation, spindle assembly in female meiosis I), suggesting regulation of protein turnover during meiosis. It also features neural development terms (substantia nigra development, neural tube closure, third ventricle development), implying a broader developmental role where ubiquitin-mediated proteolysis controls progression and differentiation. Overall, a unifying theme is protein turnover mediated by the ubiquitin\u2013proteasome system in meiosis and neurodevelopment.","confidence":"Medium","size":23,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0021762","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0007057","count":4},{"id":"GO:0008285","count":4}]},{"hash":"868091222398198226","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is enriched for ubiquitination types (K48, K11, K6), SCF- and APC/C-mediated proteolysis, ERAD, and other protein catabolic processes, indicating a common theme of ubiquitin-mediated degradation. The peroxisome import and DNA repair terms reflect ubiquitin's role in quality control and genome maintenance, and the viral process term may reflect host-pathogen interactions with ubiquitin pathways. Overall, the proteins appear to participate in ubiquitin-driven proteolysis rather than a single pathway.","confidence":"High","size":23,"edges":119,"triangles":490,"max_degree":16,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0030433","count":14},{"id":"GO:0016032","count":14},{"id":"GO:0051865","count":13},{"id":"GO:0070911","count":13},{"id":"GO:0070936","count":13}]},{"hash":"929962990760570571","title":"ER-Golgi trafficking and organelle dynamics","description":"This cluster is dominated by GO terms related to intracellular membrane trafficking (ER to Golgi, endocytic recycling, retrograde Golgi-ER transport, Golgi-to-plasma membrane transport), suggesting a common role in vesicle transport and organelle positioning. Additional terms about mitochondrial fission and distribution imply broader organelle dynamics that accompany trafficking processes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0032456","count":5},{"id":"GO:0090316","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0043001","count":5}]},{"hash":"76842361109679454","title":"Unknown","description":"The top GO terms are highly diverse, spanning pseudohyphal growth, heart and nervous system development, Rho signaling, T cell receptor signaling, amino acid starvation response, mitotic cell cycle, axon extension, nervous system development, and DNA replication. With no edges or triangles and a very mixed set of processes, there is no cohesive functional theme tying these proteins together, so a specific, representative label cannot be inferred confidently.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0031647","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0050852","count":2}]},{"hash":"609767072361535677","title":"Organogenesis and Morphogenesis","description":"This cluster\u2019s top GO terms point to organ development and tissue morphogenesis across multiple systems (kidney, palate, dorsal root ganglia, and other organs), with accompanying developmental signaling (Wnt pathway) and supporting cellular processes like cytokinesis and GTPase activity regulation. The diverse organ-specific terms suggest a broader theme of development and organogenesis rather than a single, cohesive pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0061198","count":3},{"id":"GO:0003338","count":3},{"id":"GO:0044336","count":3},{"id":"GO:0051561","count":3}]},{"hash":"620358772133956984","title":"RNA Splicing and Silencing Regulators","description":"The cluster is dominated by GO terms for mRNA splicing via the spliceosome, splice-site recognition, and alternative splicing, alongside ncRNA- and miRNA-mediated gene silencing. This suggests proteins involved in RNA processing and post-transcriptional gene regulation; a few outliers (sodium transport, viral translation termination) are less representative but do not negate the overall theme.","confidence":"High","size":23,"edges":26,"triangles":2,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0006376","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0031047","count":1}]},{"hash":"705835759092848630","title":"Cell cycle and growth signaling","description":"This cluster centers on regulatory processes that govern cell growth, division, and stress-responsive gene expression, including TORC1 signaling, cell cycle checkpoint regulation, and chromatin assembly (CENP-A), as well as cytoskeletal and signaling regulators (Arp2/3\u2013mediated actin nucleation, GTPase activity, tyrosine phosphorylation) and protein complex assembly, suggesting a cohesive theme of growth- and division-related regulation rather than a single enzymatic activity.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000601","count":9},{"id":"GO:0050731","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0051260","count":9},{"id":"GO:0007568","count":9}]},{"hash":"852196336166009826","title":"Neuronal Ubiquitin-Proteasome and Autophagy Regulation","description":"These proteins show enrichment for ubiquitin-related processes (ubiquitination, ERAD) and autophagy regulation, alongside neural development and behavior terms (axon/metencephalon development, thigmotaxis, swimming). The common thread appears to be protein quality control via ubiquitin and autophagy in neural contexts, linking these functions to neuronal development and behavior, though the terms are varied. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0001966","count":1},{"id":"GO:0036269","count":1},{"id":"GO:0061564","count":1}]},{"hash":"20723942113100143","title":"ER Stress and Protein Folding","description":"This cluster is dominated by ER-related processes: ER-to-Golgi transport, protein folding in the ER, and ER stress response, pointing to ER quality control and trafficking. While there are transcription regulation terms present, the central theme appears to be ER-associated protein processing and stress response rather than other cellular pathways.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0001713","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0034975","count":1}]},{"hash":"1985788921441990236","title":"Neural Development and Connectivity","description":"The GO terms are dominated by nervous system development processes: neural tube closure, forebrain development, axon fasciculation, and dendritic spine morphogenesis, suggesting roles in CNS formation and neuronal wiring. While a few terms relate to general cellular processes, the central theme is neural development and connectivity.","confidence":"High","size":23,"edges":38,"triangles":24,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0031468","count":3},{"id":"GO:0031134","count":3}]},{"hash":"1066279826050308532","title":"ER Stress Response and Protein Quality Control","description":"The cluster centers on ER-associated processes: protein folding in the endoplasmic reticulum, response to ER stress, and protein repair, indicating a focus on proteostasis within the ER. Additional GO terms related to transcriptional regulation by RNA Pol II and regulation of nuclear import/export suggest a linked transcriptional and nuclear trafficking response during stress. Together, these terms point to a cohesive theme of ER stress signaling coupled with protein quality control and transcriptional regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":3},{"id":"GO:0034976","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0046826","count":2}]},{"hash":"1144807613610943799","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":4},{"id":"GO:1903212","count":4},{"id":"GO:0090180","count":4},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2}]},{"hash":"922237282252215576","title":"Viral translation initiation and reinitiation","description":"The top GO terms are dominated by viral translation initiation and reinitiation (regulation of translational initiation, translation reinitiation, IRES-dependent viral initiation, and formation of the preinitiation complex). A few outlier terms (ubiquitination, cell-cycle related) are minimal and do not alter the main signal toward viral translation control.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1987903917416494618","title":"Unknown","description":"The top GO terms span diverse and seemingly unrelated processes, including mitotic orientation, autophagy, transcription, ER-Golgi trafficking, host cell entry, detoxification, hypoxia response, integrin-regulated adhesion, melanocyte apoptosis, and even behavioral fear response. This breadth suggests no single cohesive function or pathway defines the cluster, so a specific, concise label isn\u2019t justifiable. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0046718","count":1}]},{"hash":"327241958715539595","title":"Neurodevelopment and Synaptic Signaling","description":"The top terms are dominated by nervous system development (nervous system development, hippocampus development) and neuronal signaling (cellular response to dopamine, ephrin receptor signaling, Wnt signaling), along with calcium-dependent exocytosis. This combination points to proteins involved in neural development and synaptic communication rather than unrelated processes. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0033138","count":12},{"id":"GO:1903351","count":12},{"id":"GO:0043304","count":12},{"id":"GO:0048013","count":12}]},{"hash":"853576218403195785","title":"Unknown","description":"Unknown","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:0001319","count":2},{"id":"GO:0003341","count":2},{"id":"GO:0046034","count":2},{"id":"GO:0019079","count":2}]},{"hash":"939457015773145756","title":"Neuronal development and trafficking","description":"The cluster shows strong signals for brain development and neural patterning (brain development, neural tube patterning) alongside cytoskeletal organization (tubulin complex assembly) and intracellular transport processes (ER to Golgi transport, vacuole targeting). This combination suggests roles in neuronal morphogenesis and the logistics that support neuron function, including organelle dynamics (mitochondrial fission) and protein localization, with some broader cellular maintenance signals (copper homeostasis, complex localization). Confidence: Medium","confidence":"","size":22,"edges":192,"triangles":894,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0007021","count":5},{"id":"GO:0006623","count":5},{"id":"GO:0006888","count":5},{"id":"GO:2000171","count":4}]},{"hash":"1451582821033873586","title":"Meiotic Chromosome Condensation and Synaptonemal Complex","description":"The top GO terms cluster around meiotic chromosome condensation, synaptonemal complex assembly, and meiotic DNA double-strand break regulation, with supporting mitotic condensation and sister chromatid separation terms, indicating a common theme of chromosome architecture and meiotic recombination during cell division.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051306","count":2},{"id":"GO:0071230","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0007076","count":2}]},{"hash":"1609770339084717977","title":"Broad developmental and cellular processes","description":"The prominent GO terms include organ development (lung, mesoderm, substantia nigra), neural signaling (excitatory postsynaptic potential), cell cycle (G1/S transition, DNA replication), ER-Golgi trafficking, and xenobiotic response. This mix suggests the cluster covers diverse developmental programmes and essential cellular functions rather than a single pathway, hence the broad label.","confidence":"Medium","size":22,"edges":8,"triangles":0,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0030324","count":4},{"id":"GO:0000082","count":4},{"id":"GO:0030437","count":4},{"id":"GO:0021762","count":4}]},{"hash":"1016134676168971171","title":"Unknown","description":"No GO terms or shared functional annotations are reported for this cluster (Top Terms empty; no edges or connectivity), so there is no identifiable shared function to name. Without a common theme, the cluster is best labeled Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2245149967443663937","title":"Viral DNA Integration and Host Entry","description":"Based on the prominent GO terms, the cluster centers on viral genome integration, DNA replication, and proviral latency, plus entry of symbionts into host cells, suggesting a theme of viral/host genome integration and infection. Some developmental or signaling terms appear peripheral, likely reflecting broader cellular interactions rather than core function.","confidence":"Medium","size":22,"edges":20,"triangles":2,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0007498","count":3}]},{"hash":"1098416890627855153","title":"Eye development and optic nerve morphogenesis","description":"The top GO terms are centered on ocular development, especially retina vasculature development in camera-type eye and optic nerve morphogenesis, with supporting terms involving extracellular matrix remodeling and FGF receptor\u2013related signaling\u2014both common in tissue morphogenesis. A few outlier terms exist, but the dominant theme points to proteins involved in eye development and related morphogenetic signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0048544","count":1},{"id":"GO:0010715","count":1}]},{"hash":"1726745488474027160","title":"Lipoprotein and Cholesterol Metabolism","description":"The top GO terms cluster around lipoprotein biosynthesis, lipid storage, and cholesterol/ceramide/triglyceride metabolism, plus cholesterol homeostasis and remodeling of HDL particles. This pattern points to a cohesive functional theme of lipid handling and lipoprotein particle maturation, suggesting these proteins participate in lipid transport, storage, and cholesterol balance.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042158","count":4},{"id":"GO:0019915","count":4},{"id":"GO:0008203","count":4},{"id":"GO:0034435","count":4},{"id":"GO:0034638","count":4}]},{"hash":"284881832634886659","title":"Autophagy and lysosome/vacuole targeting","description":"This cluster is driven by autophagy-related GO terms, including protein localization to the phagophore assembly site, Cvt pathway, and autophagy of peroxisomes, along with lysosome/vacuole targeting processes. While a few other terms (e.g., cell cycle, transcription) appear, the autophagy/lysosome theme is the strongest and ties the proteins together as components of autophagosome formation and trafficking to lysosomes/vacuoles.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0034497","count":2},{"id":"GO:0033299","count":2},{"id":"GO:0006622","count":2}]},{"hash":"498273018228870422","title":"Organ and Tissue Development","description":"The top GO terms cluster around development and differentiation across multiple tissues and organs (epithalamus, lacrimal gland, bronchus cartilage, ureter smooth muscle, sex differentiation, megakaryocyte differentiation), with a few transcriptional/epigenetic terms appearing as minor signals. The lack of a single cohesive pathway and the diversity of tissues suggest a broad theme of organismal development rather than a specific process.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021538","count":1},{"id":"GO:0070898","count":1},{"id":"GO:0045654","count":1},{"id":"GO:0032808","count":1},{"id":"GO:0060532","count":1}]},{"hash":"307878799781641308","title":"Sphingolipid metabolism & signaling","description":"The top terms are dominated by sphingolipid-related processes (sphinganine-1-phosphate metabolic process, sphingosine metabolic process, regulation of sphingolipid mediated signaling pathway, and related lipid dephosphorylation/catabolic processes), pointing to a lipid signaling/theme. Other terms (glucose-6-phosphate transport, germ cell repulsion, Wnt-related annotations) appear less central and may reflect broader signaling contexts or annotation noise. Overall, the cluster seems best characterized by sphingolipid metabolism and signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":1},{"id":"GO:0044329","count":1},{"id":"GO:1902068","count":1},{"id":"GO:0006668","count":1},{"id":"GO:0015760","count":1}]},{"hash":"555312821277237154","title":"Ribosome Biogenesis and Cell Division","description":"The top terms cluster around translation and ribosome biogenesis (translation, cytoplasmic translation, ribosome biogenesis, tRNA modification) plus cell cycle and division processes (cell division, cell cycle, cell septum assembly), indicating a coordinated role in ribosome assembly and protein synthesis during cell division.","confidence":"High","size":21,"edges":6,"triangles":0,"max_degree":5,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0002181","count":4},{"id":"GO:1901001","count":3}]},{"hash":"1335940146472343249","title":"Retroviral integration and proviral latency","description":"The top terms center on retroviral lifecycle: DNA integration, reverse transcription (RNA-templated DNA synthesis), DNA replication and recombination, and establishment of integrated proviral latency, plus viral entry into host cells and genome integration. These indicate a cluster focused on proviral incorporation and latency with associated viral\u2013host interaction processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1903265","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3}]},{"hash":"765017136197410724","title":"Nuclear import and mitosis regulators","description":"The cluster is dominated by GO terms for nuclear import of proteins (NLS-bearing and ribosomal protein import into nucleus) and for mitosis (mitotic sister chromatid separation, cell division), suggesting a set of factors coordinating ribosome biogenesis, nuclear transport, and cell-cycle progression. Additional terms related to apoptosis, Wnt signaling, and cell migration imply broader roles in growth regulation and signaling, but the core theme centers on nuclear import coupled with mitotic control.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":5},{"id":"GO:0006610","count":4},{"id":"GO:0051306","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0008285","count":4}]},{"hash":"692777161374103224","title":"RNA splicing and translation regulation","description":"Top GO terms indicate involvement in mRNA splicing via the spliceosome (cis and alternative), formation of the translation preinitiation complex, and translation reinitiation, along with regulatory ncRNA-mediated gene silencing and stress-related mRNA stability. The common thread is RNA processing and control of translation, suggesting a network coordinating splicing and initiation/translation under stress.","confidence":"High","size":21,"edges":38,"triangles":25,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0010610","count":6}]},{"hash":"486946498077482901","title":"DNA replication and cellular stress regulation","description":"The cluster shows enrichment for DNA replication (GO:0006260) alongside multiple stress-response and apoptosis-related terms (unfolded protein response, ER stress-induced apoptotic signaling, hydrogen peroxide response, and negative regulation of apoptotic pathways), suggesting proteins that coordinate genome duplication with cellular stress control. Additional terms for post-translational targeting, cell morphogenesis, and hematopoietic stem cell differentiation imply broader regulatory roles in proliferative or differentiating contexts.","confidence":"Medium","size":21,"edges":5,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0090084","count":3},{"id":"GO:0034620","count":3},{"id":"GO:1902037","count":3},{"id":"GO:0006880","count":3}]},{"hash":"1001460324239459052","title":"Stress Response and Transcription Regulation","description":"This cluster shows enrichment for stress-related GO terms (response to heat, heat-related regulation, redox homeostasis, nitrosative stress\u2013induced apoptotic signaling) and transcriptional activity (DNA-templated transcription), with additional regulatory signals (negative regulation of protein kinase activity). A few development terms appear but are less central, so the core theme centers on stress response intertwined with transcriptional regulation.","confidence":"Medium","size":21,"edges":12,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1905259","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0010198","count":1},{"id":"GO:0009408","count":1}]},{"hash":"123257905806734091","title":"ER Stress Response and Transcriptional Regulation","description":"This cluster is enriched for cellular responses to oxidative and ER stress, including protein folding and repair in the ER, and also for transcriptional regulation by RNA polymerase II. The combination of ER quality-control processes with transcriptional modulation suggests a module of proteins that manage protein folding stress while influencing gene expression, even though there are no direct interaction edges observed in the network.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034599","count":4},{"id":"GO:0034976","count":3},{"id":"GO:0034975","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1473243596749586870","title":"Retroviral Integration and Latency","description":"The GO terms center on retroviral life-cycle steps: entry into the host cell, reverse transcription (RNA-templated DNA biosynthesis), DNA integration, DNA recombination, DNA replication, and establishment of proviral latency. These collectively point to proviral integration and latency processes, with a couple of terms (ribosomal biogenesis, siRNA processing) possibly reflecting host interactions or noise rather than core clustering signals.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":3},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2}]},{"hash":"1263470323769844826","title":"ER-Golgi trafficking and ER quality control","description":"The top GO terms cluster around ER-to-Golgi transport, retrograde Golgi-ER transport, and protein retention in the ER lumen, coupled with ubiquitin-dependent proteasomal degradation, which together point to ER quality control within the secretory pathway. Some ribosome biogenesis and transcription terms are present but appear less central; the dominant theme is ER-Golgi trafficking and protein quality control.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0031146","count":2}]},{"hash":"2090250638875412902","title":"Mitochondrial ribosome maturation and translation","description":"The cluster's most frequent GO terms center on ribosome maturation and translation (maturation of LSU-rRNA and 5.8S rRNA; GO:0006412), together with regulation of mitochondrion autophagy, implying a link to mitochondrial protein synthesis and maintenance. While a few terms touch sperm development or other processes, they are low-frequency compared to ribosome/mitochondrial signals, so the label reflects the shared function of mitochondrial ribosome biogenesis and translation.","confidence":"Medium","size":21,"edges":19,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0007288","count":1},{"id":"GO:0032608","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0050910","count":1}]},{"hash":"1720333662425215991","title":"Photosystem II Repair","description":"The top GO term is photosystem II repair, suggesting these proteins are involved in restoring PSII after photodamage in photosynthetic organisms. The cluster shows a coherent theme around PSII maintenance, but with only one GO term represented, the assignment is tentative and relies on a single functional signal plus network association.","confidence":"Medium","size":21,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010206","count":1}]},{"hash":"1578677730604732017","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0018008","count":1},{"id":"GO:0010064","count":1},{"id":"GO:0006351","count":1}]},{"hash":"279209954411527906","title":"Mitotic cell cycle regulation and ubiquitin proteolysis","description":"This cluster is dominated by GO terms related to the mitotic cell cycle and cell division (mitotic cell cycle, cell division, exit from mitosis, G2/M transition). It is additionally enriched for ubiquitin-dependent protein degradation processes (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, K11-linked ubiquitination), which are key mechanisms that control progression through mitosis. Other terms like subtelomeric heterochromatin formation and embryonic/neural development appear as background functional context but are less central to the primary theme of cell-cycle control.","confidence":"High","size":21,"edges":9,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0010458","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0050852","count":2}]},{"hash":"471992485690784263","title":"Unknown","description":"The GO terms span diverse processes (phagocytosis, JNK signaling regulation, cell polarity and shape, autophosphorylation, Golgi glycosylation, smooth muscle and adipose development, thymus and neuron morphogenesis, ER stress-related transcription) with no single coherent theme. There are no protein-protein edges, and several terms are obsolete, indicating no clear shared function linking the proteins. Thus, a reliable, unified cluster label cannot be determined.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0033578","count":2}]},{"hash":"625776770905569849","title":"Unknown","description":"No GO terms or network signals are provided (no edges, triangles, or top terms). Without a shared functional signal, there is no basis to assign a coherent label; therefore Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"721674182382385486","title":"Calcium signaling and transcription regulation","description":"The terms point to signaling processes that commonly involve calcium as a secondary messenger (stomatal closure, cellular response to calcium), with ERBB2 signaling and neuronal dendrite extension suggesting broader contexts of growth and adaptation. The presence of DNA replication and transcription terms likely reflects downstream transcriptional programs triggered by these signaling events. Taken together, the cluster centers on calcium-mediated signal transduction leading to gene expression changes across cell types.","confidence":"Medium","size":20,"edges":173,"triangles":885,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090332","count":7},{"id":"GO:0038128","count":7},{"id":"GO:0080148","count":7},{"id":"GO:1903861","count":7},{"id":"GO:0060548","count":7}]},{"hash":"1501944464228291627","title":"Ubiquitin-regulated transcriptional regulators","description":"Proteins in this cluster are enriched for DNA-templated transcription and ubiquitin-dependent turnover (K11-linked ubiquitination and ubiquitin-dependent protein catabolic process). This pattern points to transcription-related proteins whose abundance is controlled by the ubiquitin-proteasome system. A few other GO terms are less informative, but the core themes support this label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0051209","count":1}]},{"hash":"1868511747753429828","title":"Translation initiation and ribosome regulation","description":"The GO terms are dominated by ribosome-related processes and translation control: rRNA base methylation, fidelity maintenance, translation initiation and reinitiation, IRES-dependent initiation, regulation of translation, ribosome disassembly, and formation of translation preinitiation complex, with an additional related annotation to RNA Pol II preinitiation complex assembly. Together these point to a coherent function in ribosome biogenesis/assembly and regulation of protein synthesis.","confidence":"High","size":20,"edges":20,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0002188","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0002192","count":1}]},{"hash":"2197330281886682591","title":"Meiosis and recombination in gametogenesis","description":"Most of the top GO terms cluster around meiotic processes and meiotic recombination (male meiosis I; double-strand break repair in meiotic recombination; synaptonemal complex assembly; reciprocal meiotic recombination). The ovarian follicle development term also points to gamete development. A few terms appear less central (e.g., apoptotic regulation, camptothecin response, axis polarity) and may reflect broader DNA damage or developmental signals within the set. Overall, the dominant theme is meiosis and recombination in gamete formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007141","count":2},{"id":"GO:1990918","count":2},{"id":"GO:0007130","count":2},{"id":"GO:0006268","count":2},{"id":"GO:0007131","count":2}]},{"hash":"2070138517824604065","title":"Wnt signaling and dendrite development","description":"The cluster is dominated by terms tied to Wnt signaling and neural development, especially the canonical Wnt pathway, nervous system development, and positive regulation of dendritic spine formation, along with small GTPase\u2013mediated signaling that influences cytoskeletal dynamics during dendrite morphogenesis. While there are a few less-specific terms (e.g., ER stress, cell division), the recurring theme centers on Wnt-driven neural development and dendrite/spine morphogenesis.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0060070","count":5},{"id":"GO:0060999","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0034629","count":4}]},{"hash":"392587230121592884","title":"Plant metabolic catabolism and detox","description":"This cluster\u2019s GO terms are dominated by diverse catabolic processes (stilbene, uracil, triglyceride, 1,2-dichloroethane catabolism) and detoxification (cellular oxidant detoxification), with plant-specific pathways like strigolactone biosynthesis and stilbene turnover. The proteins appear linked by a shared theme of breaking down various molecules and managing oxidative stress, rather than a single precise function, hence a broad \"metabolic catabolism and detox\" label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0046839","count":1}]},{"hash":"1869614050220718494","title":"Insulin signaling and glucose uptake regulation","description":"The terms point to insulin receptor signaling and its negative regulation, including insulin receptor internalization and reduced glucose import, suggesting a core theme of controlling insulin-driven glucose uptake. Supporting terms on vesicle trafficking (COPI, lysosomal organization) and hepatocyte apoptosis hint at coordinated receptor trafficking and cellular turnover in metabolic contexts. A few terms about digit morphogenesis or dendritic spine development are less central but do not override the primary insulin/glucose regulation signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051898","count":2},{"id":"GO:0038016","count":2},{"id":"GO:0046627","count":2},{"id":"GO:0046325","count":2},{"id":"GO:0042733","count":2}]},{"hash":"1606437856577039384","title":"Unknown","description":"The top terms span ribosomal export from the nucleus, nucleolar protein localization, maltose transport, and ER organization, with no connections between them in the network. This mix hits ribosome biogenesis, localization, metabolism, and ER structure, showing no single cohesive function or pathway to define the cluster. Therefore, there is no clear representative label for this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:1904751","count":1},{"id":"GO:0015768","count":1},{"id":"GO:0007029","count":1}]},{"hash":"642131402695236802","title":"Regulated signaling and stress responses","description":"Top GO terms indicate broad regulatory roles across diverse pathways (ethanol response, autophagy, calcium and Wnt signaling, ubiquitination, transcription, and metabolism). The common thread is modulation of signaling and stress-related processes rather than a single concrete function. Therefore, the label \"Regulated signaling and stress responses\" captures this shared theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":2},{"id":"GO:0016242","count":2},{"id":"GO:0050849","count":2},{"id":"GO:0097350","count":2},{"id":"GO:0090090","count":2}]},{"hash":"104456045218650581","title":"ER Stress and Cell Cycle Regulation","description":"The top GO terms center on an ER stress response and core cell cycle processes (cell division and cell cycle), suggesting proteins involved in managing unfolded protein stress while coordinating proliferation. Additional terms point to organelle dynamics (mitochondrial fission) and RNA metabolism (pre-mRNA catabolic process) that often accompany stress responses and cell cycle progression, with some peripheral functions in junctional organization and dendrite-related regulation. Overall, the dominant theme is stress-responsive regulation of cell cycle and related cellular remodeling, hence this label with medium confidence. ","confidence":"Medium","size":20,"edges":26,"triangles":0,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903206","count":7},{"id":"GO:0034976","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0007049","count":7},{"id":"GO:2000171","count":6}]},{"hash":"34865447834707109","title":"ER stress response and proteostasis","description":"Dominant signals are ER-associated processes: ER stress response, protein folding in the ER, and redox/homeostatic detoxification, with apoptosis also represented. These terms together suggest a cluster centered on unfolded protein response and ER proteostasis, with some transcription/regulatory connections likely reflecting stress-response regulation. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0046826","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0034976","count":1},{"id":"GO:0033158","count":1}]},{"hash":"1028668001754725895","title":"Unknown","description":"The Top Terms span innate immune response, cell cycle and DNA replication, development, signaling regulation, and stress responses, with no single dominant function linking the proteins. This lack of a cohesive theme makes a concise, representative label difficult, so the cluster is best described as Unknown. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051321","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0001707","count":2}]},{"hash":"1143395592778760746","title":"Receptor Tyrosine Kinase Signaling","description":"Dominant GO terms point to receptor tyrosine kinase signaling, notably peptidyl-tyrosine autophosphorylation and FGFR-related pathways, with related developmental and differentiation processes (optic nerve morphogenesis, myeloid progenitor differentiation, ECM remodeling). Some terms are obsolete or plant-specific noise, but the core theme supports RTK signaling as the label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0038083","count":3},{"id":"GO:0048544","count":3},{"id":"GO:0010715","count":3},{"id":"GO:0021631","count":3}]},{"hash":"416917576459823521","title":"Cell cycle and RNA splicing","description":"These proteins show clear enrichment for cell cycle and cell division terms, indicating involvement in cell cycle progression. The presence of RNA processing terms (mRNA splicing via spliceosome and splice site recognition) suggests a coordinated role in transcript processing linked to cell cycle control. While other signals appear (growth factor responses, development, immune-related terms), the dominant theme aligns with cell cycle regulation coupled with RNA processing.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":2},{"id":"GO:2000766","count":1},{"id":"GO:0006376","count":1},{"id":"GO:1904628","count":1}]},{"hash":"957753187169879041","title":"Innate Immune Signaling and Ubiquitination","description":"Most top GO terms point to innate immune signaling and its regulation (innate immune response; regulation of JNK and TNF signaling; NF-\u03baB activity), as well as protein ubiquitination (K48 and K6 linked). This suggests a cluster enriched for immune signal transduction proteins modulated by ubiquitin. A few terms such as DNA replication and microtubule localization appear less central and may reflect shared cellular context rather than core function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0046328","count":3}]},{"hash":"1312835162948811136","title":"Retroviral integration and proviral latency","description":"The terms emphasize reverse transcription (RNA-templated DNA synthesis), DNA integration, genome-level proviral latency, viral entry and penetration into the host nucleus, and related host interaction signals, pointing to a retroviral life cycle cluster with proviral maintenance.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0015074","count":5},{"id":"GO:0075713","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0039651","count":4}]},{"hash":"162962963443931547","title":"Xenobiotic metabolism and oxidative stress response","description":"The top GO terms cluster around detoxification and redox balance, including xenobiotic metabolism, alkanesulfonate catabolic process, and removal of superoxide radicals, as well as a response to ethanol. Ion transport regulation is also represented (positive regulation of potassium ion transmembrane transport, ion transporter activity), suggesting a connection to membrane processes. A few terms like miRNA metabolism and memory are less directly related but may reflect broader regulatory roles. Overall, the cluster seems centered on detoxification/oxidative stress responses with ancillary ion transport regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010586","count":2},{"id":"GO:0007613","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0046306","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1137049456041242269","title":"Neural development and apoptosis","description":"The top GO terms are dominated by neuronal and glial apoptosis (neuron apoptotic process, glial cell apoptotic process) and brain development, with supporting terms for neuron projection development. This points to a coherent theme of neural development coupled with programmed cell death in neural cell types, despite some auxiliary terms related to cell cycle and chromatin assembly that are less central to the main theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051402","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0034349","count":2},{"id":"GO:0000920","count":1},{"id":"GO:1901976","count":1}]},{"hash":"461992104265377180","title":"Unknown","description":"The top GO terms cover a wide and unrelated set of functions (metabolic regulation like ethanol fermentation and thiamine biosynthesis, bile acid secretion, integument development, several hormone- and circadian-related responses, and apoptosis/angiogenesis-related terms). The lack of a single coherent biological theme linking these proteins suggests no clear cluster function can be inferred, so the label should be Unknown with no confidence.","confidence":"","size":20,"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:0071373","count":1},{"id":"GO:0090051","count":1}]},{"hash":"818521541358595690","title":"Adaptive Immune Receptor Signaling","description":"The prominent GO terms center on lymphocyte receptor signaling, including T cell receptor signaling, B cell maturation, NK T cell differentiation, and Fc receptor\u2013mediated signaling. Although a couple of terms (retinoic acid response, Wnt signaling) appear, the core theme is adaptive immune receptor signaling in lymphocytes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0071300","count":2}]},{"hash":"2172695398010306069","title":"RNA processing and post-transcriptional regulation","description":"This cluster is dominated by GO terms tied to RNA metabolism, including transcription termination of RNA Pol II, mRNA splicing via the spliceosome, and positive regulation of splicing, along with P-body assembly, tRNA processing, and rRNA maturation, pointing to a coherent role in RNA processing and post-transcriptional control.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":10},{"id":"GO:0045292","count":9},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:1901407","count":7}]},{"hash":"78202861707428537","title":"Retinoid and lipid pigment biosynthesis","description":"Top GO terms cluster around retinoid metabolism (retinol, retinal, retinoic acid biosynthesis) and lipid-related processes (very long-chain fatty acid biosynthesis, phylloquinone catabolic, sphinganine metabolism), with melanin biosynthesis also present. This suggests a coherent theme focused on retinoid signaling and lipid/pigment biosynthesis, despite a few outlier terms like lipopolysaccharide biosynthesis and lung development that may reflect broader annotations. Confidence: Medium","confidence":"Medium","size":19,"edges":45,"triangles":42,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":7},{"id":"GO:0042574","count":7},{"id":"GO:0042572","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0042376","count":6}]},{"hash":"491988416350955807","title":"Ribosome Biogenesis and Translation","description":"The top GO terms emphasize translation, ribosome biogenesis, ribosomal subunit assembly, and maturation of rRNA, plus nucleologenesis, all pointing to ribosome production and function. Some transcription-related terms are present because rRNA and tRNA genes are transcribed by RNA polymerases II and III, which are prerequisites for ribosome assembly. Overall, the cluster appears to group proteins involved in ribosome biogenesis and protein synthesis.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0015968","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0006415","count":1}]},{"hash":"1407346488828904447","title":"Viral entry and proviral latency","description":"The most frequent terms point to viral life-cycle processes: symbiont entry into host cell, DNA integration, and establishment of integrated proviral latency, with additional links to cell cycle. Some translation-related terms may reflect host machinery manipulated during infection, but the dominant theme is viral entry and proviral latency.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3}]},{"hash":"2282763481349330970","title":"Developmental Signaling and Cytoskeletal Remodeling","description":"The terms converge on signaling regulation (GTPase activity, kinase activity, tyrosine phosphorylation, autophosphorylation), development (skin and multicellular organism development), cell cycle, and actin remodeling (Arp2/3-mediated nucleation), plus supporting processes like mRNA transport and hypoxic response\u2014together pointing to a cluster of proteins coordinating signaling, growth, and cytoskeletal dynamics during development.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":12},{"id":"GO:0071902","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0043588","count":11},{"id":"GO:0031954","count":11}]},{"hash":"1137303965854005616","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":31,"triangles":7,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0006310","count":8},{"id":"GO:0018144","count":8},{"id":"GO:0035640","count":6},{"id":"GO:0048026","count":6}]},{"hash":"1412091295577170968","title":"Vacuolar transport and ion homeostasis","description":"The top GO terms cluster around vacuole-related processes (protein targeting to vacuole, vacuole organization, vacuolar acidification) and membrane/ion transport (sodium and proton transmembrane transport, proton-driven ATP synthesis) as well as copper ion homeostasis. Translation is present but appears less central, so the core signal points to vacuolar function coupled to ion homeostasis and energy-related transport.","confidence":"Medium","size":19,"edges":107,"triangles":305,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":3},{"id":"GO:0006623","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0006626","count":2}]},{"hash":"1057886760767904548","title":"RNA transcription machinery and ribosome biogenesis","description":"The cluster is dominated by transcription-related GO terms across RNA polymerases I, II, and III, including initiation, elongation, termination, and preinitiation complex assembly, with a secondary connection to ribosome biogenesis (and a minor oxidative stress signal).","confidence":"High","size":19,"edges":63,"triangles":141,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0006283","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0042797","count":2}]},{"hash":"534429531204926069","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0007059","count":2},{"id":"GO:0006313","count":2}]},{"hash":"698126690192007035","title":"Negative regulation of kinase signaling and cell cycle","description":"Proteins here are rich in phosphatase-related activity (peptidyl-tyrosine dephosphorylation) and in names of pathways that suppress kinase signaling: ERK/MAPK cascades, CDK activity, and PI3K/AKT signaling. This is paired with cell cycle-related terms (cell cycle, kinetochore localization) and synaptic organization terms (postsynaptic density assembly, synaptic vesicle clustering), suggesting a role in coordinating cell division signals with broader signaling and synaptic regulation through phosphatase activity. Overall, the cluster centers on dampening key kinase pathways and regulating cell cycle and related processes.","confidence":"Medium","size":19,"edges":123,"triangles":366,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":10},{"id":"GO:0007049","count":7},{"id":"GO:0045736","count":5},{"id":"GO:0034501","count":5},{"id":"GO:2000808","count":5}]},{"hash":"646073566557377354","title":"Arterial lipid transport and cholesterol metabolism","description":"The cluster is dominated by terms related to lipid handling\u2014lipoprotein transport/catabolism, triglyceride and acylglycerol processing, cholesterol biosynthesis regulation, and LDL clearance\u2014along with artery morphogenesis and foam cell differentiation, indicating a vascular lipid metabolism module.","confidence":"High","size":19,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":9},{"id":"GO:0033344","count":9},{"id":"GO:0034196","count":9},{"id":"GO:0010744","count":9},{"id":"GO:0042953","count":9}]},{"hash":"820457182288830668","title":"Organogenesis and tissue remodeling signaling","description":"The top GO terms cluster around developmental morphogenesis and remodeling across tissues (neural precursor proliferation, intramembranous ossification, branching morphogenesis in lung, basement membrane disassembly, decidualization) and associated signaling (Wnt pathway, thyroid hormone response) plus related processes like bradykinin catabolic activity. This suggests a cohesive theme of organogenesis and extracellular matrix remodeling with endocrine and immune context, rather than a single tissue-specific function. ","confidence":"Medium","size":19,"edges":163,"triangles":849,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:2000179","count":18},{"id":"GO:0001957","count":17},{"id":"GO:0097067","count":17},{"id":"GO:0046697","count":17},{"id":"GO:0010815","count":17}]},{"hash":"1458774294126053765","title":"Chromatin regulation and DNA damage response","description":"The top GO terms cluster around chromatin-related processes (nucleosome assembly, histone H2B deubiquitination, ubiquitin chain regulation) and genome maintenance (DNA repair, telomere maintenance), signaling a cohesive theme of chromatin remodeling and DNA damage response; some terms (like cytokinin signaling) may reflect broader or context-specific roles or outliers, but the core appears to be chromatin regulation linked to genome stability.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903070","count":2},{"id":"GO:0009736","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0006281","count":1}]},{"hash":"1602371801521159055","title":"Autophagy and Lysosome Targeting","description":"The top GO terms are dominated by autophagy- and lysosome-related processes: localization to phagophore assembly sites, protein targeting to lysosome, Cvt pathway, and autophagy of peroxisomes, suggesting a module focused on autophagy-lysosome trafficking and cargo delivery. A few splicing and ncRNA-related terms appear, but they are not enough to redefine the cluster; the dominant signal points to autophagy/lysosome function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034497","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0006622","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0030242","count":1}]},{"hash":"954748380214561661","title":"Ubiquitin-Proteasome Regulation and Transcription Control","description":"The cluster contains GO terms centered on ubiquitin-dependent protein catabolism (SCF-dependent proteasomal degradation and polyubiquitination) alongside transcription and translation regulation (DNA-templated transcription, transcriptional regulation by RNAP II, translation initiation/reinitiation). The inclusion of stress-related terms (cadmium response) suggests a cohesive theme of regulated protein turnover with coordinated control of gene expression under stress. Overall, a plausible label is a focus on ubiquitin-proteasome\u2013driven regulation of transcription/translation and stress response.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0000209","count":2}]},{"hash":"2030650380849073230","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006295","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006296","count":1},{"id":"GO:0070911","count":1},{"id":"GO:0006294","count":1}]},{"hash":"848316672126224653","title":"Unknown","description":"The top GO terms are highly diverse, spanning translation initiation, chromatin assembly, bone and brain development, reproduction, immune defense, growth, and nutrient response, indicating no single coherent function ties the cluster together. This suggests heterogeneous roles or annotation noise, so a safe label is Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0061641","count":2}]},{"hash":"130016039151663978","title":"Unknown","description":"The top GO terms come from adhesion, GTPase signaling, nuclear import, development identity, organelle inheritance, mitosis, and apoptosis signaling\u2014covering diverse cellular processes with no single unifying function. There isn\u2019t a coherent theme tying these proteins together, so the cluster is best labeled Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034333","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0048496","count":2},{"id":"GO:0000011","count":2}]},{"hash":"1261657118885442383","title":"Viral integration and host interaction","description":"This cluster is dominated by GO terms linking DNA integration, establishment of proviral latency, and symbiont/viral entry into host cells, pointing to a common theme of virus\u2013host genome interaction and infection processes. A few metabolic terms (glycolytic fermentation to ethanol, thiamine biosynthesis) appear less cohesive with this theme, likely representing broader cellular metabolism annotations. Overall, the strongest signal is viral genome integration and latency.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":3},{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:0007527","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1478254656283357502","title":"Developmental Signaling and Neuronal Differentiation","description":"The cluster includes terms tied to neural development and synaptic plasticity (positive regulation of long-term neuronal synaptic plasticity, CNS projection neuron axonogenesis) and to broader developmental processes (Hedgehog signaling regulation, morphogenesis in nephric duct, skeletal muscle differentiation, circadian rhythm regulation, sprouting angiogenesis). This suggests a theme of developmental signaling and differentiation across tissues, with DNA transposition as a minor outlier. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0048170","count":1},{"id":"GO:0021952","count":1},{"id":"GO:0045880","count":1}]},{"hash":"1648619954861133323","title":"Chromatin Organization and Histone Modification","description":"This cluster is dominated by GO terms related to chromatin organization, chromatin assembly, heterochromatin formation (including subtelomeric regions and silent mating-type loci), and histone modifications (ubiquitination, acetylation, exchange), plus transcription elongation regulation, pointing to chromatin dynamics and gene expression control.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031567","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0033523","count":1},{"id":"GO:0006336","count":1},{"id":"GO:0030466","count":1}]},{"hash":"885143429735679473","title":"Cell cycle and chromatin regulation","description":"The cluster is enriched for terms tied to cell division, cell cycle, and DNA-templated transcription, plus CENP-A\u2013containing chromatin assembly and TORC1 signaling, pointing to roles in cell-cycle progression and chromatin maintenance. Supporting features like RNA methylation and stress-related mRNA export align with coordinated gene expression control during growth and division, reinforcing a cohesive cell-cycle\u2013chromatin theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0036265","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1425856813098204729","title":"Neural development and synaptic vesicle regulation","description":"The cluster is dominated by neural-specific terms (brain development, nervous system development, neural tube patterning, hippocampus development) and by synaptic function (regulation of synaptic vesicle exocytosis, neuron apoptotic process), indicating proteins involved in neural development and synaptic activity. An outlier term such as kidney development is present but does not undermine the neural-centered theme.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0031384","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0010796","count":4}]},{"hash":"2151213819317246803","title":"Immune regulation and lipid remodeling","description":"The top GO terms indicate T cell regulation (AICD suppression, IL-2 production) alongside lipid metabolism/remodeling (platelet activating factor biosynthesis, phosphatidylcholine and cardiolipin remodeling, triglyceride biosynthesis) and mitochondrial ATP synthesis. This suggests a functional cluster where immune signaling is linked to lipid biosynthesis/remodeling, with energy metabolism supporting activation states. Some terms like glandular epithelial maturation and cutin biosynthesis are less directly connected, but the dominant signal points to immune control coupled with lipid remodeling.","confidence":"Medium","size":18,"edges":21,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070236","count":4},{"id":"GO:0006663","count":4},{"id":"GO:0002071","count":4},{"id":"GO:0070970","count":4},{"id":"GO:0042775","count":4}]},{"hash":"1425641020832942899","title":"Unknown","description":"The top GO terms describe a broad and diverse set of cellular processes (nuclear export of ribosomal subunits, RNA metabolism, mitochondrial dynamics, epithelial junctions/EMT signaling, Cdc42 signaling, dendrite regulation, and hormone response) with no clear, single functional theme binding the cluster. Given the heterogeneity and lack of a cohesive biological process, a concise, representative label is not evident.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:2000171","count":3},{"id":"GO:0039694","count":3},{"id":"GO:0043297","count":3},{"id":"GO:0000266","count":3}]},{"hash":"369710049840338920","title":"ER proteostasis and transcription regulation","description":"The GO terms cluster around endoplasmic reticulum\u2013related processes (ER stress response, protein folding in the ER, protein repair) and transcriptional control by RNA polymerase II (including negative regulation), with an ancillary redox homeostasis term and a note on nuclear transport regulation. This points to a set of proteins involved in ER proteostasis and coordinated transcriptional regulation, suggesting a proteostasis-transcription module. ","confidence":"Medium","size":18,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034976","count":1},{"id":"GO:0034975","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0046826","count":1}]},{"hash":"980277075243084791","title":"Splicing and Exocytosis","description":"This cluster shows a pairing of RNA processing signals (mRNA splicing via spliceosome; spliceosomal snRNP assembly) with secretion-related signals (vesicle docking in exocytosis; peptide pheromone export). While there are also unrelated terms like cell cycle and ion transport, the strongest recurring themes point to RNA maturation and intracellular trafficking/exocytosis, suggesting a combined role in RNA processing and vesicle-mediated secretion. Confidence: Low","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:2000825","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0000387","count":1}]},{"hash":"643243715898574991","title":"Phosphorylation and Calcium Signaling Regulation","description":"The top GO terms show positive regulation of serine/threonine kinase activity, autophosphorylation, GTPase activity, and cellular responses to calcium, pointing to a cluster enriched in signaling regulation via phosphorylation and calcium-mediated pathways. Some terms (DNA binding, bioluminescence, development) are peripheral, but the dominant theme is modulation of signaling cascades through phosphorylation with calcium involvement.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071902","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0071277","count":3},{"id":"GO:1903244","count":2}]},{"hash":"454966862051651772","title":"Epigenetic histone modification in T cells","description":"The top GO terms strongly point to chromatin regulation and histone modifications (H3-K4 methylation/demethylation, acetylation) with an immune-cell context (thymocyte migration, peripheral T cell tolerance). Despite some obsolete terms and no network edges, the central theme is epigenetic control of gene expression in T-cell related processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032602","count":1},{"id":"GO:1901097","count":1},{"id":"GO:0061188","count":1},{"id":"GO:2000410","count":1},{"id":"GO:0043972","count":1}]},{"hash":"1028724771416494460","title":"Diverse Plant Metabolite Biosynthesis and Catabolism","description":"The top GO terms show both biosynthetic (strigolactone, alkaloids) and catabolic (chlorophyll, stilbenes, beta-ketoadipate, uracil) processes across various plant metabolites, indicating a broad metabolism-focused cluster rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901601","count":1},{"id":"GO:0009820","count":1},{"id":"GO:0015996","count":1},{"id":"GO:0046839","count":1},{"id":"GO:0097755","count":1}]},{"hash":"120991642287357741","title":"RNA and protein methylation","description":"The GO terms show a strong enrichment for various methylation-related modifications across RNA (rRNA, rRNA/tRNA/mRNA cap) and proteins (histone, arginine, N-terminal, and peptidyl methylation), suggesting a cohesive theme of methylation-based modification rather than a single pathway. A few terms like cell growth or nodulation appear incidental.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000154","count":1},{"id":"GO:0043985","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0016049","count":1},{"id":"GO:0002098","count":1}]},{"hash":"266770432250254429","title":"Growth Factor RTK Signaling in Development","description":"This cluster centers on tyrosine kinase receptor signaling (peptidyl-tyrosine autophosphorylation and FGFR-related pathways) with links to neural development (optic nerve morphogenesis) and hematopoietic/differentiation processes, suggesting a cohesive theme of RTK-driven developmental signaling; some terms are obsolete or peripheral, so the connection is moderate in strength.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":7},{"id":"GO:0038083","count":7},{"id":"GO:0048544","count":7},{"id":"GO:0010715","count":7},{"id":"GO:0021631","count":7}]},{"hash":"115362126864890788","title":"Unknown","description":"The annotated terms show a mix of chromatin modification (histone acetylation/methylation), ribosome biogenesis, several signaling/developmental processes (Toll signaling, axonogenesis, floral organ development) and mitochondrial-related terms. The absence of a clear, cohesive functional theme and the presence of obsolete GO entries imply that these proteins do not share a single dominant function, hence the label Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000620","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007409","count":1}]},{"hash":"595529086781487812","title":"Developmental Morphogenesis and Signaling","description":"This cluster shows a mix of terms tied to development and morphogenesis (thymus development, adipose tissue development, smooth muscle cell migration, neuron projection morphogenesis, cell polarity/shape maintenance) along with signaling-related processes (regulation of JNK cascade, peptidyl-tyrosine autophosphorylation) and phagocytosis. The common thread is proteins involved in shaping cell behavior during development and signaling, though no single function dominates, making the label representative but moderately supported.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0071963","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0033578","count":1}]},{"hash":"1440642372871418763","title":"Membrane Transport of Small Molecules","description":"This cluster is dominated by GO terms involving transport across membranes for diverse substrates: fatty acids (long-chain fatty acid import into peroxisome, fatty acid transmembrane transport), carbohydrate transport, xenobiotic transmembrane transport, oligopeptide export from mitochondrion, and peptide pheromone export. While a couple of terms pertain to transcription or protein modification, the shared theme is membrane-associated transport, pointing to a transport-focused cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0050843","count":1},{"id":"GO:0017183","count":1},{"id":"GO:0000770","count":1},{"id":"GO:1902001","count":1}]},{"hash":"1614801197686311635","title":"Ribosome biogenesis and translation with TOR signaling","description":"Core terms point to ribosome biogenesis and translation, including maturation of SSU-rRNA, indicating a nucleolar ribosome production and protein-synthesis focus. TOR signaling links this machinery to growth regulation, which aligns with developmental terms like gastrulation, placenta development, oogenesis, erythrocyte development, and T cell differentiation, reflecting growth- and differentiation-related contexts. Together, these proteins appear to cluster around ribosome assembly and protein synthesis governed by growth signaling. ","confidence":"High","size":17,"edges":108,"triangles":380,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":5},{"id":"GO:0007369","count":4},{"id":"GO:0001890","count":3}]},{"hash":"1197645517461960058","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is driven by GO terms for ubiquitination and ubiquitin-dependent proteolysis (including K48-linked ubiquitination and the ERAD pathway), pointing to a shared role in tagging proteins for proteasomal degradation. While a few terms relate to chromatin and DNA processes (e.g., histone catabolic process, DNA recombination), the dominant theme is ubiquitin-mediated protein degradation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0070936","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0036205","count":3}]},{"hash":"1202233075375155108","title":"ER-Golgi Trafficking","description":"The top GO terms point to endoplasmic reticulum to Golgi vesicle transport and Golgi ribbon formation, indicating a secretory pathway/ Golgi organization theme for this cluster. The other terms (chromatin organization, collagen catabolic process, etc.) are singletons and do not form a cohesive alternative function, suggesting some annotation noise but a primary association with ER-to-Golgi trafficking.","confidence":"Medium","size":17,"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:0034724","count":1},{"id":"GO:0010815","count":1},{"id":"GO:0034396","count":1}]},{"hash":"1538710092626329401","title":"Neural Deubiquitination and Ubiquitin Regulation","description":"The top GO terms are dominated by deubiquitination activities across several ubiquitin linkages and the negative regulation of ubiquitin ligase activity, pointing to a cohesive function in processing and regulating ubiquitin signals. The presence of CNS morphogenesis, nuclear cortical migration, and behavioral fear response suggests these ubiquitin-modifying proteins operate in neural development and behavior contexts. Therefore, the cluster name reflects a core theme of ubiquitin processing with neural-context implications.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035616","count":1},{"id":"GO:0010995","count":1},{"id":"GO:0044313","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0035192","count":1}]},{"hash":"1538565801387776685","title":"Cell Cycle Regulation and DNA Dynamics","description":"The top GO terms are dominated by cell division and cell cycle (GO:0051301, GO:0007049) with multiple annotations, supported by related DNA transactions (DNA transposition, DNA integration) and chromosome segregation, plus protein turnover and transcription regulation that tie into cell-cycle control. A few outlier terms about proviral latency and symbiont entry exist but do not redefine the core theme, which centers on cell-cycle processes and genome/s DNA dynamics.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006511","count":2}]},{"hash":"1189560598776811396","title":"Cell Cycle and RNA Processing Regulation","description":"The terms cluster around nuclear processes (mRNA splicing, mRNA export in heat response, CENP-A chromatin assembly, APC-dependent catabolic processes) and cell-cycle control (checkpoint regulation, TORC1 signaling), with additional links to cytoskeletal regulation and signaling. This suggests a theme of coordinated regulation of growth, division, and gene expression, rather than a single specific pathway, justifying a label focused on cell cycle and RNA processing regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0034316","count":7},{"id":"GO:0000920","count":6},{"id":"GO:1901976","count":6},{"id":"GO:2000728","count":6}]},{"hash":"964580380180854347","title":"Golgi trafficking and SNARE-mediated synaptic transport","description":"This cluster is dominated by terms related to Golgi apparatus functions (ribbon formation, intra-Golgi and ER-to-Golgi transport, and Golgi-to-vacuole transport) and SNARE-mediated membrane fusion, plus neuronal synaptic components (exocytic insertion of receptors and long-term potentiation). Together, these terms point to a common theme of Golgi-directed vesicle trafficking and SNARE-driven membrane fusion involved in synaptic receptor trafficking.","confidence":"High","size":17,"edges":62,"triangles":31,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0090161","count":8},{"id":"GO:0006891","count":6},{"id":"GO:0042147","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0048280","count":6}]},{"hash":"1691312595104396547","title":"Unknown","description":"There are no GO terms provided in Top Terms to infer a shared function, so I cannot assign a meaningful label. The cluster shows moderate density (36 edges, 15 triangles, max degree 12) among 17 proteins, but without functional signals a precise theme can't be determined.","confidence":"","size":17,"edges":36,"triangles":15,"max_degree":12,"top_function":null,"top_go_terms":[]},{"hash":"1352930108966366736","title":"Heat and Redox Stress Response","description":"The top GO terms include \"response to heat\" and \"cell redox homeostasis,\" suggesting the proteins are enriched for managing heat stress and redox balance. While other terms touch on development, Fe-S maturation, and energy use, the strongest and most cohesive signal is stress response and redox regulation.","confidence":"Medium","size":17,"edges":67,"triangles":105,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0010198","count":2},{"id":"GO:0009408","count":2},{"id":"GO:1905259","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1003864410957689950","title":"Mitochondrial regulation of neuronal synapses","description":"The terms cluster around mitochondrial processes (distribution, depolarization regulation, targeting to mitochondria) and synaptic/neural functions (postsynaptic potential regulation, vesicle endocytosis, dopamine response), suggesting a theme of mitochondria coordinating neuronal synaptic activity.","confidence":"High","size":17,"edges":12,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903215","count":11},{"id":"GO:0034629","count":11},{"id":"GO:0090394","count":11},{"id":"GO:0035641","count":11},{"id":"GO:0051900","count":11}]},{"hash":"830464857278078188","title":"Unknown","description":"The terms include antibiotic biosynthesis, phosphinothricin biosynthesis, cholesterol and vitamin E biosynthesis, plus transcription regulation and immune-related processes, with no clear single function linking all proteins. This lack of a cohesive theme suggests no reliable, specific cluster label can be assigned.","confidence":"","size":17,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0006351","count":1},{"id":"GO:1901766","count":1},{"id":"GO:0031342","count":1},{"id":"GO:0006355","count":1}]},{"hash":"1654071271259026708","title":"Unknown","description":"The GO terms span diverse biological processes from development to hormone signaling and immune regulation, with no clear common function or interaction linking the proteins, so a coherent, specific label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045035","count":1},{"id":"GO:0009903","count":1},{"id":"GO:0031022","count":1},{"id":"GO:1902265","count":1},{"id":"GO:0055123","count":1}]},{"hash":"1268312795700473449","title":"Mitotic cell cycle and chromatin assembly","description":"The top terms are dominated by mitosis-related processes: mitotic cell cycle, microtubule-based movement, APC-dependent catabolic process, CENP-A\u2013containing chromatin assembly, and cytokinesis-related activities. This indicates the cluster principally comprises proteins involved in cell division and chromosome dynamics. Less central terms (TORC1 signaling, heat-stress\u2013responsive mRNA export, GPCR signaling) likely reflect regulatory cross-talk rather than the core function. Confidence in this functional label is High.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0000920","count":3},{"id":"GO:1901976","count":3},{"id":"GO:2000728","count":3}]},{"hash":"2051268677279012817","title":"Steroid hormone signaling in prostate development","description":"The top GO terms point to male sex differentiation, prostate gland development, and steroid hormone receptor complex assembly, suggesting a cohesive theme of androgen/steroid signaling and transcriptional regulation in male reproductive tissues. Some terms (e.g., interferon response) are less connected, but the dominant pattern supports this functional link.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":2},{"id":"GO:0071357","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0006463","count":2},{"id":"GO:0030850","count":2}]},{"hash":"1472361817118320614","title":"Unknown","description":"The terms are spread across innate immune response, RNA splicing, ubiquitin/ERAD pathways, protein folding, and photoreceptor localization, with no single dominant function. This lack of a cohesive theme suggests no reliable, specific label can capture the cluster\u2019s biology, 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:0045087","count":2},{"id":"GO:0000398","count":1},{"id":"GO:1903071","count":1},{"id":"GO:1903546","count":1},{"id":"GO:0035955","count":1}]},{"hash":"219945689911010359","title":"Unknown","description":"There are no GO terms listed for this cluster (Top Terms are empty) and the network has 0 edges, 0 triangles, and max degree 0, making it impossible to infer a shared function or theme. Labeling as Unknown reflects the lack of detectable functional signal.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1724585100975313537","title":"Unknown","description":"There are no GO terms or interaction data to reveal a common function among the 17 proteins, and with no edges or triangles, a cohesive theme cannot be inferred. The ReCIPE re-addition note does not provide a functional connection to group them, so a specific label cannot be confidently assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1965286132035495294","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0008284","count":2}]},{"hash":"1176057474570577884","title":"DNA transposition and proviral integration","description":"The top terms are all about moving or integrating DNA (DNA integration, DNA transposition, proviral latency) and related genome dynamics (chromosome segregation, cell cycle, cell division). This points to proteins involved with transposable elements, integrases, or genome remodeling processes that facilitate DNA movement and integration, with other terms representing more general cellular processes as background. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0007059","count":1},{"id":"GO:0006313","count":1}]},{"hash":"664892445465836934","title":"Developmental morphogenesis and tissue remodeling","description":"This cluster is enriched for terms tied to development and organogenesis, including intramembranous ossification, lung branching morphogenesis, decidualization, and neural precursor cell proliferation, as well as basement membrane disassembly and hormone-responsive signaling. The broad mix points to developmental remodeling of tissues, with hormonal and inflammatory regulation contributing to these processes. A minority of terms (e.g., T cell\u2013mediated cytotoxicity) are immune-related but do not dominate the theme. Overall, the cluster likely reflects developmental morphogenesis and extracellular matrix remodeling programs.","confidence":"Medium","size":17,"edges":98,"triangles":319,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":6},{"id":"GO:0097067","count":6},{"id":"GO:0046697","count":6},{"id":"GO:0010815","count":6},{"id":"GO:0035593","count":6}]},{"hash":"749035006423706321","title":"Glycan biosynthesis and sugar metabolism","description":"The top GO terms point to glycan production (GDP-mannose, LPS, O-antigen, glycogen biosynthesis) and sugar catabolism (galactose, guanosine, inosine), with cell wall organization also represented, indicating a cluster focused on polysaccharide biosynthesis and general carbohydrate metabolism, likely related to cell envelope assembly. An outlier term (detection of gravity) is present but does not drive the main theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":4},{"id":"GO:0009298","count":3},{"id":"GO:0019388","count":3},{"id":"GO:0009590","count":3},{"id":"GO:0009103","count":3}]},{"hash":"303494421493218560","title":"Membrane Ion Transport and Proton-Motive ATP Synthesis","description":"The cluster shows two related membrane-associated processes: sodium ion transport and ATP synthesis driven by the proton motive force at the plasma membrane. This points to proteins involved in maintaining ion gradients and energy conversion at the membrane, such as components of proton-driven ATP synthase or membrane transporters in bacteria.","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":1},{"id":"GO:0042777","count":1}]},{"hash":"2284715149033330170","title":"Potassium Ion Transport and Homeostasis","description":"The top GO terms point to potassium biology\u2014intracellular potassium ion homeostasis and potassium ion transmembrane transport\u2014suggesting a cluster centered on potassium handling. An obsolete rubidium transport term and a single viral replication complex term appear as weak or artifact signals, and the lack of edges indicates the cluster\u2019s functional linkage is inferred from annotations rather than network connectivity. Overall, the dominant signal is potassium ion transport/homeostasis.","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046786","count":1},{"id":"GO:0030007","count":1},{"id":"GO:0035826","count":1},{"id":"GO:0071805","count":1}]},{"hash":"633338502293554209","title":"Unknown","description":"The GO terms span diverse developmental processes (caudal fin, notochord, metanephros, fungiform papilla formation) and cellular energy/signaling roles (proton transport, vacuolar acidification, mitochondrial calcium regulation, Wnt-related signaling) with no single cohesive function tying all proteins together, so a specific label is not apparent.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":2},{"id":"GO:0033336","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0042777","count":1},{"id":"GO:0060036","count":1}]},{"hash":"184950584214854257","title":"DNA Transposition and Transcription Regulation","description":"The cluster is dominated by DNA-focused GO terms\u2014DNA transposition, DNA-templated transcription, DNA integration, and regulation of DNA-templated transcription\u2014pointing to proteins involved in genome mobility and transcription control. Minor terms such as cilium motility, feeding behavior, and polyglutamylation are present but do not define the main function of the cluster.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1272808303731070158","title":"Retroviral integration and latency","description":"This cluster includes GO terms for DNA integration, RNA-templated DNA biosynthetic process (reverse transcription), proviral latency, viral entry and nuclear penetration, DNA replication, and recombination, all central to the retroviral life cycle. The combination points to viral genome integration into host DNA and latency establishment, with additional hints of virus\u2013host interactions affecting apoptosis. ","confidence":"High","size":16,"edges":77,"triangles":160,"max_degree":14,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0039651","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0006260","count":4}]},{"hash":"305598564314097038","title":"Deubiquitination and transcription regulation","description":"The cluster features GO terms for deubiquitination (K6/K29), ERAD-related unfolded protein maintenance, N-terminal acetylation, and transcription initiation/regulation, suggesting a theme of protein quality control coupled with gene expression regulation. Some developmental and IL-6 terms are present but less defining.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0044313","count":3},{"id":"GO:0035523","count":3},{"id":"GO:1904378","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0007141","count":2}]},{"hash":"1353218565782611391","title":"RNA splicing regulation and mRNA export","description":"The most represented GO terms center on mRNA splicing and spliceosome activity (positive regulation of mRNA splicing via spliceosome, mRNA splice site recognition, alternative splicing via spliceosome, cis splicing via spliceosome) and mRNA export from the nucleus, indicating a core RNA processing module. Regulatory ncRNA-mediated gene silencing also fits within RNA-level regulation. Some developmental terms appear as secondary associations but do not define the primary function. Overall, this cluster reflects splicing regulation and mRNA processing/export.","confidence":"High","size":16,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0006311","count":2}]},{"hash":"622184465223973019","title":"Angiogenesis and Endothelial Migration","description":"The dominant GO terms are angiogenesis and regulation of blood vessel endothelial cell migration, indicating a vascular development theme. Supporting signaling terms (ERK cascade, PI3K signaling) align with angiogenic signaling, suggesting the proteins function together in vascular development, though a few unrelated terms may reflect broader signaling roles or annotation noise.","confidence":"Medium","size":16,"edges":57,"triangles":80,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0045766","count":3},{"id":"GO:0043536","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0060291","count":3}]},{"hash":"1319800718615064960","title":"Unknown","description":"Top GO terms span vascular development, neuronal plasticity, transcription/translation control, nuclear export, stress and DNA damage responses, growth, and cell cycle processes. This broad mix lacks a single cohesive shared function, making it difficult to assign a specific biological theme to the cluster beyond being a heterogeneous set of proteins with diverse roles.","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043536","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1532345835154638977","title":"Unknown","description":"No shared GO terms or interaction signals are reported for this cluster (Edges 0, Triangles 0, Top Terms empty). Without a unifying function, the appropriate label is Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"535511125770543270","title":"Nuclear RNA processing and transcription regulation","description":"The terms suggest a core theme around nuclear RNA processing and transcription regulation, with items like nuclear mRNA surveillance, positive regulation of mRNA binding, and post-transcriptional tethering of RNA Pol II to the nuclear periphery. Additional terms on ufmylation/deneddylation and signaling (I-kappaB phosphorylation) may reflect broader regulatory layers, but the RNA-focused terms provide a coherent cluster theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:1990592","count":1},{"id":"GO:1905552","count":1},{"id":"GO:1903721","count":1},{"id":"GO:0000338","count":1}]},{"hash":"1923744916712522912","title":"Unknown","description":"GO terms span metabolism, transcription, mitosis, cytokinesis, and vesicle trafficking with several obsolete annotations, showing no single cohesive function across the cluster. This mix makes it impossible to assign a precise, representative label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0009301","count":1},{"id":"GO:0070940","count":1}]},{"hash":"1712144205583718127","title":"Neural crest development and transcriptional regulation","description":"The top terms cluster around developmental processes, especially neural crest\u2013related events (neural crest cell migration, enteric nervous system development, optic fissure closure) and broader tissue development (uterus development). Coupled with signals like Rho and TGF-beta and transcriptional regulation (DNA-templated transcription, regulation), this suggests a group of proteins coordinating development through transcriptional control and signaling pathways that guide neural crest\u2013driven morphogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0061386","count":2}]},{"hash":"2215024311755299482","title":"Spliceosome-Mediated mRNA Splicing and ncRNA Silencing","description":"The cluster\u2019s GO terms center on mRNA splicing and spliceosome activity (splice site recognition, cis and alternative splicing) as well as ncRNA- and miRNA-mediated gene silencing, suggesting proteins involved in post-transcriptional RNA processing and RNA silencing pathways.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1}]},{"hash":"265487998362703770","title":"RNA processing and translation regulation","description":"This cluster prominently features RNA metabolism and translation control terms (DNA-templated transcription, regulation of translation, LSU-rRNA maturation, translation, and mRNA processing) along with ubiquitin-related deubiquitination signals, suggesting regulation of RNA-associated processes and protein turnover; a CNS morphogenesis term appears peripheral but does not define the core theme. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006417","count":1},{"id":"GO:0000470","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0006397","count":1}]},{"hash":"625397978978550910","title":"Unknown","description":"The cluster lacks any GO term annotations in the provided Top Terms, so there is no clear functional theme to label. Despite substantial connectivity, without enrichment signals we cannot assign a representative function beyond Unknown; additional GO or pathway data would be needed.","confidence":"","size":16,"edges":118,"triangles":532,"max_degree":15,"top_function":null,"top_go_terms":[]},{"hash":"1429954424105589541","title":"Cell Cycle Progression and DNA Replication","description":"This cluster centers on core cell cycle machinery and DNA replication. GO terms show G1/S and G2/M transitions, mitotic cell cycle, DNA replication, and chromosome condensation, plus spindle separation regulation. The presence of transcription-related terms supports coordinated expression for S phase entry. Growth signals like insulin signaling and mammary epithelial proliferation reflect upstream cues that promote proliferation, but the dominant theme is cell cycle control and replication.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0046626","count":8},{"id":"GO:0033598","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0000082","count":8}]},{"hash":"1416679226634955605","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:2000786","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0032968","count":1},{"id":"GO:0042797","count":1}]},{"hash":"679944941927421019","title":"Secretory Pathway and Intracellular Trafficking","description":"Most top GO terms cluster around transport and sorting of proteins through the secretory pathway: ER to Golgi (and Golgi-associated) vesicle transport, endosome-to-Golgi routing, intracellular protein transport, and vesicle fusion with the Golgi, plus protein localization to the cell surface. A few terms about development or signaling are less representative. Overall, the dominant theme is vesicular trafficking and protein sorting within the secretory pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0034498","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0032781","count":1}]},{"hash":"2165042376047965660","title":"Membrane Transport","description":"The GO terms point strongly to transport across membranes, including carbohydrate transport, xenobiotic transmembrane transport, oligopeptide export from mitochondrion, phospholipid translocation, and fatty acid import into peroxisomes, as well as peptide pheromone export. Although a few terms are obscure or regulatory, the dominant theme is proteins involved in moving substrates across membranes or exporting/importing molecules, suggesting a membrane transport-associated cluster.","confidence":"High","size":16,"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:0000770","count":2},{"id":"GO:0060702","count":2}]},{"hash":"2049236895542614230","title":"Neuronal Development and Optic Nerve Morphogenesis","description":"This cluster centers on neural development, with top GO terms including neuron development and optic nerve morphogenesis, indicating roles in neural differentiation and sensory nerve formation. Supporting signals related to cytoskeletal dynamics and receptor-mediated signaling hint at neurite outgrowth and axon guidance. Some terms are obsolete or unrelated (pollen recognition, myeloid differentiation), but the dominant theme is neural development and optic nerve morphogenesis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":2},{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0048544","count":1},{"id":"GO:0010715","count":1}]},{"hash":"1742875012569761703","title":"Golgi-Endosome Vesicle Transport","description":"Based on the predominance of GO terms related to vesicle trafficking, including ER to Golgi transport, intra-Golgi transport, endosome-to-vacuole sorting, vesicle coating, and general protein transport, the proteins likely participate in the secretory and endosomal pathways. Additional terms involving inositol phosphate and lipid metabolism support a link to membrane dynamics and trafficking regulation. The box C/D snoRNP assembly term appears less connected and may reflect noise or multifunctionality. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":1},{"id":"GO:0032511","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006901","count":1}]},{"hash":"933869592849866122","title":"Unknown","description":"The GO terms are highly diverse (mitochondrial calcium regulation, cardiac conduction, renal vesicle formation, chromatin remodeling, cell growth, proteasome localization, eye pigmentation, intermediate filament assembly) with no single dominant function, and there are no edges connecting the proteins, so there is no clear cohesive theme to name this cluster.  ","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051561","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0072033","count":1},{"id":"GO:1904501","count":1},{"id":"GO:0051211","count":1}]},{"hash":"2023868065178210176","title":"Skeletal muscle development and sarcomere organization","description":"The top GO terms are strongly skewed toward skeletal muscle: skeletal muscle fiber development, skeletal muscle cell differentiation, and sarcomere organization, which together point to a muscle-focused functional theme. While other terms like circadian rhythm regulation and nervous system development appear, they are less representative of the core cluster. Overall, the proteins seem associated with muscle development and the structural assembly of sarcomeres, justifying this label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0019046","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1399849826487753838","title":"Retroviral Life Cycle and Integration","description":"The Top Terms point to viral infection and genome manipulation, including entry into host cells, reverse transcription (RNA-templated DNA synthesis), DNA replication and recombination, and the establishment of integrated proviral latency. While there is an outlier relating to retina development, the viral integration and latency signals strongly define this cluster as related to the retroviral life cycle and host genome integration.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2}]},{"hash":"1923812154746980086","title":"Vascular remodeling and extracellular matrix signaling","description":"The terms point to angiogenesis control (VEGF pathway), ECM organization, and vascular/platelet-related processes, with supporting signals for cytoskeletal dynamics, cell shape, and cardiac stress responses. Together they suggest a cohesive theme of vascular remodeling and ECM interactions driving cardiovascular and vascular cell signaling, with auxiliary mitochondrial/calcium and dephosphorylation regulation.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030948","count":10},{"id":"GO:0042267","count":7},{"id":"GO:0030198","count":6},{"id":"GO:0030220","count":6},{"id":"GO:0035335","count":6}]},{"hash":"399770301418913484","title":"Mitochondrial proteostasis and mitophagy","description":"The cluster centers on mitochondrial-associated functions: protein insertion into the mitochondrial inner membrane and ATP metabolic processes, together with autophagosome maturation and cellular response to misfolded proteins, pointing to proteostasis and mitochondrial quality control. The presence of microtubule severing and cell division hints at supporting cytoskeletal dynamics that facilitate autophagosome trafficking, reinforcing a theme of mitochondrial proteostasis linked with autophagy. Some terms are peripheral or obsolete, but the dominant signal supports this theme.","confidence":"Medium","size":15,"edges":38,"triangles":24,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0051260","count":7},{"id":"GO:0001319","count":6},{"id":"GO:0046034","count":6},{"id":"GO:0051013","count":6}]},{"hash":"1954247824333282594","title":"Cell Cycle and Transcription Regulation","description":"The cluster\u2019s top GO terms center on cell division, the cell cycle, and DNA-templated transcription, with additional signals of chromatin modification (histone methylation). Despite a few outlier or obsolete terms, the dominant pattern suggests proteins involved in coordinating transcription with cell cycle progression and chromatin state.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007049","count":1}]},{"hash":"1582286644728651328","title":"Unknown","description":"The top GO terms point to disparate metabolic processes (fermentation, thiamine and CoA biosynthesis, phosphorylation) with no single shared function linking all proteins, and there are no interactions observed among them. This makes a cohesive, specific cluster label unlikely; thus Unknown with no confidence.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0015937","count":1}]},{"hash":"830903594312860109","title":"Embryonic organogenesis and developmental signaling","description":"The cluster combines terms for organ formation across tissues (kidney morphogenesis, neural development, tongue papilla formation) with signaling pathways (Wnt signaling, apoptosis regulation) and general cell cycle processes, suggesting a cohesive theme of developmental coordination during embryogenesis rather than a single tissue-specific function.","confidence":"Medium","size":15,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0061198","count":3},{"id":"GO:0003338","count":3}]},{"hash":"993642002505397459","title":"RNA and Histone Methylation Processes","description":"The cluster is enriched for methylation-related GO terms across diverse substrates: tRNA and rRNA modification, mRNA capping, N-terminal methylation, and histone H4 methylation, plus protein arginine methylation. The presence of a transcriptional repression term links these methylation activities to gene expression control, suggesting a cohesive set of enzymes involved in epigenetic and RNA maturation processes.","confidence":"High","size":15,"edges":79,"triangles":196,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043985","count":5},{"id":"GO:0016049","count":5},{"id":"GO:0009877","count":5},{"id":"GO:0018012","count":5},{"id":"GO:0030488","count":5}]},{"hash":"49983517868335651","title":"Bacterial lipid metabolism and cell envelope biosynthesis","description":"The top GO terms cluster around lipoteichoic acid biosynthesis, long- and medium-chain fatty acid import/transport/metabolism, and menaquinone biosynthesis, all hallmark pathways for lipid metabolism and Gram-positive cell envelope construction. Additional signals for siderophore and nonribosomal peptide biosynthesis suggest accompanying bacterial secondary metabolism, with bioluminescence seen in a subset of metabolically active bacteria. Overall, the cluster seems to unify lipid-related pathways and cell envelope biosynthesis, with auxiliary secondary metabolism signals.","confidence":"Medium","size":15,"edges":86,"triangles":271,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":11},{"id":"GO:0044539","count":10},{"id":"GO:1902987","count":10},{"id":"GO:0001676","count":10},{"id":"GO:0043041","count":10}]},{"hash":"1884071743494318985","title":"RNA Splicing and Translation Regulation","description":"The top GO terms cluster around spliceosome-mediated mRNA processing (splicing, splice site recognition, alternative splicing, cis splicing) and translation control (translation initiation, preinitiation complex formation, reinitiation), with additional notes on regulatory ncRNA-mediated gene silencing and stress-related mRNA stability. This suggests a coherent functional group centered on RNA processing and regulation of translation.","confidence":"High","size":15,"edges":19,"triangles":6,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0010610","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9}]},{"hash":"1233003796656109928","title":"DNA Damage Response and Cell Cycle Regulation","description":"The top GO terms cluster around DNA repair, response to ionizing radiation, and cell-cycle related processes (centriole replication, sister chromatid cohesion) along with apoptosis and proliferation control, indicating a coherent theme of DNA damage signaling and cell cycle control, despite some broader terms likely capturing annotation noise.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0008285","count":2},{"id":"GO:0010998","count":2}]},{"hash":"1227063627405077820","title":"Developmental signaling and stress-response pathways","description":"These proteins are enriched for development-related GO terms (skin development, multicellular organism development, neuron projection development) and show links to growth and cellular stress signaling (TORC1 signaling, ER stress\u2013induced apoptotic pathway, heat-stress\u2013related mRNA export, GPCR signaling, cell cycle regulation). While diverse, the common theme appears to be developmental processes coupled with growth and stress-response signaling pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0000920","count":1},{"id":"GO:1901976","count":1}]},{"hash":"2182311180208673260","title":"Starch and glycogen metabolism","description":"The cluster shows strong enrichment for starch/glycogen biosynthesis and catabolism, plus related alpha-glucan, maltose, and trehalose metabolism terms, indicating a cohesive carbohydrate storage and turnover module; an outlier DNA replication term appears, likely noise.","confidence":"High","size":15,"edges":40,"triangles":41,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019252","count":5},{"id":"GO:0005978","count":5},{"id":"GO:0005985","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0030979","count":4}]},{"hash":"1466749232885162353","title":"Cell wall biosynthesis and degradation","description":"This cluster is dominated by GO terms for peptidoglycan biosynthesis and catabolism, chitin catabolic processes, cell wall organization, and related cell shape regulation, with an occasional sporulation term. Taken together, these terms point to a cohesive theme of cell wall construction and turnover across different organisms, suggesting a remodeling toolkit rather than a single, narrowly defined function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071323","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0009252","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0008360","count":1}]},{"hash":"539421985384058750","title":"Telomere maintenance and telomeric heterochromatin","description":"The terms converge on chromosome end protection (shelterin), telomere loop formation, regulation of telomeric processes, and subtelomeric/rDNA heterochromatin formation, indicating a cluster of proteins involved in maintaining telomere structure and related chromatin states.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905839","count":1},{"id":"GO:1904850","count":1},{"id":"GO:0072362","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0071919","count":1}]},{"hash":"1994937059027378928","title":"Tyrosine kinase signaling and development","description":"This cluster centers on terms related to receptor tyrosine kinase activity (peptidyl-tyrosine autophosphorylation, FGFR-related signaling) and downstream effects like actin cytoskeleton reorganization and extracellular matrix remodeling, which align with RTK-mediated signaling pathways guiding development. The presence of optic nerve morphogenesis and myeloid progenitor differentiation supports a developmental theme, though a plant-specific pollen recognition term appears as an outlier. Overall, the proteins likely participate in RTK signaling with roles in developmental processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0048544","count":1},{"id":"GO:0010715","count":1},{"id":"GO:0021631","count":1}]},{"hash":"774587388514393709","title":"Hematopoiesis and T-cell Differentiation","description":"The top GO terms are dominated by hematopoietic and lymphoid differentiation signals: granulocyte differentiation, T cell differentiation in thymus, neuroendocrine cell differentiation, and hematopoietic stem cell proliferation, pointing to a cluster of proteins involved in blood cell development and T-cell lineage specification. Some terms are unrelated or obsolete (ribosomal export, certain metabolic regulations), but the main theme remains immune/hematopoietic differentiation, supporting this label as representative of the cluster\u2019s function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0061101","count":1},{"id":"GO:0030851","count":1},{"id":"GO:0033077","count":1},{"id":"GO:1903955","count":1}]},{"hash":"217564263085797807","title":"Tyrosine kinase receptor signaling in development","description":"This cluster centers on receptor tyrosine kinase signaling, highlighted by peptidyl-tyrosine autophosphorylation and FGFR-associated apoptotic signaling, and is linked to development and differentiation processes such as optic nerve morphogenesis and myeloid progenitor differentiation. Although some terms are obsolete or plant-specific (pollen recognition), the dominant theme is tyrosine kinase\u2013mediated signaling guiding growth, ECM interactions, and cytoskeletal dynamics.","confidence":"Medium","size":15,"edges":26,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":7},{"id":"GO:0038083","count":7},{"id":"GO:0048544","count":7},{"id":"GO:0010715","count":7},{"id":"GO:0021631","count":7}]},{"hash":"2206759764346413734","title":"Receptor tyrosine kinase signaling","description":"Most terms describe receptor tyrosine kinase\u2013mediated signaling (peptidyl-tyrosine autophosphorylation, FGFR apoptotic signaling, positive regulation of tyrosine autophosphorylation) and downstream developmental and cell-adhesion processes (optic nerve morphogenesis, regulation of ECM disassembly, actin cytoskeleton remodeling). Together, they point to RTK-driven signaling hubs influencing differentiation and morphogenesis.","confidence":"High","size":15,"edges":68,"triangles":119,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0038083","count":5},{"id":"GO:0048544","count":5},{"id":"GO:0010715","count":5},{"id":"GO:0021631","count":5}]},{"hash":"1083541768131656893","title":"Neural development and signaling","description":"The cluster includes neural development terms (dendrite development, hippocampus development) along with supporting cell polarity and various signaling pathways (NF-kappaB regulation, NOD2 signaling, MHC class I biosynthesis), suggesting a theme around neuronal differentiation linked with signaling regulation. The presence of some immune-related terms adds complexity but the neural development signals are prominent.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0030011","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0032402","count":2},{"id":"GO:0016358","count":2}]},{"hash":"84231978650705685","title":"Retroviral Integration and Latency","description":"This cluster centers on retroviral infection and proviral integration: entry into the host cell, penetration into the nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration, DNA replication, and establishment of integrated proviral latency. The included DNA recombination and siRNA processing regulation terms further support a viral replication/host interaction theme. Overall, these terms point to the retroviral lifecycle and provirus latency as the unifying function of the proteins.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0006260","count":2}]},{"hash":"977053689496934830","title":"Isoprenoid and nucleotide metabolism","description":"Top GO terms include farnesyl diphosphate biosynthesis and dimethylallyl diphosphate biosynthesis, pointing to isoprenoid production, along with several nucleotide catabolic/editing processes (e.g., dGTP, dGDP, diadenosine tetraphosphate, adenosine to inosine editing) and folic acid biosynthesis. The cluster seems to collect proteins involved in small-molecule biosynthesis and turnover, rather than a single unified function, so a combined label is most representative.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045337","count":1},{"id":"GO:0050992","count":1},{"id":"GO:0034656","count":1},{"id":"GO:0006203","count":1},{"id":"GO:0006382","count":1}]},{"hash":"2185521598582763222","title":"Telomere maintenance and shelterin assembly","description":"The terms cluster around telomere biology, including shelterin complex assembly, telomere loop formation, and regulation of telomeric D-loop dynamics, with related notes on G-quadruplex DNA formation. While some terms are obsolete or plant-specific, the core theme points to telomere maintenance and telomere-associated protein localization. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:1905839","count":1},{"id":"GO:1904850","count":1}]},{"hash":"1224596912569695947","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":67,"triangles":179,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0070481","count":2},{"id":"GO:0000448","count":2},{"id":"GO:0000494","count":2},{"id":"GO:0008033","count":2}]},{"hash":"2131186041309518391","title":"Developmental gene expression and cell cycle control","description":"This cluster shows enrichment for DNA-templated transcription and translation, as well as formation of the translation preinitiation complex, together with mitotic cell cycle and forebrain development terms. This suggests a broad theme around gene expression programs (transcription and translation) coupled with cell proliferation during development. Some GO terms are obsolete, indicating mixed or older annotations, and the lack of edges implies a general grouping rather than a tightly connected pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0051568","count":2}]},{"hash":"949123904818035436","title":"Metabolic Biosynthesis and Catabolism","description":"Top GO terms point to a metabolism-centric set, including glycolytic (catabolic) and various biosynthetic processes (poly-hydroxybutyrate, thiamine, antibiotic biosynthesis), with a few outliers (embryonic development and obsolete terms) that suggest noise. The cluster appears to reflect general metabolic functions rather than a single specific pathway, hence a metabolism-focused label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042619","count":4},{"id":"GO:0006212","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0042208","count":3}]},{"hash":"1759296240951124601","title":"RNA splicing and ncRNA-mediated silencing","description":"This cluster is enriched for spliceosome-mediated mRNA processing terms (GO:0048026, GO:0006376, GO:0045292, GO:0000380) and ncRNA/miRNA-mediated gene silencing (GO:0031047, GO:0035278), indicating a set of proteins involved in RNA maturation and post-transcriptional regulation. A viral translation-related term appears incidental, but the dominant theme is RNA splicing and silencing pathways.","confidence":"High","size":14,"edges":17,"triangles":20,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0006376","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0075525","count":5}]},{"hash":"89311922845269618","title":"Photosystem II Repair","description":"The top GO term is photosystem II repair (GO:0010206), indicating the proteins cluster around the PSII maintenance/repair function in photosynthetic organisms. This specific, coherent theme justifies naming the cluster after this process.","confidence":"High","size":14,"edges":20,"triangles":11,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010206","count":1}]},{"hash":"909470770329818205","title":"Cell Cycle and Protein Homeostasis","description":"The cluster\u2019s top GO terms strongly point to mitotic processes (cell division; APC/C-dependent catabolic process) and protein quality control (response to unfolded protein; chaperone cofactor-dependent protein refolding), with a post-translational modification (peptidyl-tyrosine sulfation) that fits a protein-processing theme. While there are also signals related to immune signaling and hormonal pathways, the dominant pattern ties cell-cycle progression to protein maintenance and processing.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0045087","count":4},{"id":"GO:1901215","count":3},{"id":"GO:2000324","count":3},{"id":"GO:0050689","count":3}]},{"hash":"1067919042528239217","title":"ER protein folding and redox homeostasis","description":"The cluster is enriched for ER-related processes: ER stress response, protein folding in the endoplasmic reticulum, and redox/oxidative stress maintenance (cell redox homeostasis, cellular oxidant detoxification, and deglutathionylation), suggesting roles in ER proteostasis under oxidative conditions.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0034976","count":3},{"id":"GO:0033158","count":3},{"id":"GO:0043388","count":3}]},{"hash":"540581133106454557","title":"ER-Golgi transport and COPI vesicle formation","description":"The top GO terms cluster around ER-to-Golgi transport, COPI vesicle coating and budding, Golgi ribbon formation, and ER lumen retention, pointing to a cohesive ER-Golgi trafficking module; a few unrelated terms appear likely as annotation noise, but do not offset the dominant trafficking signal.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0001893","count":3},{"id":"GO:0070863","count":3},{"id":"GO:1902003","count":3},{"id":"GO:0048205","count":3}]},{"hash":"142796315357424151","title":"Unknown","description":"There is no information linking these proteins functionally: no edges, no GO terms, and only a note that ReCIPE re-added additional proteins. Without shared terms or interactions, a meaningful label cannot be determined.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1583441635931120626","title":"Innate Immune Signaling and Antigen Presentation","description":"The cluster shows a pattern dominated by innate immune pathways: TLR4 signaling, NOD2 signaling, NF-kappaB regulation, and IL-1 production, along with MHC class I biosynthesis. While some RNA processing terms are present, the immune signaling and antigen presentation terms collectively define the core function of this group.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0032298","count":1},{"id":"GO:0000398","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0042345","count":1}]},{"hash":"1181430680237410692","title":"Actin Cytoskeleton Dynamics and Cell Migration","description":"The core terms point to actin cytoskeleton organization and cell migration, with supportive signals from phagocytosis, polarity, and JNK pathway regulation. This pattern suggests a cohesive theme of actin-driven cytoskeletal remodeling that enables cell movement and related processes, despite some peripheral development terms. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0046328","count":1},{"id":"GO:0071963","count":1}]},{"hash":"1335941866728973544","title":"Cardiac muscle development and regulation","description":"The top GO terms are dominated by cardiac-specific differentiation and development (ventricular cardiac muscle cell differentiation; cardiac ventricle development; negative regulation of vascular smooth muscle proliferation), suggesting a cardiac development/regulation theme. There are also terms related to transcriptional regulation and ncRNA-mediated silencing, which can accompany differentiation processes. A few DNA repair-related terms appear but are less central to the main signal. Overall, the cluster seems best described as cardiac development with regulatory aspects, hence the chosen name.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000721","count":1},{"id":"GO:0016049","count":1},{"id":"GO:0055012","count":1},{"id":"GO:0071044","count":1},{"id":"GO:0031047","count":1}]},{"hash":"1502393547275765838","title":"N-terminal and polyamine acetylation cluster","description":"This cluster is dominated by GO terms referring to protein N-terminal acetylation (serine and methionine), propionylation, and acetylation of polyamines (putrescine and spermine), along with related catabolic and metabolic steps (putrescine catabolic process, N-acetylglucosamine metabolism). While a few terms like angiogenesis, leaf formation, and subtelomeric heterochromatin formation seem less directly connected, the strongest signal is acetylation- and polyamine-related modification and metabolism, suggesting a coherent theme around protein/polyamine acetylation regulation.","confidence":"Medium","size":14,"edges":53,"triangles":103,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":12},{"id":"GO:0001525","count":12},{"id":"GO:0017198","count":11},{"id":"GO:0032920","count":11},{"id":"GO:0006044","count":11}]},{"hash":"1422712978464180376","title":"Diverse Catabolic Metabolism and Detoxification","description":"The top GO terms point to breakdown or processing of a wide array of substrates (lipids, nucleotides, chlorophyll, xenobiotics) and detoxification, with no single dominant pathway. This suggests a cluster of proteins involved in general metabolism and catabolic processing rather than a specific, unified function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":2},{"id":"GO:1990577","count":2},{"id":"GO:0046272","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0098869","count":2}]},{"hash":"1621783904090713368","title":"Unknown","description":"The top GO terms show a mix of heart and brain (cerebellar cortex, hippocampus) development, general transcriptional and translational regulation, and even a fungal pseudohyphal growth term, with no clear unifying biological process or interaction pattern (edges/degree are zero). This suggests the proteins do not share a coherent functional theme, so a single interpretable label cannot be assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0021695","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0043433","count":2}]},{"hash":"173088464920224575","title":"Ribosome biogenesis and cytosolic translation","description":"This cluster is dominated by GO terms related to ribosome production and function: ribosome biogenesis, large subunit assembly, rRNA processing, and cytosolic/cytoplasmic translation. The co-occurrence of these terms suggests proteins work together in ribosome assembly and subsequent protein synthesis in the cytosol. Minor terms like macroautophagy and centrosome duplication appear less central to the core theme.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000462","count":4},{"id":"GO:0000027","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0042256","count":3}]},{"hash":"593266392829376547","title":"Neural development and endocytosis regulation","description":"The cluster includes terms linked to neural development and sensory processes (dauer larval development, mushroom body development, visual perception, response to stimulus) together with terms about regulating endocytosis (negative regulation of clathrin- and caveolin-mediated endocytosis), suggesting a theme of neuronal signaling and trafficking control.","confidence":"Medium","size":13,"edges":13,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0040024","count":1},{"id":"GO:0016319","count":1},{"id":"GO:1900186","count":1},{"id":"GO:0042953","count":1},{"id":"GO:2001287","count":1}]},{"hash":"1438518805978363864","title":"Unknown","description":"The top GO terms span several unrelated processes (cell cycle and division, translation initiation, ER-Golgi vesicle transport, and immune response), with no single cohesive function tying the proteins together. The absence of network connectivity (Edges: 0) further suggests a mixed or noisy set rather than a unified pathway. A concise, representative label could not be determined.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"705411729196449164","title":"Transcriptional Regulation & Cell Cycle","description":"Top terms are dominated by DNA-templated transcription, regulation of transcription, and cell cycle/division, with histone methylation annotations, suggesting a function in gene expression control and cell-cycle progression. A few outliers (lung development, ER-Golgi transport) are present but less represented. Overall, the cluster appears to group proteins involved in transcriptional control and cell-cycle processes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0070262","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0006888","count":2}]},{"hash":"192306768311531142","title":"RNA processing and ribosome biogenesis","description":"The terms show RNA splicing and ncRNA-mediated gene silencing alongside rRNA maturation, preribosome assembly, and translation initiation/reinitiation, indicating a cluster centered on RNA processing with a focus on ribosome biogenesis and translation control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000463","count":2}]},{"hash":"22523585096067743","title":"Unknown","description":"The GO terms are highly heterogeneous, including melanosome assembly, touch perception, morphogenesis, viral replication, cell polarity and actin dynamics, mitochondrion regulation, and mRNA decay. There isn\u2019t a single cohesive function that ties the cluster together, so a clear, representative label cannot be confidently assigned.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903232","count":3},{"id":"GO:0050975","count":2},{"id":"GO:0061383","count":2},{"id":"GO:0039694","count":2},{"id":"GO:0071963","count":2}]},{"hash":"633658736848009344","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006407","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000461","count":1}]},{"hash":"594130858984916901","title":"Calcium-Dependent Transcription Regulation","description":"The terms center on calcium release into the cytosol and positive regulation of calcineurin-NFAT signaling, pointing to calcium-triggered transcription control. Additional, albeit obsolete, RNA Pol II transcription and processing terms suggest a broader theme of transcription regulation. Overall, a transcription-regulation focus anchored by calcium signaling fits the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":1},{"id":"GO:0051533","count":1},{"id":"GO:0010526","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0042769","count":1}]},{"hash":"934921889468495736","title":"Transcription Regulation and Chromatin Remodeling","description":"The cluster is enriched for GO terms related to transcription control (negative regulation of RNA Pol II transcription, regulation of transcription preinitiation complex assembly) and chromatin dynamics (nucleosome mobilization, histone H3 acetylation), suggesting a cohesive role in regulating gene expression through chromatin remodeling. Development-related terms like brain development and photomorphogenesis appear as downstream processes tied to transcriptional programs. Overall, the dominant signal is transcription regulation with chromatin modification as a core mechanism.","confidence":"High","size":13,"edges":31,"triangles":25,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007420","count":4},{"id":"GO:1900446","count":3},{"id":"GO:0061408","count":3},{"id":"GO:0042766","count":3}]},{"hash":"871862206238728349","title":"RTK signaling and growth regulation","description":"The GO terms converge on receptor tyrosine kinase\u2013driven signaling (peptidyl-tyrosine autophosphorylation; FGFR apoptotic signaling; PI3K-related signaling) and processes that modulate cell proliferation and tissue remodeling (negative regulation of cell population proliferation; extracellular matrix disassembly). A few terms appear outliers or legacy annotations (pollen recognition, optic nerve morphogenesis, obsolete terms), but the dominant theme points to growth factor receptor signaling and growth/divergence regulation across development. Overall, the cluster seems best described by signaling and growth regulation rather than a single narrow process.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0048544","count":1},{"id":"GO:0010715","count":1}]},{"hash":"1372169608908961042","title":"Cell wall and envelope polysaccharide biosynthesis","description":"Top GO terms indicate biosynthesis of UDP-N-acetylglucosamine, GDP-mannose, lipopolysaccharide, and slime layer polysaccharides, along with cell wall organization and morphogenesis, including fungal-type cell wall biogenesis. This points to a cohesive theme of building and modifying the cell wall/envelope polysaccharide components across organisms, rather than a single enzymatic activity. Name reflects the shared function of polysaccharide-based cell wall/envelope biosynthesis and remodeling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006048","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0009298","count":1},{"id":"GO:0008360","count":1}]},{"hash":"793231636368026372","title":"Neurodevelopment and Neuromuscular Regulation","description":"The GO terms cluster around neural development and motor/neural apparatus organization: somatic motor neuron differentiation, neuromuscular process controlling posture, and neurofilament cytoskeleton organization, plus Schwann cell migration/regulation. This points to nerve development and maintenance with glial interactions, with collagen and ceramide biosynthesis reflecting ECM and signaling contexts in nerves.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":1},{"id":"GO:0043666","count":1},{"id":"GO:0050884","count":1},{"id":"GO:0060052","count":1},{"id":"GO:1905045","count":1}]},{"hash":"1239073919670374827","title":"Unknown","description":"The cluster has no enriched GO terms, no interactions (edges/triangles) to suggest a shared function, and only notes about re-added proteins without functional coupling, so no coherent theme is apparent. Therefore the label Unknown is appropriate.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"177397498281196634","title":"Unknown","description":"There are no GO terms listed to reveal a functional theme for this cluster, so a precise label cannot be inferred. The dense network (78 edges, 286 triangles, max degree 12) may reflect a general protein interaction module rather than a cohesive biological process.","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[]},{"hash":"1938926884029409689","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015786","count":1},{"id":"GO:0034221","count":1},{"id":"GO:0046963","count":1},{"id":"GO:0036085","count":1},{"id":"GO:1990569","count":1}]},{"hash":"674260755452548572","title":"Growth factor receptor signaling and cytoskeleton remodeling","description":"This cluster centers on tyrosine autophosphorylation and FGFR-related signaling, plus regulation of cytoskeleton dynamics and ECM interactions, pointing to a theme of receptor tyrosine kinase\u2013driven signal transduction that controls actin remodeling and extracellular remodeling. Some terms (e.g., pollen recognition, certain development terms) are less clearly connected and may reflect species-specific or outdated annotations, so the core theme is best captured as RTK signaling with cytoskeletal and ECM remodeling.","confidence":"Medium","size":13,"edges":71,"triangles":215,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0048544","count":2},{"id":"GO:0010715","count":2},{"id":"GO:0021631","count":2}]},{"hash":"1988081844434429336","title":"Transposable Elements and Proviral Integration","description":"The top GO terms cluster around DNA transposition, DNA integration, proviral latency, and cell cycle-related processes like chromosome segregation, suggesting a group of proteins involved in genome mobility (transposons/retroviral-like elements) and its coordination with cell division. Some terms (e.g., SRP-dependent targeting) may reflect broader cellular roles, but the strongest signal is genome mobility and integration activities.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0007059","count":1}]},{"hash":"620782024203428924","title":"B cell maturation and apoptosis","description":"This label reflects the immune-related terms: somatic diversification of immunoglobulins (B cell receptor variation) and apoptotic process, implying a link to B cell development and selection. Given only two terms and no edge data, the connection is plausible but not strongly confirmed.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016445","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1430995800401269838","title":"RNA splicing and translational regulation","description":"The top terms center on spliceosome-mediated mRNA processing (splice site recognition, cis splicing, alternative splicing, positive regulation of splicing) and on translation control processes (formation of the translation preinitiation complex, translation reinitiation, miRNA-mediated silencing by inhibition of translation, regulatory ncRNA-mediated silencing). This points to a cohesive module where mRNA maturation and translation regulation are linked, with ncRNA involvement and even viral translation themes, suggesting a cluster of RNA processing coupled with translational control.","confidence":"High","size":12,"edges":21,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0006376","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0075525","count":7}]},{"hash":"2100331445360252706","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030260","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0019068","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0019076","count":2}]},{"hash":"1194787229256296663","title":"DNA replication and cell cycle regulation","description":"Most top terms cluster around DNA replication, DNA repair, mitotic cell cycle, and centriole replication, pointing to core roles in genome maintenance and cell division. Additional terms cover transcription/translation control and stress responses, but the dominant theme is replication and cell-cycle machinery.","confidence":"High","size":12,"edges":30,"triangles":26,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0000278","count":11},{"id":"GO:0048701","count":10},{"id":"GO:0006281","count":10},{"id":"GO:0006351","count":10}]},{"hash":"1779026400406032258","title":"Embryonic development and organogenesis","description":"This cluster\u2019s GO terms cluster around embryo development, placental and endocrine system formation, tissue differentiation, and patterning (e.g., trophoblast/placenta-related differentiation, left-right patterning, pancreatic development, EMT in heart development, cartilage morphogenesis). Taken together, they point to broad developmental and organogenesis processes rather than a single molecular function. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0003323","count":1}]},{"hash":"1471844969985552149","title":"Nuclear chromatin dynamics and transcription","description":"The Top Terms are dominated by nucleosome assembly, DNA-templated transcription, and histone-related regulation, with additional cues from centrosome cycle and microtubule polymerization, which together point to nuclear chromatin organization and cell-cycle\u2013related processes. An IRES-dependent translation term appears but does not override the central chromatin/nuclear theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0007098","count":2}]},{"hash":"1479043660056101018","title":"Ubiquitin deubiquitination and chromatin regulation in neural development","description":"This cluster is dominated by GO terms for ubiquitin deubiquitination across several linkages (K6, K11, K29, K63) and related processes like histone deubiquitination and ubiquitin chain depolymerization, suggesting a common role in ubiquitin-mediated regulation of chromatin and transcription. The presence of CNS morphogenesis and behavioral fear\u2013related terms indicates these functions may influence neural development and behavior, aligning with a role for chromatin-modifying deubiquitinases in neural contexts.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035616","count":2},{"id":"GO:0010995","count":2},{"id":"GO:0044313","count":2},{"id":"GO:0021551","count":2}]},{"hash":"1720636839020308550","title":"Unknown","description":"The top GO terms span DNA replication, telomerase regulation, interferon signaling, virion attachment, phosphatase regulation, chemotaxis, ATP response, glucose metabolism, nitric oxide biosynthesis, and translational attenuation, with no single shared function dominating. The connections are weak (mostly single-term associations) and no cohesive biological process emerges, so the cluster cannot be confidently labeled with a specific function.","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":1},{"id":"GO:0051973","count":1},{"id":"GO:0060334","count":1},{"id":"GO:0019062","count":1},{"id":"GO:0032516","count":1}]},{"hash":"2290627580098069854","title":"Neural Morphogenesis and RTK Signaling","description":"This cluster centers on neural development themes, including dendritic spine morphogenesis and optic nerve morphogenesis, supported by actin cytoskeleton reorganization and peptidyl-tyrosine autophosphorylation (receptor tyrosine kinase activity). Regulation of extracellular matrix disassembly and FGFR apoptotic signaling suggest remodeling and survival cues during development, while some terms are outliers or obsolete; overall the pattern points to neural morphogenesis coupled with RTK-driven signaling.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0048544","count":2},{"id":"GO:0010715","count":2}]},{"hash":"1380459199454812911","title":"Neural development and axonogenesis","description":"Most of the GO terms point to nervous system development and axon-related processes (axonogenesis, axon target recognition, forebrain morphogenesis, neuromuscular process, sensory perception of pain). A few terms (pollen sperm cell differentiation, DNA recombination) are peripheral annotations and do not define the cluster's main function. The lack of edges among proteins suggests diverse roles, but the shared theme is neuronal development and axon guidance.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":1},{"id":"GO:0007385","count":1},{"id":"GO:0007409","count":1},{"id":"GO:0048853","count":1},{"id":"GO:0007412","count":1}]},{"hash":"1734447025791943832","title":"Receptor Tyrosine Kinase Signaling","description":"This cluster's top GO terms center on peptidyl-tyrosine autophosphorylation and FGFR-related signaling, with links to actin cytoskeleton reorganization and extracellular matrix remodeling\u2014hallmarks of RTK-driven signaling that governs development and cell migration. Some terms reflect developmental processes (optic nerve morphogenesis, myeloid differentiation) that RTKs influence, supporting a cohesive theme despite a few peripheral annotations (e.g., pollen recognition). Overall, the proteins likely participate in RTK-mediated signaling pathways and their cytoskeletal effects.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":6},{"id":"GO:0038083","count":6},{"id":"GO:0048544","count":6},{"id":"GO:0010715","count":6},{"id":"GO:0021631","count":6}]},{"hash":"1762067703564693233","title":"Vacuolar amino acid transporters","description":"The top GO terms are dominated by transmembrane import into the vacuole for several amino acids (lysine, serine, arginine, tyrosine, histidine) and a lysine export, pointing to transporter activity at the vacuolar membrane. This pattern suggests the cluster comprises proteins that function in amino acid movement into/out of the vacuole, characteristic of vacuolar amino acid transporters. A single term about root cap development is less consistent with this core function and may reflect annotation noise. Overall, the cluster is best described as vacuolar amino acid transporters.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061402","count":3},{"id":"GO:0089707","count":3},{"id":"GO:1901482","count":3},{"id":"GO:0051365","count":3},{"id":"GO:0090516","count":3}]},{"hash":"622435351446793387","title":"Amino Acid Metabolism and Porphyrin Biosynthesis","description":"The proteins in this cluster are enriched for multiple amino acid catabolic and biosynthetic processes (alanine, lysine, tyrosine, aspartate, threonine) and a porphyrin biosynthesis step (protoporphyrinogen IX), suggesting a cohesive metabolic module centered on amino acid turnover and heme-related synthesis. A Notch signaling term appears as an outlier, but the prevalent theme is metabolic, making this label representative of the core function.","confidence":"Medium","size":12,"edges":52,"triangles":120,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":6},{"id":"GO:0019878","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0033512","count":5},{"id":"GO:0097053","count":5}]},{"hash":"252621557758453989","title":"Cell Division and Cellular Morphogenesis","description":"The dominant terms are cell division and mitotic cell cycle, with several related terms about cell shape, polarity, and morphogenesis (dendritic spine and trabecula morphogenesis, regulation of mitochondrion organization). There is also evidence for intracellular trafficking and protein complex assembly (Cvt pathway and heterooligomerization), suggesting a theme of cellular organization during division and development. Some terms appear as outliers (viral replication, touch sensation) but do not negate the overall link to cellular architecture and morphogenesis.","confidence":"Medium","size":12,"edges":17,"triangles":10,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0032258","count":6},{"id":"GO:0051291","count":6},{"id":"GO:0050975","count":5}]},{"hash":"896771910286798816","title":"Junctional Signaling and Cytoskeletal Dynamics","description":"The set is enriched for apical junction assembly, epithelial\u2013mesenchymal signaling, and Cdc42-driven signal transduction, pointing to regulation of cell junctions and the actin cytoskeleton in epithelial contexts. Other terms about protein kinase regulation and mitochondrial fission suggest broader coordination of signaling with organelle dynamics. Overall, the dominant theme is junctional signaling and cytoskeletal regulation.","confidence":"Medium","size":12,"edges":12,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0045859","count":4},{"id":"GO:2000171","count":3},{"id":"GO:0039694","count":3},{"id":"GO:0043297","count":3}]},{"hash":"1410403154875060356","title":"Ubiquitin-Dependent Proteolysis and Mitosis","description":"The dominant terms describe ubiquitin-mediated protein degradation (K11-linked ubiquitination, ERAD, ubiquitin ligase activity) and mitotic processes (spindle assembly, spindle checkpoint), with links to TORC1 signaling. While there are hints of trafficking and actin remodeling, the core theme points to proteostasis coupled with cell-cycle regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0090114","count":2},{"id":"GO:2000060","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0030433","count":2}]},{"hash":"660980184063900749","title":"Neuro-Muscular Development and Stress Signaling","description":"The cluster includes GO terms for skeletal muscle fiber development and nervous system development (including axonogenesis), alongside transcriptional regulation, ubiquitin-dependent protein turnover, ER stress response, and stress-activated MAPK signaling, suggesting a theme of coordinated neuro-muscular development with stress-responsive pathways; amphetamine response reinforces neural signaling context.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1882798790791875340","title":"Negative Regulation of Signaling and Development","description":"The cluster\u2019s terms center on negative regulation across multiple signaling and developmental processes (NF-kappaB, HIF-1alpha, TNF signaling) plus hormone-related growth factors (adipose tissue development, corticosterone secretion). This pattern suggests a shared theme of dampening or fine-tuning diverse signaling and developmental/hormonal responses rather than a single, cohesive pathway.","confidence":"Low","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":1},{"id":"GO:0032088","count":1},{"id":"GO:1902072","count":1},{"id":"GO:2000009","count":1},{"id":"GO:1902306","count":1}]},{"hash":"1936021293727211347","title":"Cell cycle and DNA replication machinery","description":"Based on the prominent enrichment of nuclear processes such as cell division, DNA replication, DNA-templated transcription, and chromatin assembly (CENP-A), the cluster appears to represent proteins involved in cell-cycle progression and genome maintenance. Microtubule severing also ties to mitotic spindle dynamics, supporting a cell-cycle/genome maintenance theme. Some ER-related terms and ubiquitin-dependent ERAD are present but seem less central to the core function of the cluster. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0030968","count":4},{"id":"GO:0019079","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0051013","count":3}]},{"hash":"1070747460414438046","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008615","count":5},{"id":"GO:0042853","count":4},{"id":"GO:0007219","count":4},{"id":"GO:0097053","count":4},{"id":"GO:0006571","count":3}]},{"hash":"2017866952339337021","title":"Regulated kinase signaling and heat response","description":"The top GO terms center on modulation of signaling activities (negative regulation of protein kinase activity, receptor signaling regulation, ATP-dependent activity) and stress-related processes (response to heat, redox homeostasis), with a developmental angle (mesoderm formation). This suggests a cohesive theme of proteins that tune signaling pathways and cellular stress responses during development, rather than a single, narrow pathway.","confidence":"Medium","size":11,"edges":37,"triangles":69,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0033144","count":4},{"id":"GO:0009408","count":3},{"id":"GO:0097428","count":3}]},{"hash":"1662159228921861834","title":"Unknown","description":"There are no GO terms provided to identify a shared function among the 11 proteins, so there is no apparent cohesive biological theme to label. Without enrichment terms, the cluster cannot be confidently characterized.","confidence":"","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"1026419772042298155","title":"Eye development and photoreceptor maintenance","description":"The GO terms cluster around retina and photoreceptor biology\u2014retina development in camera-type eyes, embryonic camera-type eye development, photoreceptor cell maintenance, photoreceptor outer segment localization, and light detection\u2014with supporting terms about phagocytosis relevant to retinal processing. This points to a cohesive visual-system module focused on eye/retina formation and photoreceptor function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":1},{"id":"GO:0045494","count":1},{"id":"GO:0006910","count":1},{"id":"GO:0048702","count":1},{"id":"GO:0060041","count":1}]},{"hash":"767991689459099920","title":"DNA integration and genome dynamics","description":"The cluster is dominated by GO terms tied to DNA manipulation and genome maintenance (DNA integration, DNA transposition, DNA replication, chromosome segregation, and cell cycle). There is a strong theme of genome rearrangement and replication processes, with an additional note of proviral integration and host interaction terms that fit within this DNA-centric context. This suggests proteins involved in DNA integration/transposition and coordination of replication with cell cycle events.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007059","count":2}]},{"hash":"294452989130764569","title":"Proviral integration and latency","description":"The cluster centers on steps of viral infection that integrate viral DNA into the host genome and establish latency, as shown by GO terms for DNA integration, establishment of integrated proviral latency, RNA-templated DNA biosynthetic process, and viral entry/penetration into host nucleus. Additional terms for DNA replication and recombination suggest ongoing genome processing typical of viral replication, while a few terms about host apoptosis and deubiquitination reflect host\u2013virus interaction. Overall, the dominant theme is proviral integration and latent viral processes. ","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0039651","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0075713","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0006260","count":5}]},{"hash":"1134708333250440860","title":"Mitochondrial dynamics and inheritance","description":"The top GO terms cluster around mitochondria-focused processes: mitochondrial fission, intracellular distribution of mitochondria, mitochondrion inheritance, and mitochondrial membrane organization, indicating a shared function in mitochondrial dynamics and segregation. Other terms related to general transport are present but do not outweigh the mitochondrial-centric theme, supporting this label as representative of the cluster.","confidence":"High","size":11,"edges":11,"triangles":1,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000060","count":4},{"id":"GO:0071806","count":4},{"id":"GO:0000266","count":4},{"id":"GO:0048312","count":4},{"id":"GO:0000001","count":4}]},{"hash":"1188684784746411450","title":"RTK signaling and morphogenesis","description":"The top GO terms point to receptor tyrosine kinase\u2013type signaling, notably peptidyl-tyrosine autophosphorylation and FGFR-associated apoptotic signaling, which suggests a shared RTK signaling function. Additional terms about actin cytoskeleton reorganization, ECM disassembly, and optic nerve morphogenesis indicate roles in development and morphogenesis linked to RTK pathways. Because several terms are obsolete and the set spans diverse processes, the connection is tentative, but the strongest thread exists around tyrosine kinase signaling in development.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0048544","count":2},{"id":"GO:0010715","count":2},{"id":"GO:0021631","count":2}]},{"hash":"1940227017666666723","title":"B cell signaling and cytoskeleton remodeling","description":"The cluster shows several GO terms centered on B cell receptor signaling regulation and B cell proliferation, along with actin cytoskeleton organization, Rac-mediated signaling, and cell migration. This pattern suggests a cohesive role in immune signaling that is tightly linked to cytoskeletal dynamics and movement, rather than a single metabolic or unrelated process.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":1},{"id":"GO:0016042","count":1},{"id":"GO:0002322","count":1},{"id":"GO:0016601","count":1},{"id":"GO:0032228","count":1}]},{"hash":"38126163274552301","title":"Cardiac Stress Signaling and Muscle Remodeling","description":"The proteins appear linked to stress responses in muscle/heart tissue: hypertrophy signaling, glucocorticoid pathways, unfolded protein response, apoptosis, and energy/metabolic regulation, suggesting a cohesive cardiac/muscle stress remodeling program. Some terms are general or peripheral (kinetochore localization, histone dephosphorylation) and may reflect broader cellular maintenance.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007498","count":11},{"id":"GO:1903244","count":11},{"id":"GO:2001241","count":11},{"id":"GO:0032516","count":11},{"id":"GO:2000324","count":11}]},{"hash":"1732959718681845265","title":"Mitotic sister chromatid cohesion","description":"The top GO terms point to establishment and maintenance of sister chromatid cohesion during mitosis, indicating a role in chromosome cohesion during cell division. The few \u201cobsolete RNA polymerase complex import\u201d terms appear to be annotation noise rather than core function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":1},{"id":"GO:0044376","count":1},{"id":"GO:0034087","count":1},{"id":"GO:1990022","count":1}]},{"hash":"1006199215793929291","title":"Ciliary transition zone assembly and docking","description":"The top GO terms concentrate on ciliary transition zone components and processes\u2014protein localization to the ciliary transition zone, ciliary basal body-plasma membrane docking, and transition zone assembly\u2014indicating a cohesive group of proteins involved in ciliary architecture and trafficking. Other terms related to differentiation may reflect tissue-specific roles of ciliary signaling, but the cilia-related terms dominate. Overall, this cluster seems to represent ciliary transition zone organization and docking proteins.","confidence":"High","size":11,"edges":34,"triangles":45,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0050766","count":1},{"id":"GO:0007367","count":1},{"id":"GO:1904491","count":1}]},{"hash":"1507359809991971286","title":"Vacuolar amino acid transport","description":"The top GO terms consistently describe import and export of multiple amino acids across the vacuole membrane (e.g., lysine, arginine, serine, tyrosine, histidine), indicating a cohesive function as vacuolar amino acid transport proteins; unrelated or obsolete terms do not redefine the core theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061402","count":1},{"id":"GO:0089707","count":1},{"id":"GO:1901482","count":1},{"id":"GO:0051365","count":1},{"id":"GO:0090516","count":1}]},{"hash":"1730171561504369213","title":"Regulation of signaling and ubiquitination","description":"The set of GO terms points to a broad regulatory role rather than a single pathway: multiple terms involve positive or negative regulation of signaling processes (miRNA silencing, MHC I biosynthesis, IGF receptor signaling, retinoic acid receptor signaling), along with ubiquitin-related regulation (autoubiquitination and suppression of ubiquitin-dependent protein degradation). Additional terms touch on membrane maintenance and development, suggesting these proteins act as regulators coordinating signaling and protein turnover across contexts. Overall, a regulatory, signaling- and ubiquitination-centered function fits best.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":1},{"id":"GO:0001778","count":1},{"id":"GO:0045345","count":1},{"id":"GO:1903762","count":1},{"id":"GO:0051865","count":1}]},{"hash":"1755996812473952455","title":"Unknown","description":"There are no shared GO terms or interactions among these proteins; the cluster has zero edges/triangles and no top terms, so there is no evident common function to label. The ReCIPE re-addition does not confer a cohesive functional connection.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"670800298354376175","title":"Transposon and Proviral Integration","description":"The dominant GO terms center on DNA integration, transposition, and proviral latency, plus cell cycle and chromosome segregation, suggesting a cluster focused on genome mobility and maintenance. A few outlier terms (sialic acid transport, Golgi UDP-galactose import, defense to oomycetes) may reflect annotation noise rather than a shared function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0007059","count":1},{"id":"GO:0006313","count":1}]},{"hash":"1645533032811614499","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to translation and ribosome assembly, including translation, SSU rRNA maturation, ribosome assembly, and formation of the translation preinitiation complex, with some representation of translation reinitiation and negative regulation of translation. Minor terms like transcription and antibiotic response are present but do not define the cluster\u2019s core function. ","confidence":"High","size":10,"edges":32,"triangles":49,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006351","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2}]},{"hash":"489355759544130031","title":"Mitotic spindle and cytokinesis machinery","description":"The top GO terms cluster around microtubule-based processes: spindle assembly, chromosome alignment, spindle orientation, and cytokinesis, with related vesicle transport along microtubules and axonemal dynamics. Together these indicate a core role in mitotic/meiosis-driven division and cytoskeletal organization; occasional terms like stress granule disassembly or cell junction maintenance point to broader cytoskeletal coordination but do not override the central theme.","confidence":"High","size":10,"edges":25,"triangles":33,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0072383","count":10},{"id":"GO:0007080","count":10},{"id":"GO:0051255","count":10},{"id":"GO:0000911","count":10},{"id":"GO:0060404","count":10}]},{"hash":"2061478604025898792","title":"Unknown","description":"There are no edges, triangles, or common GO terms among the proteins, so no shared function can be inferred from the data; therefore the cluster is labeled Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1632057287763398287","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017126","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000447","count":1}]},{"hash":"2299648156364288382","title":"Unknown","description":"This set shows diverse biological processes, including autophagosome regulation, mitochondrial fission, RNA processing, cell junctions and signaling, neuronal development, viral replication, and steroid response. With no clear common function and no edges linking the proteins, there isn\u2019t a cohesive theme to name a specific cluster label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000785","count":4},{"id":"GO:2000171","count":3},{"id":"GO:0039694","count":3},{"id":"GO:0043297","count":3},{"id":"GO:0000266","count":3}]},{"hash":"1459371308320813085","title":"Chromatin organization and nucleosome assembly","description":"The dominant GO terms are about chromatin and nuclear processes: heterochromatin organization, nucleosome assembly, establishment of protein localization to chromatin, nucleosome positioning, and histone modification marks. These indicate a focus on chromatin dynamics and nuclear organization, with a few outliers (ribosome biogenesis, phosphate transport) that are less central. Overall, the cluster appears tied to chromatin-related functions, justifying this label. ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0071169","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0097298","count":1}]},{"hash":"1738300070056532130","title":"DNA Repair and Cell Cycle Control with Ubiquitination","description":"The cluster centers on genome integrity and cell-cycle regulation, with strong signals for nucleotide-excision repair, APC/C-dependent proteolysis, cell division, and spindle checkpoint control, as well as ubiquitin signaling (K48- and K6-linked) and apoptosis. Chromatin regulation hints (histone methylation) accompany these themes, and a hyperoxia response term suggests stress linkage. A single term about fungal cell wall organization seems less connected and may reflect annotation noise. Overall, this module likely represents coordinated DNA repair, cell-cycle progression, and proteostasis via ubiquitination.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051569","count":10},{"id":"GO:0070911","count":10},{"id":"GO:0031505","count":10},{"id":"GO:1902426","count":10},{"id":"GO:0070936","count":10}]},{"hash":"1717035204371076503","title":"Glycolysis and Carbohydrate Metabolism","description":"The top GO terms are dominated by glycolysis-related processes (canonical glycolysis, fructose-6-phosphate metabolic process, glycogen catabolic process, carbohydrate phosphorylation), indicating these proteins function in core sugar metabolism and glucose flux. A few sporulation and NAD+ biosynthesis terms appear as minor outliers and do not define the main theme. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0006002","count":2},{"id":"GO:0093001","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0061621","count":2}]},{"hash":"1070587671003019581","title":"Germ cell maturation and chromatin remodeling","description":"This cluster centers on germ cell development signals (oocyte maturation; spermatid nucleus differentiation) and nuclear gene regulation (transcription initiation-coupled chromatin remodeling; mRNA export; regulation of translation), with links to signaling pathways (Wnt, progesterone receptor) involved in germline development.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060212","count":1},{"id":"GO:0001556","count":1},{"id":"GO:2000780","count":1},{"id":"GO:0050847","count":1},{"id":"GO:0035413","count":1}]},{"hash":"660334811994793361","title":"RNA Pol II Transcription and Elongation","description":"The most common GO terms describe DNA-templated transcription and elongation by RNA polymerase II, plus snRNA transcription by Pol II/III, indicating a core function in transcription regulation. A few terms refer to chromatin regulation and unrelated processes, which are less representative.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006354","count":2},{"id":"GO:0042795","count":1},{"id":"GO:0042796","count":1}]},{"hash":"278062016977952003","title":"Receptor tyrosine kinase signaling","description":"The terms point to tyrosine autophosphorylation (including positive regulation), FGFR-related apoptotic signaling, and general RTK signaling, which together suggest a core receptor tyrosine kinase signaling theme. Developmental processes like optic nerve morphogenesis and regulation of extracellular matrix disassembly are plausible downstream roles of RTK pathways. A few terms (e.g., pollen recognition, neuron death regulation) appear peripheral or obsolete, likely reflecting annotation noise. Overall, the cluster is best described by RTK signaling activity, with FGFR references anchoring the theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0048544","count":2},{"id":"GO:0010715","count":2},{"id":"GO:0021631","count":2}]},{"hash":"1085373485183477445","title":"Negative regulation of stem cell population maintenance","description":"The top GO term indicates a potential shared role in downregulating stem cell maintenance, suggesting a unifying theme for the cluster. However, with only one GO annotation and modest connectivity (Edges 4, Triangles 0, Max Degree 4), evidence is limited and the label should be considered tentative.","confidence":"Low","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902455","count":1}]},{"hash":"2108575787566459901","title":"Developmental Differentiation and Brain Patterning","description":"The GO terms point to hematopoietic progenitor cell differentiation and midbrain-hindbrain boundary structural organization, indicating roles in development and tissue patterning rather than a single biochemical function; the obsolete RNA polymerase import terms are likely annotation noise.","confidence":"Low","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002244","count":1},{"id":"GO:1990022","count":1},{"id":"GO:0044376","count":1},{"id":"GO:0021552","count":1}]},{"hash":"771501014017236331","title":"Endosomal trafficking and cell polarity","description":"Dominant terms point to the MVB pathway and vesicle sorting, along with apical junction assembly and Cdc42 signaling, which together reflect endosomal trafficking and establishment/maintenance of cell polarity. Peripheral terms like viral replication and pre-mRNA decay are less central but compatible with broader cellular regulation. ","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0010458","count":3},{"id":"GO:0036258","count":3},{"id":"GO:0071985","count":3},{"id":"GO:0039694","count":2}]},{"hash":"1913650880925001115","title":"Unknown","description":"The GO terms span immune/defense (response to muramyl dipeptide, defense response to Gram-positive bacteria), core cell-cycle processes (DNA replication, centriole replication), stress and translation control (eIF2 alpha phosphorylation, cellular response to ionizing radiation), and various development/morphogenesis or tissue-specific terms (face development, pseudohyphal growth, response to muscle stretch). This broad and seemingly unrelated mix suggests no single cohesive function or theme for the protein cluster, indicating Unknown with no clear representative label. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032495","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0060324","count":5}]},{"hash":"681351027764212886","title":"Skeletal muscle development and NMJ organization","description":"The terms show a clear muscle/NMJ theme: skeletal muscle fiber development, subsynaptic reticulum organization, and negative regulation of synaptic assembly at the neuromuscular junction, along with calcium signaling and regulatory processes relevant to muscle function. While a few terms are less directly related (e.g., immune migration, p53 signaling), the dominant pattern supports a muscle development and NMJ organization cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060288","count":1},{"id":"GO:2001256","count":1},{"id":"GO:0090311","count":1},{"id":"GO:0048741","count":1},{"id":"GO:0043517","count":1}]},{"hash":"1545908793969022233","title":"Ubiquitin-Proteasome\u2013Mediated Antiviral Defense","description":"The top GO terms cluster around ubiquitin-dependent protein degradation (including SCF-dependent and polyubiquitination, autoubiquitination, and K63-linked ubiquitination) and innate immune/virus defense responses, with a note on negative regulation of cytoplasmic translation. This suggests proteins that regulate proteostasis via ubiquitination in the context of antiviral defense, rather than a single, unrelated function. The lack of network edges doesn't contradict this cohesive functional theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0031146","count":3},{"id":"GO:2000766","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0051607","count":2}]},{"hash":"650998001185643128","title":"Unknown","description":"The top terms span nitrate assimilation, myelin maintenance, sphingolipid and ergosterol metabolism, nitric oxide production, fatty acid and CoA biosynthesis, mitochondrial inheritance, sebaceous gland differentiation, and general phosphorylation. These terms come from very diverse biology and taxa, with no single unifying function or pathway tying the cluster together. Therefore there is no coherent label to assign, and the confidence is None.","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0006809","count":1},{"id":"GO:0006636","count":1}]},{"hash":"617667811145223357","title":"Arp2/3-mediated actin remodeling and lamellipodium formation","description":"This cluster is dominated by GO terms describing Arp2/3 complex\u2013mediated actin nucleation, lamellipodium assembly, and regulation of actin filament capping and cell spreading, pointing to a cohesive role in actin cytoskeleton remodeling and cell migration.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034314","count":2},{"id":"GO:1900026","count":1},{"id":"GO:2000814","count":1},{"id":"GO:0010592","count":1},{"id":"GO:0060407","count":1}]},{"hash":"226575821128800101","title":"Nuclear RNA Processing and Ribosome Biogenesis","description":"The cluster is dominated by GO terms tied to nuclear RNA maturation and ribosome assembly, including ribosome assembly, prespliceosome assembly, poly(A)+ mRNA export, and RNA\u2013protein cross-linking. Together these point to a core role in nucleolar/nuclear RNA processing and ribosome biogenesis, with protein targeting and transcription-related processes supporting traffic to the nucleus. The presence of DNA replication and viral replication terms could reflect broader or moonlighting functions but do not outweigh the RNA-biogenesis theme.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042255","count":9},{"id":"GO:0071035","count":9},{"id":"GO:1903241","count":9},{"id":"GO:0006605","count":9},{"id":"GO:0019079","count":9}]},{"hash":"924068433446090988","title":"RNA Splicing and Silencing Machinery","description":"This cluster is dominated by GO terms related to mRNA splicing (spliceosome-mediated and alternative splicing, with regulatory splicing activity) and RNA silencing (miRNA- and regulatory ncRNA\u2013mediated gene silencing). Although a couple terms touch on viral or host interactions, the core signal is post-transcriptional RNA processing and gene regulation by RNA interference and splicing. ","confidence":"High","size":9,"edges":17,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":2},{"id":"GO:0030260","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0031047","count":2}]},{"hash":"1871346125540161326","title":"Unknown","description":"The GO terms are heterogeneous, including muscle development/differentiation, thyroid hormone metabolism, microautophagy and vacuolar fusion, neuronal plasticity/axogenesis, hedgehog signaling modulation, and nephric duct morphogenesis. There isn\u2019t a single cohesive function tying all nine proteins together, making a common cluster label uncertain.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0016237","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0048170","count":1}]},{"hash":"2305296331212367189","title":"Developmental Differentiation and Intracellular Transport","description":"The cluster contains GO terms centered on developmental cell fate decisions (wing and R8 cell differentiation) alongside intracellular transport and cytoskeletal processes (intraciliary transport for cilium assembly, general protein transport, ribosomal export, and mitotic microtubule organization). This suggests a cohesive theme where differentiation programs are coordinated with transport and cytoskeletal dynamics, rather than a single isolated process.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035311","count":1},{"id":"GO:0030953","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0035735","count":1},{"id":"GO:0045465","count":1}]},{"hash":"1006190655323146355","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by terms related to making and using the protein synthesis machinery: ribosome biogenesis, cytoplasmic translation, and tRNA modification, with accompanying signals of growth-related processes like cell division. The presence of these core translation-related terms suggests a cohesive theme around ribosome production and protein synthesis, with some regulatory metabolic notes that can accompany growth. Confidence: Medium","confidence":"","size":9,"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:1901001","count":1},{"id":"GO:1903833","count":1}]},{"hash":"480604663372682703","title":"Plant carbohydrate metabolism and osmotic stress response","description":"The cluster is enriched for carbohydrate biosynthesis/metabolism (starch, sucrose, glucose, glycogen) and membrane-related lipid biosynthesis (GPI anchor, glycolipid), plus stress-response terms (response to flooding, response to mannitol). This points to a plant-specific program linking carbohydrate synthesis with membrane lipid biosynthesis under osmotic/flood stress, hence the label.","confidence":"Medium","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019252","count":4},{"id":"GO:0005985","count":4},{"id":"GO:0005978","count":4},{"id":"GO:0061641","count":3},{"id":"GO:0009413","count":3}]},{"hash":"79552214810866839","title":"Proteostasis and Autophagy","description":"The top GO terms cluster around protein quality control: response to misfolded protein, autophagosome maturation, and late endosomal microautophagy, with a related emphasis on mitochondrial inner membrane protein insertion. Together these points suggest a shared theme of proteostasis maintained by autophagy/mitophagy and organelle protein handling, despite a couple broader terms appearing. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001319","count":1},{"id":"GO:0046034","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0051013","count":1},{"id":"GO:0097352","count":1}]},{"hash":"559020667612228909","title":"Lipid Metabolism and Small-Molecule Catabolism","description":"The top GO terms point to lipid metabolism (glycerophospholipid metabolic process; phospholipid biosynthetic process) alongside a range of small-molecule catabolic and biosynthetic pathways (methanol oxidation, 3-chlorocatechol catabolic, glycerol and butanol related processes). This suggests the cluster comprises enzymes involved in diverse metabolic reactions, centered on lipid handling with broader small-molecule metabolism.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015946","count":1},{"id":"GO:0015976","count":1},{"id":"GO:0006650","count":1},{"id":"GO:1901168","count":1},{"id":"GO:0051143","count":1}]},{"hash":"1233233379850073412","title":"Lipoprotein transport and cholesterol metabolism","description":"Top GO terms emphasize lipoprotein transport, cholesterol metabolism, triglyceride catabolism, and related vascular lipid processes, suggesting a lipid-handling cluster.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0033344","count":3},{"id":"GO:0034196","count":3},{"id":"GO:0010744","count":3},{"id":"GO:0042953","count":3}]},{"hash":"1482441072852124884","title":"Steroid Hormone Biosynthesis and Reproductive Development","description":"This cluster's top GO terms center on steroid biosynthesis and metabolism (androgen, testosterone, progesterone) and genes involved in genitalia development, suggesting a cohesive theme around steroid hormone production and related development. Some terms relate to plant-specific lipid biosynthesis (brassinosteroid homeostasis, dolichol/polyprenol processes), which may reflect broader lipid metabolism but do not override the steroid\u2013development signal.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006488","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0030540","count":1},{"id":"GO:0010091","count":1},{"id":"GO:0006702","count":1}]},{"hash":"1802889778648589948","title":"RNA processing and RNP biogenesis","description":"This cluster centers on RNA maturation and ribonucleoprotein (RNP) assembly, including box H/ACA snoRNP assembly, snRNA pseudouridine synthesis, snoRNA-guided rRNA pseudouridylation, and ribosome biogenesis. It also encompasses telomerase holoenzyme assembly, telomerase RNA stabilization, and localization to Cajal bodies, indicating RNP biogenesis and RNA trafficking. The overarching theme is RNA modification and RNP formation that supports translation and RNA biology; transcription-related terms may be auxiliary. ","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048096","count":1},{"id":"GO:0006368","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000493","count":1}]},{"hash":"1868716081909830926","title":"Unknown","description":"The cluster has no GO terms, no edges or triangles, and no apparent shared function from the available data. The mention of ReCIPE re-additions does not imply a functional theme, so a meaningful label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"872479079259476148","title":"Transcription Regulation & DNA Damage Response","description":"This cluster centers on processes that control gene expression and chromatin state, including protein deubiquitination, transcription regulation (DNA-templated transcription and negative regulation of transcription by RNA Pol II), and histone modification, along with a link to the DNA damage response and apoptosis regulation. Additional terms point to cell fate decisions (muscle differentiation, stem cell proliferation) that are often governed by transcriptional and epigenetic control, supporting a cohesive theme of transcriptional regulation integrated with DNA damage signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043392","count":1},{"id":"GO:0042981","count":1},{"id":"GO:0035914","count":1}]},{"hash":"1716753052032748726","title":"TLR Signaling and Cytokine Regulation","description":"Dominant signal is Toll-like receptor (TLR)\u2013mediated innate immune signaling and cytokine regulation. Terms include MyD88-dependent TLR signaling, TLR9 and TLR10 signaling, plus regulation of interferon-beta and interleukin-6 production, indicating a shared role in sensing pathogens and modulating inflammatory responses. A few terms about nucleocytoplasmic transport and kidney size appear ancillary, but the TLR/cytokine pattern is the strongest unifying theme for this cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903215","count":1},{"id":"GO:0045359","count":1},{"id":"GO:0090394","count":1},{"id":"GO:0006409","count":1},{"id":"GO:0035564","count":1}]},{"hash":"812517437357849453","title":"Cell Division and Microtubule Organization","description":"Most of the top GO terms describe mitosis and microtubule dynamics (mitotic metaphase chromosome alignment, spindle midzone assembly, regulation of the cell cycle, establishment of meiotic spindle orientation) and vesicle transport along microtubules, pointing to a cohesive role in cell division and microtubule organization. A few terms touch on development and cell junctions, but the central signal is mitotic spindle\u2013 and microtubule\u2013driven processes.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048364","count":3},{"id":"GO:0007050","count":2},{"id":"GO:0072383","count":2},{"id":"GO:0007080","count":2},{"id":"GO:0051255","count":2}]},{"hash":"1446802107725136732","title":"Cardiac Muscle Contraction and Cytoskeletal Regulation","description":"This cluster centers on heart-related terms (heart development, cardiac muscle contraction) and cytoskeletal dynamics (actin crosslink formation, regulation of GTPase activity), suggesting a shared theme of cardiac muscle cytoskeletal remodeling and signaling. A few other terms (ribosome biogenesis, mitotic chromosome alignment, general DNA binding) appear more general or divergent, which lowers the overall cohesion, so the core connection remains cardiac muscle and cytoskeletal regulation.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1961755093923394970","title":"DNA replication and mitotic chromatin dynamics","description":"The top terms center on DNA-templated transcription, DNA replication, and CENP-A\u2013containing chromatin assembly, plus cell division and microtubule severing. This points to proteins involved in chromosome replication and mitotic chromatin remodeling/centromere function, with some participation in transcription regulation and DNA damage tolerance. Overall, the cluster reflects DNA replication coupled with chromatin dynamics during cell division.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0061641","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0006272","count":2}]},{"hash":"1147703572233527301","title":"Spliceosome-Mediated Splicing and RNA Silencing","description":"The top GO terms point to spliceosome-driven mRNA splicing and processing (cis splicing, spliceosome, splice site recognition, and alternative splicing) together with regulatory non-coding RNA\u2013mediated and miRNA-mediated gene silencing, indicating a cluster centered on post-transcriptional RNA regulation, including transcriptional control via RNA silencing and translation-level regulation.","confidence":"High","size":8,"edges":8,"triangles":5,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0006376","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0048026","count":4}]},{"hash":"1390770676530679989","title":"Nuclear RNA Processing and Ribosome Biogenesis","description":"The cluster centers on nuclear RNA metabolism and ribosome biogenesis, with terms for ribosome assembly, prespliceosome assembly, mRNA export, and RNA-protein interactions indicating active RNA processing in the nucleus. While a few outlier terms reference DNA replication or viral genome replication, the dominant signal is RNA maturation and ribosome assembly, suggesting a functional module in RNA metabolism and ribosome biogenesis.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042255","count":1},{"id":"GO:0071035","count":1},{"id":"GO:1903241","count":1},{"id":"GO:0006605","count":1},{"id":"GO:0019079","count":1}]},{"hash":"2261072968947252768","title":"Mitotic Regulation and Chromosome Segregation","description":"The strongest signals come from mitosis-related processes: centromere-associated chromatin assembly (CENP-A), APC/C-dependent catabolic process, spindle assembly checkpoint regulation and the G1 DNA damage response, which together point to mitotic control and chromosome segregation. Some terms (heat-stress\u2013related mRNA export, GPCR signaling, neuron projection development) are less connected to this core theme, suggesting some noise in the annotation, but the dominant pattern supports this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":2},{"id":"GO:1901976","count":2},{"id":"GO:2000728","count":2},{"id":"GO:1904263","count":2},{"id":"GO:0061641","count":2}]},{"hash":"309496485586936767","title":"Craniofacial skeletal and middle ear morphogenesis","description":"The strongest signals are skeletal system development, ossification, axial mesoderm development, and middle ear morphogenesis, pointing to craniofacial bone formation and ear ossicle development. A few terms (translation/preribosome assembly, apical junction assembly, dendrite regulation, viral RNA replication) seem more reflective of general cellular processes or annotation noise in a small cluster, but they do not override the main craniofacial skeletal/ear theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":1},{"id":"GO:0048318","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0034463","count":1}]},{"hash":"1182600528111410625","title":"Unknown","description":"There is no shared GO signal or measurable interaction among the eight proteins (no edges or terms), so a common function cannot be inferred. Label as Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"407611570058379464","title":"RNA Splicing and Translation Regulation","description":"This cluster shows a strong enrichment for spliceosome-related processes (mRNA splicing, splice site recognition, alternative splicing, and spliceosome-mediated regulation) alongside translation initiation/reinitiation steps, suggesting proteins that coordinate RNA processing with control of translation. The presence of regulatory ncRNA-mediated gene silencing further supports a role in post-transcriptional regulation. A broader cellular signaling term (TGF-\u03b2 response) appears less centralized but may reflect context-dependent regulation. Overall, the common theme is RNA processing coupled with translation regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0006376","count":2}]},{"hash":"1687633302012125058","title":"Vacuolar amino acid transporters","description":"These proteins collectively show enrichment for GO terms involving transmembrane import and export of amino acids (lysine, arginine, serine, tyrosine, histidine) across the vacuolar membrane, indicating a shared function as vacuolar amino acid transporters. A couple of terms are unrelated/obsolete noise (root cap development, obsolete regulation terms), but the amino acid transporter signals dominate. This label succinctly captures the main theme of the cluster.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061402","count":1},{"id":"GO:0089707","count":1},{"id":"GO:1901482","count":1},{"id":"GO:0051365","count":1},{"id":"GO:0090516","count":1}]},{"hash":"1363722449910779021","title":"Collagen-Integrin ECM Signaling and Development","description":"This cluster shows several GO terms tied to collagen involvement, integrin biosynthesis, and collagen-activated signaling, as well as cuticle development and other ECM-related developmental processes (eye morphogenesis, cartilage development). Together these suggest a common theme of extracellular matrix interactions and ECM-mediated signaling guiding tissue development; other terms may reflect annotation noise or peripheral processes. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051873","count":1},{"id":"GO:2000590","count":1},{"id":"GO:0038063","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0070994","count":1}]},{"hash":"31403804363830785","title":"ER stress and ER-Golgi vesicle trafficking","description":"The terms center on ER stress response and trafficking between the ER, Golgi, and endosomes (ER-to-Golgi transport, Golgi localization, endosome transport), suggesting a cohesive vesicle pathway theme. Some spindle checkpoint and proteasome-related terms appear less connected and may reflect broader cell-cycle regulation in this protein set.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034976","count":2},{"id":"GO:1903206","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0032889","count":2},{"id":"GO:0032486","count":2}]},{"hash":"1588401733659562063","title":"Eye development and retinal metabolism","description":"This cluster is dominated by GO terms related to retina and eye formation, including retinal and retinol metabolic processes, optic cup morphogenesis, and embryonic camera-type eye development. A few terms refer to broader organ development (neural tube, nose, pancreas, inner ear), but the strongest and most frequent signals point to ocular development and retinal metabolism, making this a coherent eye/retina-focused cluster.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0001936","count":4},{"id":"GO:0009952","count":4},{"id":"GO:0031076","count":4}]},{"hash":"1082286047642260057","title":"Spliceosome-Mediated Splicing and RNA Silencing","description":"The cluster is enriched for multiple spliceosome-related terms (mRNA splice site recognition, cis/spliceosome-mediated splicing, and alternative splicing) plus regulatory RNA silencing processes (ncRNA- and miRNA-mediated silencing), indicating a group of proteins involved in post-transcriptional RNA processing and regulation.","confidence":"High","size":8,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1819265179694904436","title":"Prostate gland development and epithelial differentiation","description":"Two of the top terms explicitly reference prostate gland growth and epithelial differentiation in prostate development, suggesting a prostate-focused functional theme for this cluster. The other terms (sphingolipid metabolism and GPCR signaling) are broader and provide less direct support, so the label reflects the strongest signal with partial context.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006665","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0060736","count":1},{"id":"GO:0007193","count":1},{"id":"GO:0060742","count":1}]},{"hash":"993380815259385279","title":"Unknown","description":"There are no GO terms listed for this cluster, so I can't identify a common function or theme among the proteins. With only 5 edges, no triangles, and no top terms, it may be heterogeneous or data incomplete.","confidence":"","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1441676719503183062","title":"Unknown","description":"The top GO terms are scattered across centrosome-related localization, acetylcholine biosynthesis/secretion, and sieve element differentiation, offering no clear shared function for these eight proteins. This suggests no cohesive theme can be inferred, so a single representative label is not identifiable.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0061526","count":1},{"id":"GO:0090603","count":1}]},{"hash":"1325639942409669633","title":"Cardiac stress signaling and metabolism","description":"The GO terms converge on stress-responsive signaling and energy/metabolic regulation linked to heart development (mesoderm/heart hypertrophy), including unfolded protein response, glucocorticoid signaling, glycogen metabolism, apoptosis regulation, and DNA damage/checkpoint control, suggesting a heart-centered stress-response program.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007498","count":8},{"id":"GO:1903244","count":8},{"id":"GO:2001241","count":8},{"id":"GO:0032516","count":8},{"id":"GO:2000324","count":8}]},{"hash":"1556155406178852841","title":"Unknown","description":"The GO terms are very heterogeneous, including neural signaling (GABA secretion, neurotransmitter-gated ion channel clustering) alongside metabolism (NAD+ biosynthesis, nucleotide phosphorylation) and cell junction/barrier terms, with no single dominant function linking all proteins. This lack of a cohesive theme makes a specific, intuitive label unreliable.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009435","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0072578","count":1},{"id":"GO:0014051","count":1},{"id":"GO:0045186","count":1}]},{"hash":"1489312472874045094","title":"Sperm axoneme assembly and motility","description":"Dominant GO terms describe cilium/axoneme movement, sperm flagellum assembly, and tubulin post-translational modifications essential for flagellar motility. Terms like microtubule severing and polyglutamylation/polyglycylation support a microtubule-based motility theme in sperm flagella and cilia. A few outlier immune-related terms exist but do not redefine the cluster\u2019s primary function. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":1},{"id":"GO:0003353","count":1},{"id":"GO:0030516","count":1},{"id":"GO:1905419","count":1},{"id":"GO:0018095","count":1}]},{"hash":"632899494302737708","title":"DNA Damage Response and Cell Cycle Checkpoints","description":"The proteins in this cluster show a clear enrichment for DNA damage response and cell cycle regulation terms, including mitotic G2 DNA damage checkpoint signaling, centriole replication, and negative regulation of sister chromatid cohesion, as well as responses to ionizing radiation and camptothecin. While a few terms relate to broader stress responses or morphogenesis, the dominant signal ties to DNA damage sensing/repair and cell cycle control.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010998","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0007124","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0007099","count":2}]},{"hash":"714053924074554990","title":"Unknown","description":"This cluster shows a mix of very different processes (neural/dendrite development, viral replication, epithelial junctions and EMT, mitochondrial dynamics, mRNA catabolism, protein localization, and signaling). There is no clear, shared function linking the GO terms, so a cohesive, specific label can\u2019t be assigned.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:2000171","count":3},{"id":"GO:0039694","count":3},{"id":"GO:0043297","count":3},{"id":"GO:0000266","count":3},{"id":"GO:1990261","count":3}]},{"hash":"649953622970374211","title":"Lysosomal lipid catabolism and neuromuscular function","description":"The cluster\u2019s top GO terms revolve around lysosome organization and catabolic processes of lipids and glycoconjugates (keratan sulfate proteoglycan, gangliosides), coupled with neuromuscular signals (calcium homeostasis, balance, skeletal development) and neural-associated terms like sensory perception of sound. This pattern suggests a coherent theme where lysosomal degradation of lipids/glycans supports neuromuscular and skeletal functions, rather than a single isolated pathway. Some neural terms may reflect broader neuronal roles but are compatible with the overall neuromuscular/skeletal emphasis. Overall, a lysosome-centered lipid catabolism with neuromuscular implications fits best. ","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":5,"top_function":"lysosome organization","top_go_terms":[{"id":"GO:0007040","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0042340","count":3},{"id":"GO:0019915","count":3}]},{"hash":"1890469621754931982","title":"Unknown","description":"There are no GO terms listed for this cluster, so I cannot identify a shared function or theme. With 8 proteins and 7 edges but no functional annotations, the appropriate label is Unknown until more data is available.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[]},{"hash":"1299978628215076805","title":"Unknown","description":"These proteins associate with a wide, unrelated set of GO terms, spanning neural plasticity, morphogenesis, circadian regulation, muscle differentiation, angiogenesis, and even viral latency, with no shared biological process tying them together. The absence of edges (Max Degree 0) further supports lack of a cohesive cluster function.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048170","count":1},{"id":"GO:0021952","count":1},{"id":"GO:0045880","count":1},{"id":"GO:0048671","count":1},{"id":"GO:0072178","count":1}]},{"hash":"797715594804179834","title":"Photoreceptor Protein Localization and Ubiquitination","description":"This cluster centers on proteins localizing to the photoreceptor outer segment and on ubiquitin-dependent regulation (including K11-linked ubiquitination), suggesting a module for photoreceptor protein trafficking and turnover. Other terms reference secretion and signaling but the core theme appears to be photoreceptor-specific protein handling via ubiquitin pathways. Some terms are obsolete, which lowers the certainty somewhat.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":1},{"id":"GO:1903546","count":1},{"id":"GO:0035955","count":1},{"id":"GO:1901215","count":1},{"id":"GO:1903646","count":1}]},{"hash":"21652464455301686","title":"Unknown","description":"There are eight proteins, but no GO terms, no edges, and no triangles, so there is no clear shared function to label; without functional signals, the cluster cannot be meaningfully named.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1038047247744111719","title":"Calcium-dependent cytoskeletal remodeling in development","description":"The cluster\u2019s frequent GO terms center on calcium ion response, cell shape regulation and polarity, cytokinesis, and skeletal muscle development/adaptation, all of which hinge on dynamic cytoskeletal rearrangements. Although a couple terms seem peripheral (e.g., ascospore wall assembly, substantia nigra development), the dominant theme is calcium-regulated cytoskeletal dynamics guiding morphogenesis, division, and muscle/neuronal development. This makes a cohesive label capturing the shared biology, with some noise from unrelated terms.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":7},{"id":"GO:0030476","count":7},{"id":"GO:0043982","count":7},{"id":"GO:0071963","count":7},{"id":"GO:0000281","count":7}]},{"hash":"2072565237534118691","title":"Unknown","description":"The GO terms span diverse processes (immune signaling, development, RNA processing, transcription regulation, and various cellular responses) with no cohesive shared function or dominant pathway, and there are no connectivities to anchor a specific theme, so a single meaningful label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000766","count":1},{"id":"GO:1904628","count":1},{"id":"GO:0001782","count":1},{"id":"GO:0048382","count":1},{"id":"GO:0071364","count":1}]},{"hash":"1760492968085892773","title":"DNA Integration and Transposition","description":"The GO terms center on DNA integration, transposition, and proviral latency, indicating a genome mobility theme (transposases/integrases). The presence of chromosome segregation and cell cycle terms suggests these proteins may connect genome rearrangement with cell division.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007059","count":2},{"id":"GO:0006313","count":2}]},{"hash":"584832978375699603","title":"Translation Machinery: Initiation to Termination","description":"This cluster centers on translation processes across compartments (cytoplasmic and mitochondrial), including initiation, elongation, and termination, with related aspects like selenocysteine incorporation and diphthamide formation\u2014together indicating core translation machinery and its regulation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0001514","count":1},{"id":"GO:0070125","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0035914","count":1}]},{"hash":"1533439491136140859","title":"Protein Synthesis and Quality Control","description":"This cluster is dominated by GO terms for translation and co-translational protein targeting to membranes (translation and SRP-dependent translocation), along with aggresome assembly and inclusion body regulation, all indicating protein synthesis coupled with cellular quality control. While DNA replication also appears, the recurring emphasis on translation and protein handling suggests a core theme around synthesis and quality control of proteins.","confidence":"Medium","size":7,"edges":15,"triangles":12,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070842","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006412","count":3},{"id":"GO:1902037","count":2},{"id":"GO:0006880","count":2}]},{"hash":"1741094495505351115","title":"Neuronal actin remodeling and Golgi-ER vesicle trafficking","description":"This cluster centers on actin cytoskeleton regulation (actin polymerization, formin-mediated cables, stress fibers) together with vesicle trafficking and Golgi-related processes (ER-to-Golgi transport, Golgi localization, and regulated synaptic vesicle exocytosis), pointing to a cohesive role in neuronal actin-driven vesicle trafficking and synaptic function. The presence of dendrite development and junction terms fits the neuronal context as well.","confidence":"High","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000042","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051496","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0030838","count":4}]},{"hash":"1731271922223037178","title":"Spliceosome-Mediated mRNA Processing & RNA Silencing","description":"The top GO terms are dominated by mRNA splicing and processing (spliceosome, alternative splicing, polyadenylation) with several terms related to RNA silencing (regulatory ncRNA- and miRNA-mediated silencing), suggesting a cluster of proteins involved in post-transcriptional RNA processing and gene regulation, especially splicing and associated silencing pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0006376","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0031047","count":4}]},{"hash":"1151693989424144389","title":"Cholesterol and triglyceride metabolism and lipoprotein transport","description":"The GO terms cluster around lipid handling: cholesterol metabolism, triglyceride biosynthesis, lipoprotein biosynthesis/remodeling, lipid storage, and reverse cholesterol transport, indicating a cohesive lipid/lipoprotein metabolism theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090107","count":1},{"id":"GO:0042158","count":1},{"id":"GO:0034372","count":1},{"id":"GO:0019915","count":1},{"id":"GO:0019432","count":1}]},{"hash":"1435272465485792958","title":"Capsule and cell wall polysaccharide biosynthesis","description":"The main terms center on glycan biosynthesis and cell-surface polysaccharides (cell wall/capsule), including glycosylation and UDP-galactose metabolism, suggesting a role in assembling surface glycans rather than intracellular signaling.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070592","count":1},{"id":"GO:0006679","count":1},{"id":"GO:0052573","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0018242","count":1}]},{"hash":"752303126952070788","title":"Unknown","description":"The protein set shows a scattered mix of GO terms spanning ribosome biogenesis and ribosomal assembly, nuclear DNA replication, various protein trafficking routes (ER localization, ER to cytosol transport, endosome localization), as well as unrelated processes like light absorption and immune regulation; there is no single coherent function or pathway tying all members together, so a meaningful, specific cluster name cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006267","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0010197","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0036010","count":1}]},{"hash":"2121724628243296458","title":"Retroviral integration and latency","description":"The terms cluster around retroviral biology: integration of viral DNA into the host genome, establishment of proviral latency, viral entry and penetration into the host nucleus, and RNA-templated DNA synthesis (reverse transcription), which together reflect steps of the retrovirus life cycle and proviral maintenance. Additional DNA recombination and DNA replication signals support the broader genomic integration context, while other host-pathogen interaction terms hint at modulation of host processes. Overall, a coherent theme is retroviral genome integration and latency.","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1}]},{"hash":"1959569356373623885","title":"Proteostasis and mitochondrial maintenance","description":"The terms emphasize proteostasis-related processes (cellular response to misfolded protein; autophagosome maturation) and mitochondrial-related functions (protein insertion into the mitochondrial inner membrane; ATP metabolism), with supporting links to cytoskeletal dynamics (cilium movement, microtubule severing). Although a couple of terms are not directly aligned (viral genome replication; transcription initiation), the predominant signals cluster around maintaining protein quality and mitochondrial/energy homeostasis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001319","count":1},{"id":"GO:0003341","count":1},{"id":"GO:0046034","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0051013","count":1}]},{"hash":"1087535349527189836","title":"Unknown","description":"The top GO terms are highly diverse, covering muscle and heart development, neural morphogenesis, chromatin localization, mRNA decay, plasmid partitioning, and other unrelated processes, with no single dominant function linking the proteins. This lack of a cohesive theme makes a specific, descriptive cluster name unsupported.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":1},{"id":"GO:0003209","count":1},{"id":"GO:0071169","count":1},{"id":"GO:0042692","count":1},{"id":"GO:0033128","count":1}]},{"hash":"1550783309376007667","title":"Membrane Transport of Nutrients and Ions","description":"The top GO terms are dominated by various transmembrane transport activities (xenobiotics, vitamins, ions, sugars, and related substrates), indicating the proteins function primarily as transporters or transporter-associated components across membranes, with a minor regulatory/structural term present. ","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0015739","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0060731","count":3}]},{"hash":"1454470199870900224","title":"ER Stress and Heat Response","description":"The GO terms cluster around ER-associated protein folding, unfolded protein response, and heat-related stress management, including redox homeostasis; together they point to ER quality control under heat stress. Some items are obsolete or less relevant, but the dominant theme is ER protein folding and stress response.","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009408","count":5},{"id":"GO:0097428","count":5},{"id":"GO:0045454","count":5},{"id":"GO:1900035","count":5},{"id":"GO:0001707","count":5}]},{"hash":"2016830632557224474","title":"Lipid Transport and Lipoprotein Metabolism","description":"The top GO terms are dominated by lipid-related processes\u2014cholesterol efflux, lipoprotein transport and catabolism, triglyceride and acylglycerol metabolism\u2014pointing to a lipid transport/metabolism program. A couple of terms about foam cell differentiation or artery morphogenesis are incidental; overall, the cluster aligns best with lipid handling and transport.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":1},{"id":"GO:0006530","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0033344","count":1},{"id":"GO:0034196","count":1}]},{"hash":"1779697874824939049","title":"RNA Pol II Transcription Regulation & ER Stress","description":"This cluster centers on RNA polymerase II\u2013dependent transcription activities (regulation of transcription, transcription initiation, open complex formation, DNA-templated transcription) with accompanying ER stress\u2013related processes (protein folding in ER, ER stress response) and related quality-control terms, suggesting proteins that coordinate transcription regulation with ER protein handling; the viral process term is a less central annotation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0001113","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0034976","count":1}]},{"hash":"188751184108442212","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":6,"triangles":2,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0006363","count":2},{"id":"GO:0035640","count":2}]},{"hash":"2208185425521824299","title":"Unknown","description":"There are no GO terms or interaction data provided for this cluster (no edges, no top terms), so there is no clear shared function to label. Without enrichment or connectivity signals, a specific functional label cannot be inferred and the safe designation is Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1835981993071748547","title":"Vacuolar trafficking and acidification","description":"This cluster is dominated by GO terms tied to the vacuole (protein targeting to vacuole, vacuole organization, vacuolar acidification) and proton/ion transport (proton transmembrane transport, proton motive force-driven ATP synthesis, sodium ion transport). These together suggest a role in vacuolar membrane function, acidification by proton pumps, and ion homeostasis, likely involving vacuolar targeting pathways and associated transport machinery (e.g., V-ATPase\u2013related processes). While a copper ion homeostasis term also appears, it can be related to vacuolar storage/handling of metals, reinforcing the membrane/ion-transport theme. Overall, the cluster reflects vacuolar targeting plus proton/ion transport activity. ","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0007033","count":2},{"id":"GO:0007035","count":2}]},{"hash":"117026447752389331","title":"Unknown","description":"The Top Terms field is empty with no GO terms to link the proteins; there is only a single edge and no shared functional signal, so a cohesive label cannot be inferred from available data. The cluster appears underdetermined for a specific function.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1557985307527264990","title":"Unknown","description":"The set of terms is highly heterogeneous: several mitochondrial-related terms (protein import into the mitochondrial matrix, regulation of mitochondrial membrane permeability) hint at mitochondrial involvement, but the other terms span triglyceride biosynthesis, palmitoylation, vacuole fusion, sebaceous gland development, and even obsolete GO entries, with little overlap. There is no single coherent biological theme connecting most proteins, so a meaningful cluster label cannot be derived.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000134","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0010867","count":1},{"id":"GO:1903740","count":1},{"id":"GO:0070940","count":1}]},{"hash":"118792253498640947","title":"Telomere maintenance and shelterin assembly regulation","description":"Dominant theme is telomere biology: regulation of telomere architecture (D-loop, telomere loop), shelterin complex assembly, and subtelomeric heterochromatin, with a supporting G-quadruplex DNA term; other terms appear as noise.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1905839","count":1},{"id":"GO:1904850","count":1},{"id":"GO:0072362","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0071919","count":1}]},{"hash":"1087287039914702797","title":"Meiosis, oocyte maturation, and spindle dynamics","description":"The top terms point to SCF-dependent ubiquitin-proteasomal degradation, spindle assembly in female meiosis I, oocyte maturation, and microtubule polymerization, indicating a cluster centered on meiotic progression and cytoskeletal dynamics. Some terms about neural tube development and ventricle development are present but represent broader developmental contexts; the core signal remains meiosis/spindle/cytoskeleton regulation.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":1},{"id":"GO:0007057","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0051436","count":1},{"id":"GO:0001556","count":1}]},{"hash":"2123096236994468148","title":"Unknown","description":"There are no GO terms available to reveal a common function for this cluster (Top Terms are empty). With only 6 proteins and 5 edges and no functional signals, a reliable, specific label cannot be inferred. Therefore, the safest name is Unknown.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[]},{"hash":"2218087381668912229","title":"Embryonic organogenesis (kidney and neural development)","description":"The proteins seem associated with organ formation across multiple systems: kidney development (metanephros morphogenesis, renal vesicle formation), neural development (dorsal root ganglion development), and other embryonic structures like fungiform papilla formation. While some terms touch on signaling and apoptosis regulation during development (Wnt signaling pathway involved in negative regulation of apoptotic process), the common theme is broad embryonic organogenesis rather than a single specific function. This supports labeling as embryonic organ development with a focus on kidney and neural tissues.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061198","count":1},{"id":"GO:0003338","count":1},{"id":"GO:0044336","count":1},{"id":"GO:0051561","count":1},{"id":"GO:0086091","count":1}]},{"hash":"1952045015557417429","title":"Unknown","description":"There are no GO terms listed to reveal a shared function, and the limited edges offer little evidence for a common biological role; thus no coherent label can be assigned.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1392921575464928517","title":"Neural and Sensory System Development","description":"The top GO terms cluster around nervous system and visual system development, including synaptic plasticity, CNS projection neuron axonogenesis, dendritic spine development, myelination regulation, optic nerve morphogenesis, and eye morphogenesis. Although there are outliers related to kidney development and angiogenesis, the strongest signal points to formation and maturation of neural and sensory (eye) structures, suggesting proteins involved in neural/sensory system development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048170","count":1},{"id":"GO:0021952","count":1},{"id":"GO:0045880","count":1},{"id":"GO:0048671","count":1},{"id":"GO:0072178","count":1}]},{"hash":"2156972161890142690","title":"Neural Signaling and Brain Development","description":"Top terms center on neuronal signaling and brain development (dopamine response, ephrin signaling, Wnt signaling, hippocampus development) and on calcium-dependent exocytosis. Some terms (heart development, pseudohyphal growth) are less related, but the dominant theme is neural signal transduction and synaptic regulation.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007124","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0033138","count":4},{"id":"GO:1903351","count":4},{"id":"GO:0043304","count":4}]},{"hash":"461999709493166825","title":"Cell polarity and division regulators","description":"The top GO terms cluster around apical/basal polarity establishment, apical junction assembly, centriole replication, and regulation of sister chromatid cohesion, suggesting a theme of coordinating cell polarity with cell division; the remaining terms may reflect broader signaling or stress-related processes but do not define a distinct alternative function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010998","count":1},{"id":"GO:0071479","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0035994","count":1},{"id":"GO:0007099","count":1}]},{"hash":"669687870128957342","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030490","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070651","count":2}]},{"hash":"2020733103249328936","title":"Receptor tyrosine kinase signaling","description":"These proteins appear linked to tyrosine autophosphorylation and FGFR-related signaling, which are hallmarks of receptor tyrosine kinases. Although several GO terms are obsolete or cover broader developmental processes (pollen recognition, optic nerve morphogenesis), the strongest, surviving terms cluster around RTK activity and its apoptotic/regulatory signaling, supporting a RTK-associated theme for this cluster.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":1},{"id":"GO:0038083","count":1},{"id":"GO:0048544","count":1},{"id":"GO:0010715","count":1},{"id":"GO:0021631","count":1}]},{"hash":"1856009563226189016","title":"Telomere maintenance and shelterin assembly","description":"The terms consistently point to telomere biology, including regulation of telomeric structures (D-loop and G-quadruplex), telomeric loop formation, and shelterin complex assembly, plus subtelomeric and rDNA heterochromatin formation. This indicates the cluster centers on telomere maintenance and associated chromatin state rather than unrelated pathways.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905839","count":1},{"id":"GO:1904850","count":1},{"id":"GO:0072362","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0071919","count":1}]},{"hash":"140013916434128886","title":"DNA transposition and proviral integration machinery","description":"The cluster is enriched for GO terms related to DNA integration, DNA transposition, and proviral latency, plus viral-associated processes such as symbiont entry and viral translation reinitiation, suggesting proteins involved in mobile genetic elements (transposons/retroelements) and proviral integration. The inclusion of cell cycle-related terms may reflect coordination with host DNA replication, but the core signal points to DNA mobility and proviral integration functions.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007059","count":2},{"id":"GO:0006313","count":2}]},{"hash":"1893209985065829113","title":"Unknown","description":"The top terms are a mix of stress responses (cadmium ion, heat), immune-related processes (B cell cytokine production, IgG isotype switching), a reproductive interaction (sperm binding to zona pellucida), and telomere maintenance regulation (telomerase activity and localization). There is no single cohesive function linking these terms, so a precise, representative label cannot be assigned with confidence.","confidence":"","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":4},{"id":"GO:0051973","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0007339","count":2},{"id":"GO:0048291","count":2}]},{"hash":"391078469719767117","title":"Retroviral infection and proviral integration","description":"This cluster centers on virus-host interactions related to retroviral life cycles: viral entry into the host cell, penetration into the nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration into the host genome, and establishment of proviral latency, along with DNA replication/recombination and modulation of host RNAi pathways. The terms collectively point to retroviral infection and proviral integration as the core theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1261379801462569303","title":"Neuronal development and stress signaling","description":"The presence of neuron maturation and adult locomotory behavior terms, together with DNA-templated transcription and regulation of DNA binding, suggests a core function in neuronal development and transcriptional control. The additional terms for JNK cascade regulation and unfolded protein response indicate engagement of cellular stress signaling, which often accompanies neuronal differentiation and function. A few terms like mitochondrial fission and Wnt receptor catabolic process may relate to developmental remodeling and signaling dynamics in neurons. Overall, the cluster appears to group proteins involved in neuronal development with stress- and signaling-related regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0008344","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0000266","count":1}]},{"hash":"486127954406865808","title":"RNA Splicing and ncRNA-Mediated Silencing","description":"The GO terms cluster around RNA processing and post-transcriptional regulation: several spliceosome- and splicing-related terms (mRNA splicing, splice site recognition, alternative splicing) alongside ncRNA- and miRNA-mediated gene silencing, indicating a cohesive focus on RNA processing and regulation.","confidence":"High","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006376","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0075525","count":3}]},{"hash":"470714921017059428","title":"Vesicle trafficking and autophagy regulation","description":"This cluster centers on intracellular trafficking and autophagy control, highlighted by GO terms for COPI Golgi vesicle coating, positive regulation of protein exit from the ER, and non-autophagic vacuole fusion, with autophagy-related regulation linking these processes; some metabolic and signaling terms may modulate these functions.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016242","count":1},{"id":"GO:0005979","count":1},{"id":"GO:0050849","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0000079","count":1}]},{"hash":"96799187621378571","title":"Lipoprotein Transport and Cholesterol Metabolism","description":"These proteins show a cohesive lipid-handling theme, with GO terms highlighting triglyceride catabolism, cholesterol efflux, lipoprotein transport and clearance, and regulation of cholesterol biosynthesis. The inclusion of foam cell differentiation and artery morphogenesis hints further at vascular lipid processing. Collectively, this suggests a module focused on lipoprotein traffic and cholesterol homeostasis rather than unrelated functions.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0033344","count":3},{"id":"GO:0034196","count":3},{"id":"GO:0010744","count":3},{"id":"GO:0042953","count":3}]},{"hash":"1408939548647206011","title":"Unknown","description":"The terms span ER unfolded protein response, innate immune signaling, dendritic cell chemotaxis, development, reproductive binding, vesicle trafficking, NF-kappaB signaling, cell adhesion/spreading, retinoic acid signaling, and cell cycle regulation, with no single cohesive theme tying them together. This heterogeneity suggests no clear, unified function for the cluster.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"protein folding","top_go_terms":[{"id":"GO:0030968","count":5},{"id":"GO:2000510","count":5},{"id":"GO:0010204","count":5},{"id":"GO:0048916","count":5},{"id":"GO:0007339","count":5}]},{"hash":"1663926658694706173","title":"GTPase Signaling and Cell Polarity","description":"The terms emphasize small GTPase\u2013mediated signal transduction and the establishment/polarization of cells (neuroblasts, T cells) along with raft polarization, adhesion-related spreading, and immune cell functions (B cell homeostasis, memory T cell proliferation). This points to a cohesive theme of GTPase-driven signaling coordinating cell polarity and immune signaling across neural and immune contexts.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045200","count":1},{"id":"GO:0001782","count":1},{"id":"GO:0007264","count":1},{"id":"GO:1900026","count":1},{"id":"GO:0001768","count":1}]},{"hash":"1279225940645487233","title":"Spliceosome-Mediated mRNA Splicing","description":"The cluster is characterized by GO terms for mRNA splicing via the spliceosome (splice site recognition, cis splicing, alternative splicing) and regulatory ncRNA\u2013mediated gene silencing, indicating a cohesive spliceosome-related RNA-processing module.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1}]},{"hash":"1085792936390705308","title":"Spliceosome-driven mRNA splicing and ncRNA silencing","description":"The cluster\u2019s GO terms cluster around mRNA processing via the spliceosome (splice site recognition, cis splicing, alternative splicing, and regulation of splicing) and ncRNA-mediated gene silencing (including miRNA-related silencing). This points to a cohesive role in RNA processing and post-transcriptional regulation rather than translation or transcription, despite one outlier term related to viral translation. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3}]},{"hash":"2205511671395557276","title":"Antiviral innate immune signaling and virus entry","description":"The top GO terms cluster around host defense and viral entry processes: virion attachment to host cell, regulation of interferon signaling, chemotaxis, and nitric oxide biosynthesis, which are characteristic of innate antiviral responses. Other terms such as DNA replication, translation attenuation, and metabolism are less specific and may reflect broader cellular activity, but the prominent immune-related terms support labeling the cluster as related to antiviral host response.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":1},{"id":"GO:0051973","count":1},{"id":"GO:0060334","count":1},{"id":"GO:0019062","count":1},{"id":"GO:0032516","count":1}]},{"hash":"2087941838800056851","title":"Cell Cycle and ER-Golgi Vesicle Transport","description":"The proteins in this cluster are linked to both cell division processes (cleavage furrow ingression, G2 checkpoint signaling, and meiosis cytokinesis) and vesicle trafficking between the ER and Golgi (retrograde transport, regulation of ER-Golgi transport, and general protein transport). This suggests a cohesive role in coordinating membrane trafficking with cell-cycle\u2013related cytokinesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007112","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0060628","count":1},{"id":"GO:1902504","count":1},{"id":"GO:0036090","count":1}]},{"hash":"179434890475749206","title":"Cell Cycle Control and Ubiquitin-Mediated Stress Response","description":"The set centers on mitotic regulation (APC-dependent catabolic process, cell division, spindle checkpoint considerations), ubiquitin signaling (K48- and K6-linked ubiquitination), and damage responses (nucleotide-excision repair, apoptosis, hyperoxia). Together these terms suggest a cohesive theme of cell-cycle control coupled with ubiquitin-mediated proteolysis and stress/DNA-damage responses, with one potential outlier being fungal-type cell wall organization. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051569","count":5},{"id":"GO:0070911","count":5},{"id":"GO:0031505","count":5},{"id":"GO:1902426","count":5},{"id":"GO:0070936","count":5}]},{"hash":"1803475465381830826","title":"DNA replication and chromatin assembly","description":"This cluster is driven by nuclear processes: multiple proteins annotated for DNA replication and recombination, plus CENP-A chromatin assembly, pointing to DNA maintenance and centromeric chromatin organization. Other terms about transcription elongation, proteasomal turnover, stress granule disassembly, and organelle-related processes exist but are less central, making the core theme DNA replication/recombination and chromatin maintenance.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0001319","count":1},{"id":"GO:0032979","count":1}]},{"hash":"53827716688482736","title":"RNA Polymerase I/III Transcription Regulation","description":"The cluster centers on regulation of transcription by RNA polymerase I and III and regulation of DNA binding, indicating a coherent theme of gene expression control; other terms touch on signaling pathways and endothelial morphogenesis but are secondary to the transcription-focused terms.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000155","count":1},{"id":"GO:0033211","count":1},{"id":"GO:0018107","count":1},{"id":"GO:0051101","count":1},{"id":"GO:0080163","count":1}]},{"hash":"1073810281052919534","title":"Muscle and Heart Mechanotransduction Signaling","description":"The terms cluster around signaling in response to mechanical stimuli (muscle stretch, cellular response to mechanical stimulus) and development-related pathways (Wnt, ephrin signaling) with at least one cardiac morphogenesis term, suggesting a focus on mechanotransduction and associated signaling in muscle/heart contexts.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003213","count":1},{"id":"GO:0000083","count":1},{"id":"GO:2000171","count":1},{"id":"GO:0035994","count":1},{"id":"GO:1901187","count":1}]},{"hash":"328969200463793772","title":"Spliceosome and RNA processing","description":"The GO terms cluster around RNA processing and splicing (maturation of SSU-rRNA, tRNA processing, spliceosomal snRNP assembly, and mRNA splicing) with supporting nuclear import; P-body involvement may reflect broader RNA metabolism.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0009414","count":3},{"id":"GO:0008033","count":3}]},{"hash":"1890113457663138764","title":"Unknown","description":"The top GO terms cover two distinct areas\u2014spermatogenesis (sperm axoneme assembly and sperm individualization) and immune/mechanosensory processes (interferon-beta production and detection of mechanical stimulus for hearing)\u2014with no clear, single theme tying them together, so a cohesive label is not justifiable.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007288","count":1},{"id":"GO:0032608","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0050910","count":1}]},{"hash":"15886082355118690","title":"Telomere Maintenance Regulation","description":"The top GO terms cluster around telomere biology (positive regulation of telomerase activity, telomere maintenance via telomerase, and localization to telomeres), suggesting a primary theme of telomere regulation, with a few outlier terms related to other processes like heat response and immune functions.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051973","count":4},{"id":"GO:0009408","count":4},{"id":"GO:0007339","count":4},{"id":"GO:0048291","count":4},{"id":"GO:0002368","count":4}]},{"hash":"2295587169724552258","title":"Nuclear transport and mitosis regulators","description":"The cluster centers on nuclear transport activities (tRNA export from nucleus and NLS-bearing protein import into nucleus) and mitosis/centrosome-associated processes (centrosome cycle, centriole replication regulation, mitotic chromosome alignment, and nuclear membrane disassembly). A secondary linkage to signaling pathways (Wnt regulation and MAPK modulation) appears, suggesting these proteins may also interface signaling with cell division and nuclear trafficking. Overall, the dominant theme is coordination of nuclear transport with centrosome and mitotic regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006409","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0046601","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0007098","count":1}]},{"hash":"626356926681447609","title":"Nuclear Transport and Localization","description":"The top GO terms cluster around nuclear trafficking: protein import into the nucleus (and NLS-bearing import), regulation of protein import into the nucleus, nuclear pore organization, and tRNA export from the nucleus, with additional notes on protein oligomerization. Despite zero observed edges, these terms point to a cohesive theme of nuclear localization and transport machinery among the four proteins, suggesting a shared role in shuttling or assembling components for nuclear trafficking (e.g., GO:0042306, GO:0010827, GO:0006607, GO:0006409, GO:0036228, GO:0006999).","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036228","count":1},{"id":"GO:0010827","count":1},{"id":"GO:0042306","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0006999","count":1}]},{"hash":"1675186248752735632","title":"Unknown","description":"The GO terms span transcriptional regulation, RNA processing, translation initiation, mRNA surveillance, chromatin organization, and developmental processes, with no single dominant function evident across all four proteins; therefore there isn't a cohesive theme to label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:0000338","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0071033","count":1}]},{"hash":"2299743033934597634","title":"Viral IRES-Dependent Translation Initiation","description":"The top GO terms are strongly centered on initiating translation in a viral context, including IRES-dependent initiation, translation reinitiation, and preinitiation complex formation, which suggests these proteins are linked to viral translation control. The additional terms (muscle differentiation, deneddylation, nuclear mRNA surveillance) appear incidental and do not define the main theme of this cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2165389456802736263","title":"Cardiac and metabolic signaling","description":"Based on the top GO terms, the cluster shows heart-related processes (heart trabecula formation, regulation of cardiac conduction) alongside growth factor signaling (TGF-beta/activin pathways) and metabolic regulation (insulin secretion and glucose response). This suggests a cohesive theme around cardiometabolic signaling and development rather than a single isolated function, though some terms (cadmium response, amyloid formation) are less central. Overall, the label reflects the strongest, recurring themes in the set.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0060347","count":2},{"id":"GO:0007179","count":2},{"id":"GO:0032925","count":2},{"id":"GO:0061179","count":2}]},{"hash":"1929415012879405208","title":"Autophagy and ubiquitin-dependent degradation","description":"The cluster is dominated by autophagy-related terms (aggrephagy, autophagosome maturation) and ubiquitin-linked proteolysis (protein ubiquitination, ER-associated protein degradation), suggesting these proteins function in proteostasis and selective autophagy. While a few terms touch on signaling or development, the autophagy/ubiquitin theme best ties the functions together.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045759","count":4},{"id":"GO:1901097","count":4},{"id":"GO:0060334","count":4},{"id":"GO:0035186","count":4},{"id":"GO:0035973","count":4}]},{"hash":"732998838822826493","title":"Spliceosome assembly and ribosome biogenesis","description":"This cluster is dominated by RNA-centric processes: prespliceosome assembly and positive regulation of mRNA splicing, along with ribosome assembly and ncRNA-mediated gene silencing, indicating a shared theme of RNA processing and ribosome biogenesis in the nucleus.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0042255","count":2},{"id":"GO:0071035","count":2},{"id":"GO:1903241","count":2}]},{"hash":"2119040897936732797","title":"Autophagy-Lysosome Targeting","description":"GO terms strongly converge on autophagy-related localization and lysosomal trafficking, including targeting to phagophore assembly sites and Cvt pathway transport, plus lysosomal enzyme secretion. This indicates the proteins function in autophagic flux and lysosome delivery, justifying a label centered on autophagy and lysosome targeting.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034497","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0006622","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0030242","count":1}]},{"hash":"1463375170818864891","title":"Unknown","description":"This cluster has no edges or shared GO terms listed (Edges: 0; Triangles: 0; Top Terms empty), so there is no apparent common function across the four proteins. Without annotations or interaction evidence, a specific, representative label cannot be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1282134087740065074","title":"Ion transport in excitable tissues","description":"The terms cluster around membrane ion transport (Ca2+, Na+, K+, Mn2+), mitochondrial Ca handling, and processes tied to neural signaling and muscle/heart contraction, indicating a theme of ion exchange and excitation in neurons and muscles.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":1},{"id":"GO:1990034","count":1},{"id":"GO:0006851","count":1},{"id":"GO:0007154","count":1},{"id":"GO:0014819","count":1}]},{"hash":"722287291325143753","title":"Autophagy-Related Vesicle Trafficking","description":"These proteins are implicated in autophagy initiation (phagophore assembly site and CVT pathway), lysosome/vacuole targeting (protein targeting to lysosome, secretion of lysosomal enzymes, vacuole fusion regulation), and general intracellular transport (COPII-coated vesicle loading; intracellular protein transport), suggesting a cohesive role in autophagy-lysosome/vacuole trafficking.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034497","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0006622","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0030242","count":1}]},{"hash":"234178664835009500","title":"Unknown","description":"Because there are no GO terms provided and the cluster shows minimal connectivity (one edge, max degree 1), there is no clear shared function to label. The ReCIPE re-added proteins also lack annotated terms to connect them, so a specific, representative function cannot be inferred.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1806696401332556755","title":"Unknown","description":"The cluster has no GO terms or shared functional signals (Top Terms is empty; Edges and Max Degree are zero), so there is no coherent theme to tie the four proteins together. Although ReCIPE re-added many proteins, the lack of connections or annotations prevents a meaningful function label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"404214065234017514","title":"Nonribosomal peptide antibiotic biosynthesis","description":"The top GO terms point to amino acid activation for nonribosomal peptide biosynthesis and to antibiotic biosynthetic processes, suggesting this cluster participates in NRPS-driven production of antibiotics, even though the interaction network is sparse. This combination of terms supports a cohesive NRPS/antibiotic biosynthesis function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043041","count":1},{"id":"GO:0017000","count":1}]},{"hash":"1341996902868541197","title":"Unknown","description":"The top GO terms are a mix of nuclear chromatin regulation (histone methylation, heterochromatin formation) and RNA processing (splicing, dephosphorylation), plus cytoplasmic processes (ER\u2013Golgi transport) and developmental terms. There isn't a single cohesive function tying these four proteins together; the terms span chromatin modification, RNA processing, trafficking, metabolism, and development, making a precise, representative label difficult. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006183","count":1}]},{"hash":"894805604011347023","title":"Unknown","description":"The GO terms are highly diverse and include ubiquitination-related processes, hormone signaling, defense responses, and responses to morphine, with several terms marked obsolete. There are no clear, recurring themes or a detectable shared function among the four proteins, and the interaction graph has no edges, suggesting no cohesive cluster function can be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":1},{"id":"GO:1901215","count":1},{"id":"GO:0035955","count":1},{"id":"GO:1903646","count":1},{"id":"GO:0070979","count":1}]},{"hash":"925111082881821317","title":"Unknown","description":"Top Terms are empty, so there is no shared functional signal to define a coherent cluster; with four proteins and three edges but no GO annotations, I cannot assign a meaningful label.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"240487856828631156","title":"Unknown","description":"The four proteins show a mix of GO terms spanning dendrite development regulation, viral RNA replication, apical junction assembly, mitochondrial fission, pre-mRNA catabolic processes, epithelial\u2013mesenchymal signaling, and protein complex localization. With only one occurrence per term and no clear shared pathway or function linking them, there isn\u2019t a cohesive theme to assign a specific, concise label.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000171","count":1},{"id":"GO:0039694","count":1},{"id":"GO:0043297","count":1},{"id":"GO:0000266","count":1},{"id":"GO:1990261","count":1}]},{"hash":"2251385973739087762","title":"Epithelial Junctions and Cell Polarity","description":"The top GO terms point to epithelial organization and polarity (apical junction assembly, epithelial-mesenchymal signaling, and Cdc42 signaling), suggesting a shared role in junction dynamics and cell polarity. Other terms (protein transport, mitochondrial fission, viral replication, pre-mRNA decay) appear less cohesive with this theme and may reflect broad or noisy annotations given the small cluster size. Thus, a moderate-to-high confidence label focusing on epithelial junctions and polarity fits best, with some noise present.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":3},{"id":"GO:0071806","count":3},{"id":"GO:2000171","count":2},{"id":"GO:0039694","count":2},{"id":"GO:0043297","count":2}]},{"hash":"81701336396582656","title":"Cytoskeletal Dynamics and Endosomal Trafficking","description":"This cluster shows GO terms for regulation of Rho signaling and JNK cascade, cell polarity and shape maintenance, along with endosome organization, vacuolar protein processing, phagocytosis, and secretion. The common thread appears to be coordination between cytoskeletal remodeling and vesicular/endosomal trafficking and immune-related phagocytic processes. Confidence in this label is Medium.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0006624","count":1},{"id":"GO:0006909","count":1},{"id":"GO:0070560","count":1},{"id":"GO:0008344","count":1}]},{"hash":"576507940123795263","title":"Ubiquitin-driven immune signaling","description":"The GO terms cluster around ubiquitin-related modification (polyubiquitination, autoubiquitination) and immune/inflammatory signaling (I-kappaB phosphorylation, JNK cascade, IL-17 signaling) with B cell homeostasis and necroptosis regulation also appearing, suggesting a theme of ubiquitin-mediated control of immune signaling pathways.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":1},{"id":"GO:0097039","count":1},{"id":"GO:0001782","count":1},{"id":"GO:1900095","count":1},{"id":"GO:0036205","count":1}]},{"hash":"1040671614126068299","title":"Neuronal axon guidance and synapse formation","description":"The top GO terms converge on neural development and connectivity: retinal ganglion cell axon guidance, fasciculation of sensory neuron axons, regulation of synapse assembly, and integrin-mediated adhesion, with peptidyl-tyrosine autophosphorylation suggesting receptor tyrosine kinase signaling common in neurons. Some terms (lung mesenchyme development, vitamin D3 metabolism) are less related, but the dominant theme is axon guidance and synapse assembly.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0033628","count":3},{"id":"GO:0038093","count":3}]},{"hash":"95164183425395942","title":"Telomere maintenance and heterochromatin formation","description":"The GO terms cluster around telomere biology and chromatin state, including telomeric loop formation, shelterin complex assembly, and regulation of D-loop disassembly, as well as subtelomeric and rDNA heterochromatin formation and histone deacetylation. This pattern points to a coordinated role in maintaining telomere structure and establishing repressive chromatin at telomeres and related repeats. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0070933","count":2},{"id":"GO:1905839","count":1},{"id":"GO:1904850","count":1},{"id":"GO:0072362","count":1}]},{"hash":"917740445021153621","title":"Unknown","description":"The top terms are a scattered mix of signaling pathway regulation and protein degradation, with a couple of tissue-specific processes and even obsolete GO terms, and there are no network edges connecting the proteins. There isn\u2019t a clear, cohesive function linking the cluster, so a reliable label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0046328","count":1},{"id":"GO:0038018","count":1},{"id":"GO:0048820","count":1},{"id":"GO:0050957","count":1}]},{"hash":"2029033813710470889","title":"Unknown","description":"There are four proteins with six edges and four triangles, but no GO terms or functional annotations are provided to guide naming. Without a shared functional signal, it's not possible to assign a meaningful label.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"970329199103212286","title":"Neural signaling and cytoskeletal regulation","description":"The terms emphasize neuronal development and signaling (axonogenesis, adult locomotory behavior) along with cell shape control, endosome organization, mitochondrial fission, and regulation of kinase and guanylate cyclase activities. This pattern suggests proteins involved in neural signaling and cytoskeletal/organellar dynamics rather than a single metabolic process. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0007409","count":1},{"id":"GO:1901001","count":1},{"id":"GO:1903244","count":1},{"id":"GO:0008344","count":1}]},{"hash":"647142053714975585","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by ribosome-related GO terms\u2014ribosome biogenesis (small and large subunits), ribosomal subunit export, tRNA modification, and cytoplasmic translation\u2014indicating a core theme of ribosome assembly and protein synthesis. Additional terms about cell division and septum assembly suggest coordination with growth and division; a few stress-response terms are present but not central. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901001","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0000747","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006400","count":1}]},{"hash":"53858455453454554","title":"Large subunit ribosome biogenesis","description":"The cluster\u2019s terms cluster around maturation and assembly of the large ribosomal subunit: LSU rRNA maturation, 5.8S rRNA maturation, ribosomal large subunit assembly, and assembly of the large subunit preribosome, plus export of the LSU from the nucleus. A couple of lipid biosynthesis terms appear unrelated to this core theme, likely annotation noise, but the dominant signal supports a ribosome biogenesis role for the large subunit.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006686","count":1},{"id":"GO:0006656","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000466","count":1}]},{"hash":"1507893604773971985","title":"Organ Development and Morphogenesis","description":"The proteins in this cluster are linked to diverse developmental and morphogenetic processes across several organs (tongue papilla formation, kidney development, dorsal root ganglion development, renal vesicle formation) and include broader signaling and cell-cycle related terms (Wnt signaling in apoptosis, cytokinesis, and proliferation regulation). This pattern points to a general role in organ development and tissue morphogenesis rather than a single, cohesive function, hence the broad label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061198","count":1},{"id":"GO:0003338","count":1},{"id":"GO:0044336","count":1},{"id":"GO:0051561","count":1},{"id":"GO:0086091","count":1}]},{"hash":"57464733155171227","title":"Unknown","description":"The GO terms span multiple, unrelated processes (mesoderm development, cardiac hypertrophy response to stress, extrinsic apoptotic signaling, Golgi-endosome transport, glucocorticoid signaling, glycogen regulation, and unfolded protein response). With no dominant shared function across all four proteins, there isn't a coherent theme to name a specific cluster. Therefore, the appropriate label is Unknown and a single representative function cannot be assigned.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":1},{"id":"GO:1903244","count":1},{"id":"GO:2001241","count":1},{"id":"GO:0032516","count":1},{"id":"GO:0042147","count":1}]},{"hash":"1103627321351696087","title":"Unknown","description":"The GO terms present are glycosylation-related (O- and N-linked) and magnesium ion transport, which do not reveal a cohesive shared function or pathway tying all four proteins together. Because the terms are heterogeneous and one is obsolete, there is no clear, representative theme to assign a specific label.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0015693","count":1}]},{"hash":"934020361069606489","title":"RNA Processing and Splicing Machinery","description":"The terms consistently point to RNA maturation, processing, and splicing (tRNA/rRNA processing, spliceosome assembly, mRNA splicing, transcription termination) and associated nuclear transport, indicating a cohesive RNA metabolism module.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":3},{"id":"GO:0033962","count":2},{"id":"GO:0042633","count":2},{"id":"GO:0030490","count":2},{"id":"GO:0009414","count":2}]},{"hash":"629273188514132573","title":"Bacterial Cell Wall and LPS Biosynthesis","description":"The top GO terms cluster around lipid A biosynthesis, lipopolysaccharide and peptidoglycan biosynthesis, and regulation of cell shape, pointing to a shared role in constructing and organizing the bacterial cell envelope. Additional polysaccharide biosynthesis terms (slime layer, GDP-mannose) reinforce this envelope/outer-membrane theme; an outlier like fungal-type cell wall biogenesis likely reflects annotation noise rather than a true functional signal.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009245","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009252","count":2},{"id":"GO:0008360","count":2},{"id":"GO:0071555","count":2}]},{"hash":"1151058352308758395","title":"Cell Cycle Checkpoints and Chromosome Segregation","description":"The top GO terms strongly point to cell cycle control and chromosome segregation (regulation of cell cycle checkpoint, deactivation of the mitotic spindle assembly checkpoint, APC-dependent catabolic process, G1 DNA damage signaling, and CENP-A containing chromatin assembly). While a few terms like neuron projection development appear, they are not representative of the cluster\u2019s dominant pattern. Thus, the label highlights the core theme of cell division regulation and chromosomal maintenance.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":1},{"id":"GO:1901976","count":1},{"id":"GO:2000728","count":1},{"id":"GO:1904263","count":1},{"id":"GO:0061641","count":1}]},{"hash":"995858877745698868","title":"mRNA Splicing and Spliceosome Regulation","description":"The dominant GO terms point to mRNA splicing via the spliceosome, splice-site recognition, and alternative splicing, indicating the proteins are primarily involved in RNA processing and spliceosome-mediated regulation of splicing. Some RNA silencing terms are present but secondary to the splicing-focused signals.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1}]},{"hash":"1418497819398016190","title":"Gene Regulation & Chromatin Remodeling","description":"The GO terms suggest a core focus on transcriptional regulation and chromatin state (negative transcription regulation, histone methylation, deubiquitination) with links to DNA damage response (p53 pathway). While other terms point to broader cellular regulation (translation, localization, phosphorylation), the strongest signals relate to gene expression control and chromatin modification, justifying a label centered on regulatory roles in gene expression and chromatin dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:1902035","count":1},{"id":"GO:0043516","count":1},{"id":"GO:1903715","count":1},{"id":"GO:0016579","count":1}]},{"hash":"1112775917137885307","title":"Ribosome Biogenesis and RNA Processing","description":"The cluster's terms cluster around ribosome-related processes and RNA maturation\u2014translation (protein synthesis), ribosome biogenesis, LSU-rRNA maturation, Box C/D snoRNP assembly, and snRNA pseudouridine synthesis\u2014indicating a cohesive theme of assembling and modifying ribosomes and RNA; additional signals such as JNK/p38 regulation and mRNA decay modulation suggest broader cellular regulation tied to translation and RNA quality control.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1900745","count":1},{"id":"GO:0000492","count":1},{"id":"GO:1904571","count":1},{"id":"GO:0000185","count":1}]},{"hash":"989062835718059983","title":"Mitotic spindle assembly and microtubule dynamics","description":"The GO terms cluster around microtubule- and spindle-related processes (mitotic spindle assembly, metaphase chromosome alignment, spindle midzone formation, spindle orientation, plus-end-directed vesicle transport along microtubules, and cytokinesis), with related themes in axonemal microtubule remodeling and cytoskeletal maintenance. Together they point to proteins involved in spindle formation, microtubule-based transport, and cell division, justifying a label focused on mitotic spindle dynamics.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072383","count":3},{"id":"GO:0007080","count":3},{"id":"GO:0051255","count":3},{"id":"GO:0000911","count":3},{"id":"GO:0060404","count":3}]},{"hash":"1441148753997859968","title":"Nuclear RNA Processing and Spliceosome Assembly","description":"Based on the GO terms, the proteins cluster around nuclear RNA metabolism, including prespliceosome assembly, poly(A)+ mRNA export, RNA-protein cross-linking, and ribosome assembly, indicating a group involved in RNA processing and ribosome biogenesis rather than a single linear pathway. Although a few terms appear unrelated (e.g., viral genome replication), the predominant signals point to RNA processing functions in the nucleus. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042255","count":1},{"id":"GO:0071035","count":1},{"id":"GO:1903241","count":1},{"id":"GO:0006605","count":1},{"id":"GO:0019079","count":1}]},{"hash":"794577746768807712","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905618","count":1},{"id":"GO:1904761","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1}]},{"hash":"1707079125573470152","title":"ER-Golgi-Endosome Vesicle Traffic","description":"The GO terms cluster around transport between the ER, Golgi, and endosomal compartments (early endosome to Golgi, ER to Golgi vesicle transport, endosome-to-late endosome), with additional signals of vacuolar targeting and plasma membrane localization, indicating a cohesive vesicle trafficking and protein localization role along the secretory and endosomal pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":2},{"id":"GO:0032258","count":2},{"id":"GO:1903078","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0045022","count":2}]},{"hash":"903071330265790378","title":"Unknown","description":"This cluster provides insufficient functional evidence: only 3 proteins with 2 edges, no triangles, and no GO terms to indicate a shared function, so a meaningful label cannot be inferred from the data available.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"875151982849949784","title":"Septation and budding cell polarity regulation","description":"The Top Terms cluster around septation and budding (septum digestion after cytokinesis; budding apical bud growth) and include regulation of bipolar cell polarity and signaling for septation initiation, plus regulation of phosphorylation. Together they point to a cohesive role in coordinating cell division with polarity and signaling, typical of proteins governing septation onset and bud growth.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":1},{"id":"GO:0007118","count":1},{"id":"GO:2000100","count":1},{"id":"GO:0031031","count":1},{"id":"GO:0042327","count":1}]},{"hash":"88941420439264372","title":"Unknown","description":"No shared GO terms or clear functional theme are evident among XP_067735459.1, XP_067722845.1, and XP_067731804.1; the Top Terms are empty and the small graph (2 edges, 0 triangles) provides no cohesive functional signal.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"624959879280113619","title":"Unknown","description":"There are three proteins with no network connections and no shared GO terms provided, so there is no basis to infer a common function; thus a specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1641383663186813304","title":"Mitochondrial, cell cycle, and cardiac regulation","description":"These proteins appear linked to several core regulatory processes across different systems: mitochondrial calcium handling, mitotic chromatid separation, heart-rate regulation via cardiac conduction, renal development, apoptotic signaling, proteasome localization, and other regulatory functions. The common thread is broad regulation of essential cellular and organ-level activities rather than a single, cohesive pathway, suggesting a multifunctional regulatory cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051561","count":2},{"id":"GO:0051306","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0072033","count":2},{"id":"GO:2001241","count":2}]},{"hash":"1112961240577615001","title":"Unknown","description":"The cluster shows no GO terms and no connections (edges/triangles) among members, so there is no shared functional signal to define a coherent theme. Without functional terms or interactions, assigning a meaningful label isn\u2019t possible.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"932451954812294440","title":"Membrane Ion Transport and Proton Motive ATP Synthesis","description":"The GO terms point to proton transmembrane transport, sodium ion transport, and proton motive force\u2013driven ATP synthesis, suggesting a cluster of membrane proteins involved in maintaining ion gradients and energy production. The single heart looping term may be incidental; the dominant theme is membrane ion transport and ATP synthesis. With no edges or triangles and a small protein set, the label emphasizes shared function over connectivity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901207","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0042777","count":1}]},{"hash":"2180537954060571904","title":"Actin-driven cell shape remodeling and endocytosis","description":"The top GO terms cluster around actin cytoskeleton remodeling (filopodium and ruffle assembly, cell polarity) and membrane trafficking processes (endocytosis, engulfment), suggesting proteins in this cluster coordinate dynamic shape changes and uptake activities typical of migrating or phagocytic cells.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0051489","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0043552","count":3}]},{"hash":"1591405667259619583","title":"Developmental morphogenesis and cytoskeletal signaling","description":"The top GO terms point to developmental patterning and differentiation (hair follicle placode formation, midbrain dopaminergic neuron differentiation, chitin-based larval cuticle pattern formation) together with cytoskeletal and signaling regulation (positive regulation of GTPase activity, positive regulation of pseudopodium assembly, cytokinesis). This suggests a theme of developmental morphogenesis intertwined with cytoskeletal dynamics and signaling, rather than a single, narrowly defined process. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051561","count":2},{"id":"GO:0060789","count":2},{"id":"GO:1904948","count":2},{"id":"GO:0032467","count":2}]},{"hash":"2028997722667429014","title":"DNA Damage Response and Cell Cycle Regulation","description":"The top GO terms are dominated by DNA damage response and cell cycle control signals (ionizing radiation, camptothecin response, mitotic G2 checkpoint signaling, centriole replication, and cohesion regulation), with an additional stress-responsive translation control via eIF2 alpha phosphorylation. This points to a theme of cells coordinating damage repair with progression through the cell cycle, rather than a single, narrow function. Some terms like pseudohyphal growth may reflect broader stress adaptation within this context. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010998","count":3},{"id":"GO:0071479","count":3},{"id":"GO:0007124","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0007099","count":3}]},{"hash":"1529873118733101799","title":"Unknown","description":"There are no GO terms, edges, or connectivity data to infer a shared function for this cluster, so there is no clear common function to label. 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":"1764449874945087697","title":"Cardiac Muscle Stress Signaling and Metabolic Regulation","description":"Based on GO terms, the cluster points to muscle lineage and cellular stress responses\u2014mesoderm development suggests muscle origin, and GO:1903244 (positive regulation of cardiac muscle hypertrophy in response to stress) highlights cardiac stress signaling. GO terms such as unfolded protein response and dephosphorylation indicate protein homeostasis and signaling modulation. Metabolic terms like regulation of glycogen catabolic process and glucocorticoid signaling tie the cluster to energy management under stress. Together, these terms imply a stress-response/metabolic signaling theme relevant to cardiac or skeletal muscle.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":1},{"id":"GO:1903244","count":1},{"id":"GO:2001241","count":1},{"id":"GO:0032516","count":1},{"id":"GO:0016311","count":1}]},{"hash":"1506103563213618491","title":"Ciliary signaling in development","description":"The terms converge on ciliary biology and associated signaling pathways (ciliary transition zone, non-motile cilium assembly, Wnt/PCP, Hedgehog) and link to developmental processes (head and brain development, epithelial maintenance) as well as cilia-related trafficking (opsin transport). This pattern suggests proteins functioning in ciliary signaling with developmental roles.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000095","count":1},{"id":"GO:0060322","count":1},{"id":"GO:1990403","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0036372","count":1}]},{"hash":"773794337255126790","title":"Unknown","description":"The GO terms span DNA metabolism (demethylation, DNA catabolic process, recombination), redox/homeostasis, hormone signaling, and unrelated processes, with several obsolete terms, giving no clear shared function for the cluster. Therefore, a coherent, specific label cannot be inferred.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0080111","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0006308","count":1},{"id":"GO:1903507","count":1},{"id":"GO:0006310","count":1}]},{"hash":"785491651987199856","title":"Antibiotic response and xenobiotic transport","description":"The terms suggest a small module where proteins participate in responding to antibiotics and transporting xenobiotics across membranes; the cell cycle/division terms are less directly connected and may reflect incidental or broader stress responses. With only a few proteins and modest connectivity, the signal is modest.","confidence":"Low","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0006855","count":1}]},{"hash":"2278342602320286398","title":"Neural signaling and sensory processing","description":"The top GO terms point to neural communication (anterograde synaptic vesicle transport) and sensory-related roles (eye pigment granule organization and olfactory learning). Together, these suggest a cluster of proteins involved in nervous system signaling and sensory perception/learning, with one term tied to eye function. The small cluster size means this is a best-fit, high-level label rather than a highly specific module.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":1},{"id":"GO:0008057","count":1},{"id":"GO:0008355","count":1}]},{"hash":"2024752519722039335","title":"Development and cell division regulators","description":"The proteins show regulatory roles across developmental processes (placenta and labyrinthine layer development; neuron apoptotic regulation) and cell division (mitotic spindle assembly; regulation of cytokinesis), with supporting involvement in Wnt signaling and ubiquitin-mediated regulation. This suggests a theme of modulating development and cell cycle progression via signaling and ubiquitination, making a concise label: Development and cell division regulators.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":1},{"id":"GO:0050727","count":1},{"id":"GO:1902524","count":1},{"id":"GO:0032465","count":1},{"id":"GO:0060711","count":1}]},{"hash":"1574837472909144890","title":"Unknown","description":"The three proteins show a highly diverse set of GO terms (GPI anchor biosynthesis, amino acid\u2013responsive signaling, mushroom body development, intraciliary transport, TOR signaling, and GTPase regulation) with only single-term support and no shared enriched function. This spread across membrane modification, development, ciliary transport, and signaling suggests no clear cohesive theme for a concise label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0016319","count":1},{"id":"GO:0000186","count":1},{"id":"GO:0035735","count":1}]},{"hash":"1997712589460644535","title":"Glycosphingolipid biosynthesis and Golgi-ER transport","description":"The top GO terms point to glycosphingolipid biosynthesis (globoside) and sphingolipid biosynthesis (mannosyl-inositol phosphorylceramide), with an additional Golgi-to-ER retrograde transport term, implying a lipid biosynthesis and trafficking role.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051999","count":1},{"id":"GO:0036210","count":1},{"id":"GO:0001576","count":1},{"id":"GO:0006890","count":1}]}]