[{"hash":"841930632337703081","title":"DNA maintenance and protein quality control","description":"The cluster shows strong signals for DNA replication and DNA repair, plus proteostasis-related processes such as translation, ERAD-based protein quality control, and nuclear protein export. Additional terms reference stress responses (cadmium ion) and modulation of signaling (TGF-beta), suggesting a cohesive module around genome integrity and protein homeostasis with stress-associated regulation. Confidence: Medium","confidence":"","size":29,"edges":17,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0046827","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0030324","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1258680162782011495","title":"Female reproductive development","description":"The top terms show strong enrichment for female reproductive organs and sex differentiation (female gonad development, uterus development, female genitalia development, sex differentiation), indicating a coherent theme around reproductive development. Other terms (digestive tract development, retina vasculature development) reflect broader developmental roles, and a couple of plant-specific processes (brassinosteroid biosynthetic process, ent-kaurene oxidation) may be annotations from cross-species data, but do not dominate the cluster signal. Confidence: Medium.","confidence":"","size":29,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":8},{"id":"GO:0048565","count":7},{"id":"GO:0060065","count":7},{"id":"GO:0033280","count":6},{"id":"GO:0061298","count":6}]},{"hash":"1969975421115616029","title":"Translation Machinery and Ribosome Dynamics","description":"Most of the top GO terms describe core translation processes and ribosome-related functions\u2014translation itself, initiation, elongation (including mitochondrial), and termination (cytoplasmic), as well as ribosome disassembly and termination regulation. A secondary signal is antibiotic response, with a smaller note on RNA-templated transcription. Overall, the cluster is cohesively tied to the translation machinery and its regulation.","confidence":"High","size":29,"edges":285,"triangles":1826,"max_degree":28,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0046677","count":4},{"id":"GO:0006413","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0070125","count":3}]},{"hash":"1328821814421273022","title":"Ribosome Biogenesis and Protein Translation","description":"This cluster is dominated by GO terms tied to the protein synthesis machinery\u2014cytoplasmic translation, translation, and ribosomal large subunit assembly\u2014along with rRNA methylation and related ribosome biogenesis processes, suggesting the proteins function together in ribosome assembly and translation.","confidence":"High","size":29,"edges":48,"triangles":29,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0055114","count":4},{"id":"GO:0006351","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0002181","count":3}]},{"hash":"350066001558852684","title":"Retroviral entry, integration, and latency","description":"These terms collectively map to steps in a viral (retroviral) life cycle\u2014host entry, nuclear penetration, reverse transcription (RNA-templated DNA biosynthesis), DNA integration, and proviral latency\u2014with translation and DNA replication/recombination reflecting genome processing, and notes about virus\u2013host interactions such as activation of host apoptosis by symbionts.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0015074","count":4}]},{"hash":"655052340675629860","title":"Negative regulation of MAPK and immune signaling","description":"These proteins are enriched for GO terms that mainly describe dampening of signaling pathways involved in immune responses and cellular signaling, notably negative regulation of the ERK1/ERK2 (MAPK) cascade and negative regulation of T cell receptor signaling. Additional terms point to modulation of macrophage CSF, VEGF receptor signaling, and Toll-like receptor\u2013related pathways, as well as processes like intestinal epithelial cell migration and response to muramyl dipeptide. Taken together, the cluster appears to comprise regulators that temper immune and related signaling rather than execute a single fixed function, with a notable emphasis on MAPK pathway control.","confidence":"Medium","size":29,"edges":233,"triangles":1179,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":15},{"id":"GO:0050860","count":15},{"id":"GO:0000200","count":15},{"id":"GO:0030948","count":12},{"id":"GO:0071225","count":11}]},{"hash":"1422641623305580033","title":"Mitochondrial energy metabolism and redox homeostasis","description":"The cluster is dominated by GO terms tied to mitochondrial respiration (NADH to ubiquinone), cofactor and central carbon metabolism (thiamine biosynthesis, lipoate/dihydrolipoamide metabolism, 2-oxoglutarate metabolism), and regulation of membrane potential, all pointing to mitochondrial energy production and redox balance. Some terms like aging or gastrulation appear broader or incidental, but the core signal is mitochondrial metabolism and redox control.","confidence":"High","size":29,"edges":229,"triangles":913,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045454","count":17},{"id":"GO:0009228","count":16},{"id":"GO:0042391","count":15},{"id":"GO:0048240","count":15},{"id":"GO:0009106","count":15}]},{"hash":"269785583994329002","title":"Rho/Rac-ERK Signaling in Cytoskeletal Remodeling and Angiogenesis","description":"The cluster centers on small GTPase signaling (Rho, Rac) and ERK cascades, together with integrin signaling and podosome assembly, which collectively point to cytoskeletal remodeling and cell adhesion processes. The presence of angiogenesis as a top term reinforces this theme. Immune-related terms like NK T cell differentiation and complement activation are present but less central to the main functional signal.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":12},{"id":"GO:0007229","count":10},{"id":"GO:2001275","count":9},{"id":"GO:0001867","count":9},{"id":"GO:0001525","count":9}]},{"hash":"1507095970374425588","title":"Developmental patterning and morphogenesis","description":"The terms cluster around embryonic development and tissue morphogenesis, including left/right patterning, cartilage morphogenesis, EMT in endocardial cushions, placental and pancreatic differentiation, and endocrine system development, with some transcriptional regulation. This supports a cohesive theme of developmental differentiation across tissues, despite one plant-specific outlier term. ","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0060972","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060707","count":4}]},{"hash":"666349715028445475","title":"Developmental organogenesis and neural differentiation","description":"The cluster features GO terms centered on multicellular organism development, brain development, corticospinal tract morphogenesis, ossification, and cardiac muscle differentiation, suggesting proteins involved in broader developmental organogenesis with a neural emphasis. Supporting terms like protein localization to microtubules, DNA repair, and innate immune response imply additional cellular maintenance roles often active during development. Overall, the dominant theme is developmental differentiation across tissues with a focus on neural/brain-related processes.","confidence":"High","size":29,"edges":125,"triangles":268,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0021957","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1243982788891603992","title":"Neural development and GABAergic synaptic transmission","description":"This cluster combines brain development terms (brain development, substantia nigra development, axonogenesis, tangential migration) with synaptic function, especially GABAergic transmission and regulation of vesicle exocytosis/endocytosis, pointing to neural development tied to synaptic vesicle cycling and inhibitory signaling. Some related terms (response to mechanical/xenobiotic stimuli) suggest environmental responsiveness within neural development, but the core theme is neural development with synaptic activity.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0060079","count":6},{"id":"GO:0051932","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0071260","count":5}]},{"hash":"222931202822950937","title":"Splicing and Translation Initiation Regulation","description":"These proteins cluster around post-transcriptional RNA processing and translational control, with terms spanning regulation of mRNA splicing (including spliceosome-assembly and alternative splicing), regulation of polyadenylation, and regulation of translation initiation (eIF4F complex assembly). The pattern suggests a cohesive module coordinating RNA maturation with the start of translation, potentially including ncRNA-mediated regulatory pathways.","confidence":"High","size":29,"edges":397,"triangles":3429,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0001825","count":3}]},{"hash":"1991246588007710080","title":"Cardiac development and electrophysiology","description":"The terms cluster around heart development and cardiac electrical function: outflow tract morphogenesis, left ventricular morphogenesis, and regulation of SA node and atrial/ventricular action potentials. Additional terms reflect cardiac stress responses (positive regulation of cardiac muscle hypertrophy) and cellular responses to cues like caffeine. Although ossification and skin development appear, the strongest signal is cardiac morphogenesis and electrophysiology.","confidence":"High","size":29,"edges":131,"triangles":214,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":25},{"id":"GO:1903244","count":24},{"id":"GO:0043931","count":24},{"id":"GO:0071313","count":23},{"id":"GO:0043588","count":23}]},{"hash":"1583788814578482605","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0043547","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0038202","count":4}]},{"hash":"608520912083103172","title":"Chemokine-driven immune cell migration and inflammation regulation","description":"Top GO terms indicate immune cell chemotaxis (dendritic cell, eosinophil) and regulation of inflammatory processes, along with response to peptides and control of chemokine production. The presence of membrane potential and voltage-gated calcium channel regulation hints at signaling modulation that can affect cell movement. Together, these suggest a coherent theme centered on chemokine-driven immune cell migration and inflammation control.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":28},{"id":"GO:0090198","count":28},{"id":"GO:0016998","count":28},{"id":"GO:0007626","count":28},{"id":"GO:0042391","count":28}]},{"hash":"1287499186331198820","title":"Embryonic development and tissue morphogenesis signaling","description":"The top terms cluster around developmental signaling and morphogenesis, including axial mesoderm formation, cranial skeleton morphogenesis, angiogenesis, Wnt signaling, and cell-ECM adhesion/spreading, with an additional note on proliferation, suggesting an integrated developmental program governing tissue formation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0048320","count":3}]},{"hash":"1355601348846934595","title":"Glutamatergic synapse formation and brain development","description":"The cluster is dominated by neural-focused GO terms: glutamatergic synaptic transmission, positive regulation of synapse assembly, and brain development. These suggest a core theme of neural development and synapse formation, with additional terms (immune/stress responses, ribosome biogenesis, DNA replication) likely reflecting broader cellular processes or incidental associations rather than defining the cluster's primary function.","confidence":"High","size":29,"edges":11,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0009408","count":2}]},{"hash":"1631944715916123760","title":"Embryonic Tissue Morphogenesis and Differentiation","description":"The top GO terms point to development and morphogenesis across multiple tissues: skin barrier establishment, cartilage morphogenesis, endocardial cushion EMT, endocrine and pancreatic development, and left-right pattern formation. Bleb assembly and regulation of cell volume reflect cellular remodeling common in morphogenesis. A lectin pathway complement activation term is observed but does not define the cluster. Collectively, these proteins are best described by a theme of embryonic tissue morphogenesis and differentiation.","confidence":"Medium","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032060","count":2},{"id":"GO:0045794","count":2},{"id":"GO:0061436","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0060972","count":2}]},{"hash":"674159104439964246","title":"Cdc42-driven signaling and cell polarity","description":"Top terms point to Cdc42-driven signal transduction and related cell polarity processes (bipolar budding), together with growth/morphogenesis signals (filamentous growth, dendritic spine development) and protein phosphorylation. The cluster seems to group proteins involved in general signaling and morphogenesis, with Cdc42 signaling as the strongest shared thread.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":2},{"id":"GO:0000750","count":2},{"id":"GO:0003232","count":2},{"id":"GO:0060996","count":2},{"id":"GO:0006468","count":2}]},{"hash":"707179547742018795","title":"ERAD and ER stress signaling","description":"This cluster centers on endoplasmic reticulum quality control and stress responses, evidenced by enrichment for ER-associated degradation (ERAD), retrograde transport from the ER to the cytosol, and ER overload signaling, as well as ubiquitin-related processes (free ubiquitin chain polymerization). The presence of terms involving negative regulation of inflammatory signaling and nitric oxide metabolism suggests a link between ER stress responses and immune regulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0010994","count":2},{"id":"GO:0030433","count":1},{"id":"GO:0030970","count":1},{"id":"GO:0002865","count":1}]},{"hash":"1055155621097049974","title":"Mitotic Cell Division Proteins","description":"The top GO terms center on mitosis and chromatid cohesion (mitotic cell cycle, cell division, establishment of mitotic sister chromatid cohesion), indicating a cohesive role in cell division. Other terms such as metal ion transport are present but less central.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0071577","count":2},{"id":"GO:1902809","count":2}]},{"hash":"268313103297998344","title":"Neuronal signaling and sensory perception","description":"Dominant GO terms point to neuronal excitability and processing of sensory information across modalities (sound, vision, taste/aversion) with ion transport and GABA signaling shaping synaptic transmission.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":10},{"id":"GO:0035725","count":9},{"id":"GO:0071805","count":9},{"id":"GO:0001661","count":9},{"id":"GO:0060079","count":9}]},{"hash":"1715340716650842378","title":"Retroviral genome integration and host interaction","description":"The top GO terms cluster around retroviral-like processes: DNA replication, recombination, and especially RNA-templated DNA biosynthesis and proviral latency, which point to reverse transcription and genome integration. Additional terms such as establishment of integrated proviral latency, viral penetration into the host nucleus, and symbiont entry into host cells reinforce a theme of viral infection and host manipulation. Together, these suggest a cohesive group focused on retroviral genome integration and subsequent host interactions.","confidence":"High","size":29,"edges":167,"triangles":431,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0006310","count":7},{"id":"GO:0015074","count":6},{"id":"GO:0006278","count":6},{"id":"GO:0075713","count":5}]},{"hash":"1388853963045667744","title":"Plant Stress Signaling and Metabolism","description":"The GO terms cluster around plant-specific stress responses and lipid signaling, including abscisic acid-activated signaling, osmotic/salinity response, hypoxia, gluconeogenesis, sulfate assimilation, and phosphatidylinositol biosynthesis. This pattern points to abiotic-stress adaptation and membrane lipid signaling as a unifying theme, rather than a single enzyme or pathway. Some terms appear outliers (e.g., T cell homeostasis), but the dominant themes suggest a plant stress-response/metabolic module.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0006094","count":2},{"id":"GO:0009738","count":2}]},{"hash":"31997902534823103","title":"Detoxification and Catabolic Metabolism","description":"The top GO terms center on detoxification of cellular oxidants and redox processes, plus multiple catabolic pathways (uracil, triglyceride, 3-phenylpropionate, phospholipid dephosphorylation) and nitrogen utilization. Although some terms are obsolete or species-specific (and a plant development term appears), the unifying theme is metabolism driven by oxidation-reduction balance and breakdown of diverse substrates. The cluster likely groups proteins involved in metabolic detox and substrate catabolism rather than a single precise pathway.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0009086","count":8},{"id":"GO:0006212","count":8},{"id":"GO:0019740","count":8},{"id":"GO:0055114","count":8}]},{"hash":"1199221485759305560","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"The predominant GO terms are centered on ubiquitination and ubiquitin-dependent protein catabolism, including protein ubiquitination and related regulation. Innate immune signaling terms (innate immune response and regulation of Toll-like receptor signaling) together with necroptosis/apoptosis regulation suggest a role in immune stress responses modulated by ubiquitin turnover. Although a few broader terms (cell cycle, transcription) appear, they can be connected to ubiquitin-mediated control of signaling and fate decisions. Overall, the cluster seems to represent proteins involved in ubiquitin-dependent protein degradation that modulates innate immune pathways.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0000209","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0016567","count":5}]},{"hash":"1430300230532864787","title":"Telomere maintenance and mitosis signaling","description":"The Top Terms cluster around telomere biology (positive regulation of telomere maintenance via telomerase, regulation of telomere capping, telomere binding) and mitotic processes (spindle assembly), with accompanying ADP-ribosylation activity (PARP-related auto- and poly-ADP-ribosylation). While there are a few broader signaling terms (ephrin signaling, synaptic plasticity regulation), the dominant theme ties telomere maintenance to cell division and related signaling pathways. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":8},{"id":"GO:1904908","count":7},{"id":"GO:1901187","count":7},{"id":"GO:0070213","count":7},{"id":"GO:0051225","count":7}]},{"hash":"150867980758912530","title":"Steroid and retinoid biosynthesis","description":"This cluster is dominated by biosynthetic processes for steroid hormones (estrogen, glucocorticoid, C21-steroid) and retinoids (retinol), with additional pigment and lipid-associated biosynthesis terms (melanin, mycolic acid). Together these terms point to a cohesive theme of lipid-derived signaling molecule production and related pigment biosynthesis, making a steroid/retinoid biosynthesis label intuitive. ","confidence":"High","size":29,"edges":214,"triangles":689,"max_degree":26,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":25},{"id":"GO:0006703","count":22},{"id":"GO:0042572","count":22},{"id":"GO:0008207","count":22},{"id":"GO:0042438","count":22}]},{"hash":"2263755880754968545","title":"Endosomal Vesicle Trafficking","description":"The cluster is dominated by GO terms tied to vesicle transport and endosomal maturation, including endosome-to-lysosome transport, early-to-late endosome transitions, and COPII-coated vesicle budding, all indicating core vesicle trafficking activity. Some terms relate to cell morphology and differentiation, but the unifying theme remains intracellular membrane trafficking and vesicle dynamics.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0045022","count":3},{"id":"GO:0003382","count":3},{"id":"GO:1900026","count":3}]},{"hash":"1977311086382636149","title":"Viral integration and transposon activity","description":"The top GO terms center on DNA integration, retrotransposition, DNA transposition, proviral latency, and viral entry/nuclear penetration, pointing to mobile genetic elements and virus\u2013host genome interactions as the unifying theme. Some terms like translation and splicing are broader cellular processes, but do not override the mobilome signal. ","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":3},{"id":"GO:0009410","count":2},{"id":"GO:0002181","count":2}]},{"hash":"1264027038942165732","title":"Ubiquitin-regulated autophagy and mitophagy control","description":"This cluster\u2019s top GO terms cluster around ubiquitin-mediated regulation (protein deubiquitination) and autophagy/mitophagy processes (mitophagy, negative regulation of autophagosome maturation, negative regulation of mitochondrial fusion), suggesting a shared function in protein turnover and mitochondrial quality control. The presence of terms related to ER membrane targeting hints at broader quality-control roles at membranes. Overall, the dominant theme is ubiquitin-dependent control of autophagy and mitochondrial dynamics.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":17},{"id":"GO:0034140","count":11},{"id":"GO:0014070","count":11},{"id":"GO:1904021","count":10},{"id":"GO:0071816","count":10}]},{"hash":"2110093547235225766","title":"Mitochondrial translation and respiration","description":"This cluster centers on mitochondrial protein synthesis and energy metabolism, with terms for cytoplasmic/mitochondrial translation, ribosome biogenesis/assembly, and mitochondrial electron transport (NADH to ubiquinone and complex II assembly), plus glycine cleavage in mitochondria.","confidence":"High","size":28,"edges":176,"triangles":440,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0032543","count":2},{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0042254","count":1}]},{"hash":"1134104392016191560","title":"RNA processing and translation regulation","description":"This cluster centers on post-transcriptional gene expression control, with multiple GO terms for mRNA splicing (spliceosome), polyadenylation regulation, mRNA export, and initiation of translation (eIF4F complex assembly), plus ncRNA-mediated silencing. These collectively point to RNA processing and regulation of translation as the common theme; a development term like blastocyst formation appears incidental to this core function.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:1900363","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001825","count":2}]},{"hash":"1392141825494507187","title":"Mitochondrial Transport and Metabolism","description":"This cluster is dominated by GO terms for transport of metabolites across mitochondrial membranes (NAD, phosphate, PLP, thiosulfate, iron into mitochondrion) and for metabolic shuttles (malate-aspartate), plus connections to fatty acid response and adaptive thermogenesis. The combination points to proteins involved in mitochondrial metabolite transport and energy metabolism, with some links to tissue metabolic remodeling (liver regeneration). ","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070542","count":9},{"id":"GO:0035435","count":6},{"id":"GO:0043490","count":5},{"id":"GO:0060546","count":5},{"id":"GO:1990845","count":5}]},{"hash":"1581659599804112367","title":"Developmental Signaling and Cell Cycle","description":"The cluster includes terms for heart and Schwann cell development, visual perception, and long-term synaptic potentiation, along with mitotic cell cycle and G2/M transition, indicating a common theme of developmental signaling integrated with cell-cycle regulation and neural-related processes. The ABA signaling term is an outlier, likely noise, but the dominant pattern supports development and cell-cycle control.","confidence":"Medium","size":28,"edges":183,"triangles":524,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0009738","count":11},{"id":"GO:0010800","count":11},{"id":"GO:0000086","count":11},{"id":"GO:0007601","count":11}]},{"hash":"1774823855622516514","title":"Actin Cytoskeleton Remodeling and Plasticity","description":"The cluster is enriched for actin-related terms (lamellipodium assembly, actin filament organization, cytoskeletal anchoring) and for synapse structural plasticity, suggesting a cohesive role in cytoskeletal remodeling and neural/plastic remodeling; transcription-related GO terms are present but likely secondary.","confidence":"","size":28,"edges":123,"triangles":224,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0030032","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0045737","count":3}]},{"hash":"420891954642788904","title":"Diverse Solute Transmembrane Transporters","description":"This cluster is characterized by GO terms related to transmembrane transport of a wide range of substrates (xenobiotics, nitrite, nitrate, sodium ions, sugars like galactose and fucose, vitamins, and other compounds). The shared function appears to be membrane transport rather than a single substrate, suggesting a group of transporter proteins that mediate diverse substrate movement across membranes. The absence of edges or triangles supports a functional grouping by transporter activity rather than direct protein-protein interactions within the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006855","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0035461","count":4},{"id":"GO:0042891","count":4},{"id":"GO:0015757","count":4}]},{"hash":"1043936455883026195","title":"Developmental signaling and nervous-immune processes","description":"I chose this name because the Top Terms include clear developmental themes (angiogenesis, heart development) and signaling pathways (Ras, small GTPases), along with nervous system (learning, pain perception) and immune (B cell maturation) facets. This suggests a broad, signaling-centered role across development and organ systems, rather than a single, cohesive pathway, hence a Developmental signaling and nervous-immune processes label with Medium confidence. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0002344","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0046580","count":3}]},{"hash":"2162026499828764901","title":"JNK and Rho-regulated synaptic signaling and plasticity","description":"The top GO terms cluster around regulation of the JNK cascade, GTPase/Rho signaling, and synaptic function (long-term synaptic depression and regulation of excitatory postsynaptic potential), with behavioral and cytoskeletal implications (grooming behavior). This points to a coherent theme of neuronal signaling and cytoskeletal dynamics driving synaptic plasticity via JNK/Rho pathways, despite some peripheral terms. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0090557","count":2},{"id":"GO:2000463","count":2}]},{"hash":"438215167982925509","title":"Mitotic cell cycle and RNA processing","description":"The cluster is dominated by cell division and mitotic cell cycle terms (GO:0051301, GO:0000278) with additional representation of mRNA splicing via the spliceosome (GO:0000398) and ubiquitin-dependent protein degradation (GO:0042787), suggesting a core association with mitosis and linked RNA processing/protein turnover; immune signaling terms appear less central. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0042787","count":3}]},{"hash":"1766811351241771155","title":"Cytoskeletal remodeling and epithelial polarity","description":"Proteins in this cluster repeatedly map to cytoskeletal regulation and cell polarity: Rho signaling, integrin activation, microvillus and filopodium assembly, and establishment of epithelial apical/basal polarity, along with centrosome localization. These themes together point to a shared role in shaping cell morphology and adhesion, with endosomal transport and growth regulation as supportive processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0060396","count":5},{"id":"GO:0033622","count":4},{"id":"GO:0030033","count":4},{"id":"GO:0045198","count":4}]},{"hash":"1114094494985977699","title":"Rho GTPase\u2013driven actin remodeling and vesicle trafficking","description":"The top GO terms cluster around actin-based membrane remodeling (filopodium and ruffle assembly), polarized growth (mating projection), and regulation of signaling via Rho family GTPases and protein kinases, suggesting a core function in cytoskeletal dynamics and vesicle trafficking controlled by small GTPases. This theme ties together protrusive structures, signaling regulation, and exocytosis processes evident in the terms.","confidence":"High","size":28,"edges":144,"triangles":141,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":6},{"id":"GO:0031384","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0051291","count":5},{"id":"GO:0045859","count":5}]},{"hash":"816313225804379813","title":"Neural development and cytoskeletal regulation","description":"The top GO terms cluster around neural and organismal development (neuron projection development, retina development, male gonad development, multicellular organism development) and cytoskeletal signaling (positive regulation of Arp2/3-mediated actin nucleation, GTPase activity regulation, tyrosine phosphorylation). This points to proteins involved in neural development with coordinated cytoskeletal remodeling, common in growth cone dynamics and signaling, with broader developmental regulation also indicated by transcription-related terms.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031175","count":14},{"id":"GO:2000601","count":13},{"id":"GO:0050731","count":13},{"id":"GO:0007275","count":12},{"id":"GO:0000278","count":12}]},{"hash":"1401665044350004944","title":"Xenobiotic detoxification and redox response","description":"The top GO terms point to detoxification of cellular oxidants and responses to xenobiotics (including cocaine and estradiol), along with hydrogen peroxide catabolism and redox processes. This suggests a coherent theme of handling oxidative stress and chemical exposure, with possible links to nitric oxide signaling and neural plasticity. Thus, a label focusing on xenobiotic detox and redox response fits well.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0032355","count":2},{"id":"GO:0070542","count":2},{"id":"GO:0042744","count":2}]},{"hash":"1221996331724876921","title":"ERK/MAPK signaling in development, angiogenesis, and immunity","description":"The top GO terms converge on MAPK/ERK pathway activation, angiogenesis, and immune signaling (T cell receptor pathway, dendritic cell cytokine production), with additional links to multicellular development. This points to a coherent theme of ERK/MAPK-mediated growth, vascular development, and immune cell signaling, though a few broad terms like DNA replication are general. Overall, it appears to be a MAPK-associated developmental/immune cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0050852","count":2}]},{"hash":"524533356418937318","title":"Insect embryonic morphogenesis and axis patterning","description":"The cluster features multiple GO terms tied to embryonic development in insects, including epidermis development, gut morphogenesis, wing disc development, spiracle morphogenesis, and axis specification, indicating a shared role in body plan formation during embryogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007362","count":2},{"id":"GO:0008293","count":2},{"id":"GO:0008544","count":2},{"id":"GO:0048617","count":2},{"id":"GO:0035220","count":2}]},{"hash":"1434551888508712685","title":"ECM Assembly and Basement Membrane Development","description":"These proteins show a cluster of extracellular matrix\u2013related processes (hyaluronan biosynthesis, zona pellucida interaction) and basement membrane development, along with developmental/regulatory roles (endodermal differentiation, basement membrane\u2013related signaling). The dominant theme appears to be extracellular matrix assembly/remodeling and associated developmental processes, making an ECM/basement membrane focus the most representative label, despite some divergent terms. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007341","count":3},{"id":"GO:0030213","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0035987","count":2},{"id":"GO:0070208","count":2}]},{"hash":"98124732962997261","title":"Bacterial lipid, quinone, and siderophore biosynthesis","description":"Most terms describe biosynthesis and metabolism of lipids, menaquinone (vitamin K2), acetyl-CoA\u2013derived compounds, long-chain fatty acids, and cell-envelope components like lipoteichoic acid, plus siderophore biosynthesis and occasional bioluminescence. This collective signals a prokaryotic lipid/quinone\u2013siderophore metabolic module; thus the label focuses on bacterial lipid and quinone biosynthesis.","confidence":"Medium","size":27,"edges":142,"triangles":249,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009234","count":10},{"id":"GO:0036112","count":10},{"id":"GO:0001676","count":9},{"id":"GO:0010214","count":9},{"id":"GO:0019290","count":9}]},{"hash":"1016840081357967396","title":"RNA processing and translation initiation regulation","description":"Proteins in this cluster are enriched for RNA metabolism and control of translation, including regulatory ncRNA-mediated gene silencing, regulation of mRNA splicing via the spliceosome, stress-responsive mRNA stability, (even polyadenylation-related) mRNA processing, and regulation/assembly of translation initiation factors such as the IRES-dependent initiation pathway. These terms together point to a cohesive module centered on RNA processing and translational control rather than other cellular processes.","confidence":"High","size":27,"edges":344,"triangles":2765,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":19},{"id":"GO:0048026","count":19},{"id":"GO:0010610","count":18},{"id":"GO:0006378","count":17},{"id":"GO:1900363","count":16}]},{"hash":"1231591639837768832","title":"Unknown","description":"The GO terms cover keratinocyte differentiation, skeletal system development, receptor clustering, synapse assembly, VEGF signaling, hormone response, apoptotic regulation, and immune stimulus; these terms span skin development, vascular and neural signaling, and immune responses without a clear shared function for the entire protein set. Therefore no cohesive functional theme emerges to assign a specific label.","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0030216","count":6},{"id":"GO:0043113","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0035924","count":5}]},{"hash":"1723403335333456429","title":"Organ and vascular morphogenesis","description":"This cluster shows multiple terms related to morphogenesis and vessel formation (metanephric tubule morphogenesis, lymph vessel morphogenesis, sprouting angiogenesis), suggesting a theme of tissue/vascular development. While other terms touch on neural signaling and intracellular processes, the morphogenesis signal is the strongest common thread across the top GO terms. ","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":2},{"id":"GO:0072237","count":2},{"id":"GO:0006590","count":2},{"id":"GO:0090050","count":2},{"id":"GO:0071625","count":2}]},{"hash":"1449911839828877699","title":"Unknown","description":"This cluster lacks any GO-term signals in the provided data, so there is no clear common function to name. Although the network metrics show moderate connectivity (58 edges, 59 triangles, max degree 16 among 27 proteins), without functional annotations we cannot derive a specific label. If GO terms become available, a more precise name can be assigned.","confidence":"","size":27,"edges":58,"triangles":59,"max_degree":16,"top_function":null,"top_go_terms":[]},{"hash":"212552881067181817","title":"Diverse Substrate Membrane Transporters","description":"This cluster comprises membrane transporter proteins with transmembrane transport GO terms for xenobiotics, vitamins, nitrite/nitrate, sugars, and ions, indicating a diverse transporter group rather than a single substrate.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":18},{"id":"GO:0035461","count":18},{"id":"GO:0015707","count":16},{"id":"GO:0042891","count":16},{"id":"GO:0015757","count":16}]},{"hash":"2126715899545622352","title":"Mitochondrial Translation and Respiration","description":"The top GO terms cluster mainly around mitochondrial protein synthesis (translation, elongation, termination) and import into the mitochondrial matrix, complemented by components of the mitochondrial electron transport chain (NADH to ubiquinone). This points to a cohesive module of mitochondrial gene expression linked to energy production, with a few unrelated or minor terms present.","confidence":"High","size":27,"edges":345,"triangles":2786,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0030150","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0006415","count":2},{"id":"GO:0019295","count":2}]},{"hash":"2000748159403551482","title":"Androgen signaling and male reproductive development","description":"The prominent terms\u2014steroid hormone receptor complex assembly, prostate gland development, and male sex differentiation\u2014suggest the proteins cluster around androgen signaling and male reproductive tissue development. While other terms like cell cycle and unfolded protein response appear, they seem auxiliary to the main theme of hormone receptor\u2013mediated reproductive development.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0046661","count":6},{"id":"GO:0030850","count":6},{"id":"GO:0006463","count":6},{"id":"GO:0006986","count":5}]},{"hash":"1282975295757797140","title":"RNA Splicing and Translation Regulation","description":"This cluster is enriched for GO terms spanning spliceosome-mediated mRNA splicing, formation of the translation preinitiation complex, translation reinitiation, and regulatory control of translational initiation, along with ribosome biogenesis and stress-responsive mRNA stability. Together these terms point to a cohesive role in RNA processing (splicing) and the machinery controlling translation, suggesting coordinated regulation of gene expression at both RNA processing and protein synthesis levels.","confidence":"High","size":27,"edges":119,"triangles":391,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":13},{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0010610","count":9},{"id":"GO:0006378","count":9}]},{"hash":"2265074143362363767","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues (heart development via endocardial cushion formation, left-right patterning, cartilage and biomineral tissue development, midbrain development, pancreatic and placental lineage development, etc.). Although a term related to LPS response appears, the dominant theme is tissue formation and embryonic patterning, suggesting a cluster of proteins involved in broad developmental morphogenesis rather than a single pathway. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0003198","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0031214","count":5},{"id":"GO:0030194","count":5}]},{"hash":"1510782593888933809","title":"Unknown","description":"There is no coherent shared function across the top GO terms: the set includes bacterial biosynthetic processes (menaquinone, siderophore, lipoteichoic acid), plant development (seed coat), and animal signaling/development (Wnt, Hippo, keratinocyte differentiation, apoptotic processes, cardiac proliferation). This mix suggests a heterogeneous cluster without a single representative function.","confidence":"","size":27,"edges":11,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":10},{"id":"GO:0009234","count":9},{"id":"GO:0030216","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0060044","count":8}]},{"hash":"1093497824507937828","title":"Proteasomal ubiquitination and innate immune signaling","description":"GO-term patterns center on ubiquitin-dependent protein degradation (ubiquitin tagging, ERAD, polyubiquitination, autoubiquitination) and antiviral/innate immune responses (defense against virus, innate immunity, TNF signaling, I\u03baB regulation). A secondary link to circadian rhythm is noted, but the core theme is the ubiquitin-proteasome system coordinating immune signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0030433","count":11},{"id":"GO:0000209","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0051607","count":9}]},{"hash":"1351621700368027550","title":"Vascular development and heart differentiation","description":"Top terms converge on cardiovascular development: angiogenesis, endothelial/venous differentiation, and heart morphogenesis, including Notch signaling in heart-field proliferation. While other terms like mRNA processing and differentiation of adipocytes or oligodendrocytes appear, the dominant theme ties to vascular/heart formation and mechanotransduction in cardiovascular tissues.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0043569","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0003213","count":2},{"id":"GO:0071260","count":2}]},{"hash":"238399385210464461","title":"Osteoclast podosome formation and caveolin signaling","description":"These terms cluster around cytoskeletal remodeling and membrane trafficking tied to osteoclasts: osteoclast fusion, positive regulation of podosome assembly, Rac signaling, and caveolin-mediated endocytosis. The prominence of caveolin-related endocytosis and podosome-related terms points to a module involved in podosome formation and caveolar trafficking, which are key to osteoclast adhesion and bone resorption. Other terms like B cell receptor signaling and ER stress response appear less central to this module.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072675","count":5},{"id":"GO:0035020","count":4},{"id":"GO:2001286","count":4},{"id":"GO:0072584","count":4},{"id":"GO:0051902","count":4}]},{"hash":"1237020601806974550","title":"Developmental patterning and morphogenesis","description":"Most of the top GO terms describe embryonic development and tissue formation, such as left/right pattern formation, cartilage morphogenesis, EMT in endocardial cushion formation, endocrine system development, trophoblast giant cell differentiation, and pancreatic cell development. A few terms touch on gene regulation during development (negative regulation of transcription by RNA polymerase II) and myoblast proliferation, which fit into broader developmental processes. The overall theme is cohesive around developmental patterning and organ morphogenesis rather than a single pathway, hence the label.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060972","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0035270","count":5}]},{"hash":"1854162600910490035","title":"Organogenesis Across Systems","description":"The terms cluster around developmental processes across multiple organs (heart, hippocampus, visual system, cartilage), with patterning and morphogenesis events (EMT in endocardial cushion formation, left-right patterning). There isn\u2019t a single shared molecular function, so this broad developmental theme best fits the group.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0030321","count":2},{"id":"GO:0060972","count":2}]},{"hash":"185421414843908522","title":"Developmental growth and cell division","description":"These terms indicate broad developmental processes across multiple tissues (gonadal, skeletal, neural) with differentiation (osteoblast, brain, neuron projection) and organismal growth, coupled with core cell cycle events (mitotic cycle, chromatid segregation) and a TGF-beta signaling response. The common theme is development and proliferation, not a single tissue-specific function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0001649","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0001501","count":3}]},{"hash":"244781726737631296","title":"Rho/GTPase Signaling and Cell Migration","description":"The GO terms cluster around regulation and activation of signaling pathways that control the actin cytoskeleton and cell movement, such as regulation of Rho protein signal transduction and positive regulation of GTPase activity, plus cell migration. Additional terms (Wnt signaling, ephrin receptor signaling, GPCR signaling) point to related signaling networks that modulate receptor localization and responsiveness, including synaptic plasticity via receptor localization. Overall, the cluster reflects coordinated signaling regulation driving cytoskeletal dynamics and motility, with some links to endocytosis-related regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0048549","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0043547","count":3}]},{"hash":"205542029008364072","title":"Unknown","description":"The top GO terms span neural processes (long-term memory, synaptic plasticity), epithelial development (lung and placental morphogenesis, collecting duct development), vision (visual perception), cardiac conduction, and assorted regulatory activities (GTPase activity). This diversity suggests no single, cohesive function defines the cluster, making a specific label unreliable.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0060487","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0032465","count":4},{"id":"GO:0060672","count":4}]},{"hash":"190607938294361424","title":"Transposable elements and proviral integration","description":"The top GO terms are centered on DNA transposition, retrotransposition, and DNA integration, plus the establishment of integrated proviral latency and related viral entry processes. This points to a cluster enriched for mobility of genetic material\u2014transposable elements and proviruses\u2014and their interactions with host cells, rather than core metabolic pathways. Some incidental terms (alkaloid metabolism, sensory perception) appear unrelated to the main theme but do not overshadow the transposition/proviral signals.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009820","count":3},{"id":"GO:0032197","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0046718","count":3}]},{"hash":"65132730450823647","title":"Unknown","description":"Based on the top GO terms, the proteins appear involved in ubiquitination and proteasome-related turnover, immune signaling, sensory stimulus detection (mechanical and temperature), and various developmental processes. This diversity suggests there is no single shared function characterizing the cluster, so the label Unknown is most appropriate.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0050960","count":2},{"id":"GO:0070682","count":2}]},{"hash":"1044383148747674555","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":3},{"id":"GO:0046686","count":3},{"id":"GO:0016260","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006098","count":3}]},{"hash":"1198778047610075679","title":"Nuclear gene expression and development","description":"The cluster\u2019s top GO terms cluster around nuclear processes: DNA-templated transcription, DNA replication, mRNA processing, and positive regulation of protein export from the nucleus, indicating a core theme of gene expression regulation. In addition, terms related to development and morphogenesis (multicellular organism development, embryonic cranial skeleton morphogenesis, dendrite morphogenesis) suggest these proteins are involved in developmental programs tied to gene expression. A few terms point to neuronal functions (potassium ion transport, sensory perception of pain) but appear peripheral to the central theme. Overall, the label reflects the dominant nuclear expression and developmental signals among the proteins, with some secondary, non-nuclear terms. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":17},{"id":"GO:0006351","count":16},{"id":"GO:0046827","count":16},{"id":"GO:0006260","count":16},{"id":"GO:0007275","count":15}]},{"hash":"1148277329357175700","title":"Retroviral integration and latency","description":"The top GO terms center on retroviral life cycle steps: DNA replication, recombination, and DNA integration, plus RNA-templated DNA synthesis and establishment of integrated proviral latency. Additional terms cover viral entry into the host, nucleus penetration, and host-pathogen interactions such as modulation of host apoptosis and RNA silencing, suggesting a cohesive retrovirus\u2013host interaction cluster.","confidence":"High","size":26,"edges":16,"triangles":5,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0006310","count":9},{"id":"GO:0015074","count":7},{"id":"GO:0075713","count":6},{"id":"GO:0046718","count":6}]},{"hash":"1912770397840883504","title":"Mitochondrial Membrane Biogenesis and Lipid Metabolism","description":"The top GO terms point to mitochondrial membrane-related processes (mitochondrial inheritance; protein insertion into the mitochondrial inner membrane) and lipid biosynthesis (unsaturated fatty acids, ergosterol regulation, MIPC metabolism). Together they suggest a cohesive theme around mitochondrial membranes and associated lipid metabolism. Some terms (sebaceous gland differentiation, CNS myelin maintenance, nitrate assimilation, response to food) appear as outliers or broader annotations, likely due to cross-species or multifunctional annotations, but do not override the core mitochondrial-lipid theme.","confidence":"Medium","size":26,"edges":22,"triangles":3,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006675","count":3}]},{"hash":"2170233988669317291","title":"Diverse solute transmembrane transporters","description":"The GO terms are dominated by transmembrane transport activities for a broad range of solutes (ions such as K+ and Na+, sugars like galactose, nitrite/nitrate, fucose, vitamins, xenobiotics, etc.). This points to a cohesive set of membrane transporter proteins rather than a single metabolic enzyme, supporting a label centered on diverse solute transport across membranes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0006855","count":3},{"id":"GO:0015707","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3}]},{"hash":"270283161032667552","title":"Ribosome maturation and quality control","description":"The cluster is enriched for ribosome biogenesis and ribosome-associated quality-control processes, including maturation of SSU rRNA and rescue of stalled cytosolic ribosomes, plus ubiquitin-dependent degradation linked to ribosomes. While there are some additional, more diverse terms (development, signaling, apoptosis), the dominant theme across the GO annotations points to ribosome assembly and surveillance.","confidence":"Medium","size":26,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0072344","count":1},{"id":"GO:1990116","count":1}]},{"hash":"234327293288036530","title":"RNA processing and translation control","description":"The cluster shows a strong emphasis on post-transcriptional regulation: histone mRNA catabolic processes, regulation of translational initiation, spliceosome-mediated mRNA splicing, regulatory ncRNA-mediated gene silencing, and IRES-dependent viral translation initiation, along with control of mRNA polyadenylation. While some terms touch on development (e.g., blastocyst formation), the dominant theme centers on RNA metabolism and the regulation of translation and splicing, suggesting a cohesive RNA processing/translational control role.","confidence":"High","size":26,"edges":85,"triangles":52,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":3},{"id":"GO:0071044","count":3},{"id":"GO:0010832","count":2},{"id":"GO:1904706","count":2},{"id":"GO:1900363","count":2}]},{"hash":"1300716627175657279","title":"Chemokine Signaling and Inflammatory Regulation","description":"This cluster centers on immune-related functions: chemokine production, dendritic cell and eosinophil chemotaxis, and negative regulation of inflammatory responses, suggesting roles in controlling immune cell trafficking and inflammation. While a few terms touch on neuronal signaling (membrane potential and voltage-gated calcium channels), the predominant themes are immune chemotaxis and inflammation, making the label representative of the core cluster function.","confidence":"Medium","size":26,"edges":9,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":25},{"id":"GO:0090198","count":25},{"id":"GO:0016998","count":25},{"id":"GO:0007626","count":25},{"id":"GO:0042391","count":25}]},{"hash":"1492593326627542350","title":"Neural sensory processing and dopaminergic signaling","description":"The cluster is dominated by neural-related GO terms: visual learning and perception, dopaminergic synaptic transmission, behavioral responses to cocaine, ERK signaling, and prepulse inhibition, pointing to brain circuits involved in vision, sensation, and reward processing. While a peripheral term like heart development appears, the strongest pattern ties to neuronal signaling and sensory integration.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":19},{"id":"GO:0010759","count":19},{"id":"GO:0070374","count":19},{"id":"GO:0007601","count":19},{"id":"GO:0019233","count":19}]},{"hash":"1156279051286302687","title":"Sensory Neuron Ion Transport and Membrane Potential","description":"The terms cluster around calcium and potassium ion transport, regulation of membrane potential, and sensory modalities (pain and touch), indicating proteins likely involved in neuronal signaling and ion-channel\u2013mediated membrane control in sensory neurons; development terms may reflect broader roles.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0030007","count":4},{"id":"GO:0050976","count":4},{"id":"GO:0006828","count":4}]},{"hash":"1188102884160494009","title":"Embryonic Development and Tissue Morphogenesis","description":"The cluster's top GO terms cluster around developmental processes across various tissues, including midbrain development, palate formation, pituitary development, left-right patterning, cartilage morphogenesis, and EMT in endocardial cushion formation, pointing to a shared theme of embryonic development and tissue morphogenesis. A lipopolysaccharide response appears but is not the dominant signal here.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0032496","count":8},{"id":"GO:0030901","count":6},{"id":"GO:0000122","count":6},{"id":"GO:1903142","count":5},{"id":"GO:0060021","count":5}]},{"hash":"629709283680353884","title":"ER stress response and muscle development","description":"The top GO terms are dominated by unfolded protein response, ER chaperone\u2013mediated refolding, and ERAD-related processes, all central to ER stress and protein quality control. Additional terms touch on heat response, translation initiation during ER stress, and calcium sensing, with related themes in skeletal muscle fiber development and ossification. This suggests a cluster centered on ER stress\u2013driven proteostasis with links to muscle/bone development, hence the label.","confidence":"Medium","size":26,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0006986","count":6},{"id":"GO:0070389","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0036494","count":6}]},{"hash":"1179756413470156206","title":"Golgi nucleotide-sugar transport and glycosylation","description":"The top GO terms are dominated by glycosylation and sugar-nucleotide transport into the Golgi (UDP-GlcNAc, UDP-Gal, GDP-Fucose) and related modification processes (O-linked and N-glycan fucosylation), suggesting a cohesive theme of Golgi-based glycosylation pathways. Some outlier terms (root hair development, EMT) are less connected to this core function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0045451","count":2},{"id":"GO:0036071","count":1},{"id":"GO:1990569","count":1}]},{"hash":"529859193437765817","title":"Neuronal synapse formation and function","description":"The top terms center on synaptic organization and transmission (AMPA receptor clustering, terminal bouton organization, cholinergic synaptic transmission) and neuronal development (axonogenesis, neuron localization), with supporting cues from cytoskeletal remodeling and RNA processing. This strong synapse- and neuron-focused signal supports naming the cluster \"Neuronal synapse formation and function\".","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097113","count":2},{"id":"GO:0072553","count":2},{"id":"GO:0033120","count":2},{"id":"GO:0008345","count":2},{"id":"GO:0007019","count":2}]},{"hash":"1412797820830384515","title":"Centromere Chromatin Assembly","description":"The top GO terms cluster around chromatin and nucleus organization, especially CENP-A\u2013containing chromatin assembly and establishment of protein localization to chromatin, which indicates centromere-associated chromatin assembly as the core function. A few additional terms (sperm DNA condensation, nucleus organization) support a chromatin/nuclear focus, while others are less directly connected. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":4},{"id":"GO:0061641","count":3},{"id":"GO:0035093","count":3},{"id":"GO:0061086","count":3},{"id":"GO:0003344","count":3}]},{"hash":"828705580043788517","title":"Rho GTPase\u2013driven actin cytoskeleton regulation","description":"This cluster is enriched for GO terms tied to Rho signaling, activation of GTPases, and actin cytoskeleton organization, pointing to roles in signaling that control cytoskeletal dynamics. Some terms are development- or obsolete-related, but the core theme centers on Rho/GTPase\u2013mediated cytoskeletal regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0042633","count":3},{"id":"GO:1901998","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0043970","count":2}]},{"hash":"1994306379284486279","title":"Embryonic Morphogenesis and Tissue Differentiation","description":"The cluster centers on developmental processes across tissues (left-right patterning, cartilage morphogenesis, endocardial cushion EMT, placental and endocrine system development), suggesting a cohesive role in embryonic tissue formation and lineage differentiation. Some cell-cycle related terms (spindle assembly) likely reflect proliferative phases during development rather than a distinct functional theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0003323","count":7}]},{"hash":"1017829322121404278","title":"DNA Transcription Regulation","description":"Most top GO terms are about DNA-templated transcription and its regulation, indicating these proteins are likely transcriptional regulators. The other terms (development, nodulation, SOS response, nutrient/antibiotic responses, lipid transport) seem incidental, suggesting a loosely connected set. With only a single edge, the cluster appears centered on transcription control rather than a single cohesive pathway.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0045316","count":2},{"id":"GO:0007469","count":2},{"id":"GO:0009877","count":2}]},{"hash":"588677740517228055","title":"Endomembrane Vesicle Trafficking","description":"This cluster centers on endomembrane transport processes, including Golgi to vacuole transport, cytoplasm-to-vacuole targeting, endocytic recycling, and retrograde transport from endosome to Golgi, which together point to vesicle trafficking and sorting within the cell. The presence of Rho signaling as a regulator suggests cytoskeletal involvement in transport. A few immune signaling terms appear but are less representative of the core theme. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0032258","count":3},{"id":"GO:0006896","count":3},{"id":"GO:0048873","count":3},{"id":"GO:0032456","count":3}]},{"hash":"2085574181403261714","title":"Embryonic development and organ morphogenesis","description":"The Top Terms are dominated by developmental and morphogenesis processes: left/right pattern formation, cartilage morphogenesis, EMT in endocardial cushion formation, trophoblast and placental/embryonic development, pancreatic endocrine development, and Wnt signaling. Together they point to a cohesive theme of embryonic development and organ formation, with tissue patterning and differentiation as common threads. A few terms related to sensory perception or GPCR signaling may reflect annotation breadth rather than a core function of the cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0003323","count":7}]},{"hash":"1781785291514752465","title":"Metabolic and immune signaling regulation","description":"The terms cluster around regulation of metabolic processes (bile acid metabolism, fat cell differentiation, insulin signaling) alongside modulation of immune pathways (negative regulation of NF-kappaB and TLR4 signaling, monocyte chemotactic protein-1 production). This suggests proteins that coordinate endocrine/metabolic signaling with immune response regulation, with a minor note of hormonal context (luteinization). Confidence: Medium","confidence":"","size":26,"edges":71,"triangles":39,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071638","count":7},{"id":"GO:0035726","count":6},{"id":"GO:0045598","count":6},{"id":"GO:0008206","count":6},{"id":"GO:0001553","count":6}]},{"hash":"1458242027081246855","title":"DNA Replication and Recombination","description":"Based on the top GO terms, the cluster shows enrichment for DNA metabolic processes: DNA replication (4), DNA recombination (4), and DNA integration (3). This points to proteins involved in genome maintenance and rearrangement. Some other terms (binding of sperm to zona pellucida, sensory perception of sound, establishment of T cell polarity, mitochondrial inheritance) appear with lower counts and may reflect annotation noise or multifunctional proteins rather than a cohesive alternative theme. Overall, the dominant consistent theme is DNA replication/recombination.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0007339","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0015074","count":3}]},{"hash":"2061192019321165943","title":"Mitochondrial Translation Control and Vacuolar Ion Homeostasis","description":"The cluster centers on mitochondrial translation regulation and energy metabolism (positive regulation of mitochondrial translation; proton motive force-driven ATP synthesis; proton transmembrane transport) and also shows strong links to ion homeostasis and vacuolar functions (copper and sodium ion homeostasis; vacuolar acidification and organization; protein targeting to vacuole). This combination suggests a unified role in coordinating mitochondrial energy production with vacuolar trafficking and ion balance.","confidence":"Medium","size":26,"edges":298,"triangles":2020,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0070131","count":3},{"id":"GO:0006878","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0007035","count":2}]},{"hash":"1850304491498291551","title":"Developmental Transcriptional Regulation and Morphogenesis","description":"The cluster shows strong enrichment for transcription-related GO terms (DNA-templated transcription, regulation of transcription) and several organ development/morphogenesis terms (heart, neural crest, pancreas, digestive tract, ureteric bud, embryo development), suggesting proteins that coordinate gene expression during embryogenesis across multiple tissues.","confidence":"High","size":26,"edges":32,"triangles":33,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006355","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0048557","count":6},{"id":"GO:0090190","count":6}]},{"hash":"2227647707224691374","title":"RNA Processing and Translation in Neural Development","description":"The cluster\u2019s top GO terms cluster around translation initiation and reinitiation, preinitiation complex formation, and viral translation initiation, alongside spliceosome-mediated splicing and polyadenylation. Neural development terms (brain and spinal cord) suggest a neural context for these RNA processing and translation functions. Overall, the proteins seem tied to RNA metabolism and translation with neural development relevance.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0045292","count":6}]},{"hash":"1072607994024559672","title":"Retroviral integration and latency","description":"The cluster centers on retroviral-like processes: RNA-templated DNA synthesis (reverse transcription), DNA integration, DNA recombination/replication, and establishment of integrated proviral latency, along with viral entry into the host nucleus. These collectively point to a retroviral life cycle with proviral integration and latency as the core theme, rather than generic host DNA processing. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0075713","count":6},{"id":"GO:0046718","count":6},{"id":"GO:1903704","count":6}]},{"hash":"2280713976194490314","title":"Neuronal development and axon guidance","description":"The terms center on brain and nervous system development, including limbic system development and tangential migration to the olfactory bulb, along with axon extension and guidance. Also, signaling and cytoskeletal regulation (ERK cascade, Rho signaling) and synaptic maturation features (paranodal junctions, synaptic vesicle endocytosis) align with neural connectivity formation. This combination supports a cohesive theme of neural development and pathway-guided neurite outgrowth.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0022028","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0090286","count":3}]},{"hash":"1889405583403601660","title":"Circadian Ubiquitin-Proteasome Pathway","description":"This cluster is dominated by terms for ubiquitin-dependent protein catabolic processes, protein polyubiquitination, and SCF-dependent proteasomal degradation, with an additional emphasis on the regulation of circadian rhythm. Together these suggest a cohesive role in circadian control of protein turnover. A few terms (e.g., nervous system development, distal tubule morphogenesis) seem peripheral or annotation noise rather than core drivers of the cluster\u2019s function. Overall, the central theme is proteostasis via ubiquitin-mediated degradation linked to circadian regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":8},{"id":"GO:0000209","count":6},{"id":"GO:0090073","count":6},{"id":"GO:0051260","count":6}]},{"hash":"889370011015845915","title":"Vision and Dopaminergic Neural Signaling","description":"The cluster shows enrichment for neural-related terms: visual learning and visual perception, dopaminergic synaptic transmission, motor neuron axon guidance, and behavioral responses to cocaine, pointing to neural signaling and sensory-perceptual processes. While there are some non-neural terms (heart development, macrophage chemotaxis), the strongest signal centers on nervous system function and behavior, suggesting a coherent theme around vision-related and dopaminergic neural signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0010759","count":4},{"id":"GO:0007601","count":4}]},{"hash":"277833988711175241","title":"Cell Growth and Biosynthesis","description":"The cluster\u2019s top GO terms cluster around growth-related processes: cell cycle and division, ribosome biogenesis, and various biosynthetic pathways (amino acids like threonine and glutamate, as well as general phosphorylation). Angiogenesis hints at growth and vascular development, reinforcing a theme of cell growth and macromolecule production. An outlier term (bacterial heptose biosynthesis) doesn\u2019t negate the overall growth/metabolic theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0009088","count":2}]},{"hash":"1405837415511383972","title":"Angiogenic Endothelial Signaling and Immune Response","description":"The dominant GO terms center on angiogenesis and endothelial cell migration, integrin signaling, ERK cascade regulation, Rac signaling, and caveolin-mediated endocytosis, with adaptive immune response and fungal-origin response indicating immune involvement. Together these terms suggest a coordinated signaling program that drives vascular remodeling in an immune-active context, i.e., angiogenic endothelial signaling modulated by immune cues.","confidence":"High","size":25,"edges":68,"triangles":60,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":16},{"id":"GO:0070374","count":13},{"id":"GO:0001525","count":13},{"id":"GO:0043536","count":13},{"id":"GO:0007229","count":13}]},{"hash":"1178117553351655520","title":"Central Metabolism and Amino Acid Biosynthesis","description":"This cluster is enriched for core energy pathways (glycolysis, TCA cycle, glyoxylate cycle) and amino acid/vitamin biosynthesis (lysine, arginine, thiamine), with a note of antibiotic biosynthetic potential. Together, these terms point to a cohesive group of proteins involved in central carbon metabolism and the production of amino acids and vitamins, typical of bacterial metabolic clusters.","confidence":"High","size":25,"edges":174,"triangles":599,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0006099","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0051301","count":4}]},{"hash":"30004376216193369","title":"Stress Response and G1/S Cell Cycle Regulation","description":"The proteins show strong enrichment for stress-related GO terms (response to immobilization stress, response to cocaine, cellular response to xenobiotic stimulus, cellular response to cadmium) and for cell cycle control at G1/S (positive regulation of G1/S transition of mitotic cell cycle, mitotic G1 DNA damage checkpoint signaling), indicating a theme where stress signaling interfaces with cell-cycle progression. Some terms like retina vasculature development and nodulation are peripheral annotations, but the dominant signal supports this functional cluster. ","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":9},{"id":"GO:0042220","count":7},{"id":"GO:0031571","count":7},{"id":"GO:0071276","count":7},{"id":"GO:0061298","count":6}]},{"hash":"452360725361679222","title":"DNA replication and chromatin regulation","description":"The cluster's GO terms center on DNA replication, recombination, DNA integration, spindle assembly, and histone methylation regulation (H3-K27, H3-K4), pointing to proteins involved in genome maintenance and chromatin dynamics during the cell cycle. Additional terms related to RNA-templated DNA processes and siRNA regulation support a broader link to chromatin and nucleic acid metabolism tied to genome integrity. Overall, this set appears to represent a module of DNA replication/cell cycle with chromatin modification.","confidence":"High","size":25,"edges":76,"triangles":97,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0006310","count":6},{"id":"GO:0061087","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0051569","count":5}]},{"hash":"2251777021419505341","title":"Inflammatory signaling and developmental processes","description":"This cluster centers on immune and cytokine signaling, with terms for interleukin-1 and interleukin-6 responses, interleukin-8 production, and NF-kappaB pathway activation, complemented by developmental terms for lung and cartilage formation. There are also outlier terms related to chitin metabolism and insect molting, suggesting the proteins span both inflammatory signaling and broader developmental/remodeling contexts. Confidence in a single cohesive function is moderate due to this mix of vertebrate immune signaling and non-mammalian developmental terms.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030324","count":5},{"id":"GO:0006032","count":5},{"id":"GO:0051216","count":4},{"id":"GO:0071347","count":4},{"id":"GO:0070741","count":4}]},{"hash":"2125717433542061989","title":"Transmembrane Ion and Xenobiotic Transporters","description":"The cluster is dominated by GO terms for transmembrane transport, including xenobiotic, ion, and nutrient (nitrite/nitrate, phosphate, vitamin) transport. This pattern points to membrane transporter proteins with broad substrate specificity, mediating import/export of ions and small molecules across membranes.","confidence":"High","size":25,"edges":34,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":25},{"id":"GO:0035461","count":25},{"id":"GO:0071805","count":23},{"id":"GO:0042908","count":22},{"id":"GO:0042891","count":20}]},{"hash":"1094855149415768594","title":"Innate antiviral interferon response","description":"Based on terms such as positive regulation of type I interferon production, cellular response to exogenous dsRNA, innate immune response, interferon-beta production, and defense response to virus, the proteins form a cohesive antiviral innate signaling module centered on dsRNA sensing and interferon signaling.","confidence":"High","size":25,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032481","count":3},{"id":"GO:0071360","count":3},{"id":"GO:0002230","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0032608","count":3}]},{"hash":"358380645036668274","title":"Caveolin-mediated endocytosis and trafficking","description":"This cluster is dominated by GO terms for caveolin-mediated endocytosis and its regulation, indicating a membrane trafficking theme. The RAC signaling and endocytosis regulation terms reinforce a trafficking/cytoskeletal coordination role, while other terms hint at broader processes (endothelial barrier, neuron development), suggesting a mixture but with a core endocytic feature.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090557","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0035156","count":2},{"id":"GO:0035020","count":2}]},{"hash":"1280944799089736697","title":"Adhesion and migration signaling in development","description":"The top GO terms cluster around cell adhesion (integrin-mediated signaling, substrate adhesion-dependent cell spreading), cell migration, and nervous system development, with PDGF receptor signaling as a related pathway. Additional terms like apoptotic process and innate immune response suggest remodeling and defense roles that can accompany development. The dominant theme is signaling linked to cell adhesion and movement during development, with supporting pathways and processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0048008","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0007229","count":3}]},{"hash":"272057797454650464","title":"Cardiac metabolism and RNA-based gene regulation","description":"The top terms point to fatty acid-related metabolism (carnitine biosynthesis; response to fatty acids) and heart development, suggesting a cardiac/metabolic context. At the same time, several terms involve RNA-level regulation (transcription by RNA Pol II, mRNA splicing regulation, regulatory ncRNA-mediated gene silencing), indicating coordinated gene expression control. The combination hints at metabolic signaling in the heart with concurrent RNA-based regulatory processes, though some terms are obsolete, making the signal a bit noisy.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0045329","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1282793691184876963","title":"Actin-driven cell migration and polarity","description":"This cluster centers on actin cytoskeleton dynamics\u2014filament polymerization, bundling, and crosslinking\u2014with related regulation of Rho signaling, plus processes for establishing epithelial and endothelial polarity and promoting cell migration; a few neural terms likely reflect actin\u2019s role in synaptic remodeling, but the core theme is actin-driven migration and polarity.","confidence":"High","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":6},{"id":"GO:0090162","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0060292","count":4},{"id":"GO:0090557","count":4}]},{"hash":"586469386928972350","title":"Viral DNA Integration and Retrotransposition","description":"This cluster is dominated by GO terms related to genome mobility and viral integration, including retrotransposition, DNA transposition, DNA integration, proviral latency establishment, and viral entry into the host nucleus. These consistently point to processes that insert genetic material into host genomes or mobilize transposable elements, with a few terms touching on host\u2013pathogen interactions. Overall, the proteins likely participate in viral integration and transposition-related genome dynamics.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032197","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0075732","count":3}]},{"hash":"1958199530464290562","title":"Developmental Morphogenesis Across Tissues","description":"The top GO terms show a clear theme of embryonic development and tissue formation, including endocardial EMT, cartilage morphogenesis, left-right patterning, spermatid development, and cell migration events, which together point to broader morphogenesis and developmental differentiation. Some terms (B cell differentiation, mRNA splicing) are more general cellular processes, but they do not dominate the cluster; the overall signal is developmental and morphogenetic. Therefore, a label focusing on development and tissue morphogenesis is representative, albeit not perfectly specific.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0045579","count":2},{"id":"GO:0032534","count":2},{"id":"GO:0035099","count":2},{"id":"GO:0007286","count":2}]},{"hash":"221877989466471323","title":"Neurite outgrowth and synaptic signaling","description":"The cluster is dominated by terms related to neuronal development and communication, including dendrite morphogenesis, axon extension/axogenesis regulation, and glutamatergic synaptic transmission, with ERK signaling as a common pathway. While mitotic cell cycle and DNA replication terms appear, the prevailing pattern points to neural growth and synaptic function rather than general metabolism, justifying this label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":22},{"id":"GO:0035249","count":21},{"id":"GO:0031647","count":21},{"id":"GO:0043552","count":21},{"id":"GO:0048813","count":21}]},{"hash":"2016186580217110516","title":"Nutrient-Responsive Growth and Transport","description":"The terms point to nitrogen utilization and ammonium/methylammonium transport, carbon dioxide transport, and growth responses (pseudohyphal growth, invasive growth, lateral root branching) triggered by nutrient limitation or nutrient status. A few terms on tRNA modification and iron homeostasis suggest broader stress- and resource-status regulation rather than a single pathway. Overall, the cluster seems to reflect a general theme of nutrient sensing/uptake coupled with growth responses, yielding a label of Nutrient-Responsive Growth and Transport. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":2},{"id":"GO:0006808","count":1},{"id":"GO:0080181","count":1},{"id":"GO:0015670","count":1},{"id":"GO:0007124","count":1}]},{"hash":"221407062836380073","title":"Nuclear import and cell cycle regulation","description":"This cluster is dominated by GO terms tied to nuclear transport (NLS-bearing protein import into nucleus; ribosomal protein import into nucleus; nuclear pore complex assembly) and chromosome dynamics (meiotic sister chromatid cohesion; mitotic sister chromatid separation). Additional terms like regulation of protein desumoylation, GTPase activity, and TORC1 signaling point to broader regulation of nuclear processes and cell growth. Together, these suggest a cohesive theme around nuclear import/assembly machinery coordinating chromatin maintenance and progression through cell division.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060188","count":8},{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0000060","count":8},{"id":"GO:0006610","count":8}]},{"hash":"416251768826338402","title":"Post-transcriptional regulation and protein turnover","description":"These proteins show strong enrichment for RNA metabolism (mRNA processing and regulation of mRNA stability) and protein turnover (ubiquitination and proteasome regulatory particle assembly), suggesting a cluster focused on post-transcriptional gene regulation and protein quality control. Some terms also touch on signaling and differentiation, but the core signal is RNA regulation coupled with ubiquitin-proteasome\u2013related processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0050960","count":3},{"id":"GO:0046475","count":3}]},{"hash":"2014250936173372967","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030516","count":3},{"id":"GO:0048593","count":3},{"id":"GO:0048240","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0009442","count":2}]},{"hash":"2170459191095654633","title":"Ubiquitin-Dependent Proteostasis and Mechanosensing","description":"The terms cluster around ubiquitin-mediated protein degradation (ubiquitin-dependent proteolysis, protein polyubiquitination) and responses to mechanical stimuli (cellular response to mechanical stimulus, detection of mechanical stimulus involved in sensory perception of pain), suggesting a proteostasis-mechanosensing theme. Some annotations also touch on transcription regulation and telomere maintenance, but these appear less central to the core signal. Overall, the label reflects the strongest, shared functions among the proteins.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0021678","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0050966","count":3}]},{"hash":"1543628445678626551","title":"Ion and Xenobiotic Membrane Transporters","description":"The top GO terms point to transmembrane transport of ions and small molecules (sodium, potassium, nitrite, organic anions, xenobiotics) and even specific substrates like microcystin. This indicates a cluster enriched for membrane transporter proteins that mediate substrate movement across membranes. Some surface-related terms (phototaxis, receptor clustering, cell-matrix adhesion) are present but do not override the dominant transport theme. Thus a label focusing on membrane transporters best captures the cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0007160","count":2},{"id":"GO:0042331","count":2},{"id":"GO:0043113","count":2}]},{"hash":"2180814873349592240","title":"Transcription Regulation and Cell Cycle","description":"This cluster is marked by GO terms for positive regulation and elongation of transcription by RNA polymerase II and III, suggesting a core theme of transcriptional control. The presence of mitotic cell cycle and cell division terms indicates coupling to cell cycle processes. Other terms hint at ubiquitination and intracellular transport, which can relate to regulation of transcription machinery and protein trafficking. Overall, the dominant signal is transcription regulation with links to cell-cycle progression.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045945","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1342173468325480114","title":"Glutamatergic Synaptic Transmission and Plasticity","description":"The cluster is dominated by GO terms for neuronal signaling, especially glutamatergic synaptic transmission and both short- and long-term synaptic plasticity (including olfactory learning, prepulse inhibition, and responses to stimulants). This coherence points to a neural synapse-focused function, with kidney development appearing as a potential annotation outlier rather than a core theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":6},{"id":"GO:0048172","count":6},{"id":"GO:0008355","count":5},{"id":"GO:0001822","count":4},{"id":"GO:0010226","count":4}]},{"hash":"372356296432854022","title":"Embryonic Development and Organogenesis","description":"The GO terms cluster around embryonic development, tissue patterning, and organ formation (EMT in heart cushion, left-right patterning, cartilage morphogenesis, endocrine and placental/pancreatic development, neural development), suggesting these proteins function together in developmental differentiation and organogenesis; a broad developmental theme best fits the set.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0060972","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060707","count":6}]},{"hash":"2240682757552607434","title":"Retroviral integration and transposon activity","description":"GO terms such as proviral latency establishment, entry into host cell, viral penetration into host nucleus, DNA integration, retrotransposition, and DNA transposition point to processes where viral genomes or transposable elements integrate and rearrange within the host genome, often accompanied by DNA recombination and replication and potential modulation of host RNA silencing. This cohesive theme justifies naming the cluster around retroviral integration and transposon activity.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0039651","count":4}]},{"hash":"2278378685995976702","title":"Retroviral Entry, Integration, and Proviral Latency","description":"Based on the GO terms, this cluster centers on viral manipulation of the host cell: entry into the host, nuclear penetration, DNA integration, transcription, and establishment of integrated proviral latency. Additional terms such as endocytosis, symbiont entry, and host apoptosis activation support a viral/retroviral theme and host-pathogen interactions, with proteasome assembly potentially reflecting host degradation pathways involved in infection. Collectively, these proteins likely participate in retroviral life cycle steps and host-cell manipulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0090502","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006897","count":2}]},{"hash":"1527264403789699370","title":"Unknown","description":"The top GO terms are diverse (stress response, kinase signaling, regulation of differentiation and apoptosis, protein interactions, retinol metabolism, gene silencing), with no single dominant function or pathway linking all 25 proteins, and the network has no edges, suggesting little functional cohesion in the cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071481","count":3},{"id":"GO:0032147","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0042572","count":2}]},{"hash":"1713526136786576495","title":"Neural development and tissue morphogenesis","description":"The cluster\u2019s top GO terms are dominated by neural development and differentiation (lateral motor column neuron migration; cerebellar Purkinje cell differentiation; spinal cord association neuron differentiation) and related tissue morphogenesis events (nephric duct elongation, female gonad development). Additional terms like cell-matrix adhesion and growth hormone receptor signaling support developmental processes, while a couple of terms (platelet aggregation; beta-D-glucan biosynthesis regulation) appear as noise. Overall, the proteins appear to be linked to developmental pathways, especially neural development and tissue morphogenesis.","confidence":"Medium","size":24,"edges":64,"triangles":82,"max_degree":22,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0070527","count":9},{"id":"GO:0008585","count":8},{"id":"GO:0097477","count":7},{"id":"GO:0007160","count":7},{"id":"GO:0090334","count":7}]},{"hash":"1762671145657065346","title":"Embryogenesis and Transcription Regulation","description":"This cluster centers on embryonic development programs (in utero development, embryonic eye morphogenesis, neural crest migration, pituitary development, semicircular canal morphogenesis, multicellular organism development) and transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II) plus chromatin remodeling, indicating coordinated regulation of gene expression during embryogenesis.","confidence":"High","size":24,"edges":65,"triangles":34,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0001701","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0048752","count":5}]},{"hash":"1691867877217359741","title":"Embryonic development and tissue morphogenesis","description":"The Top Terms point to multiple developmental and morphogenetic processes across diverse tissues (midbrain, pancreatic, left-right patterning, cartilage/biomineral tissue formation, and endocardial cushion EMT). While some terms are generic (digestion, defense), the shared theme is organ and tissue development and morphological patterning, suggesting a developmental cluster with broad morphogenic roles.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0003323","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0030194","count":5}]},{"hash":"2147383087332930401","title":"Developmental morphogenesis and differentiation","description":"The top GO terms cluster around embryonic patterning, morphogenesis (cartilage, endocardial EMT, placenta), and tissue-specific development (endocrine pancreas), with supporting roles in transcription and splicing. Collectively, these proteins seem tied to developmental differentiation and organ formation, rather than a single specialized pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0003323","count":6}]},{"hash":"1731980918300383011","title":"Axon Guidance and Synapse Assembly","description":"This cluster is dominated by GO terms related to neuron guidance and synapse formation, including axon pathfinding (semaphorin-plexin signaling, branchiomotor neuron axon guidance), paranodal/juxtaparanodal junctions, synapse assembly, and clustering of voltage-gated Na channels, indicating a cohesive neuronal connectivity/organization function.","confidence":"High","size":24,"edges":73,"triangles":54,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0030913","count":7},{"id":"GO:0071205","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0021836","count":7}]},{"hash":"1827064009001015765","title":"Cell Migration and Cytoskeleton Regulation","description":"The cluster is dominated by GO terms tied to movement and cytoskeletal control, including cell migration, regulation of GTPase activity, pseudopodium assembly, and localization to cortical microtubule structures, along with microtubule dynamics. While other terms (vacuole inheritance, nuclear import, Wnt signaling) appear, they likely reflect coordinated trafficking and signaling contexts that support cytoskeletal remodeling during migration and development. Overall, the data point to a cohesive theme of cytoskeleton-driven cell movement.","confidence":"High","size":24,"edges":19,"triangles":7,"max_degree":7,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":11},{"id":"GO:0043547","count":10},{"id":"GO:0000011","count":10},{"id":"GO:0006607","count":10},{"id":"GO:0016477","count":10}]},{"hash":"1321339256081603200","title":"SRP-dependent ER targeting and ER stress regulation","description":"GO terms center on SRP-dependent cotranslational targeting to the ER membrane, ER quality control (ERAD), and ER overload response, with links to retrograde transport and regulation of ER-stress\u2013related inflammatory signaling (TNF, nitric oxide, and apoptotic pathways). This supports a cohesive theme of ER targeting/processing and modulation of ER stress\u2013linked responses.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006614","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0030970","count":1},{"id":"GO:0002865","count":1}]},{"hash":"264508442381332362","title":"Mitotic and cytoskeletal regulation in development","description":"These proteins are enriched for regulation of the cell cycle and mitosis, microtubule dynamics, and GTPase-mediated control of the cytoskeleton, with additional links to developmental processes such as root development and CNS vasculogenesis and to pseudopodium assembly, suggesting a function in coordinating cell division with cytoskeletal remodeling during development.","confidence":"High","size":24,"edges":266,"triangles":1817,"max_degree":23,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":12},{"id":"GO:0048364","count":12},{"id":"GO:0015991","count":11},{"id":"GO:0000281","count":10},{"id":"GO:0043547","count":10}]},{"hash":"1956711820572373605","title":"Neuronal signaling and motor behavior","description":"The cluster centers on neural signaling (GABA pathway, inhibitory postsynaptic potentials), ion transport essential for neuronal excitability, and movement-related behaviors (locomotion, skeletal muscle contraction, startle response), with circadian regulation and learning-related aspects, indicating a neural-excitability and locomotion theme.","confidence":"High","size":24,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":14},{"id":"GO:0098703","count":13},{"id":"GO:0045188","count":13},{"id":"GO:0001964","count":13},{"id":"GO:0007340","count":11}]},{"hash":"279458530873444552","title":"Neuronal vesicle trafficking and signaling","description":"This cluster is driven by GO terms related to membrane trafficking and endomembrane transport (endocytosis; retrograde transport between endosomes, Golgi, and ER), which points to vesicle trafficking activities. Several terms also touch on neuronal development and signaling (nerve branching, dopamine receptor signaling, and neuron survival), suggesting these proteins participate in neuronal communication and neuroprotection. A few terms (mitotic spindle assembly) may reflect shared cytoskeletal machinery, and one immune term is less connected, but the dominant theme appears to be neuronal vesicle trafficking with associated signaling and survival roles.","confidence":"Medium","size":24,"edges":20,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0006897","count":6},{"id":"GO:0090307","count":5},{"id":"GO:1903215","count":5},{"id":"GO:1905279","count":5}]},{"hash":"177655329578919217","title":"RNA Processing and Ribosome Biogenesis","description":"This cluster centers on RNA biogenesis and processing: rRNA maturation (SSU/ITS1 processing), splicing regulation, and transcription termination, with regulatory ncRNA-mediated silencing and mRNA splicing control supporting RNA-based regulation. While DNA replication/recombination and stress granule localization appear, the dominant signal is RNA processing and ribosome assembly, with developmental context suggested by the embryonic skeletogenesis term.","confidence":"High","size":24,"edges":66,"triangles":170,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0000462","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0006369","count":7}]},{"hash":"1287390087981117617","title":"ER stress\u2013induced apoptosis and UPR","description":"Most terms center on intrinsic apoptotic signaling in response to ER stress and unfolded protein response, indicating a core theme of ER stress and UPR. Additional terms about cytokine production and IL-4 response suggest immune signaling linked to this stress response. Together these imply a cluster of proteins involved in ER stress-induced apoptosis and UPR with immune modulation.","confidence":"High","size":24,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0071353","count":4},{"id":"GO:0006990","count":4},{"id":"GO:0035470","count":3},{"id":"GO:0007623","count":3}]},{"hash":"1338375956285203884","title":"Unknown","description":"The top GO terms cover disparate areas\u2014from morphogenesis and signaling (apoptotic morphogenesis, cochlea morphogenesis, Rho signaling, planar cell polarity) to Golgi organization, innate immune signaling, amyloid-beta metabolism, bradykinin catabolism, and symbiont entry into host cells. The absence of edges/triangles and the lack of a single coherent functional theme suggest no clear, unified function for this cluster, so a concise label is not identifiable.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060561","count":2},{"id":"GO:0090103","count":2},{"id":"GO:2000035","count":2},{"id":"GO:0090179","count":2},{"id":"GO:1903358","count":2}]},{"hash":"2018964505974047423","title":"Chloroplast gene expression and signaling","description":"These proteins are linked to plastid/chloroplast functions, with GO terms for chloroplast transcription, plastid transcription, chloroplast RNA modification, and chloroplast-nucleus signaling, plus polycistronic mRNA processing. While some terms (e.g., embryo dormancy, certain biosynthetic processes) appear unrelated and may be noise, the core signal points to chloroplast gene expression programs and plastid-to-nucleus communication.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033050","count":3},{"id":"GO:0045329","count":3},{"id":"GO:0000961","count":2},{"id":"GO:0042793","count":2},{"id":"GO:0031426","count":2}]},{"hash":"1064548072435537069","title":"Cross-tissue Development and Organogenesis","description":"The terms cluster around development across multiple tissues and organs (retina, cerebellum, digits, cartilage, osteoblasts, mesonephric duct) and general multicellular development, plus transcriptional regulation relevant to development. This points to a broad developmental/organogenesis theme rather than a single pathway, justifying a label like Cross-tissue Development and Organogenesis.","confidence":"High","size":24,"edges":49,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0002087","count":8},{"id":"GO:0002076","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0051216","count":7}]},{"hash":"1305334726172005937","title":"Translation initiation regulation and ribosome biogenesis","description":"The top GO terms point to control of translational initiation, preinitiation complex formation, and translation reinitiation (including viral IRES mechanisms), with concurrent rRNA maturation indicating ribosome biogenesis. This suggests a cohesive cluster focused on translation control and ribosome assembly, with some RNA processing overlap.","confidence":"High","size":24,"edges":25,"triangles":3,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006446","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0075522","count":5}]},{"hash":"919190974429931462","title":"Nuclear mRNA processing and export","description":"The cluster centers on nuclear RNA metabolism: regulation of polyadenylation and translational initiation, mRNA splicing via the spliceosome, mRNA export from the nucleus, and surveillance such as nonsense-mediated decay, plus regulatory ncRNA-mediated gene silencing. This cohesive set points to proteins involved in mRNA maturation, processing, and nuclear transport rather than cytosolic functions. There are a few links to DNA damage\u2013related signaling, but they are minor compared to the dominant RNA processing theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2}]},{"hash":"2026803087515786411","title":"Neural and renal development with ion transport","description":"The top GO terms point to development in the nervous system (central nervous system development, brain development, axon guidance) and kidney-related processes (glomerular basement membrane development, glomerular filtration) plus regulation of angiogenesis and membrane ion transport. This suggests a cluster of proteins involved in neural and renal developmental programs with associated ion transport activity, despite some outliers (immune response, bone remodeling). Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006955","count":3},{"id":"GO:0046849","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0003094","count":2}]},{"hash":"1961438185338300604","title":"Cytoskeletal dynamics and contractile machinery","description":"This cluster centers on actin- and cytoskeleton\u2013related processes: sarcomere organization, microspike assembly, muscle contraction, and Rho-regulated signaling, with supporting hints from neuron projection development and lens fiber differentiation. While a couple terms touch on immunity, the dominant pattern ties to cytoskeletal remodeling and contractile structures across muscle, neurons, and specialized cells. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:1900042","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0030035","count":2}]},{"hash":"1094124826498964030","title":"Neural and reproductive development","description":"The top GO terms cluster around development of the nervous system (nervous system development, myelination) and reproductive tissues (spermatid development, organ induction), suggesting a general developmental program spanning neural and reproductive lineages. Additional terms about transport and copper homeostasis appear ancillary and do not define a single cohesive pathway, so the strongest shared theme is broad developmental processes in both nervous system and reproduction.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0001759","count":2}]},{"hash":"1941795288937543563","title":"Neural development and organ morphogenesis","description":"The cluster centers on neural development, with terms for axonal fasciculation, axon guidance, and synapse assembly, indicating neural connectivity, while also including organogenesis terms such as kidney and skeletal development, otolith morphogenesis, and angiogenesis, suggesting a broad developmental program. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0032474","count":2},{"id":"GO:0001501","count":2}]},{"hash":"968041267589531758","title":"Neural development and transcription regulation","description":"Prominent terms are forebrain development, spinal cord development, and neuron projection development, indicating a neural development focus. DNA-templated transcription also appears, suggesting transcriptional regulation during development. Additional terms point to signaling and cytoskeletal dynamics (positive regulation of GTPase activity, actin filament depolymerization, peptidyl-tyrosine phosphorylation, response to transforming growth factor beta) and mitotic spindle assembly, implying coordinated development and morphogenesis processes. Overall, the cluster seems to capture proteins involved in neural development with transcriptional and signaling roles.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031175","count":2}]},{"hash":"475708086952568519","title":"Rho GTPase signaling and cytoskeleton/polarity regulation","description":"Dominant GO terms point to Rho protein signal transduction regulation, GTPase activity, microspike assembly, and epithelial polarity. This suggests the cluster comprises proteins involved in cytoskeletal remodeling and cell polarity, with ancillary links to endocytosis and development-related processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0021799","count":2},{"id":"GO:0010493","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0030035","count":2}]},{"hash":"1281774360353127859","title":"Amino acid catabolism and sphingolipid biosynthesis","description":"The cluster\u2019s most frequent terms center on catabolic processes for amino acids (L-kynurenine from tryptophan and L-alanine) and on sphingolipid biosynthesis (sphinganine and sphingomyelin). While Notch signaling and DNA-templated transcription appear among the terms, they are less representative of the predominant metabolic themes. This suggests a metabolism-focused cluster highlighting amino acid catabolism and sphingolipid pathways, with possible regulatory associations. ","confidence":"Medium","size":23,"edges":139,"triangles":505,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":10},{"id":"GO:0042853","count":10},{"id":"GO:0007219","count":10},{"id":"GO:0019878","count":7},{"id":"GO:0006351","count":6}]},{"hash":"368859831940351087","title":"Translation Initiation Complex Formation and Protein Oligomerization","description":"The most frequent terms point to translation initiation and preinitiation complex formation (GO:0001731, GO:0002188) along with protein homooligomerization (GO:0051260). These suggest a core theme around translational machinery and protein assembly, with other development or DNA repair terms appearing less prominently. Confidence: Medium","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0001845","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0007338","count":10}]},{"hash":"272751774949028415","title":"Gene Expression and Protein Synthesis Machinery","description":"The cluster\u2019s top GO terms center on transcription elongation regulation, translation and translational termination, and tRNA modification, which points to core gene expression and protein production. Additional terms related to cell cycle, Golgi protein retention, and protein oligomerization suggest broad involvement in protein processing and assembly, rather than a single specialized pathway. Overall, it appears to represent general machinery for gene expression and protein synthesis with ancillary trafficking roles.","confidence":"Medium","size":23,"edges":50,"triangles":42,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":3},{"id":"GO:0006415","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2023100051742967309","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":165,"triangles":601,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000466","count":9},{"id":"GO:0000472","count":9},{"id":"GO:0000398","count":9},{"id":"GO:0000480","count":9},{"id":"GO:0000462","count":9}]},{"hash":"1100363613178566714","title":"RNA processing and translation regulation","description":"The cluster centers on post-transcriptional control, with enrichment for regulation of mRNA splicing, polyadenylation, stability, and translation initiation, plus ncRNA-mediated gene silencing, suggesting a cohesive role in RNA processing and translational regulation.","confidence":"High","size":23,"edges":53,"triangles":18,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0048025","count":16},{"id":"GO:0006378","count":16},{"id":"GO:1901407","count":16},{"id":"GO:1900363","count":15}]},{"hash":"1155427028872530418","title":"Regulation of proteostasis and signaling pathways","description":"The top GO terms point to multiple regulatory roles, including proteasomal ubiquitin-dependent protein catabolic processes, ufmylation, and NF-kappaB signaling (I-kappaB phosphorylation and NF-kappaB activity), along with regulation of estrogen receptor signaling and related cellular processes. This suggests a cluster of proteins that broadly modulate protein turnover and various signaling cascades rather than a single, cohesive function. Therefore, a label focusing on overall regulation of proteostasis and signaling is appropriate.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990592","count":1},{"id":"GO:1905636","count":1},{"id":"GO:0032436","count":1},{"id":"GO:1903721","count":1},{"id":"GO:0033146","count":1}]},{"hash":"2260065128469604448","title":"Nervous System Development and Sensory Perception","description":"The top GO terms are heavily weighted toward nervous system functions, including locomotory behavior, visual perception, retina development, and cerebral cortex interneuron migration, indicating a shared theme around neural development and sensory processing. While other terms touch on broader developmental processes in heart or blood-related tissues, the strongest signal centers on neural development and sensory traits, justifying this focused label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007626","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0021853","count":3},{"id":"GO:0070257","count":3},{"id":"GO:0007596","count":3}]},{"hash":"479670153484250463","title":"Cytoskeleton dynamics and cell migration regulation","description":"This cluster aggregates proteins with GO annotations focused on cytoskeletal remodeling and movement, including regulation of Rac signaling, podosome assembly, epithelial polarity, and cell migration. The PI(4,5)P2 biosynthesis regulation further ties to membrane signaling that drives actin dynamics. Some apoptosis and sensory perception terms appear, but the dominant theme is cytoskeleton coordination and cell movement.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0061000","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0090162","count":3}]},{"hash":"21799592188841390","title":"Apoptosis and Signaling Regulation","description":"The cluster centers on apoptosis and regulation of signaling pathways, including ERK/MAPK cascade, GTPase activity, and NF-kB activity, with concurrent mentions of cell proliferation and mitotic cycle. While some terms touch development or sensory processes, the dominant theme is coordinated cell fate control via signaling and apoptotic pathways.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0001975","count":3}]},{"hash":"1479102855083549750","title":"Neural development and synaptic signaling","description":"The top GO terms center on nervous system development and function, including synaptic transmission, synapse assembly, and behaviors (grooming, social behavior, vocalization). Some terms touch on epithelial polarity and extracellular matrix, which can accompany developmental processes but do not overwhelm the neural theme. Overall the cluster appears to group proteins involved in neural connectivity and behavior regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000821","count":2},{"id":"GO:0045199","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0016318","count":2},{"id":"GO:0045186","count":2}]},{"hash":"1864088335415364048","title":"ER-Golgi trafficking and Rho GTPase regulation","description":"This cluster is enriched for GO terms describing ER-to-Golgi and retrograde vesicle transport, as well as intracellular protein transport and regulation of GTPase activity. The inclusion of brain/spinal cord development and vessel remodeling terms may reflect broader roles in development and cell migration where vesicle trafficking and cytoskeleton signaling intersect. Therefore the theme centers on secretory pathway trafficking linked to Rho/GTPase signaling.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007420","count":3}]},{"hash":"518432732810105359","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":39,"triangles":39,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":13},{"id":"GO:0006260","count":11},{"id":"GO:0006265","count":11},{"id":"GO:0006310","count":10},{"id":"GO:0000716","count":10}]},{"hash":"218947383963256289","title":"Embryonic development and RNA processing","description":"The GO terms point to broad developmental processes such as left/right pattern formation, cartilage morphogenesis, EMT in endocardial cushion formation, placental/trophoblast differentiation, and embryonic placenta development. They are complemented by RNA processing and ribosome export terms (spliceosome, RNA Pol II regulation, ribosomal subunit export), suggesting a cluster of proteins involved in developmental patterning and regulation of gene expression.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003198","count":2}]},{"hash":"733373369628237611","title":"Cerebellar development and insulin-glucose signaling","description":"The cluster is dominated by terms related to cerebellar development, including cerebellar cortex formation and Bergmann glial cell differentiation, as well as insulin signaling and cellular response to glucose, suggesting a theme around cerebellar development with metabolic signaling. While some terms (e.g., T cell signaling, p53 regulation) are more general, the strongest signals center on cerebellar formation and glucose/insulin pathways, making this label representative and specific.","confidence":"High","size":23,"edges":126,"triangles":258,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:2001275","count":23},{"id":"GO:0048679","count":23},{"id":"GO:0021697","count":23},{"id":"GO:0060020","count":23},{"id":"GO:0050852","count":23}]},{"hash":"1996759204210424285","title":"Renal morphogenesis and cartilage condensation","description":"The top GO terms are dominated by kidney development signals (metanephric duct and tubule morphogenesis, proximal/distal tubule development, metanephric limb development, mesonephric duct development), with cartilage condensation appearing as a secondary developmental theme. This suggests the cluster largely represents proteins involved in embryonic organ morphogenesis, especially renal development, with a secondary link to cartilage formation.","confidence":"Medium","size":23,"edges":43,"triangles":99,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":10},{"id":"GO:0001502","count":8},{"id":"GO:0072177","count":7},{"id":"GO:0072287","count":7},{"id":"GO:0006910","count":7}]},{"hash":"44620289045157713","title":"Muscle-related and immune signaling proteins","description":"The top GO terms show both muscle-focused processes (sarcomere organization, muscle contraction, spermatid development) and immune-related signaling/adhesion (T cell costimulation, interleukin-2 production, dendritic cell differentiation, Rho signaling, cell-cell adhesion, Hedgehog/Smoothened pathway). Because there isn\u2019t a single cohesive function tying all proteins together, the label reflects a broad, cross-tissue signaling/adhesion theme with two prominent subareas (muscle structure and immune signaling). ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0006936","count":2},{"id":"GO:0007286","count":2}]},{"hash":"396269350058561986","title":"Rho GTPase Signaling in Muscle and Heart Development","description":"The cluster centers on Rho and small GTPase\u2013mediated signaling, which regulate actin cytoskeleton dynamics and sarcomere organization. The inclusion of heart development and sarcomere organization terms points to a muscle/cardiac context, while GPCR-related signaling terms (thrombin-activated receptor signaling, PLC-inhibiting GPCR pathway) and regulation of GTPase activity support a cohesive set of signaling cascades that coordinate cytoskeletal remodeling and development in muscle tissue.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007264","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0045214","count":3}]},{"hash":"2061494688369882174","title":"DNA replication and epigenetic regulation","description":"The cluster is dominated by DNA-related terms (DNA biosynthetic process, DNA replication, DNA integration) with a hint of histone H3-K9 acetylation regulation, suggesting genome maintenance and chromatin modification as the core theme. Hormone-related terms appear less consistently, so they do not override the main signal. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0071872","count":2},{"id":"GO:2000617","count":2},{"id":"GO:0001545","count":1}]},{"hash":"1053125161953221247","title":"Embryonic development and tissue morphogenesis","description":"The top terms cluster around embryonic patterning and organ morphogenesis (left/right pattern formation, cartilage morphogenesis, endocardial cushion EMT, placenta-related differentiation, endocrine system development, pancreatic cell development), suggesting proteins involved in developmental programs and tissue differentiation. Some terms like spliceosome and DNA repair appear as background processes but do not redefine the main theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0003323","count":7}]},{"hash":"1587995869668314225","title":"Telomere maintenance regulation","description":"The top GO terms cluster around telomere biology: positive regulation of telomere maintenance via telomerase, positive regulation of telomere capping, and negative regulation of telomere maintenance via telomere lengthening, suggesting a core theme of telomere maintenance control. There are related terms on telomeric DNA binding and genome stability (e.g., spindle assembly and PARP-related modifications), but an outlier term on symbiont entry into host cells is present. Overall, the dominant theme supports telomere maintenance regulation as the cluster\u2019s label, with some noise from related processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":4},{"id":"GO:1904908","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0070213","count":3},{"id":"GO:0051225","count":3}]},{"hash":"1695828027206922424","title":"Sugar detection and sweet taste signaling","description":"The top GO terms include multiple entries for detection of glucose, maltose, sucrose, and trehalose, plus sensory perception of sweet taste, pointing to a sugar-sensing theme in this cluster. Other terms are sporadic or obsolete (e.g., brain development, hemolysis, obsolete glycosylation) and there are no reported interactions, so the connection is tentative and the label should be interpreted as a best-effort summary rather than a tightly cohesive functional module.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044179","count":2},{"id":"GO:1900116","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006486","count":2}]},{"hash":"2177818821893869873","title":"Retinoic acid signaling and embryonic vascular development","description":"The cluster is enriched in retinoid-related processes (retinol and retinal metabolism, cellular response to retinoic acid) alongside vascular development terms (blood vessel development and regulation of endothelial cell proliferation), indicating a retinoic acid\u2013driven program coordinating embryonic angiogenesis and related organogenesis (e.g., Harderian gland and digestive tract development). This coherent theme supports a targeted label rather than a broad, vague one.","confidence":"High","size":22,"edges":228,"triangles":1480,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":12},{"id":"GO:0042574","count":12},{"id":"GO:0071300","count":8},{"id":"GO:0036293","count":8},{"id":"GO:0001568","count":8}]},{"hash":"2145369172231629707","title":"Unknown","description":"The top GO terms span heart and placenta development, neuronal development and spine regulation, cytoskeleton organization, and various stress and metabolic responses. There isn\u2019t a single cohesive function tying these terms together, so a unique, representative label isn\u2019t well-supported.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0042738","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0030036","count":2}]},{"hash":"2075960798950747279","title":"Immune cell chemotaxis and inflammatory regulation","description":"This cluster is dominated by GO terms about immune cell migration (dendritic cell and eosinophil chemotaxis) and modulation of inflammation (negative regulation of inflammatory response, negative regulation of chemokine production), suggesting proteins that coordinate trafficking of immune cells and control inflammatory signaling. While some signaling terms (membrane potential/calcium channel regulation) hint at broader cellular signaling, the immune-chemotaxis theme is strongest.","confidence":"High","size":22,"edges":196,"triangles":986,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":22},{"id":"GO:0090198","count":22},{"id":"GO:0016998","count":22},{"id":"GO:0007626","count":22},{"id":"GO:0042391","count":22}]},{"hash":"1711307781627082958","title":"Ion, xenobiotic, and phospholipid transporters","description":"This cluster is dominated by GO terms for transmembrane transport across membranes, including potassium ion transport, xenobiotic transport, and phospholipid translocation, with additional ER-related transport and TAP-dependent antigen processing, all pointing to membrane transporter proteins handling ions, xenobiotics, and lipids. The common theme is membrane transport activity, possibly including ER trafficking components and related processing steps.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0042908","count":3},{"id":"GO:0045332","count":2},{"id":"GO:0002489","count":2}]},{"hash":"1393876658705562354","title":"B cell signaling and NF-kappaB activation","description":"The top terms cluster around B cell receptor signaling, NF-kappaB pathway activation, B cell proliferation, IL-1 response, and spleen development, with additional links to JNK regulation and membrane proteolysis, pointing to a cohesive immune/B cell signaling theme. Some GO entries are obsolete, but the core signal is robustly immune-focused.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097178","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0030890","count":2}]},{"hash":"739877014876124948","title":"Glycoprotein glycosylation and arabinogalactan protein metabolism","description":"Top GO terms cluster around glycosylation pathways (O-linked hydroxyproline glycosylation, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthetic process), arabinogalactan protein metabolism, and related extracellular matrix/mucilage processes, alongside root hair development and cell polarity/adhesion terms. This points to a cohesive function in building and modifying plant cell-surface glycoproteins and cell-wall components, making the proposed label representative of the cluster\u2019s biology.","confidence":"High","size":22,"edges":71,"triangles":38,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0080147","count":8},{"id":"GO:0001744","count":7},{"id":"GO:0042248","count":7},{"id":"GO:0007299","count":7}]},{"hash":"1707562406984805522","title":"Transmembrane transporters for nutrients and xenobiotics","description":"The top GO terms indicate a cohesive group of transmembrane transport proteins handling diverse substrates, including xenobiotics, nitrite/nitrate, sugars, vitamins, and related compounds, pointing to a membrane transporter cluster focused on nutrient uptake and xenobiotic efflux.","confidence":"High","size":22,"edges":14,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":5},{"id":"GO:0015707","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0015757","count":5}]},{"hash":"1023869182468060685","title":"Nervous system development and synapse assembly","description":"The top GO terms are strongly skewed toward neural development and synaptic organization, including nervous system development, homophilic/heterophilic cell-cell adhesion, positive regulation of synapse assembly, and postsynaptic potential regulation, with supporting terms like trigeminal nerve structure. While there are a couple of outliers related to ossification, kidney development, and branching in salivary gland morphogenesis, the dominant signal ties to neural development and synapse formation.","confidence":"Medium","size":22,"edges":6,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0043931","count":9}]},{"hash":"186778751994334264","title":"Coagulation and ECM remodeling in inflammation","description":"The GO terms cluster around coagulation-related processes (Factor XII activation, plasminogen activation), extracellular matrix remodeling (elastin catabolic process, cell-matrix adhesion), and inflammatory/immune responses (acute-phase, defense against Gram-positive bacteria). Despite no edges among proteins, the recurring theme is coagulation, tissue remodeling, and inflammation, justifying this label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006953","count":1},{"id":"GO:0002542","count":1},{"id":"GO:0048771","count":1},{"id":"GO:0071333","count":1},{"id":"GO:1900738","count":1}]},{"hash":"656944333033324046","title":"Auditory hair cell maturation and synaptic signaling","description":"The cluster is dominated by terms tied to cochlear development and hair cell function, including cochlea morphogenesis, auditory receptor cell stereocilium organization, and chemical synaptic transmission, with clear signals for Rho GTPase signaling and Wnt pathway regulation. This points to processes governing hair cell maturation, their synaptic organization, and related signaling networks.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0007268","count":3},{"id":"GO:0030111","count":3},{"id":"GO:0050808","count":3}]},{"hash":"327478070064202297","title":"GPCR-driven cAMP/cGMP signaling","description":"Most terms point to G protein-coupled receptor pathways that regulate cyclic nucleotide second messengers: cAMP via adenylyl cyclase and cGMP via guanylyl cyclase. The cluster includes receptor guanylyl cyclase signaling, adenylate cyclase-activating GPCR signaling, cAMP biosynthesis, and related processes like blue light signaling and transcriptional regulation downstream, as well as oocyte maturation control\u2014all fitting a unified GPCR-cAMP/cGMP signaling theme.","confidence":"High","size":22,"edges":66,"triangles":47,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007168","count":9},{"id":"GO:1904322","count":9},{"id":"GO:0071880","count":9},{"id":"GO:1900194","count":9},{"id":"GO:0009785","count":9}]},{"hash":"179767579535170224","title":"Neural migration and axon guidance with GABA signaling","description":"This cluster is characterized by neural development processes: tangential neuronal migration to the olfactory bulb, Roundabout/axon guidance signaling, and GABAergic synaptic transmission, plus nerve branching morphogenesis and neuronal trafficking indicators. A few terms (epithelial adhesion, TH1 response) are peripheral but do not outweigh the neural connectivity theme.","confidence":"High","size":22,"edges":44,"triangles":9,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022028","count":6},{"id":"GO:0035385","count":6},{"id":"GO:0051932","count":5},{"id":"GO:0090136","count":5},{"id":"GO:1903215","count":5}]},{"hash":"1138617146650458444","title":"Meiosis and Chromosome Dynamics","description":"The top GO terms include meiotic chromosome condensation, homologous chromosome movement toward the spindle pole in meiosis I, and polar body extrusion after meiosis, pointing to a cohesive theme of meiosis and chromosome behavior. The presence of other terms (calcium signaling, RNA processing) may reflect broader cellular contexts or pleiotropic roles, but the clear meiotic signals dominate. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0030422","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0010032","count":2},{"id":"GO:0038166","count":1}]},{"hash":"1578446861340028588","title":"Mitochondrial Translation and Energy Production","description":"The cluster combines translation-related terms with mitochondrial energy metabolism (proton motive force-driven ATP synthesis, respiratory chain complex II assembly, and redox homeostasis). While a few terms relate to general transcription or protein modification, the core signal is mitochondria-associated translation and respiration.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0021762","count":2},{"id":"GO:0015986","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2095745390462560185","title":"Xenobiotic and sterol transporters","description":"The cluster is dominated by GO terms for transmembrane transport of xenobiotics, vitamins, and lipids, including daunorubicin/doxorubicin transport, xenobiotic export, and negative regulation of cholesterol/phytosterol absorption, plus phospholipid translocation and related carbohydrate transport. This points to membrane transport proteins that mediate movement of drugs, vitamins, sterols, and lipids across membranes, suggesting a cohesive theme of xenobiotic and sterol transporters.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":19},{"id":"GO:0035461","count":18},{"id":"GO:0010949","count":17},{"id":"GO:0045796","count":17},{"id":"GO:0043215","count":17}]},{"hash":"1034228363054034601","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis (including SCF-dependent pathways and polyubiquitination) and a G1 cell cycle checkpoint signal, with circadian rhythm regulation also represented. This points to a cohesive role in ubiquitin-mediated protein degradation controlling cell cycle progression and related signaling, with some peripheral associations to stress responses and development.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0031146","count":11},{"id":"GO:0031571","count":8},{"id":"GO:1902916","count":8},{"id":"GO:0000209","count":8}]},{"hash":"1165950319004736846","title":"Sarcomere and cytoskeletal organization","description":"The top GO terms cluster around structural organization and dynamics of the cytoskeleton\u2014sarcomere organization, actin crosslink formation, actin cortical patch localization, and spindle assembly\u2014suggesting a core role in cytoskeletal regulation; additional terms touch on cell adhesion and mechanotransduction, consistent with cytoskeletal function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0035023","count":3},{"id":"GO:1900042","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0050910","count":2}]},{"hash":"1133833222124362997","title":"Embryonic Development and Organogenesis","description":"Most terms point to embryonic development and organogenesis (left/right patterning, cartilage morphogenesis, EMT in endocardial cushion formation, pancreatic and placental development, endocrine system development, midbrain development). The complement activation terms appear less connected to this theme and may reflect annotation overlap or multifunctionality. Overall, the cluster seems to group proteins involved in developmental processes and tissue formation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0060972","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060707","count":4}]},{"hash":"897826149360001038","title":"Unknown","description":"The GO terms span kinetochore assembly, circadian signaling, phototransduction, apoptosis regulation, cytoskeletal organization, and development, showing no cohesive single function for the cluster.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051382","count":1},{"id":"GO:0042753","count":1},{"id":"GO:0010018","count":1},{"id":"GO:0009585","count":1},{"id":"GO:0043066","count":1}]},{"hash":"1951859431260204954","title":"Developmental regulators and DNA damage response","description":"This cluster shows strong signals for developmental processes (multicellular organism development, single fertilization, spinal cord development) alongside cell-cycle, DNA repair, and protein regulation pathways (mitotic cycle, homologous recombination repair, ER-stress\u2013induced apoptosis, ubiquitination, transcription factor localization, histone methylation). The combination suggests proteins involved in development that also participate in genome maintenance and regulatory control, supporting a cohesive theme of development linked with genome integrity and protein turnover.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007338","count":6},{"id":"GO:0021510","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0000724","count":5}]},{"hash":"1438258606492312638","title":"Neural and Skeletal Morphogenesis","description":"This cluster centers on developmental processes spanning the nervous system (paraxial mesoderm development, neuroblast proliferation, trigeminal nerve organization, branchiomotor neuron axon guidance, neuron migration) and mesoderm-derived skeletal/vascular morphogenesis (ossification in bone maturation, endothelial morphogenesis; semaphorin-plexin signaling in bone morphogenesis). The combined emphasis on neural patterning and bone/vascular formation suggests a cohesive theme of neural and skeletal morphogenesis, despite some outlier signals.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048339","count":2},{"id":"GO:0007405","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0021637","count":2},{"id":"GO:0043931","count":2}]},{"hash":"1878107765453502336","title":"Neurodevelopment and synapse formation","description":"The term set centers on neural connectivity: corpus callosum development, axonal fasciculation, positive regulation of synapse assembly, anterograde synaptic vesicle transport, and striatal neuron differentiation, pointing to neuronal development and synaptic maturation. A few terms about keratinocyte proliferation or lens fiber morphogenesis are present but do not override the dominant neural theme, suggesting these proteins broadly participate in neurodevelopmental and synaptic organization processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022038","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0048681","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0043616","count":2}]},{"hash":"858942764623705914","title":"Unknown","description":"The top GO terms are highly diverse, including glycosylation and lipid biosynthesis, but also developmental, reproductive, and bacterial biosynthetic processes, with no single cohesive function tying all proteins together.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0036108","count":2},{"id":"GO:0021680","count":2},{"id":"GO:0019350","count":2},{"id":"GO:0007339","count":2}]},{"hash":"1480417732813054664","title":"Cell signaling and transcription regulation","description":"The top GO terms point to signaling pathways (Wnt signaling), cell junction dynamics (adherens junction assembly), and regulation of transcription/Nuclear transport, suggesting a common theme around signaling control and gene expression. While terms span diverse areas (including mechanotransduction and differentiation), the strongest connections lie in signaling and transcription regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0034333","count":2},{"id":"GO:0046826","count":2},{"id":"GO:0090116","count":1}]},{"hash":"1706072111652067497","title":"Redox-regulated membrane trafficking and signaling","description":"This cluster features GO terms linking redox/oxidative stress responses (e.g., negative regulation of peptidyl-cysteine S-nitrosylation; cellular response to hydroperoxide; oxidative stress-related neuron death) with membrane trafficking processes (Golgi to plasma membrane transport; plasma membrane to endosome transport) and signaling (GTPase activity regulation, TNF-mediated signaling). The common theme appears to be coordination of redox state with membrane trafficking and signaling pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902083","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071447","count":1},{"id":"GO:1903204","count":1},{"id":"GO:0048227","count":1}]},{"hash":"888547435613922179","title":"RNAP III Transcription Core","description":"The top GO terms are dominated by RNA polymerase III\u2013related transcription activities (5S rRNA transcription, tRNA transcription, and preinitiation complex assembly), indicating a core RNAP III transcription machinery theme. Minor terms like proliferation and metabolism appear less coherently linked, but do not outweigh the RNAP III signal.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0042791","count":1},{"id":"GO:0001041","count":1},{"id":"GO:0001009","count":1}]},{"hash":"702812077485217066","title":"Metabolic tissue development and lipid metabolism","description":"The top GO terms combine organ development (liver, brain, adipose, kidney) with metabolic processes (ketone body biosynthesis/catabolism, propionyl-CoA, cholesterol metabolism, lipid transport). This points to a theme of energy metabolism linked to the development of metabolic tissues, rather than a single specific pathway. The cluster therefore seems to group proteins involved in both developmental processes and lipid/ketone metabolism across multiple tissues.","confidence":"Medium","size":21,"edges":102,"triangles":324,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0042594","count":5},{"id":"GO:0046951","count":5},{"id":"GO:1902860","count":4}]},{"hash":"1444342805382226541","title":"ER protein folding and unfolded protein response","description":"This cluster is driven by ER-centered processes: protein folding in the endoplasmic reticulum, response to unfolded protein, ER stress signaling, and related redox/oxidative stress responses, with translation regulation tied to ER stress.","confidence":"High","size":21,"edges":68,"triangles":88,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034975","count":14},{"id":"GO:0045454","count":13},{"id":"GO:0006986","count":12},{"id":"GO:0070301","count":12},{"id":"GO:0070389","count":10}]},{"hash":"556324810142338773","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning bacterial biosynthesis (lipopolysaccharide and siderophore production, fatty acid metabolism) as well as plant seed coat development and animal immune/vitamin processes, with several obsolete terms. There is no clear, cohesive function shared by most proteins in this cluster, so a single, representative label cannot be reliably assigned.","confidence":"","size":21,"edges":3,"triangles":1,"max_degree":2,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0006564","count":4},{"id":"GO:1902987","count":4},{"id":"GO:0042572","count":3}]},{"hash":"592383396950376417","title":"Ubiquitination-driven cell cycle control","description":"The cluster is dominated by GO terms for mitotic cell cycle, cell division, and cell cycle, with clear signals that protein ubiquitination (autoubiquitination and K63-linked ubiquitination) regulates these processes, including regulation of GTPase activity. While there are additional terms related to ribosome biogenesis, translation initiation, and neural development, the strongest and most coherent pattern centers on cell cycle control intertwined with ubiquitin signaling. ","confidence":"Medium","size":21,"edges":41,"triangles":13,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0070534","count":3}]},{"hash":"1564124614603185172","title":"Neural ion transport and synaptic regulation","description":"The top GO terms point to regulation of membrane potential and multiple ion transport processes (chloride, bicarbonate, pH), alongside regulation of synaptic transmission (GABAergic) and dopamine secretion, and cognitive functions like visual learning and pain perception. Together they suggest a cluster focused on neural signaling and ion-channel\u2013driven neurotransmission.","confidence":"High","size":21,"edges":16,"triangles":4,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042391","count":6},{"id":"GO:0008542","count":5},{"id":"GO:1902476","count":4},{"id":"GO:0015701","count":4},{"id":"GO:0048240","count":4}]},{"hash":"1612007926763154446","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":18,"triangles":2,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0000398","count":7},{"id":"GO:0043577","count":5},{"id":"GO:2000627","count":5},{"id":"GO:0071031","count":5}]},{"hash":"2291182605136328891","title":"Thermogenesis and Metabolic Signaling","description":"The prominent terms reflect energy production and thermogenic responses (diet-induced thermogenesis, regulation of membrane potential, electron transport chain) along with signaling pathways (GPCR signaling, Rho signaling) and vascular regulation (blood pressure). This suggests a cohesive cluster centered on energy metabolism linked to cellular signaling and cardiovascular responses; some terms like pain perception may be peripheral.","confidence":"High","size":21,"edges":105,"triangles":167,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0022900","count":9}]},{"hash":"370394969446933635","title":"Embryonic Eye Morphogenesis and Transcriptional Regulation","description":"The terms point to embryonic development and organ morphogenesis (eye, pituitary, lung) with transcriptional regulation, suggesting a cohesive developmental program centered on eye formation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":6},{"id":"GO:0071455","count":6},{"id":"GO:0021983","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0060441","count":5}]},{"hash":"1865531621770348768","title":"Embryogenesis and Cell Migration","description":"The most represented terms center on early development (blastocyst formation, single fertilization) and on cell movement and tissue remodeling (neuronal/axonal migration, sprouting angiogenesis, integrin signaling). While some terms touch immune signaling, the prevailing pattern ties embryonic development with neural and vascular cell migration and adhesion, justifying this label as representative of the cluster\u2019s function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007338","count":2},{"id":"GO:2000391","count":2},{"id":"GO:0048675","count":2}]},{"hash":"1456761470460999026","title":"Innate Immune and Developmental Regulation","description":"The cluster is characterized by strong signals for innate immune processes (innate immune response; type II IFN signaling; IL-1\u03b2 production) alongside developmental and vascular remodeling terms (bone and heart development; negative regulation of angiogenesis). There are also apoptosis and signaling modulation terms (apoptotic process; positive regulation of GTPase activity) suggesting immune-driven regulation of cell fate and tissue remodeling. Overall, these proteins seem to link immune signaling with developmental and vascular regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0016525","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1574811757414276763","title":"ER\u2013Golgi secretory trafficking","description":"The cluster is enriched for GO terms related to ER-to-Golgi transport, COPI vesicle coating and budding, Golgi ribbon formation, and protein exit/retention in the ER, highlighting the secretory pathway and vesicle trafficking between ER and Golgi; Wnt secretion and amyloid-beta regulation reflect outputs of this pathway, while placenta/egg-laying terms may indicate tissue-specific secretory roles.","confidence":"High","size":21,"edges":21,"triangles":1,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0061357","count":2},{"id":"GO:1902003","count":2},{"id":"GO:0048205","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0070863","count":2}]},{"hash":"79277380619507330","title":"Neural axon guidance and blood vessel development","description":"These proteins are enriched for neural development terms (axon guidance, corticospinal tract morphogenesis, dopaminergic neuron guidance) and vascular development (blood vessel maturation, endothelial apoptotic regulation), with related polarity and localization terms (planar polarity, apical localization). The cluster likely represents coordinated neural and vascular morphogenesis rather than a single isolated pathway. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0003273","count":2},{"id":"GO:2000353","count":2},{"id":"GO:0036514","count":1},{"id":"GO:0021957","count":1}]},{"hash":"2203524431216641146","title":"Endocytosis and Receptor Signaling Regulation","description":"The top GO terms cluster around endocytosis (ubiquitin-dependent and receptor-mediated), receptor signaling pathways (including guanylyl cyclase signaling) and modulation of related signaling (e.g., TGF-beta receptor signaling). Additional terms point to broader regulatory roles in cell cycle, transcription, and apoptosis, with fatty acid biosynthesis potentially supporting membrane dynamics. Together, these suggest a functional theme of coordinating endocytosis with receptor-driven signaling.","confidence":"Medium","size":21,"edges":20,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0070086","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0030512","count":2}]},{"hash":"1766744217123013999","title":"TLR4-LPS Innate Immune Signaling","description":"The top GO terms cluster around innate immunity and inflammatory signaling: innate immune response, LPS-mediated signaling, TLR4 signaling, inflammatory response, and TNF production, plus related regulation of signaling and cytoskeletal pathways. This suggests the proteins participate in LPS-triggered innate immune activation and downstream inflammation, with some terms hinting at cytoskeletal remodeling and neuroimmune interactions. Overall, the dominant theme is innate immune activation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0031666","count":4},{"id":"GO:0032760","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0051965","count":4}]},{"hash":"163071749116681627","title":"Embryonic organogenesis and morphogenesis","description":"The GO terms cluster around embryonic development and tissue morphogenesis across multiple organs (midbrain, pituitary, pancreas, neural crest, primitive streak, ureteric bud branching, lung morphogenesis, cartilage, digestive tract). A general transcription regulation term also fits with broad developmental gene control. This suggests a unifying theme of embryogenesis and organ formation rather than a single pathway.","confidence":"Medium","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0090190","count":8},{"id":"GO:0001755","count":8},{"id":"GO:0030901","count":7},{"id":"GO:0021983","count":7}]},{"hash":"1931238705893879262","title":"Neural development and mitotic signaling","description":"These proteins show enrichment in nervous system and brain development terms, alongside mitotic and cell-cycle processes, with supporting signaling pathways (small GTPases and EGFR). This suggests a cluster of factors coordinating neural development with cell division and signaling dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007173","count":3}]},{"hash":"1500275216334409270","title":"Ubiquitin-Proteasome Regulation in Development","description":"Explanation: The strongest signals are ubiquitination (GO:0016567) and proteasome regulatory particle assembly (GO:0070682), pointing to a core role for ubiquitin-proteasome pathways. The remaining terms suggest developmental and differentiation contexts (e.g., cerebellar granule cell differentiation, cardiac right atrium morphogenesis) that can be regulated by ubiquitin-mediated turnover, with some peripheral links to stress responses. Thus, the label centers on ubiquitin-proteasome regulation with developmental context, though the cluster is functionally diverse.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":8},{"id":"GO:0050960","count":7},{"id":"GO:0046475","count":7},{"id":"GO:1903444","count":7},{"id":"GO:0070682","count":7}]},{"hash":"2042976649107851678","title":"Ribosome biogenesis and rRNA maturation","description":"Rationale: The most represented terms are ribosome biogenesis and maturation of 5.8S and LSU rRNA, indicating a shared role in nucleolar RNA processing and ribosome assembly. Minor terms for DNA-templated transcription and replication may reflect broader nuclear functions, but the core theme is ribosome production.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0043966","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0043981","count":2}]},{"hash":"734785448511861898","title":"Cilium assembly and mitosis regulatory cluster","description":"Top GO terms point to cilium assembly and visual perception, while several terms involve neural trafficking and synaptic organization (receptor recycling, presynapse assembly, axon guidance). These are complemented by clear mitotic signals (mitotic cell cycle, chromosome passenger complex localization to kinetochore). The combination suggests a cluster of proteins that operate at ciliary/retinal signaling interfaces and also participate in cell division machinery, indicating a coherent theme around ciliary function tied to mitosis.","confidence":"High","size":21,"edges":136,"triangles":554,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":19},{"id":"GO:0007601","count":19},{"id":"GO:0060271","count":12},{"id":"GO:1905608","count":12},{"id":"GO:0042068","count":12}]},{"hash":"1878971394996750339","title":"Retroelement Integration and Proviral Latency","description":"The top GO terms cluster around DNA integration, retrotransposition, DNA transposition, and establishment of integrated proviral latency, indicating a set of proteins involved in mobile genetic elements and provirus regulation; additional terms about viral entry and host apoptosis suggest broader host\u2013pathogen interaction roles.","confidence":"High","size":21,"edges":25,"triangles":5,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":12},{"id":"GO:0032197","count":10},{"id":"GO:0075713","count":10},{"id":"GO:0006313","count":10},{"id":"GO:0046718","count":10}]},{"hash":"2024158236092173267","title":"Rho/Rac/Ras GTPase Signaling and Cytoskeleton Dynamics","description":"Top GO terms indicate coordinated regulation of Rho, Rac, and Ras GTPase signaling and small GTPase\u2013mediated signal transduction, with emphasis on actin cytoskeleton reorganization and related processes like dendritic spine development. The cluster thus appears to revolve around cytoskeletal remodeling driven by GTPase signaling, with some peripheral mentions of IGF signaling and coagulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0048009","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0045671","count":3}]},{"hash":"1064428247121413064","title":"Cell-surface signaling and membrane transport","description":"The cluster shows terms tied to signaling initiated at the cell surface (receptor internalization, GTPase activation, responses to epidermal growth factor and GM-CSF) along with various membrane transport processes (xenobiotic, nitrite, and vitamin transport). This suggests a cohesive theme of membrane-associated signaling together with cargo movement, rather than a single enzymatic pathway. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010080","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0071364","count":2}]},{"hash":"1235580572449159967","title":"Rho GTPase\u2013regulated cytoskeleton remodeling","description":"The top GO terms cluster around cytoskeletal dynamics (microtubule-based movement, mitotic spindle assembly, actin filament depolymerization) and regulatory signaling (Rho GTPase signaling, GTPase activity, tyrosine phosphorylation, TGF-beta response). This points to a shared theme of cytoskeleton remodeling governed by Rho-family signaling, affecting development-related processes like spinal cord formation and platelet production, as well as glial cell dynamics. The connection is coherent across multiple terms, though spanning developmental contexts, so the label represents a central functional axis rather than a single process.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030220","count":5},{"id":"GO:0021510","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0035023","count":4}]},{"hash":"859845380000084384","title":"Developmental morphogenesis and hormone production","description":"Top GO terms show a pattern of organ and tissue development (lung development, adenohypophysis morphogenesis, cuticle development) alongside endocrine activity (thyroid hormone generation). While some terms are noisy, the dominant theme is developmental morphogenesis with hormone-related processes, justifying the label as a concise representation of the cluster\u2019s likely functions.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0030324","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0048855","count":2},{"id":"GO:0051591","count":2}]},{"hash":"336471137778504005","title":"Unknown","description":"The terms cover a mix of neural development (axonal defasciculation, cerebral cortex development), immune activation (T cell activation via TCR-MHC), angiogenesis (sprouting angiogenesis), endodermal differentiation, and general adhesion/trafficking. There isn\u2019t a single coherent functional theme tying these proteins together, so there isn\u2019t a confident, specific label beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007414","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0002042","count":2}]},{"hash":"1735117539591028712","title":"Embryogenesis and Organ Differentiation","description":"The top GO terms cluster around embryonic development and organ formation (cartilage morphogenesis, left-right patterning, EMT in endocardial cushion formation, placenta and endocrine system development), indicating a developmental differentiation theme across multiple tissues.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1994575766712072033","title":"Cell Cycle Regulation and Proteostasis","description":"The top GO terms point to DNA-templated transcription, mitotic cell cycle, and cell proliferation, alongside ubiquitin-dependent proteasomal degradation pathways (SCF-dependent and general ubiquitin-proteasome processes). This suggests a core theme around how transcriptional control intersects with cell cycle progression and targeted protein turnover. Although morphogenesis terms (eye and dendritic spine morphogenesis) appear, they can be linked to developmental programs that require coordinated cell-cycle and proteostasis regulation. Thus, the label captures the main functional cluster with some developmental context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0031146","count":2}]},{"hash":"2212657131135972153","title":"Retrotransposon activity and proviral integration with innate immunity","description":"This cluster\u2019s top GO terms converge on genome mobility and viral integration events (DNA transposition, retrotransposition, DNA integration, proviral latency) alongside innate immune response and host-virus interactions (symbiont entry/penetration, apoptosis activation). The common thread appears to be host chromosomal dynamics in the context of mobile elements and viral elements, coupled with innate defense. Therefore, a label focusing on retrotransposon/proviral processes with innate immunity is most representative.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0048863","count":2},{"id":"GO:0032197","count":2},{"id":"GO:0075713","count":2}]},{"hash":"2248225246309680410","title":"Immune signaling and cytokine production","description":"The GO terms are dominated by immune signaling and cytokine-related processes, including B cell receptor signaling, NF-\u03baB and ERK cascades, and positive regulation of IL-10 and type II interferon production. Additional terms involve regulation of Rho signaling and VEGF-mediated endothelial chemotaxis, plus myeloid progenitor differentiation. While a couple terms hint at development, the core theme across most terms points to immune signal transduction and cytokine regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0051092","count":2},{"id":"GO:2001181","count":2},{"id":"GO:0035023","count":2}]},{"hash":"79590581896353369","title":"Nuclear transport and ribosomal protein import","description":"The top GO terms center on nucleus-targeted processes: NLS-bearing protein import into the nucleus, general protein and ribosomal protein import into the nucleus, mRNA transport, and nuclear pore complex assembly, with supporting signals from TORC1 signaling and GTPase activity regulation. This suggests a cohesive theme around nucleocytoplasmic transport and ribosome biogenesis-related trafficking, rather than individual cytosolic pathways. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0038202","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0006607","count":4}]},{"hash":"72248161907993031","title":"Bacterial cell wall and LPS biosynthesis","description":"This cluster centers on glycan and cell envelope biosynthesis in bacteria. The top GO terms point to lipopolysaccharide and O-antigen biosynthesis, UDP-N-acetylglucosamine biosynthesis, and cell wall organization, indicating a shared role in assembling the bacterial outer membrane and peptidoglycan. Peripheral carbohydrate metabolism terms (galactose, glycogen, and nucleotide catabolism) may reflect broader metabolic context or annotations but do not override the envelope biosynthesis theme.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0071555","count":4},{"id":"GO:0019388","count":3},{"id":"GO:0009590","count":3},{"id":"GO:0006048","count":3}]},{"hash":"407916442600198615","title":"Prostaglandin biosynthesis and redox detoxification","description":"This cluster is clearly centered on prostaglandin biosynthesis (GO:0001516) and redox-related detoxification processes, as shown by strong signals for cellular oxidant detoxification, glutathione metabolism, and nitric oxide storage. The presence of ascorbate response and JUN kinase regulation suggests linked redox signaling and stress response pathways that often intersect with lipid mediator production. Some proliferation-regulation terms may reflect downstream effects of prostaglandin signaling in vascular and reproductive contexts, but the dominant theme ties prostaglandin synthesis to redox and nitrogen species detoxification.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":16},{"id":"GO:0098869","count":11},{"id":"GO:2000255","count":10},{"id":"GO:1904706","count":9},{"id":"GO:0033591","count":9}]},{"hash":"1517074907637527980","title":"Ubiquitin-mediated proteostasis and aggresome formation","description":"The top GO terms center on ubiquitin pathways (ubiquitination, ERAD, deubiquitination), aggresome assembly, and related protein quality control processes, with supporting notes on NF-kappaB regulation and lipid droplet organization. This suggests a cohesive cluster of proteins involved in ubiquitin-dependent proteostasis, ER-associated degradation, and stress-induced protein sequestration into aggresomes. ","confidence":"High","size":20,"edges":48,"triangles":27,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0070842","count":3},{"id":"GO:0034140","count":3},{"id":"GO:2000157","count":3},{"id":"GO:0016567","count":3}]},{"hash":"9652511220300992","title":"Nuclear RNA processing and mRNA decay","description":"These proteins cluster around RNA synthesis, processing, and turnover in the nucleus: transcription termination, spliceosome assembly and splicing, nuclear import, histone mRNA metabolism, and deadenylation-dependent decapping, with ties to P-body\u2013related mRNA regulation and chromatin organization. The preponderance of splicing, transcription termination, and mRNA-decay terms supports a coherent theme of RNA processing and gene-expression control in and around the nucleus.","confidence":"High","size":20,"edges":151,"triangles":649,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006369","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0051170","count":5},{"id":"GO:0000387","count":5},{"id":"GO:0000290","count":5}]},{"hash":"1316690933170305891","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes: ribosome biogenesis, ribosomal large subunit export from the nucleus, ribosomal large subunit assembly, maturation of rRNA, and translation, indicating a cluster centered on ribosome assembly and protein synthesis.","confidence":"High","size":20,"edges":22,"triangles":16,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0000055","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0061086","count":2}]},{"hash":"423102726352540762","title":"Adaptive immune signaling and lymphocyte differentiation","description":"The top GO terms point to lymphocyte activation and maturation (B cell affinity maturation, NK T cell differentiation, IL-4 production) and key signaling cascades (ERK1/2, ephrin receptor) with related processes like apoptosis and cell migration, suggesting a cluster centered on adaptive immune signaling and lymphocyte development, with some cross-talk from other signaling pathways.","confidence":"High","size":20,"edges":34,"triangles":4,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0033138","count":8},{"id":"GO:0002344","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0032633","count":7}]},{"hash":"881864136775986266","title":"Mitochondrial dynamics and membrane potential regulation","description":"This cluster shows a clear enrichment for mitochondrial processes: inheritance, stress-induced fusion, regulation of mitochondrial membrane potential, and cardiolipin metabolism, indicating coordinated roles in mitochondrial morphology and energetic maintenance. Some terms (podocyte development, T cell polarity, cell adhesion molecule production) are peripheral or obsolete, but the dominant signal centers on mitochondrial function.","confidence":"High","size":20,"edges":28,"triangles":13,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001302","count":6},{"id":"GO:0000001","count":3},{"id":"GO:0060355","count":3},{"id":"GO:1901585","count":3},{"id":"GO:0070584","count":3}]},{"hash":"995151319435423208","title":"Migration and polarity signaling","description":"Proteins in this cluster cluster around signaling pathways that regulate cell movement, adhesion, and tissue organization. The top GO terms point to ephrin receptor signaling, T cell receptor signaling, PI3K-associated signaling, cytoskeleton remodeling, and mechanisms governing cell migration, polarity establishment, and responses to mechanical cues, including neural and angiogenic contexts. This suggests a cohesive theme of signaling networks coordinating migration and epithelial/neuronal polarity in multicellular development.","confidence":"Medium","size":20,"edges":43,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":8},{"id":"GO:0071260","count":6},{"id":"GO:0090051","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0048013","count":5}]},{"hash":"1298085486781278933","title":"Synaptic regulation and actin cytoskeleton dynamics","description":"The cluster\u2019s frequent GO terms point to neuronal signaling and structural remodeling: regulation of synapse localization and long-term synaptic depression, plus regulation of grooming behavior. Concurrently, actin cytoskeleton organization and Rho signaling indicate cytoskeletal dynamics essential for synapse formation and maintenance. Some terms (centrosome localization, tight junction assembly) reflect cell polarity aspects that can accompany neural tissue organization. Taken together, these proteins likely participate in synaptic function with cytoskeletal regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:2000821","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0070830","count":2}]},{"hash":"387614223402985755","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"These proteins are centered on ubiquitin-dependent proteolysis, highlighting SCF and APC/C pathways, K11-linked ubiquitination, and proteasomal degradation that drive mitosis and key cell-cycle transitions. The presence of DNA damage checkpoint signaling and nucleotide-excision repair terms suggests coordination between protein turnover and genome maintenance. While other terms like viral process or ERAD appear, the dominant theme remains ubiquitin-mediated proteolysis controlling the cell cycle.","confidence":"High","size":20,"edges":113,"triangles":241,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0070979","count":7},{"id":"GO:0031145","count":6},{"id":"GO:0051301","count":6}]},{"hash":"954511932346360478","title":"Nuclear DNA replication and protein quality control","description":"This cluster\u2019s top GO terms overwhelmingly point to nuclear processes\u2014DNA replication, tRNA import into the nucleus, nuclear protein export, and nuclear proteasome-mediated quality control\u2014indicating a theme of nuclear maintenance and genome handling. A few other terms reflect developmental signaling, but they are much less represented, so the core signal is nuclear-centric.","confidence":"Medium","size":20,"edges":24,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0006452","count":2}]},{"hash":"1801956801595763814","title":"Neural and cardiac differentiation with proteostasis","description":"The cluster\u2019s top terms are dominated by differentiation processes for neural lineages (oligodendrocyte differentiation, cerebellar granule cell differentiation) and heart morphogenesis (cardiac right atrium morphogenesis), indicating a developmental theme across neural and cardiac lineages. The presence of ubiquitination and proteasome assembly hints at proteostasis regulation during differentiation. A few terms related to temperature sensing or lipid catabolism are more peripheral, but overall the cluster centers on developmental differentiation with protein turnover as a key regulatory layer.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0050960","count":8},{"id":"GO:0046475","count":8},{"id":"GO:1903444","count":8},{"id":"GO:0070682","count":8}]},{"hash":"1902009960080003663","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around brain and nervous system development, dendrite morphogenesis, and regulation of synaptic vesicle exocytosis, with Hedgehog/Smoothened pathway involvement, indicating proteins tied to neural development and synaptic function. Some terms like kidney development or insulin secretion may reflect multifunctionality, but do not outweigh the dominant neural theme. ","confidence":"High","size":20,"edges":168,"triangles":804,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:2000300","count":7},{"id":"GO:0031384","count":7},{"id":"GO:0010796","count":7},{"id":"GO:0001822","count":6}]},{"hash":"1322500189522231808","title":"Embryonic development and bone formation","description":"This cluster\u2019s top GO terms cluster around developmental processes (uterus development, axis specification) and skeletal differentiation (bone development, osteoblast development), plus related signaling (cell surface receptor tyrosine kinase signaling) and transcriptional regulation. While a term like diacylated lipopeptide detection is present, the dominant pattern is development and skeletogenesis, suggesting these proteins participate in embryonic patterning and bone formation pathways more than any single specialized function. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0007352","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0031623","count":3}]},{"hash":"2135470834813526177","title":"Immune signaling and inflammasome regulation","description":"The cluster\u2019s top GO terms center on immune processes: NLRP3 inflammasome assembly, interferon production, B cell proliferation, and detection of bacterial lipoproteins, plus various immune signaling and regulation activities (protein ubiquitination, regulation of kinase and GTPase activity). This combination strongly suggests a function in immune response signaling and inflammasome regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0051770","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0007169","count":1}]},{"hash":"1186180350673571959","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000390","count":2},{"id":"GO:0006370","count":2},{"id":"GO:1904751","count":2},{"id":"GO:1902570","count":2},{"id":"GO:1904744","count":2}]},{"hash":"481001487892852565","title":"Immune Cell Chemotaxis and Inflammatory Regulation","description":"The top GO terms cluster around immune cell movement and signaling: dendritic cell and eosinophil chemotaxis, negative regulation of chemokine production, and negative regulation of inflammatory response. While some terms touch on neuronal signaling (membrane potential, voltage-gated calcium channels), the dominant pattern is immune cell chemotaxis and control of inflammation, suggesting a function in coordinating immune cell migration and inflammatory tone.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":14},{"id":"GO:0090198","count":14},{"id":"GO:0016998","count":14},{"id":"GO:0007626","count":14},{"id":"GO:0042391","count":14}]},{"hash":"1642014059099401565","title":"Proviral integration and latency","description":"These terms point to viral genome integration and proviral latency, with entries for viral entry into and genome integration into host cells. Other terms on DNA replication, chromatin assembly, and cell division illustrate host processes that intersect with proviral maintenance. Thus, the cluster is best described as proviral integration and latency.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0039651","count":4}]},{"hash":"2006461214718123400","title":"Ribosome Biogenesis and Translation Initiation","description":"This cluster centers on the protein synthesis machinery, with key terms for ribosome biogenesis, formation of the translation preinitiation complex, and translation reinitiation, indicating a shared role in assembling and initiating translation. A few transcription initiation terms appear, but the dominant signal is ribosome/translation related.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0000466","count":2}]},{"hash":"2123093318455712051","title":"Tissue Development and Signaling Regulation","description":"This cluster centers on GO terms tied to tissue and organ development (multicellular organism development, skeletal system development, neuron projection development, lens fiber cell differentiation) and on regulation of signaling pathways (TNF signaling, NF-kappaB, HIF-1alpha). There is also a note of endocytic transport from the plasma membrane to endosomes, suggesting coordinated trafficking and signaling control during development. The mix of developmental processes with regulatory signaling makes a coherent, specific label, though the diversity of terms introduces moderate ambiguity.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0070306","count":3}]},{"hash":"1824144056237651069","title":"Unknown","description":"This cluster shows no clear single function: the top GO terms span glucose import regulation, cell migration, GPCR signaling, temperature sensation, lipid catabolism, regulation of brown fat and oligodendrocyte differentiation, proteasome assembly, ubiquitination, and mitotic chromatid cohesion. The diversity, including obsolete terms, suggests no cohesive biological theme tying these proteins together. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0050960","count":2},{"id":"GO:0046475","count":2}]},{"hash":"887971246710830329","title":"Proteoglycan Biosynthesis and ECM Development","description":"The top GO terms center on proteoglycan biosynthesis (chondroitin/dermatan/heparan sulfate), their metabolic processes, and polysaccharide localization, with links to chondrocyte development and ureteric bud formation. This suggests a cluster of proteins involved in assembling and localizing extracellular matrix proteoglycans and related developmental ECM processes, despite some obsolete annotations. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0033037","count":2},{"id":"GO:0050655","count":2},{"id":"GO:0015768","count":2}]},{"hash":"1528771204297129880","title":"RNA Quality Control in Cell Division","description":"GO terms point to mitotic cell cycle, RNA surveillance/no-go decay, ribosome disassembly, and translation termination, suggesting a theme of RNA quality control and translation dynamics during cell division.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0042993","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0032790","count":1}]},{"hash":"1119413500557737299","title":"Oxylipin and Prostaglandin Lipid Signaling","description":"Most top GO terms point to lipid-derived signaling molecules, especially prostaglandins and oxylipins, and their biosynthetic pathways (including epoxygenase P450 activity). The presence of triglyceride metabolism and plant hormone biosynthesis terms supports a core theme of lipid metabolism and signaling, making this cluster best described as oxylipin/prostaglandin\u2013mediated lipid signaling.","confidence":"High","size":19,"edges":81,"triangles":187,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":18},{"id":"GO:0033280","count":16},{"id":"GO:0061298","count":16},{"id":"GO:0006641","count":16},{"id":"GO:0010241","count":16}]},{"hash":"1228636200131265941","title":"GPCR-regulated cAMP/cGMP signaling","description":"The cluster shows strong enrichment for GPCR signaling pathways (receptor guanylyl cyclase, adenosine receptor, and forskolin response) and cyclic nucleotide production (cAMP and cGMP biosynthesis), indicating a common theme of GPCRs driving second messenger signaling. The inclusion of blue light signaling and oocyte maturation regulation further supports a role in second-messenger\u2013mediated cellular responses controlled by cAMP/cGMP. Together, these terms point to a signaling module that translates external cues into cyclic nucleotide signals. ","confidence":"High","size":19,"edges":61,"triangles":98,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007168","count":7},{"id":"GO:1904322","count":7},{"id":"GO:0071880","count":7},{"id":"GO:1900194","count":7},{"id":"GO:0009785","count":7}]},{"hash":"934862027957111741","title":"Unknown","description":"The terms span very diverse biology (lung and brain development, mevalonate/isoprenoid metabolism, cell-cycle regulation, morphine response, chromatin regulation, fungal sporulation, and inflammatory signaling) with no clear, common functional theme for the entire cluster. This makes it difficult to assign a cohesive, specific label beyond Unknown.","confidence":"","size":19,"edges":126,"triangles":453,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030324","count":6},{"id":"GO:1900486","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0051343","count":5},{"id":"GO:0050728","count":5}]},{"hash":"2214461443020127038","title":"Developmental transcriptional regulation","description":"This cluster is enriched for transcription-related GO terms (negative regulation of transcription by RNA polymerase II and DNA-templated transcription) and multiple development-related processes (pancreas development, muscle differentiation, neural crest migration, endodermal fate, digestive tract morphogenesis, ureteric bud branching, megakaryocyte differentiation). The common theme appears to be regulation of gene expression guiding developmental programs.","confidence":"High","size":19,"edges":154,"triangles":731,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0071353","count":7},{"id":"GO:0035914","count":7}]},{"hash":"136264167773079958","title":"Cytoskeletal Signaling and Mechanotransduction","description":"The cluster is enriched for signaling pathways (ERK cascade, Rac signaling, T cell receptor signaling, interferon production) and cytoskeletal remodeling processes (ruffle assembly, cellular response to mechanical stimulus, mitotic spindle assembly). The common thread appears to be signaling-driven cytoskeletal dynamics and mechanotransduction across diverse cell contexts (neuronal, immune, and proliferative). ","confidence":"Medium","size":19,"edges":16,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0021766","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0043525","count":8}]},{"hash":"8318958028469482","title":"Unknown","description":"The proteins show a widely scattered set of GO terms\u2014ranging from metabolism and detoxification to chromatin maintenance and development\u2014with no shared pathway or direct interactions (no edges, no triangles). This lack of a cohesive functional theme makes it inappropriate to assign a specific cluster label beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006212","count":3},{"id":"GO:0042952","count":3},{"id":"GO:0009086","count":3},{"id":"GO:0006348","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1699887125555273911","title":"Cell adhesion and tissue remodeling","description":"This cluster centers on cell adhesion and remodeling processes, with GO terms for cell adhesion, positive regulation of cell-matrix adhesion, and tissue regeneration, plus a developmental eye vascular remodeling term (hyaloid vascular plexus regression). The shared theme across these terms suggests roles in adhesion-mediated tissue remodeling rather than a single specific pathway.","confidence":"Medium","size":19,"edges":159,"triangles":806,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0042246","count":1},{"id":"GO:0001954","count":1},{"id":"GO:0007155","count":1},{"id":"GO:1990384","count":1}]},{"hash":"345121268976139915","title":"RNA processing and ribosome biogenesis","description":"This cluster is dominated by terms tied to RNA maturation and ribosome assembly, including preribosome assembly (90S), rRNA processing (ITS1 cleavage), spliceosome assembly, and polyadenylation-related processes. Some unrelated terms appear (obsolete GO entries, COPII budding, sensory perception) but the core signal is RNA processing and ribosome biogenesis.","confidence":"High","size":19,"edges":117,"triangles":338,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0006378","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0000354","count":1}]},{"hash":"1966349316787920238","title":"Unknown","description":"The GO terms span very different biological themes, including translation, cell-cycle\u2013related kinase regulation, menaquinone biosynthesis, development, Rac signaling, endocytosis, and mitochondrial processes. This scattered mix suggests no single cohesive function or pathway ties the proteins together, so a specific, representative label is not supported.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0035156","count":1},{"id":"GO:0035020","count":1}]},{"hash":"1704602986774382681","title":"Epidermal cell cycle and Wnt/Hippo signaling","description":"The top GO terms show mitotic cell cycle, DNA replication, keratinocyte differentiation, and apoptosis, all pointing to epidermal cell proliferation and differentiation. Additionally, positive regulation of canonical Wnt signaling and Hippo signaling directly tie to growth control and tissue patterning in skin. Some terms like visual perception appear as noise, but the dominant pattern supports epidermal growth/differentiation governed by Wnt and Hippo pathways.","confidence":"High","size":19,"edges":90,"triangles":141,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0030216","count":11},{"id":"GO:0006915","count":11},{"id":"GO:0090263","count":11}]},{"hash":"445465229133604230","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0000472","count":5},{"id":"GO:0000447","count":5},{"id":"GO:0000480","count":5},{"id":"GO:0000463","count":5}]},{"hash":"1489551746852430323","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development and tissue formation, including inner ear development, blastocyst formation, left/right pattern formation, cartilage morphogenesis, and epithelial-to-mesenchymal transition in heart development, plus placenta and endocrine system development. This suggests proteins in this cluster participate in developmental processes and organogenesis. A few terms (innate immune response, telomere maintenance) appear as outliers or broader annotations, but do not substantially detract from the central developmental theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0001825","count":2},{"id":"GO:0051973","count":2},{"id":"GO:0032212","count":2}]},{"hash":"358072930955420425","title":"Innate immune sensing and inflammasome activation","description":"Most terms point to immune sensing and signaling: innate immune response, diacyl lipopeptide detection, type III interferon production, and NLRP3 inflammasome assembly. These indicate a core cluster around detection of bacterial lipoproteins and inflammasome-driven inflammation. A couple terms about axonogenesis and bone development may reflect pleiotropy or annotation breadth but do not define the cluster's main function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0007169","count":2}]},{"hash":"1258719813338620372","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":4},{"id":"GO:0000447","count":4},{"id":"GO:0000472","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0032933","count":3}]},{"hash":"1399641405817997327","title":"Neural and Immune Signaling","description":"This cluster centers on signaling pathways seen in nervous system development (ROBO, ERK/MAPK) and immune receptor signaling (T cell receptor), with supporting hints of cytoskeletal dynamics and vesicle trafficking, suggesting a cohesive group of proteins involved in diverse developmental signal transduction.","confidence":"Medium","size":19,"edges":114,"triangles":284,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0031532","count":5}]},{"hash":"907620508676006555","title":"Unknown","description":"The top terms cover both transport (taurine, proline) and broad regulatory processes (TORC1 signaling, transcription, cell-cycle regulation, phosphorylation) with no single coherent function linking the proteins, making a specific, reliable label difficult to assign.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015734","count":3},{"id":"GO:0038202","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2}]},{"hash":"820448261227435198","title":"Unknown","description":"The GO terms include calcium release, mRNA processing, blood coagulation, temperature sensation, lipid catabolism, adipocyte differentiation, proteasome assembly, chromatid cohesion regulation, ubiquitination, and oligodendrocyte differentiation, which span multiple distinct cellular processes with no single dominant function. This broad and heterogeneous mix makes it unclear to identify a coherent, specific theme for the cluster, so an Unknown label is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0050960","count":1},{"id":"GO:0046475","count":1}]},{"hash":"1925964629367260689","title":"Ubiquitin-Proteasome and Chromatin Maintenance","description":"The cluster centers on protein turnover and chromatin dynamics, as shown by ubiquitination and proteasome assembly terms, plus chromosomal/telomeric localization and cohesion regulation. Some other terms (pain sensing, salicylic acid signaling) appear incidental, but the core theme is proteostasis linked to chromatin maintenance.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":3},{"id":"GO:0050968","count":3},{"id":"GO:0045818","count":2},{"id":"GO:2000031","count":2},{"id":"GO:1903444","count":2}]},{"hash":"1892467059512831636","title":"Unknown","description":"This cluster\u2019s top GO terms span metabolic stress response, cell division and chromatin regulation, development (heart and neuron), signaling (GTPase), and metabolic processes, with no single cohesive biological theme. The terms are too diverse to assign a specific, representative function, so a generic Unknown label is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051567","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1274297236095440906","title":"Muscle development and sarcomere organization","description":"The top GO terms cluster around muscle structure and function (muscle contraction, sarcomere organization), development (multicellular organism development, ossification), and neuromuscular signaling (synapse organization, voltage-gated sodium channel clustering, calcium-mediated signaling). Together these indicate a cohesive theme of skeletal muscle formation, organization of the contractile apparatus, and excitation-contraction coupling, with related trafficking and signaling aspects. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":3},{"id":"GO:0035023","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0045214","count":2}]},{"hash":"1867664576532560782","title":"Skeletal muscle differentiation and sarcomere organization","description":"The terms point strongly to skeletal muscle biology: myoblast fusion, satellite cell activation for muscle regeneration, and sarcomere organization, all tied to calcium signaling essential for muscle function. While a couple terms touch on adipogenesis or digestion, the dominant signal is muscle development and structural assembly of the contractile apparatus.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016540","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0007118","count":2},{"id":"GO:0051603","count":1},{"id":"GO:0014718","count":1}]},{"hash":"781185202293016075","title":"Nuclear Gene Expression and RNA Processing","description":"The top GO terms cluster around transcription, chromatin modification (H3-K9 methylation), RNA processing (splicing disassembly, mRNA capping), and nucleolar localization, all pointing to nuclear gene expression and RNA maturation activities. A few terms are peripheral or legacy annotations, but the core theme is nucleus-based transcription regulation and RNA processing.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051567","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0006349","count":2}]},{"hash":"1752213177187333501","title":"Synaptic plasticity in vocalization and social behavior","description":"The top GO terms cluster around neural signaling and synaptic remodeling, including long-term synaptic depression, dendritic spine morphogenesis, and regulation of excitatory postsynaptic potentials, along with receptor clustering and GTPase signaling. Behavioral terms such as vocalization behavior, sensory perception of sound, social behavior, and grooming regulation suggest a neural circuit system governing communication and social interactions. Together, these terms point to activity-dependent synaptic changes underlying vocalization and social behavior. ","confidence":"High","size":18,"edges":47,"triangles":32,"max_degree":10,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0071625","count":9},{"id":"GO:0007605","count":8},{"id":"GO:0043113","count":8},{"id":"GO:0035176","count":8},{"id":"GO:0060292","count":8}]},{"hash":"1360182802687822316","title":"Amino acid catabolism and central metabolism","description":"The cluster shows enrichment for amino-acid catabolic processes (lysine, alanine, kynurenine), oxaloacetate metabolism, and the TCA cycle, suggesting a common theme of amino acid degradation feeding central metabolism; while there are some outlier terms like Notch signaling and sphinganine biosynthesis, the dominant pattern is energy metabolism from amino acids.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033512","count":7},{"id":"GO:0006099","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0042853","count":5}]},{"hash":"882787920387675281","title":"Amino acid biosynthesis and metabolism","description":"This cluster is enriched for GO terms tied to the synthesis and breakdown of amino acids, especially threonine-related pathways (threonine biosynthesis and catabolism, 2-oxobutyrate biosynthesis) and homocysteine metabolism, indicating an amino acid metabolism module. Some terms like protein homooligomerization appear as general features of oligomeric enzymes; a few items (response to morphine) may reflect misannotations or broader stress responses, but the core theme is amino acid metabolism.","confidence":"High","size":18,"edges":140,"triangles":630,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0018871","count":4},{"id":"GO:0006535","count":4}]},{"hash":"1882288480972050191","title":"Cardiac morphogenesis and valve formation","description":"The top GO terms cluster around heart development and valve/atrioventricular structures (aortic valve morphogenesis, cardiac ventricle and atrioventricular node morphogenesis), endocardial differentiation, and related vascular morphogenesis, suggesting a cohesive theme of cardiac morphogenesis and heart vasculature formation.","confidence":"High","size":18,"edges":10,"triangles":0,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003180","count":18},{"id":"GO:0003208","count":18},{"id":"GO:0007156","count":18},{"id":"GO:0003213","count":18},{"id":"GO:0003162","count":18}]},{"hash":"2038207708123718791","title":"Transcriptional Regulation Across Tissue Differentiation","description":"This cluster's top GO terms converge on RNA polymerase II\u2013mediated transcription and circadian regulation of gene expression, along with multiple tissue- and lineage-specific differentiation processes (muscle, Malpighian tubule, vestibular nucleus, pancreatic cell fates, stomatal development, nephric mesenchyme). The common theme is proteins that govern transcriptional control guiding diverse developmental outcomes.","confidence":"Medium","size":18,"edges":94,"triangles":296,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043503","count":12},{"id":"GO:0006366","count":10},{"id":"GO:0032922","count":8},{"id":"GO:0043433","count":8},{"id":"GO:0061382","count":7}]},{"hash":"1262330757820262401","title":"Unknown","description":"The GO terms show a mix of reproductive fertilization, proteasomal protein degradation, neural and sensory processes, extracellular matrix remodeling, glial migration, and metabolic activities, with no single dominant theme. This variability makes a concise, specific label unlikely.","confidence":"","size":18,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0007626","count":1},{"id":"GO:0030214","count":1},{"id":"GO:0043615","count":1}]},{"hash":"352757610509915067","title":"Embryonic transcriptional regulation","description":"The cluster prominently features GO terms for regulation and activity of DNA-templated transcription, along with several embryonic development terms (heart development, mesoderm formation, foregut morphogenesis, lens fiber differentiation). This suggests the proteins collectively participate in transcriptional control during embryogenesis and related developmental processes rather than a single defined pathway. Confidence reflects the coherent developmental/transcriptional theme across the top terms.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:1904378","count":3},{"id":"GO:0006517","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007507","count":2}]},{"hash":"326225698216030619","title":"Adhesion and axon guidance in neural and organ morphogenesis","description":"The cluster is dominated by GO terms for cell-cell adhesion (homophilic and heterophilic) and receptor clustering, combined with axon guidance for dopaminergic and serotonergic neurons, as well as lung morphogenesis processes like branching and planar polarity. This points to proteins involved in adhesion-mediated signaling that directs neural development and organ morphogenesis, justifying a label focused on adhesion plus guidance in neural and organ contexts.","confidence":"High","size":18,"edges":84,"triangles":196,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007156","count":8},{"id":"GO:0036514","count":8},{"id":"GO:0060488","count":8},{"id":"GO:0043113","count":8},{"id":"GO:0060490","count":8}]},{"hash":"18915706702291253","title":"EGFR signaling and cytoskeletal remodeling","description":"Proteins in this cluster are enriched for EGFR signaling, endocytosis, and actin-driven membrane structures (ruffles, podosomes), along with associated processes like ERK cascade and tight junction dynamics. This points to a theme where receptor signaling orchestrates cytoskeletal remodeling and membrane trafficking to regulate adhesion and migration. While some terms touch broader development, the dominant pattern is receptor-mediated signaling coupled to cytoskeletal and junctional changes.","confidence":"High","size":18,"edges":60,"triangles":100,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0071803","count":7},{"id":"GO:0034260","count":7},{"id":"GO:0070830","count":7},{"id":"GO:0006897","count":7}]},{"hash":"678917637133837963","title":"Mitotic Regulation and Signaling","description":"The cluster centers on mitotic cell cycle processes and cytokinesis regulation, suggesting a core theme of cell division control. It also includes terms related to signaling regulation, such as NF-kappaB pathway modulation and protein monoubiquitination, which commonly intersect with cell cycle control. Additional transport terms (organic anion, lipid-related transport) and development terms (blood vessel maturation, limb development) may reflect broader signaling roles or pleiotropy, but the dominant pattern appears to be coordination of cell division with regulatory signaling.","confidence":"Medium","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1905431","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0090281","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043123","count":2}]},{"hash":"848318606133760182","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042273","count":4},{"id":"GO:0000447","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3}]},{"hash":"944864590793575027","title":"Plasma Membrane Localization and Adhesion Regulation","description":"The top GO terms emphasize localization to the plasma membrane and apical regions, along with regulation of adhesion-related processes such as podosome assembly, stress fiber dynamics, and heart morphogenesis. This points to a core theme of proteins that operate at the cell surface to control adhesion and cytoskeletal organization, with additional terms touching on membrane proteolysis and signaling regulation. While a few terms are peripheral (e.g., myelin maintenance), the recurring connection is membrane-associated localization and regulation of adhesion/cytoskeleton functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0043217","count":1},{"id":"GO:0045176","count":1},{"id":"GO:0010737","count":1},{"id":"GO:0061343","count":1}]},{"hash":"1663302257425536417","title":"Xenobiotic and Nutrient Transmembrane Transporters","description":"The top GO terms indicate a consistent theme of transmembrane transport across the plasma membrane for diverse substrates, including xenobiotics, vitamins (ascorbate), ions (potassium), urate, D-xylose, and selenite. This suggests a cluster of transporter proteins with broad substrate specificity involved in moving nutrients and xenobiotics across membranes.","confidence":"High","size":18,"edges":129,"triangles":499,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":16},{"id":"GO:0035461","count":16},{"id":"GO:0042908","count":13},{"id":"GO:0071805","count":12},{"id":"GO:0070837","count":12}]},{"hash":"1645657996487467003","title":"Tissue development and morphogenesis","description":"This cluster centers on tissue development and morphogenesis, with GO terms for retina development, nipple morphogenesis, and lung connective tissue development, plus positive regulation of cell proliferation. While sensory/visual terms appear, the dominant pattern is developmental/morphogenetic processes across tissues. The diversity prevents a single precise function, so \"Tissue development and morphogenesis\" is a cautious, representative label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0060041","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0008283","count":11}]},{"hash":"220105865794994520","title":"Neural Development and Synaptic Vesicle Exocytosis","description":"This cluster centers on neural development and vesicle trafficking, as shown by brain development, regulation of synaptic vesicle exocytosis, reelin signaling, and Rho/GTPase\u2013driven cytoskeletal regulation, with related vesicle transport processes such as intracellular transport.","confidence":"High","size":18,"edges":145,"triangles":700,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":10},{"id":"GO:2000300","count":10},{"id":"GO:0031384","count":10},{"id":"GO:0010796","count":10},{"id":"GO:0043087","count":8}]},{"hash":"1980929825236515014","title":"Neural development and synapse formation","description":"The terms cluster around neural connectivity and synaptic organization: axon guidance, presynaptic membrane organization, synapse assembly, dendritic spine regulation, and cell\u2013cell adhesion. Rho signaling supports cytoskeletal remodeling during neurite outgrowth, which aligns with these neural development processes. Some terms are peripheral (angiogenesis, sarcomere organization, Fc receptor signaling) but the dominant theme is neural development and synaptic assembly.","confidence":"Medium","size":18,"edges":21,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007411","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0097090","count":2}]},{"hash":"2292442796860186365","title":"Developmental morphogenesis and vascular-immune remodeling","description":"The top GO terms point to morphogenesis (bone trabecula formation, face morphogenesis), reproductive processes (estrous cycle, embryo implantation), vascular development (blood vessel maturation, vascular smooth muscle proliferation), and immune cell movement (leukocyte migration, macrophage chemotaxis regulation), suggesting a cluster of proteins involved in coordinated tissue remodeling during development and reproduction with vascular and immune components.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060346","count":3},{"id":"GO:0044849","count":3},{"id":"GO:0010760","count":3},{"id":"GO:0001955","count":2},{"id":"GO:1904707","count":2}]},{"hash":"1316064918327361306","title":"Heart development and vascular differentiation","description":"The top GO terms are dominated by cardiac-related processes: cardiac right atrium morphogenesis, Notch signaling pathway involved in regulation of secondary heart field cardioblast proliferation, and venous endothelial cell differentiation. This points to a shared theme of heart development and vascular differentiation, with other terms (mechanical stimulus response, vitamin D response, lipid catabolism, etc.) likely reflecting broader cellular roles rather than overriding the cardiac signal.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003213","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0033280","count":7},{"id":"GO:0003270","count":7},{"id":"GO:0060843","count":7}]},{"hash":"1202769077061851370","title":"Developmental Translation Initiation","description":"The cluster is dominated by GO terms for translation initiation and preinitiation complex formation, suggesting a core role in protein synthesis initiation. In addition, several development-related terms (skin, skeletal system, spinal cord, multicellular organism development) imply these proteins may coordinate translation with tissue development. Other terms point to signaling and regulatory processes, indicating a broader, but not tightly cohesive, functional theme. Overall, the label reflects the prominent translation-initiation signal with concurrent developmental context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0043588","count":7},{"id":"GO:0001501","count":7}]},{"hash":"2031895702723780355","title":"Neural development and calcium signaling regulation","description":"In the cluster, the strongest signals are related to neural development and neuronal signaling: cerebellum development and negative regulation of neuron maturation, plus calcium-mediated signaling and GPCR desensitization. While there are other terms spanning metabolism and stress responses (glucose stimulus, ionizing radiation, p53-mediated signaling), the prominent theme centers on neural development and calcium-dependent signaling pathways. This suggests proteins acting in neural maturation and calcium-mediated signal transduction, with broader regulatory roles.","confidence":"Medium","size":18,"edges":125,"triangles":521,"max_degree":16,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0021549","count":18},{"id":"GO:0071333","count":18},{"id":"GO:0031647","count":18},{"id":"GO:0050850","count":18},{"id":"GO:1901796","count":18}]},{"hash":"1388550700582840497","title":"Embryonic development and morphogenesis","description":"The top GO terms are dominated by embryonic development, patterning, and tissue morphogenesis across multiple tissues (left/right patterning, cartilage morphogenesis, EMT in endocardial cushion formation, placental and endocrine system development, pancreatic cell development). A couple of terms pertain to oxidative stress and DNA repair, but they do not define the cluster\u2019s main theme. Overall, the proteins appear connected to developmental differentiation and tissue formation, justifying this label. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":3},{"id":"GO:0042542","count":3},{"id":"GO:0000012","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1438090893441623039","title":"Cardiac morphogenesis, myogenesis, and BMP signaling","description":"The top GO terms cluster around heart development (atrioventricular valve morphogenesis, atrial septum morphogenesis, labyrinthine layer blood vessel development) and muscle differentiation (positive regulation of myoblast differentiation, DNA-templated transcription) with BMP signaling and integrin-mediated adhesion supporting tissue morphogenesis. This points to a cohesive set of proteins involved in cardiac development and muscle formation, coordinated by BMP pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060716","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0010832","count":2},{"id":"GO:0003181","count":2},{"id":"GO:0045668","count":2}]},{"hash":"1788006179429636108","title":"Embryonic eye and neural tube morphogenesis","description":"The cluster\u2019s top GO terms are dominated by eye-related development (camera-type eye development, embryonic eye morphogenesis, retina development) and neural patterning (floor plate development, somitogenesis, amacrine cell differentiation), with additional signals from related morphogenesis processes (lung development) and vascular regulation. This points to a cohesive embryonic development program focusing on eye and neural tube formation, with some supporting morphogenesis pathways.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0043010","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0001756","count":5}]},{"hash":"1463036325621549981","title":"Unknown","description":"The terms include plant-specific processes (cell wall assembly, nodulation) as well as general biosynthetic and transport processes (heme/ommochrome biosynthesis, lipid and carbohydrate transport) with no clear unifying function, so a coherent label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070453","count":1},{"id":"GO:0071668","count":1},{"id":"GO:0006783","count":1},{"id":"GO:1902001","count":1},{"id":"GO:0045332","count":1}]},{"hash":"620770989410122321","title":"Bacterial sporulation and secondary metabolism","description":"The top GO terms center on biosynthetic processes (antibiotic biosynthesis, biotin, polyamine, glutamine) and a specific sporulation process, suggesting a bacterial cluster involved in developmental steps and metabolite production. The absence of edges and the mix of terms hint at a broad metabolic/developmental role rather than a single cohesive function, though sporulation plus secondary metabolism is the strongest interpretable theme. A few neuronal signaling terms appear incongruent for bacteria and may reflect annotation cross-talk or noise, not a core feature of the cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006596","count":2},{"id":"GO:0009102","count":2}]},{"hash":"452383943788322783","title":"Unknown","description":"GO terms are highly diverse from symbiont-associated host gene suppression and mRNA degradation to RNA processing and various developmental processes, with no clear shared function. The lack of a cohesive theme and absence of edges makes a reliable label unlikely.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039657","count":1},{"id":"GO:0039595","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0060972","count":1},{"id":"GO:1903026","count":1}]},{"hash":"674246799823000980","title":"Lipid signaling and hormone biosynthesis","description":"The cluster\u2019s top GO terms mainly touch lipid-derived signaling and hormone pathways, including brassinosteroid biosynthesis, ent-kaurene oxidation (gibberellin precursor), oxylipin biosynthesis, and epoxygenase P450 activity, along with triglyceride metabolism and vitamin D response, suggesting a cohesive theme around lipid metabolism and lipid\u2011based signaling/hormone production across species. Some terms (e.g., retina development, sex differentiation) appear less connected but do not override the dominant lipid/hormone signal theme.","confidence":"Medium","size":17,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":11},{"id":"GO:0033280","count":10},{"id":"GO:0061298","count":10},{"id":"GO:0006641","count":10},{"id":"GO:0010241","count":10}]},{"hash":"1211494593153413883","title":"Sulfur amino acid biosynthesis and H2S production","description":"The top GO terms point to hydrogen sulfide biosynthesis, transsulfuration, and L-cysteine biosynthesis via cystathionine, with related steps in homocysteine catabolism and serine/threonine biosynthesis. This suggests a cohesive cluster centered on sulfur amino acid metabolism, especially cysteine biosynthesis and H2S generation, flanked by connected carbon metabolism (pyruvate). Confidence: High","confidence":"","size":17,"edges":92,"triangles":268,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":7},{"id":"GO:0019343","count":7},{"id":"GO:0019346","count":7},{"id":"GO:0006565","count":5},{"id":"GO:0042866","count":5}]},{"hash":"1420686563987908135","title":"Central carbon metabolism and amino acid catabolism","description":"The cluster is dominated by core metabolic processes: the tricarboxylic acid cycle and several amino acid catabolic pathways (e.g., L-alanine and L-kynurenine), along with related redox and cofactor-associated terms. Although there are a few regulatory terms (response to cAMP, glucocorticoid), the dominant theme ties to energy production and amino-acid metabolism, making this a coherent metabolic cluster.","confidence":"Medium","size":17,"edges":87,"triangles":320,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0051384","count":2},{"id":"GO:0097053","count":2}]},{"hash":"2270566847345066771","title":"Unknown","description":"The terms span transcription, multiple tissue-specific development (retina, heart, female gonads), and diverse metabolic and stress/immune responses, with no clear shared function or pathway tying the proteins together, and there are no edges among the proteins to indicate a cohesive module.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0061298","count":3},{"id":"GO:0030540","count":3},{"id":"GO:0042738","count":3},{"id":"GO:0008585","count":3}]},{"hash":"2190716264943648962","title":"Ribosome assembly and translation machinery","description":"This cluster concentrates on core protein synthesis processes: ribosome biogenesis and small subunit maturation, translation initiation and tRNA modification, and even special aspects like selenocysteine incorporation and translational fidelity. The antibiotic response term likely reflects ribosome-targeting antibiotics, reinforcing the focus on ribosome function and translation. These common GO terms collectively define a cohesive \u201cribosome biogenesis and translation\u201d theme.","confidence":"High","size":17,"edges":128,"triangles":568,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":7},{"id":"GO:0046677","count":5},{"id":"GO:0006413","count":4},{"id":"GO:0042274","count":3}]},{"hash":"2272212108542818654","title":"Ion Transport and Membrane Trafficking","description":"The most represented functions are ion transmembrane transport (sodium and potassium) and various membrane transport roles (xenobiotic, nitrite, vitamin). The presence of glutamatergic synaptic transmission and receptor internalization, together with regulation of GTPase activity, suggests a combined theme of membrane trafficking and signaling, rather than a single metabolic pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0046716","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0031623","count":2}]},{"hash":"1370113870111414526","title":"Embryonic vascular and cranial skeletal development","description":"The GO terms point to embryonic development with a focus on vasculature (blood vessel maturation; vascular smooth muscle proliferation) and cranial skeleton morphogenesis, plus supporting processes like cell adhesion and leukocyte migration that commonly accompany developmental programs. The cluster seems to reflect a cohesive developmental module spanning vascular and cranial skeletal formation rather than a single isolated function.","confidence":"Medium","size":17,"edges":106,"triangles":329,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":1},{"id":"GO:1904109","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0048701","count":1},{"id":"GO:1904807","count":1}]},{"hash":"129842615842423703","title":"RNA Processing and Quality Control","description":"This cluster centers on RNA metabolism: splicing regulation, rRNA maturation, mRNA export, and surveillance (NMD); plus stress granule localization and regulatory ncRNA-mediated silencing. The convergence of these RNA-centric processes suggests a cohesive module for post-transcriptional processing and quality control.","confidence":"High","size":17,"edges":95,"triangles":259,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0000463","count":6},{"id":"GO:0000462","count":6},{"id":"GO:0000466","count":6}]},{"hash":"981450397412377748","title":"Rho/Rac GTPase signaling and actin remodeling","description":"Dominant GO terms show small GTPase\u2013mediated signal transduction (Rho, Rac, Ras), with regulation of Rac/Rho signaling, filopodium assembly, and positive regulation of substrate adhesion-dependent cell spreading, all pointing to cytoskeletal dynamics and cell adhesion controlled by Rho-family GTPases. Immune and nervous system terms are present but less central to the core theme. Thus the label captures the primary function of the cluster.","confidence":"High","size":17,"edges":24,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":13},{"id":"GO:1900026","count":13},{"id":"GO:0046847","count":13},{"id":"GO:0035020","count":12},{"id":"GO:0035023","count":12}]},{"hash":"1373994145001877790","title":"Calcium signaling in leukocyte chemotaxis and coagulation","description":"The top terms cluster around immune cell movement (dendritic cell and eosinophil chemotaxis, chemokine regulation) and calcium signaling (release of sequestered calcium into cytosol), with a clear link to coagulation. Some terms (cell wall catabolic process, locomotory behavior, membrane potential regulation, synaptic depression) are less aligned, so the overall theme is immune signaling and migration with calcium involvement. Confidence: Medium.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":5},{"id":"GO:0007596","count":5},{"id":"GO:1901652","count":4},{"id":"GO:0090198","count":4},{"id":"GO:0016998","count":4}]},{"hash":"2067085711811917402","title":"Chromatin remodeling and germline epigenetic regulation","description":"This cluster is dominated by terms related to chromatin modification and epigenetic marks (DNA methylation, histone methylation, and chromatin remodeling), along with piRNA processing and transcriptional regulation, all of which are key aspects of germline epigenetic control and meiotic processes. A few terms about heart morphogenesis appear but do not define the main theme, which revolves around epigenetic regulation and chromatin dynamics in the germline. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043046","count":4},{"id":"GO:0003289","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0048298","count":3}]},{"hash":"567277463318750922","title":"Developmental Signaling and Calcium Exocytosis","description":"The top GO terms point to broad developmental roles across tissues (skeletal, nervous, heart, cerebellum) coupled with calcium-regulated signaling and exocytosis (Rho signaling, calcium-dependent exocytosis) and ion transport. This suggests a cohesive theme around development-linked signaling pathways that rely on calcium dynamics, though some terms (e.g., pseudohyphal growth) may reflect organism-specific or broader cellular stress contexts. Confidence: Medium.","confidence":"","size":17,"edges":48,"triangles":54,"max_degree":11,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001501","count":9},{"id":"GO:0034198","count":9},{"id":"GO:0007266","count":9},{"id":"GO:0045956","count":9},{"id":"GO:0007124","count":9}]},{"hash":"1604670183232966771","title":"GPCR signaling and immune cell chemotaxis","description":"The cluster\u2019s top GO terms point to GPCR-mediated signaling (GO:0010579) and immune cell movement, notably dendritic cell chemotaxis (GO:0002407) and chemokine regulation (GO:0090198). These suggest a shared function in GPCR-driven signaling that guides immune cell migration and cytokine/chemokine modulation. Additional terms related to membrane potential and synaptic regulation hint at broader neuronal signaling contexts, while electron transport chain involvement indicates a metabolic backdrop. Taken together, the proteins seem to cluster around GPCR signaling linked to immune cell chemotaxis, with ancillary metabolic/neural signaling associations.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0010579","count":17},{"id":"GO:1901652","count":16},{"id":"GO:0090198","count":16}]},{"hash":"1452225405687391016","title":"Chemokine-regulated immune cell migration","description":"This cluster is dominated by GO terms for dendritic cell and eosinophil chemotaxis, negative regulation of chemokine production, and negative regulation of inflammatory response, pointing to a shared role in guiding immune cells and modulating inflammation. A few terms touch on neuronal signaling, but the strongest coherent theme is recruitment and regulation of immune cells during immune responses.","confidence":"High","size":17,"edges":61,"triangles":89,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":17},{"id":"GO:0090198","count":17},{"id":"GO:0016998","count":17},{"id":"GO:0007626","count":17},{"id":"GO:0042391","count":17}]},{"hash":"405178143421283001","title":"Membrane Ion Transport","description":"Based on the strongest terms, the cluster centers on ions moving across membranes and changing membrane potential (membrane hyperpolarization; manganese, calcium, and potassium transport). While a few terms touch on development or sensory responses, the core theme is ion transport across the plasma membrane, suggesting membrane potential\u2013related proteins. Confidence: Medium","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0098703","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0071313","count":2}]},{"hash":"1909211751195354416","title":"Ribosome biogenesis and RNA modification","description":"This cluster is dominated by GO terms tied to protein synthesis and ribosome maturation: translation (GO:0006412) appears in 7 proteins, along with rRNA base methylation, tRNA methylation, and ribosomal large subunit assembly, which together point to ribosome assembly and RNA modification as the core theme. Some other terms like interleukin-4 response and mitochondrial autophagy appear but are less central, suggesting they are secondary context-specific annotations. Therefore, the label captures the primary function of the cluster.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0070475","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0000027","count":2}]},{"hash":"1910855889198226827","title":"Unknown","description":"The terms span diverse processes (neuronal vesicle trafficking, immune signaling, oxidative stress response, peroxisome autophagy, lipid biosynthesis, morphine response) with no clear unifying function, so a specific, representative label cannot be confidently assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016188","count":2},{"id":"GO:0006659","count":1},{"id":"GO:0071447","count":1},{"id":"GO:0016082","count":1},{"id":"GO:0050853","count":1}]},{"hash":"2159701078898247969","title":"Temperature-responsive energy metabolism and GPCR signaling","description":"This cluster centers on thermogenesis and temperature-responsive processes (diet-induced thermogenesis, cellular response to temperature stimulus) and mitochondrial energy metabolism (electron transport chain), with a strong component of GPCR signaling (adenylate cyclase-activating pathway) that ties into cardiovascular regulation (blood pressure, outflow tract morphogenesis) and peptide responses. While some terms are broader (pain perception, chemokine regulation, development), the core pattern points to temperature- and metabolism-linked signaling in a cardiovascular/developmental context.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":6}]},{"hash":"919489560673287562","title":"Neural and cardiac development with immune signaling","description":"The terms center on developmental processes in the nervous system and heart (nervous system development, heart development, melanocyte migration) and on immune-related cytokine production and chemotaxis (dendritic cell and mast cell cytokine production, chemotaxis). Additional terms point to growth factor\u2013driven signaling pathways (VEGF/PDGF receptor signaling, PI3K/MAPK signaling), suggesting a cluster of proteins involved in developmental regulation with concurrent immune and signaling roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097324","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0002371","count":2}]},{"hash":"1040777356728207730","title":"Ribosome Biogenesis and ER-Golgi Trafficking","description":"This cluster centers on translation-related processes, including regulation of translation and ribosomal large subunit export from the nucleus, alongside vesicular trafficking between the ER and Golgi and related endosomal transport. Although a couple terms relate to development, the dominant signals point to ribosome biogenesis/translation coupled with secretory pathway transport. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006417","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0006914","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0045212","count":1}]},{"hash":"1851873882909180207","title":"Autophagy and ubiquitin-dependent degradation","description":"The top GO terms are dominated by macroautophagy and ubiquitin-dependent protein catabolism via the multivesicular body sorting pathway, pointing to a core theme of autophagy-driven protein turnover. Other terms (developmental and transcription-regulatory) appear less central to the cluster, suggesting autophagy/proteolysis as the main shared function. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016236","count":2},{"id":"GO:0043162","count":2},{"id":"GO:0000920","count":2},{"id":"GO:0022037","count":2},{"id":"GO:0006355","count":2}]},{"hash":"75995955294803587","title":"Nuclear gene expression and genome maintenance","description":"Most terms point to nuclear functions: DNA-templated transcription, homologous recombination repair, mitotic spindle assembly, and rRNA maturation, plus chromatin regulation. A few terms appear less related (skin development, septum digestion), likely reflecting broad annotations, but the prevailing pattern supports a theme of genome maintenance and cell-cycle control.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0006351","count":3}]},{"hash":"307378625821144872","title":"Diverse Developmental Differentiation and Proteostasis","description":"Top GO terms indicate differentiation across multiple tissues (oligodendrocyte differentiation, cerebellar granule cell differentiation, cardiac right atrium morphogenesis, brown fat differentiation) together with proteostasis and regulatory processes (protein ubiquitination, proteasome assembly, kinase activity regulation, mitotic cohesion control). The mix suggests a broad theme of development across lineages coupled with protein regulation rather than a single cohesive pathway. Therefore, label reflects both differentiation and proteostasis aspects.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0071901","count":6},{"id":"GO:0050960","count":5},{"id":"GO:0046475","count":5},{"id":"GO:1903444","count":5},{"id":"GO:0070682","count":5}]},{"hash":"2160143776402677637","title":"Cytoskeletal remodeling and signaling","description":"Top GO terms cluster around actin cytoskeleton reorganization, microvillus assembly, Rho signaling, and intracellular signal transduction, with additional terms for cAMP response and thermoception. A few terms (meiotic cell cycle, glycerophospholipid catabolic process, brown fat differentiation, proteasome assembly) are more divergent, but the dominant themes tie to cytoskeletal dynamics and signaling, justifying the label as a concise, representative descriptor for this group of proteins.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0051321","count":2},{"id":"GO:0030033","count":2},{"id":"GO:0035023","count":2}]},{"hash":"110873859003102430","title":"Neural development signaling and proteostasis","description":"This cluster centers on neural development and brain signaling, with terms like cerebral cortex development and both positive and negative regulation of canonical Wnt signaling, plus tyrosine autophosphorylation signaling and proteasomal protein turnover. Cocaine response also ties to neural function. While tRNA methylation and transcription-coupled NER appear less tightly connected, the core theme points to brain development and signaling coupled with regulated proteostasis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900086","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0021987","count":2}]},{"hash":"942832483877658625","title":"Actinobacterial metabolite biosynthesis","description":"This cluster is dominated by biosynthetic processes for diverse small molecules: mycothiol biosynthesis (a hallmark of actinobacteria), ectoine biosynthesis (a common compatible solute), arginine biosynthesis, N-acetylglucosamine metabolism, putrescine acetylation, and melatonin biosynthesis. The pattern suggests a theme of bacterial metabolite production, particularly in Actinobacteria (e.g., mycothiol-related pathways). Some GO terms listed (subtelomeric heterochromatin formation; mitotic sister chromatid cohesion) appear eukaryotic or misannotated and do not align with the metabolic signals, but the core signal is biosynthetic metabolism. ","confidence":"Medium","size":17,"edges":131,"triangles":609,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":14},{"id":"GO:0030187","count":14},{"id":"GO:0060358","count":14},{"id":"GO:0071962","count":14},{"id":"GO:0019491","count":14}]},{"hash":"2080708488480116533","title":"Ciliogenesis and Photoreceptor Organization","description":"The top GO terms point to cilium-related processes (regulation/assembly of cilia, cilium beat frequency) and photoreceptor biology (retinal rod cell development, photoreceptor outer segment organization), suggesting the proteins cluster around ciliary function and photoreceptor biogenesis rather than unrelated pathways. Some terms are obsolete, but the dominant theme is ciliogenesis linked to photoreceptor structure and development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":1},{"id":"GO:0033674","count":1},{"id":"GO:0061087","count":1},{"id":"GO:1901215","count":1},{"id":"GO:2000531","count":1}]},{"hash":"545445031929445885","title":"Immune signaling and inflammasome activation","description":"It combines innate sensing (diacyl lipopeptide detection), inflammatory response, NF-kappaB signaling, interferon production, and NLRP3 inflammasome assembly with B cell proliferation, indicating a cohesive theme of immune activation and inflammation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0042346","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0008285","count":2},{"id":"GO:0035023","count":2}]},{"hash":"155434672315079303","title":"Carbohydrate Metabolism and Biosynthesis","description":"The top GO terms show maltose metabolic process, alpha-glucan catabolic process, and polysaccharide digestion, indicating a carbohydrate-catabolic theme. Additional biosynthetic processes (biotin, menaquinone, antibiotic) suggest broader metabolic roles among the proteins. A few terms relate to adhesion and signaling, but they are less representative. Overall, the cluster seems centered on metabolism, especially carbohydrate breakdown, with diverse biosynthetic functions, hence the label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000023","count":3},{"id":"GO:0009102","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0055114","count":2}]},{"hash":"129674500718740976","title":"Unknown","description":"The GO terms span ribosome export, neural and nervous system development, synaptic processes, tooth dentinogenesis, and general multicellular development, with some unrelated terms (caffeine response, toxin transport). There is no single dominant function or pathway linking these proteins, and the lack of edges suggests a highly heterogeneous set, so a coherent, representative label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0016185","count":2},{"id":"GO:0008344","count":2}]},{"hash":"650005180319378382","title":"Tissue morphogenesis and organ development","description":"This cluster brings together GO terms pointing to morphogenesis across multiple tissues (hair follicles, ureteric bud, retina vasculature) and related processes like bone remodeling and angiogenesis, suggesting a broad developmental/morphogenetic role rather than a single tissue-specific function. The inclusion of apoptosis regulation also fits developmental remodeling. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901029","count":3},{"id":"GO:0045670","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0030279","count":2},{"id":"GO:0002042","count":2}]},{"hash":"926840339067628848","title":"Chromatin organization and nucleosome assembly","description":"The top GO terms center on chromatin structure and nucleosome dynamics (nucleosome assembly, histone methylation regulation, rDNA heterochromatin formation, telomeric D-loop disassembly), pointing to a cluster of proteins involved in genome architecture and chromatin regulation. A few terms about development or hormone responses appear, but they are less representative of the core function. Overall, chromatin organization best explains the shared functions of this cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051572","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0071320","count":3},{"id":"GO:1900033","count":2}]},{"hash":"1350352576696129493","title":"GTPase Signaling in Neural Development","description":"The cluster\u2019s top GO terms cluster around regulation of GTPase activity (Ras and Rho pathways), Ras/Rho-mediated signaling, and neural development processes such as photoreceptor axon guidance and radial glial scaffold formation. These themes point to coordinated signaling that shapes neural cell behavior and morphology, with additional related terms like Wnt pathway modulation and phosphoinositide signaling supporting this signaling-centric view. While a few terms (e.g., insulin secretion) are less directly tied, the dominant pattern is GTPase-driven signaling in neural development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0032024","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0072499","count":2}]},{"hash":"266339064595625219","title":"Actin-cytoskeleton\u2013driven budding polarity","description":"The terms cluster around actin dynamics (formin-nucleated actin cables, regulation of actin cytoskeleton) and budding/polarity processes (budding site selection, apical bud growth), with supporting roles for astral microtubule organization and pseudohyphal growth. While there are some less-related terms like Wnt signaling and skeletal development, the dominant theme is actin-mediated cell polarity and morphogenesis in budding contexts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0061001","count":2},{"id":"GO:0090338","count":2},{"id":"GO:0007124","count":2},{"id":"GO:0048706","count":2}]},{"hash":"1362707829224514483","title":"Neural tube and brain development","description":"The top GO terms center on nervous system formation\u2014forebrain development, neural tube closure, and spinal cord development\u2014with broader references to multicellular organism development. A few DNA repair and spliceosome-related terms appear, but the dominant signal is neural development, suggesting these proteins cluster around CNS formation pathways. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0006283","count":1},{"id":"GO:0009411","count":1},{"id":"GO:0000387","count":1}]},{"hash":"1343805427341893689","title":"Embryonic and skeletal development","description":"The cluster is enriched for GO terms centered on developmental processes: multicellular organism development, in utero embryonic development, skeletal system development, and osteoblast differentiation, with angiogenesis linked to growth. These themes suggest a cohesive role in embryonic growth and bone formation, while other terms like complement activation are less central but may reflect broader developmental biology contexts. Overall, a developmental/skeletal focus best captures the shared function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":4},{"id":"GO:0071372","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1848256792158031876","title":"Mitochondrial Metabolite Transport and Energy Homeostasis","description":"The top GO terms cluster around transport of metabolites and cofactors across mitochondrial membranes (NAD, phosphate, pyridoxal phosphate, iron), and the malate-aspartate shuttle, with supporting terms about energy metabolism (amino acid starvation response, adaptive thermogenesis). This points to a cohesive theme of mitochondrial metabolite transport driving energy regulation, rather than a non-specific mix of unrelated functions.","confidence":"High","size":16,"edges":37,"triangles":32,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":10},{"id":"GO:0034198","count":9},{"id":"GO:0043490","count":8},{"id":"GO:0060546","count":8},{"id":"GO:1990845","count":8}]},{"hash":"1816848461107025280","title":"Embryonic craniofacial and organ morphogenesis","description":"This cluster centers on developmental processes across multiple organ systems, especially craniofacial structures (roof of mouth/palate, cranial skeleton, eye morphogenesis) and other organs (pancreas, kidney ureteric bud branching, habenula). The co-occurrence of transcription-related GO terms supports regulatory roles in embryonic morphogenesis, making a label that highlights embryonic organ formation appropriate.","confidence":"High","size":16,"edges":40,"triangles":35,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:2000288","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0031016","count":6}]},{"hash":"1734758969330453732","title":"Detoxification and catabolic metabolism","description":"This cluster features GO terms centered on detoxification and breakdown of various substrates: response to xenobiotic stimulus, cellular oxidant detoxification, response to toxic substance, and several catabolic processes (chlorophyll, cellulose, triglyceride). While one term (T cell activation) is unrelated and suggests potential annotation noise, the dominant signals point to metabolic detoxification and catabolic processing.","confidence":"Medium","size":16,"edges":16,"triangles":1,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0015996","count":3},{"id":"GO:0019433","count":3}]},{"hash":"1007452642034034357","title":"Tissue Development and Angiogenesis","description":"These GO terms cluster around developmental and tissue-formation processes, with clear emphasis on angiogenesis and organ/tissue development (skeletal system, animal organ development, keratinocyte differentiation) and VEGF/HGF-type signaling. A few terms point to chromatin modification and cell-cycle aspects, which may be ancillary to the core theme. Overall, the proteins appear to participate in tissue development and vascularization.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006348","count":5},{"id":"GO:0001501","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0018003","count":4},{"id":"GO:0048513","count":3}]},{"hash":"267485385017239049","title":"GTPase signaling and mechanosensory hair cell development","description":"The terms coalesce around regulation of Rho/Ras GTPase signaling, modulation of GTPase activity, and IP3 biosynthesis, plus mechanosensory development in hair cells (posterior lateral line neuromast hair cell development, detection of mechanical stimulus for sound). This points to a coherent theme of GTPase-mediated signaling linked to mechanosensory function; a few terms (e.g., follicular B cell differentiation) may reflect multifunctional annotations or noise. Confidence is medium.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0010923","count":2},{"id":"GO:0032959","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0002316","count":2}]},{"hash":"1308042575235189887","title":"Cell adhesion and motility signaling","description":"Based on the top GO terms, the proteins are enriched for processes related to cell adhesion, migration, and barrier establishment, coupled with signaling and cytoskeletal dynamics (e.g., thrombin receptor signaling, regulation of PKA activity, actin organization). While a few terms are more peripheral (e.g., equilibrioception, mitochondrial inheritance), the dominant theme centers on adhesion and movement mediated by signaling pathways. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006930","count":2},{"id":"GO:0070493","count":2},{"id":"GO:2000481","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0090557","count":2}]},{"hash":"230722596495983095","title":"Ribosome Translation and Insulin Secretory Pathway","description":"The cluster is dominated by translation-related terms (translation, maturation of SSU-rRNA) and by components of the insulin/secretory axis (insulin receptor signaling, negative regulation of insulin secretion, dense core granule maturation). Mitochondrial ATP synthesis supports the energy needs of both protein synthesis and secretion, suggesting a core theme around protein production and insulin-containing secretory processes, with a few peripheral terms that are less central. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0042775","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0007205","count":2}]},{"hash":"82391491283818463","title":"Unknown","description":"The cluster\u2019s GO terms span vascular development, reproductive processes (blastocyst formation, follicle growth, sperm-egg interactions), immune signaling (interferon and IL-4 regulation), prostaglandin response, and even sensory perception, with no clear single function tying all proteins together. ","confidence":"","size":16,"edges":67,"triangles":167,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035912","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0034695","count":2},{"id":"GO:0007339","count":2},{"id":"GO:0001825","count":2}]},{"hash":"493436875980391041","title":"Craniofacial and cardiac morphogenesis and adhesion signaling","description":"The proteins are linked to developmental processes such as palatal shelf morphogenesis and cardiac morphogenesis (valve and ventricle), alongside strong emphasis on cell adhesion and extracellular matrix interactions. Signaling pathways like Wnt and JAK-STAT appear, along with hyaluronan biosynthesis, suggesting coordinated morphogenesis in craniofacial and cardiac tissues through adhesion and signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1990134","count":10},{"id":"GO:0021940","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0007262","count":10},{"id":"GO:1900127","count":10}]},{"hash":"1392013339427246676","title":"Neuronal synapse assembly and adhesion","description":"This cluster centers on GO terms about synapse assembly, receptor clustering, and cell adhesion, including excitatory postsynaptic potential and heterophilic cell-cell adhesion. Together these terms point to proteins that organize and stabilize excitatory synapses and neuronal connections, often via interactions with the extracellular matrix and neighboring cells. Some terms like vocalization behavior or response to lithium ion may reflect involvement in neural circuits or experimental contexts, but the core theme is synapse formation and adhesion.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0007160","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0043113","count":5},{"id":"GO:0007155","count":5}]},{"hash":"465230940327683754","title":"Growth Factor Signaling and Development","description":"The cluster is enriched for signaling-related GO terms (IGF receptor signaling, EGF response, PI signaling, GPCR acetylcholine signaling) together with diverse development and reproductive terms (acrosome reaction, meiosis activation, labyrinthine layer vascular and glomerulus development, B cell differentiation). This pattern suggests proteins that modulate growth factor and GPCR signaling to influence cell fate and tissue development across contexts.","confidence":"Medium","size":16,"edges":23,"triangles":4,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":3},{"id":"GO:0071364","count":3},{"id":"GO:1900087","count":3},{"id":"GO:0048009","count":3},{"id":"GO:0007213","count":3}]},{"hash":"1271766080100782548","title":"Endocytic Trafficking and Cell Morphogenesis","description":"The GO terms cluster around intracellular membrane trafficking (endocytic recycling, endosome-Golgi transport), regulation of cell polarity and cell shape, and aspects of cell morphogenesis and microvillus assembly, with additional links to membrane protein processing. While a couple terms touch on mitosis and adipose development, the dominant signal is membrane trafficking coupled to cell shape and polarity, justifying this label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":2},{"id":"GO:0032534","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1437499811372701860","title":"Multitissue development and regeneration","description":"This cluster centers on GO terms related to development and regeneration across multiple tissues (liver, bone/osteoblasts, pancreas, ring gland) and processes like wound healing and proliferative signaling, with an additional note on circadian timing, suggesting a shared theme of developmental/regenerative pathways with temporal regulation.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0035470","count":9},{"id":"GO:0045669","count":8},{"id":"GO:2000347","count":7},{"id":"GO:0035271","count":7}]},{"hash":"1245368741453231999","title":"Proteostasis and Heat Stress Response","description":"The cluster is dominated by GO terms related to protein quality control and folding/unfolding: cellular response to misfolded protein, proteasome regulatory particle assembly, protein processing, protein unfolding, and chaperone/cofactor-dependent refolding. Additional terms like cellular heat acclimation and trehalose metabolism in response to heat stress reinforce a theme of proteostasis under heat stress. A few cell cycle/division terms appear but do not define the core function. Overall, the group points to maintaining proteome integrity during heat stress.","confidence":"High","size":16,"edges":10,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0071218","count":4},{"id":"GO:0070682","count":4},{"id":"GO:0030420","count":4}]},{"hash":"640084586240322493","title":"Cerebellar neuron development and signaling","description":"Based on top terms like cerebellum development and neuron maturation, plus calcium-mediated signaling and GPCR desensitization, the proteins appear connected to neural development and calcium-dependent signaling pathways. The cluster seems to center on neural differentiation and neuronal signaling rather than a single non-neural function.","confidence":"High","size":16,"edges":116,"triangles":510,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0021549","count":16},{"id":"GO:0071333","count":16},{"id":"GO:0031647","count":16},{"id":"GO:0050850","count":16},{"id":"GO:1901796","count":16}]},{"hash":"1600977058711519994","title":"Ciliary development and DNA damage response","description":"The terms point to both ciliary biology (cilium assembly, intraciliary transport, spermatid development) and genome integrity responses (ionizing radiation/UV response, recombinational repair, DNA damage checkpoint signaling), suggesting a cluster of proteins tied to ciliary function with ancillary DNA damage signaling/repair roles.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":1},{"id":"GO:0033674","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0071479","count":1}]},{"hash":"1095028103484573909","title":"Unknown","description":"The top GO terms span ubiquitination and proteasome assembly, lipid catabolism, neural and heart development, and cell-cycle regulation, with no single unifying function evident for the cluster. This diversity suggests there isn\u2019t a cohesive theme to label the cluster beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050960","count":2},{"id":"GO:0046475","count":2},{"id":"GO:1903444","count":2},{"id":"GO:0070682","count":2},{"id":"GO:1904908","count":2}]},{"hash":"432690205768558570","title":"LPS-induced innate immune signaling and transcription","description":"The cluster\u2019s top GO terms center on innate immune response and lipopolysaccharide (LPS) signaling (cellular response to LPS, LPS-mediated signaling pathways, innate immune response, positive regulation of LPS signaling), with the addition of DNA-templated transcription, suggesting a transcriptional program activated by LPS. Some terms related to epithelial remodeling and cytoskeletal organization may reflect downstream effects in immune or barrier cells but are less central. Overall, the theme is LPS-triggered innate immune signaling coupled with transcriptional regulation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0031666","count":2},{"id":"GO:0031663","count":2}]},{"hash":"760787359648194398","title":"Unknown","description":"The proteins are linked to a diverse set of processes\u2014mechanical and temperature sensing, lipid catabolism, adipose differentiation, protein turnover (ubiquitination and proteasome assembly), chromosome maintenance, heart and brain development, and chemokine production\u2014without a single unifying function, so a concise, representative label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0050960","count":6},{"id":"GO:0046475","count":6},{"id":"GO:1903444","count":6},{"id":"GO:0070682","count":6}]},{"hash":"2260963612397534391","title":"Developmental Morphogenesis","description":"The top GO terms cluster around development and tissue morphogenesis across multiple organs (multicellular organism development, embryonic cranial skeleton morphogenesis, left ventricular morphogenesis, osteoblast differentiation), suggesting proteins involved in developmental processes. Some immune/inflammatory and bacterial catabolic terms appear, but the dominant signal points to developmental/tissue differentiation roles. Overall, the cluster shows limited connectivity, yet the developmental theme is the strongest common thread.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0009253","count":2},{"id":"GO:0007614","count":2}]},{"hash":"1684071882573679023","title":"Vascular and adipose tissue development signaling","description":"The cluster is driven by terms related to fat cell differentiation, angiogenesis, and blood vessel remodeling, alongside growth factor signaling pathways such as IGF receptor signaling and EGFR response. This points to a cohesive theme of developmental signaling governing vascular and adipose tissue formation, with some broader terms like brain development and thermoception likely reflecting pleiotropy rather than a dominant function of the cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0002692","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0007420","count":2}]},{"hash":"136571681209593037","title":"Drosophila oogenesis and eggshell morphogenesis","description":"The GO terms cluster around Drosophila egg chamber development: oocyte polarity specification, oocyte karyosome formation, centripetal follicle cell migration, and dorsal appendage formation, all of which point to oogenesis and eggshell morphogenesis. Some terms about Rho signaling and ncRNA-mediated silencing reflect regulatory processes that can govern these developmental events. Overall, the pattern suggests proteins involved in egg chamber development and eggshell formation rather than unrelated processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":1},{"id":"GO:0030336","count":1},{"id":"GO:0009949","count":1},{"id":"GO:0043046","count":1},{"id":"GO:0031047","count":1}]},{"hash":"1499821237994524944","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The top terms are dominated by proteoglycan/glycosaminoglycan biosynthetic processes (heparan sulfate, chondroitin/dermatan sulfate), suggesting a cohesive theme around GAG/proteoglycan production. Additional metabolic terms (catecholamines, thyroid hormone, xenobiotics) are present but less central, so the core signal supports a proteoglycan biosynthesis label.","confidence":"High","size":15,"edges":85,"triangles":262,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":12},{"id":"GO:0030206","count":12},{"id":"GO:0030210","count":11},{"id":"GO:0006584","count":11},{"id":"GO:0006044","count":11}]},{"hash":"852565225110351741","title":"Central metabolism and redox homeostasis","description":"The cluster features core metabolic pathways: glycolytic process, TCA cycle, and amino acid catabolic steps (alanine and valine), along with glutathione metabolism and redox regulation. Thiamine biosynthesis also ties into energy metabolism. While there are some regulatory terms about stem cell proliferation and chromatin binding, the balance of metabolic processes and redox maintenance best explains the group, making the label representative.","confidence":"High","size":15,"edges":79,"triangles":199,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0006096","count":8},{"id":"GO:0042853","count":8},{"id":"GO:2000648","count":7},{"id":"GO:0045454","count":7}]},{"hash":"2241738953321266046","title":"Actin-driven cell migration and lamellipodium assembly","description":"The GO terms point to actin cytoskeleton remodeling and motility, with lamellipodium assembly (GO:0030032), cell migration (GO:0016477), and positive regulation of GTPase activity (GO:0043547) indicating Rho-family GTPase\u2013mediated actin dynamics. Contexts like spermatid differentiation and placenta morphogenesis suggest broader morphogenetic roles, but the shared theme is cytoskeleton-driven movement. Confidence: Medium","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007289","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0061000","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0016477","count":3}]},{"hash":"401867861487170665","title":"Cardiovascular and Embryonic Morphogenesis","description":"The top GO terms are dominated by cardiac and embryonic development signals (e.g., ventricular cardiac muscle tissue morphogenesis, cardiac ventricle morphogenesis, in utero embryonic development) and vascular-related processes, suggesting this cluster centers on heart/vascular tissue formation during embryogenesis. Some terms touch unrelated areas (immune regulation, ovarian differentiation), but the strongest signal is cardiovascular morphogenesis and embryonic development.","confidence":"High","size":15,"edges":24,"triangles":17,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":9},{"id":"GO:0002930","count":7},{"id":"GO:0003146","count":7},{"id":"GO:0045085","count":7},{"id":"GO:0003208","count":7}]},{"hash":"589188954299152991","title":"Neuronal development and vesicle trafficking","description":"The top GO terms cluster around nervous system development, dendrite and dendritic spine formation, and neuronal migration, alongside intracellular vesicle transport between the ER-Golgi and endosomes. Small GTPase\u2013mediated signaling links trafficking regulation to cytoskeletal dynamics necessary for neurite outgrowth and migration. This combination points to a cohesive theme of neuronal development with active vesicle trafficking. ","confidence":"High","size":15,"edges":11,"triangles":0,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034629","count":4},{"id":"GO:0016358","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0022028","count":4},{"id":"GO:0006888","count":4}]},{"hash":"2267438450444876551","title":"Unknown","description":"The terms span neural signaling and synaptic/axon-related processes alongside metal ion homeostasis and unrelated structural processes, with no clear single function tying all proteins together. Therefore a cohesive, representative label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042699","count":2},{"id":"GO:1905945","count":1},{"id":"GO:0008203","count":1},{"id":"GO:0010288","count":1},{"id":"GO:0016199","count":1}]},{"hash":"1059501863891127481","title":"Unknown","description":"The GO terms span neural development, synaptic regulation, immune cell chemotaxis, signaling, and even a plant-specific catabolic process, with no clear single function tying all 15 proteins together. Because there is no coherent theme or strongest common pathway that unambiguously characterizes the cluster, a specific, representative label cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":14},{"id":"GO:0060041","count":14},{"id":"GO:0008283","count":14},{"id":"GO:1901652","count":13},{"id":"GO:0090198","count":13}]},{"hash":"1845254333425468538","title":"Plant Cell Wall Biosynthesis","description":"Top terms indicate a strong emphasis on plant-specific cell wall construction, notably glucuronoxylan biosynthesis and plant-type secondary cell wall biogenesis, pointing to proteins involved in polysaccharide synthesis for the cell wall. Some terms are obsolete or non-plant, suggesting noise, but the plant cell wall signal is dominant.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015014","count":2},{"id":"GO:0010417","count":2},{"id":"GO:0009834","count":2},{"id":"GO:0032800","count":1},{"id":"GO:0060177","count":1}]},{"hash":"2199687765447834502","title":"Ribosome Biogenesis and rRNA Maturation","description":"This cluster is dominated by GO terms for maturation of SSU/LSU rRNA and 5.8S rRNA, ribosomal large subunit biogenesis, and formation of translation preinitiation complex, pointing to a core role in ribosome assembly and RNA processing; other terms like mRNA splicing and cellular response to hypoxia are present but secondary.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000466","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0000462","count":5},{"id":"GO:0071456","count":5}]},{"hash":"916456791461131738","title":"Neural Signaling and Synapse Organization","description":"This cluster shows enrichment for neural-related processes: visual learning, synapse organization, ERK signaling, Rho signaling, and Hedgehog/PI3K pathways, indicating a core theme of neuronal communication and development. Some terms also touch on heart development and immune functions (defense against bacteria, complement activation, macrophage regulation), but the dominant signal is signaling cascades and synaptic organization, justifying a neural signaling-focused label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008542","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0042742","count":3}]},{"hash":"696550334917880261","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":70,"triangles":163,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":11},{"id":"GO:0000398","count":10},{"id":"GO:0034476","count":9},{"id":"GO:0000463","count":9}]},{"hash":"2054359290022858869","title":"Embryonic organogenesis and morphogenesis","description":"The frequent GO terms are all related to embryonic development and morphogenesis across multiple organs (heart, eye, placenta, cranial skeleton, habenula, pituitary, etc.), suggesting these proteins participate in broad developmental programs rather than a single tissue-specific function.","confidence":"High","size":15,"edges":62,"triangles":72,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000288","count":6},{"id":"GO:0003148","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0060527","count":6},{"id":"GO:0001890","count":6}]},{"hash":"1735998284945872306","title":"ER-Golgi vesicle transport","description":"This cluster is dominated by terms for vesicle trafficking between the endoplasmic reticulum and the Golgi (ER\u2013Golgi transport and Golgi-to-ER retrograde transport). The presence of regulatory terms such as positive regulation of GTPase activity and TORC1 signaling suggests control of the secretory pathway, with additional cell division and development terms indicating broader cellular roles.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0038202","count":2}]},{"hash":"1335592243432335543","title":"Eye Development and Embryonic Morphogenesis","description":"The most represented terms are retina/camera-type eye development and embryonic eye morphogenesis, indicating a focus on ocular development. Additional terms cover organ morphogenesis (lung and ureteric bud branching) and left-right patterning, suggesting a broader role in embryonic development and pattern formation, with transcriptional regulation as a shared mechanism.","confidence":"Medium","size":15,"edges":95,"triangles":338,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":8},{"id":"GO:0002087","count":7},{"id":"GO:0002076","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0043010","count":5}]},{"hash":"1002962724910300610","title":"Organ and neural morphogenesis","description":"The proteins cluster around developmental and morphogenesis processes across multiple tissues\u2014organ induction, osteoblast and inner ear morphogenesis, cerebral cortex regionalization, and neuron migration\u2014suggesting a shared role in shaping tissues and neural structures; occasional cell adhesion and immune-regulation terms likely reflect ancillary roles in tissue organization. Confidence: High.","confidence":"","size":15,"edges":14,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0002076","count":2},{"id":"GO:0060133","count":2},{"id":"GO:0021796","count":2}]},{"hash":"1048583905483140031","title":"Mitochondrial Metabolite Transport and Energy Metabolism","description":"The cluster centers on mitochondrial transport and energy-related processes: transport of NAD, phosphate, thiosulfate, and pyridoxal phosphate across membranes, the malate-aspartate shuttle, iron import into mitochondria, and adaptive thermogenesis, all indicative of mitochondrial metabolite handling and energy production. Obsolete terms and a necroptosis regulator hint at broader mitochondrial stress contexts but do not override the core theme.","confidence":"High","size":15,"edges":16,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":4},{"id":"GO:0043490","count":3},{"id":"GO:0060546","count":3},{"id":"GO:1990845","count":3},{"id":"GO:0035352","count":3}]},{"hash":"1480563573836421655","title":"Innate Antiviral Immune Signaling","description":"The cluster centers on innate immune response and defense against virus, with cytokine-mediated signaling and NF-kappaB-related pathways, plus autophagy and ubiquitin-dependent proteolysis that commonly intersect antiviral responses. Some RNA processing and gene-silencing terms suggest regulatory layers in immune gene expression, but the dominant theme remains innate antiviral signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0031047","count":3}]},{"hash":"258003472525924249","title":"Neuronal adhesion and axon guidance","description":"This cluster is dominated by GO terms for cell adhesion (heterophilic and homophilic), axon guidance, axonal fasciculation, neuron migration, synapse assembly, and nervous system development, indicating a cohesive role in neural connectivity and development through adhesion molecules and pathfinding. The occasional muscle-related term is likely due to shared cytoskeletal processes, but the neural terms prevail.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0007156","count":6},{"id":"GO:0045214","count":6},{"id":"GO:0033564","count":6},{"id":"GO:0048671","count":6}]},{"hash":"1487341639316776163","title":"Nuclear import and pore assembly","description":"The cluster is dominated by GO terms for proteins imported into the nucleus (NLS-bearing proteins, ribosomal protein import) and nuclear pore complex assembly, with additional nuclear regulatory roles (desumoylation and transcription regulation), indicating a cohesive nucleocytoplasmic transport theme.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060188","count":8},{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0000060","count":8},{"id":"GO:0006610","count":8}]},{"hash":"29742666532868436","title":"Ubiquitination and proteasome regulation","description":"The cluster is anchored by protein ubiquitination and proteasome regulatory particle assembly, indicating a core role in protein turnover and proteostasis. Other terms reflect related stress response and metabolic remodeling, but ubiquitin\u2013proteasome pathways dominate, justifying a proteostasis-focused label.","confidence":"High","size":15,"edges":28,"triangles":5,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":14},{"id":"GO:0071260","count":13},{"id":"GO:0033280","count":13},{"id":"GO:0000083","count":13},{"id":"GO:2001275","count":13}]},{"hash":"2029834876894677181","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0030900","count":3}]},{"hash":"2032773457324599589","title":"Lipid and aromatic compound metabolism","description":"The top GO terms point to lipid metabolism (phospholipid dephosphorylation, triglyceride catabolic, PHB biosynthesis) and aromatic/secondary metabolism (stilbene catabolic, 3-phenylpropionate catabolic, antibiotic biosynthetic), along with epoxygenase P450 pathway and detoxification. This suggests the cluster groups proteins involved in diverse metabolic processing of lipids and aromatic compounds, with some detox-related activity. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":5},{"id":"GO:0097755","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0042619","count":5}]},{"hash":"1698885613161315373","title":"Neuro-immune signaling and development","description":"The set includes signaling cascades such as calcium-mediated signaling, PI3K/AKT activation, growth factor receptor pathways (VEGF/PDGF), hormonal responsiveness (FSH), and cytokine production in immune cells, along with optic nerve morphogenesis and apoptotic signaling. This suggests a theme of interconnected signaling pathways governing neural development and immune cell communication.","confidence":"Medium","size":15,"edges":21,"triangles":8,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050850","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0021631","count":8},{"id":"GO:0002371","count":8},{"id":"GO:0071550","count":8}]},{"hash":"1515714342522979806","title":"Neuronal vesicle trafficking and signaling","description":"This cluster centers on synaptic vesicle exocytosis regulation, endosome-to-Golgi transport, and nerve branching, with additional dopamine signaling terms, suggesting a cohesive theme around neuronal vesicle trafficking and signaling. Some terms (immune response, yeast mating projection) appear tangential, but the dominant pattern supports the label.","confidence":"Medium","size":15,"edges":88,"triangles":266,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0090324","count":5},{"id":"GO:0035023","count":4}]},{"hash":"181499951545613264","title":"Unknown","description":"The top GO terms cover a broad mix of signaling and stress responses (regulation of Rho signaling; cellular response to fluid shear stress; prepulse inhibition), development (type B pancreatic cell development; epithelial-to-mesenchymal transition in endocardial cushion formation), immune response (response to muramyl dipeptide) and DNA repair, plus a neuronal/synaptic term (skeletal muscle acetylcholine-gated channel clustering). There is no single coherent function linking these terms, and the proteins appear functionally diverse, so a concise, unified label is not supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0000012","count":2},{"id":"GO:0071498","count":2},{"id":"GO:0032495","count":2}]},{"hash":"1877535633540499017","title":"Actin-driven cytoskeleton remodeling and migration","description":"The GO terms point to actin cytoskeleton dynamics (actin branching, ruffle and podosome assembly) and processes related to cell adhesion, spreading, and fibroblast migration, along with membrane remodeling activities (endocytosis and vesicle exocytosis regulation) and GTPase activity control. This suggests a cohesive module of proteins coordinating actin-driven remodeling to enable cell movement and associated membrane trafficking. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034260","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0097178","count":5},{"id":"GO:0071803","count":4},{"id":"GO:0090135","count":4}]},{"hash":"1167338174646217758","title":"Unknown","description":"The GO terms are highly diverse, with several negative-regulation terms (blood vessel remodeling, cellular extravasation, neutrophil degranulation, podosome assembly) plus diverse processes (GTPase activation, myelination in the PNS, mitotic spindle assembly, morphogenesis). This lack of a single cohesive function makes it hard to assign a specific, representative label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0090630","count":2},{"id":"GO:1900169","count":2}]},{"hash":"2164962228299113406","title":"Unknown","description":"This cluster's GO terms cover disparate areas: cell cycle (G1/S transition, DNA replication), development (lung, Schwann cell development, pseudohyphal growth, dendrite morphogenesis), signaling (calcineurin-NFAT), neuronal signaling (excitatory postsynaptic potential) and even drug response (cocaine). The terms do not converge on a single coherent function or pathway, and there are no edges connecting members, so I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0051531","count":2}]},{"hash":"176570193035892379","title":"Glutamatergic Synaptic Signaling","description":"The strongest signals are neuronal: glutamatergic synaptic transmission, excitatory postsynaptic potential, and regulation of short-term synaptic plasticity, with supporting cues from morphine response. While some terms touch on non-neuronal processes (glycoprotein turnover, glycosylation, embryonic development, immune differentiation), the core theme centers on glutamatergic neuronal communication and synaptic modulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045987","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0033089","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1647796454648299666","title":"TLR-Driven Innate Immune Response","description":"Proteins here are enriched for innate immunity and Toll-like receptor signaling (TLR3/9), with responses to dsRNA and defenses against viruses and Gram-negative bacteria. Ubiquitin-dependent degradation and autoubiquitination imply regulation of signaling components. The muscle- and mechanical-stimulus terms may reflect context rather than core function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0035914","count":4},{"id":"GO:0051865","count":3}]},{"hash":"1095134469056160876","title":"Embryonic Development and Morphogenesis","description":"This cluster's top GO terms center on left/right pattern formation, mesoderm and cartilage morphogenesis, endocardial cushion EMT, placenta-related development, pancreatic beta cell development, hair follicle morphogenesis, and palate roof formation. The recurring theme is embryonic tissue patterning and organ morphogenesis across multiple lineages, indicating proteins function in developmental processes rather than a single pathway.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0060707","count":8}]},{"hash":"1101295064790957770","title":"Unknown","description":"The terms span signaling (cellular response to cAMP), mitochondrial fission, RNA splicing, muscle contraction regulation, and several distinct amino acid/carnitine transport processes, with no single theme tying them together. With no edges linking the proteins, there is no cohesive functional module to name beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0045988","count":2},{"id":"GO:0097639","count":1}]},{"hash":"1429505157531191969","title":"Propionate/Acyl-CoA metabolism and stress responses","description":"The top GO terms point to acyl-CoA and propionate metabolic processes, along with responses to starvation and xenobiotics, suggesting a metabolic-state and stress-response module. While there are also signaling-related terms (cGMP, receptor guanylyl cyclase) and a smell-related term, these appear secondary to the core metabolic/stress theme rather than defining a single coherent pathway.","confidence":"Medium","size":14,"edges":25,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":3},{"id":"GO:0009405","count":3},{"id":"GO:0006637","count":2},{"id":"GO:0019678","count":2},{"id":"GO:0019652","count":2}]},{"hash":"1194194796193204287","title":"Diverse cell differentiation programs","description":"The cluster shows a mix of tissue-specific cell fate commitments and developmental terms across several organ systems, anchored by transcriptional activity, suggesting a broad program of cell differentiation rather than a single, unified function.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0061382","count":8},{"id":"GO:0021750","count":8},{"id":"GO:0003326","count":8},{"id":"GO:0003329","count":8}]},{"hash":"1351656757806685333","title":"Unknown","description":"The top GO terms are a mix of lipid metabolism (epoxygenase P450 pathway), phospholipid dephosphorylation, various catabolic processes, actin cytoskeleton regulation, ATP response, and calcium homeostasis, showing no single clear theme. This suggests diverse or miscellaneous roles rather than a cohesive function for the cluster.","confidence":"","size":14,"edges":18,"triangles":4,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0016311","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0046839","count":1},{"id":"GO:0005975","count":1}]},{"hash":"1941026336019719681","title":"Unknown","description":"This cluster's terms span mitochondrial complex IV assembly, tubulin/tubulin complex assembly, DNA replication, developmental processes, and various stress responses, with no single cohesive function. The terms are too diverse to define a clear, common theme.","confidence":"","size":14,"edges":17,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":3},{"id":"GO:0006626","count":2},{"id":"GO:0007021","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0001707","count":1}]},{"hash":"1917498987775996491","title":"Embryonic patterning and organ morphogenesis","description":"The terms point to embryonic patterning and tissue morphogenesis across several lineages (left/right patterning, cartilage morphogenesis, mesoderm development, hair follicle morphogenesis, placenta and pancreas development). The presence of an mRNA splicing term is incidental; the dominant signal reflects developmental differentiation and tissue structuring. Thus, the cluster likely represents proteins involved in embryonic development and organ morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0060972","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060707","count":9}]},{"hash":"1793041245187994901","title":"Autophagy and ubiquitin-like protein modification","description":"The top terms point strongly to autophagy processes (macroautophagy, mitophagy, nucleophagy) alongside several protein modification pathways (sumoylation, deubiquitination, urmylation). The connection to nutrient-stress responses in yeast (pseudohyphal growth regulation, thiamine biosynthesis) supports a coordinated module where autophagy intersects with protein quality control and post-translational modification. This makes a coherent, specific label: autophagy coupled with ubiquitin-like modification.","confidence":"High","size":14,"edges":81,"triangles":264,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":6},{"id":"GO:0016579","count":5},{"id":"GO:0009228","count":5},{"id":"GO:0044805","count":5},{"id":"GO:0006501","count":5}]},{"hash":"1570098198995417240","title":"Diverse tissue differentiation and development","description":"The top GO terms point to a broad set of differentiation and development processes across multiple tissues (osteoblasts, astrocytes, pancreatic islet cells, stomatal complexes, metanephric mesenchyme, Malpighian tubules, vestibular nucleus). Several terms emphasize negative regulation of differentiation or signaling pathways, suggesting these proteins act as general regulators of cell fate specification rather than a single, cohesive pathway. The diversity across tissues implies a broad developmental regulatory theme rather than a specific pathway.","confidence":"Medium","size":14,"edges":59,"triangles":166,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":7},{"id":"GO:0045668","count":7},{"id":"GO:0048712","count":7},{"id":"GO:2001038","count":7},{"id":"GO:0061382","count":6}]},{"hash":"708338456445347694","title":"DNA Transposition and Proviral Integration","description":"The cluster\u2019s top GO terms center on DNA transposition, retrotransposition, DNA integration, and proviral latency, indicating a shared function in mobile genetic element activity and genome integration. Some terms like retina vasculature development and magnesium response appear incidental, but the predominant theme is genome mobility and proviral integration.","confidence":"High","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0075713","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0075732","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0039651","count":5}]},{"hash":"281216948501617077","title":"Mitotic spindle dynamics and cytokinesis","description":"The top terms are dominated by mitosis- and microtubule-related processes: cell division, cell cycle, cytoplasmic microtubule organization, mitotic spindle pole body duplication, spindle midzone assembly, and cytokinesis, indicating a cohesive theme around spindle dynamics and division. A few terms like neuron migration and IL-4 response appear but are likely indirect or off-target associations; they do not override the central mitotic signature. Confidence in this label is High.","confidence":"","size":14,"edges":48,"triangles":83,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0007049","count":8},{"id":"GO:0001764","count":7},{"id":"GO:1903087","count":7},{"id":"GO:0051258","count":7}]},{"hash":"1439595598307442961","title":"Bacterial cell wall biosynthesis and antibiotic response","description":"The cluster shows enrichment for envelope-related processes: lipopolysaccharide biosynthesis, peptidoglycan biosynthesis, and other cell wall- and membrane-associated biosynthetic activities, as well as response to antibiotics. These together suggest a cohesive module involved in cell wall assembly and antimicrobial adaptation, with a few unrelated annotations (e.g., kinetochore localization, GTPase regulation) that appear as secondary or cross-annotated signals.","confidence":"Medium","size":14,"edges":89,"triangles":341,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0000902","count":4},{"id":"GO:0034501","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1430810962770668522","title":"Neural signaling and sensory perception","description":"The terms cluster around dopaminergic synaptic transmission, visual perception/learning, and behavioral responses (e.g., to cocaine), all of which point to neural signaling and sensory processing. ERK1/2 cascade regulation and responses to peptides/prostaglandins suggest shared signaling pathways that modulate neural activity and behavior. While terms like macrophage chemotaxis and heart development are less central, they can reflect overlapping signaling networks, reinforcing the broader theme of signaling in neural contexts. ","confidence":"Medium","size":14,"edges":25,"triangles":9,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001963","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0008542","count":13},{"id":"GO:0010759","count":13}]},{"hash":"847490361304221259","title":"Neuronal development, axon patterning, and synaptic signaling","description":"This cluster is dominated by GO terms tied to neuronal morphogenesis and connectivity, including optic nerve morphogenesis, dendrite self-avoidance, protein localization to axon regions, and long-term synaptic plasticity, alongside neuron-specific receptor tyrosine kinase signaling and proliferation during development. Together these suggest a cohesive theme around neuronal development, axon-dendrite organization, and synaptic regulation.","confidence":"High","size":14,"edges":86,"triangles":310,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902771","count":11},{"id":"GO:0007169","count":11},{"id":"GO:0007156","count":11},{"id":"GO:0048170","count":11},{"id":"GO:0071206","count":11}]},{"hash":"1313760398978834938","title":"Neuronal Synaptic Signaling and Ion Channel Regulation","description":"Based on the terms, the proteins cluster around neural communication: GABA signaling (inhibitory), excitatory/inhibitory postsynaptic potentials, and various ion transport across membranes (Na+, K+, Ca2+), which underpin synaptic signaling and neuronal excitability. Behavioral terms like conditioned taste aversion, locomotory behavior, startle response, and circadian sleep/wake cycle regulation suggest these proteins participate in neural circuits linking sensory cues to motor outputs and sleep regulation. Overall, the cluster seems to represent neuronal signaling and ion-channel\u2013mediated regulation of behavior.","confidence":"High","size":14,"edges":77,"triangles":225,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":13},{"id":"GO:0007214","count":13},{"id":"GO:0035725","count":12},{"id":"GO:0007626","count":12},{"id":"GO:0060079","count":12}]},{"hash":"1567708089249865182","title":"Inhibitory Synaptic Transmission and Circadian Regulation","description":"The terms point mainly to neural signaling and modulation: several items relate to inhibition of nerve impulse transmission and inhibitory postsynaptic potentials, plus synaptic transmission involved in micturition, locomotory behavior, and regulation of circadian sleep/wake cycles. While a couple terms touch on vesicle trafficking or exocytosis elsewhere (e.g., acrosome reaction), the dominant theme is neural inhibition and circuit-level regulation of behavior and rhythms. ","confidence":"Medium","size":14,"edges":23,"triangles":13,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006465","count":1},{"id":"GO:0045047","count":1},{"id":"GO:0060080","count":1},{"id":"GO:0060084","count":1}]},{"hash":"1854953931303945915","title":"Dopamine signaling and neural amino acid transport","description":"The terms point mainly to neural function: dopamine catabolism and uptake, regulation of synaptic transmission (glycinergic), and transport of amino acids such as proline, leucine, and taurine, plus perineurial glial growth, suggesting a theme centered on neurotransmission and neural metabolite handling. Some terms (proteolysis, transcription antitermination) are less directly related, so the core label emphasizes neural signaling and amino acid transport rather than a broader, unrelated set. ","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048496","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0042420","count":2},{"id":"GO:0015824","count":2}]},{"hash":"597338835354321358","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061668","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0071030","count":1},{"id":"GO:0000460","count":1},{"id":"GO:0071039","count":1}]},{"hash":"2221387466063928047","title":"Mitotic Cell Cycle Regulation","description":"The top GO terms point to mitosis and cell cycle control, including G1/S and G2/M transitions, re-entry into mitosis, spindle pole separation, and kinetochore localization, plus CDK activity regulation and chromosome-associated transcription. This combination indicates a coherent cluster of proteins coordinating mitotic entry, progression, and chromosome dynamics, with some proliferation-related signals.","confidence":"High","size":14,"edges":56,"triangles":96,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":9},{"id":"GO:0045736","count":9},{"id":"GO:0000086","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0000082","count":8}]},{"hash":"1073344793616488950","title":"Vertebrate neural and craniofacial development","description":"This cluster's GO terms cluster around vertebrate brain and sensory organ development (midbrain, cerebellum, visual perception) and craniofacial/musculoskeletal formation (roof of mouth development, cartilage, skeletal muscle development, embryonic digit morphogenesis). The mix suggests a broader developmental program coordinating neural and craniofacial tissue formation during embryogenesis, with transcriptional regulation as a governing layer.","confidence":"Medium","size":14,"edges":18,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0060021","count":3}]},{"hash":"547609325249076606","title":"Unknown","description":"The top GO terms are highly diverse, spanning pain response, development, transcription, chromatin dynamics, ncRNA silencing, and signaling pathways, with several obsolete terms, indicating no single cohesive function ties the proteins together. The absence of edges and lack of a unifying biological process support labeling this cluster Unknown. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0006348","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0048510","count":1}]},{"hash":"289138602452280497","title":"Neural development and DNA damage signaling","description":"The cluster notably features brain development terms (cerebellum development, embryonic cranial skeleton morphogenesis, negative regulation of neuron maturation) alongside stress and genome integrity terms (regulation of signal transduction by p53 class mediator, cellular response to ionizing radiation, DNA replication). This combination implies proteins that participate in neural development while also engaging DNA damage response or stress signaling pathways. While some terms reflect broader signaling roles (GPCR desensitization, regulation of protein stability, glucose response), the neural-development and p53/DNA damage terms are the most representative. ","confidence":"Medium","size":14,"edges":37,"triangles":36,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0048701","count":13},{"id":"GO:0021549","count":13},{"id":"GO:0071333","count":13},{"id":"GO:0031647","count":13}]},{"hash":"1151206381678789060","title":"Unknown","description":"The top GO terms are a mix of retina/eye development and photoreceptor differentiation along with various general cellular signaling, trafficking, and immune-related processes. There is no single cohesive function linking these terms, making a specific, representative label inappropriate.","confidence":"","size":14,"edges":25,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":1},{"id":"GO:0060219","count":1},{"id":"GO:0046813","count":1},{"id":"GO:0045747","count":1},{"id":"GO:2001046","count":1}]},{"hash":"585802839732410158","title":"Neural synaptic plasticity and apoptosis regulation","description":"This cluster shows strong enrichment for synaptic and plasticity-related GO terms (long-term potentiation, glutamatergic transmission, regulation of synaptic plasticity) alongside apoptotic processes and glial apoptosis regulation, suggesting a core theme around neuronal signaling and survival. Additional terms related to neurogenesis and Rho signaling point to broader neural development and cytoskeletal regulation.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0022008","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0009738","count":6},{"id":"GO:0035249","count":6}]},{"hash":"2222330192781904331","title":"Mitochondrial translation and respiratory chain assembly","description":"The cluster is dominated by mitochondrial functions (mitochondrial translation, proton motive force-driven ATP synthesis, cristae formation, and complex I assembly), indicating a cohesive theme of mitochondrial energy production and membrane organization; a few terms such as brain development, apoptosis, and motility appear peripheral.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":2},{"id":"GO:0015986","count":2},{"id":"GO:0099132","count":2},{"id":"GO:0097588","count":1},{"id":"GO:0006915","count":1}]},{"hash":"636960905599455266","title":"Embryonic neurodevelopment with ER stress and apoptosis","description":"The cluster is dominated by embryonic/neurodevelopment terms (cerebral cortex development, in utero embryonic development) alongside apoptosis, ER stress response, and ER-to-Golgi transport, suggesting a group of proteins involved in early neural development with concurrent cellular stress management and regulated cell fate. The presence of cell cycle/division terms also aligns with proliferative developmental processes, supporting a cohesive developmental/stress-response theme.","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1477694375510831972","title":"Integrin-mediated leukocyte adhesion and migration","description":"The GO terms are dominated by integrin signaling, cell adhesion, extravasation, and immune cell movement (neutrophil chemotaxis, T cell activation, substrate-dependent migration, and cell spreading), indicating a cohesive cluster of proteins coordinating endothelial adhesion, transmigration, and leukocyte activation. Some outliers (e.g., endodermal differentiation) exist, but the strongest signal is leukocyte adhesion/migration via integrins.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0035987","count":3},{"id":"GO:0034113","count":3},{"id":"GO:0045123","count":3},{"id":"GO:0002291","count":3}]},{"hash":"2108139330598494715","title":"Developmental signaling and transcriptional regulation","description":"The dominant terms point to developmental signaling (TGF-beta response; spinal cord and multicellular organism development) as a unifying theme, with additional GO terms highlighting gene expression control (splicing, transcription factor localization) and protein quality control (ubiquitination, ER-stress\u2013related apoptosis) that often accompany development. This suggests a cluster centered on developmental signaling and its transcriptional regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0021510","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0000278","count":1}]},{"hash":"30277726328472529","title":"Neural progenitor proliferation and cortex development","description":"The terms emphasize brain development (cerebral cortex development), proliferation and cell-cycle control (mitotic cell cycle, cell population proliferation), transcriptional regulation (DNA-templated transcription, regulation of DNA-templated transcription), and epigenetic regulation (histone deacetylation). The presence of apoptotic processes and xenobiotic response suggests signaling that coordinates growth, differentiation, and stress responses in neural progenitors. Together, these point to a cluster centered on neural progenitor growth and cortex formation through transcriptional and epigenetic control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0016575","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0021987","count":3}]},{"hash":"655523509049013493","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0034474","count":2},{"id":"GO:0070934","count":2}]},{"hash":"1165500914739803789","title":"Mitochondrial transport and energy metabolism","description":"The top GO terms cluster around transport of metabolites across mitochondrial membranes and associated energy metabolism (malate-aspartate shuttle, NAD transmembrane transport, phosphate/thiosulfate transport, iron import into mitochondrion, deoxynucleotide transport, pyridoxal phosphate transport). Some terms also point to metabolic-state contexts (adaptive thermogenesis) and tissue remodeling (liver regeneration), which complement a mitochondria-centered metabolic theme. ","confidence":"High","size":14,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043490","count":10},{"id":"GO:0060546","count":10},{"id":"GO:1990845","count":10},{"id":"GO:0035352","count":10},{"id":"GO:0031921","count":10}]},{"hash":"317603149501883027","title":"DNA damage response and cell cycle regulation","description":"The terms cluster around mitotic cell cycle, homologous recombination\u2013based DNA repair, ER-stress\u2013induced apoptotic signaling, and protein ubiquitination, which together suggest roles in DNA damage response and cell cycle control, with some secondary links to development and transcriptional regulation. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000724","count":2}]},{"hash":"1707727930481404090","title":"Kidney and Neural Development","description":"This cluster is driven by kidney-related morphogenesis terms (kidney development, mesonephric duct development, metanephric distal tubule morphogenesis) and neural development terms (neuron migration, spinal cord development), suggesting a shared theme of organogenesis with a neural development connection. Other terms are less central to the main theme, hence a cautious, development-focused label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0072177","count":1},{"id":"GO:0072287","count":1}]},{"hash":"2104987596965170382","title":"Unknown","description":"The top GO terms are highly diverse, spanning RNA processing, various developmental processes, metabolism, aging, and cellular responses, with no clear shared function or pathway tying all 14 proteins together. The graph has no edges, suggesting no cohesive interaction pattern. Therefore, this cluster cannot be reliably named after a common function.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048255","count":2},{"id":"GO:0000379","count":1},{"id":"GO:0006388","count":1},{"id":"GO:0045670","count":1},{"id":"GO:0001516","count":1}]},{"hash":"749015076478203224","title":"Neuronal signaling and synaptic plasticity","description":"This cluster is dominated by neural-related processes\u2014calcium transport, excitatory postsynaptic potentials, memory, photoreception, and peripheral myelination\u2014pointing to neuronal communication and plasticity; additional terms about cytoskeletal regulation and GTPase activity fit neuronal structure and synapse dynamics, while the cardiac myofibril assembly term likely reflects shared cytoskeletal components rather than a primary neural function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055003","count":3},{"id":"GO:0001975","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0006816","count":2},{"id":"GO:0050908","count":2}]},{"hash":"224411253810724685","title":"Membrane Solute Transporters","description":"The top GO terms point to transmembrane transport of a wide range of substrates (nitrate, nitrite, sodium ions, sugars like galactose, vitamins, fucose, aromatic compounds, xenobiotics, and antibiotics). This pattern indicates a cluster of membrane proteins whose shared function is transporting diverse solutes across the cell membrane, rather than catalyzing metabolic reactions. Therefore, labeling as Membrane Solute Transporters captures the common theme of transporter activity across substrates.","confidence":"High","size":13,"edges":14,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":5},{"id":"GO:0006855","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0015707","count":4},{"id":"GO:0035461","count":4}]},{"hash":"1991867906009731642","title":"RNA Splicing and Translational Regulation","description":"The top GO terms point to mRNA processing and control of translation, including spliceosome-mediated splicing, mRNA stability regulation under stress, polyadenylation regulation, and initiation/reinitiation of translation, plus regulatory ncRNA\u2013mediated gene silencing. This combination indicates a cluster centered on RNA processing and translational control mechanisms, with a possible incidental developmental term (blastocyst formation). Confidence: High","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0001731","count":4}]},{"hash":"1900856286967792485","title":"Steroid and Lipid Hormone Biosynthesis","description":"The cluster centers on biosynthesis and signaling of steroid- and lipid-derived hormones: brassinosteroid biosynthesis, ent-kaurene oxidation to kaurenoic acid (a diterpenoid precursor), oxylipin biosynthesis, epoxygenase P450 pathways, and cortisol biosynthesis. Supporting terms like sex differentiation and female genitalia development reflect hormone-regulated development, while vitamin D response also ties to steroid-like signaling. Retina vasculature development is a broader developmental term that may be linked via endocrine influence. Overall, the common theme is hormone-driven lipid signaling and related developmental processes across species.","confidence":"Medium","size":13,"edges":25,"triangles":20,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":8},{"id":"GO:0061298","count":8},{"id":"GO:0006641","count":8},{"id":"GO:0010241","count":8},{"id":"GO:0030540","count":8}]},{"hash":"84801364997925509","title":"DNA Repair and Isoprenoid Biosynthesis","description":"This cluster is enriched for DNA maintenance functions (DNA recombination, base-excision repair, DNA replication) alongside multiple terpenoid/isoprenoid biosynthetic processes (monoterpene, geranyl/geranylgeranyl diphosphate, quinone, farnesyl diphosphate biosynthesis) and xenobiotic response, suggesting simultaneous involvement in genome maintenance and isoprenoid metabolism or stress-related pathways.","confidence":"Medium","size":13,"edges":33,"triangles":24,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0006284","count":5},{"id":"GO:0007568","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0006260","count":3}]},{"hash":"578568157836845342","title":"Unknown","description":"The top terms are highly heterogeneous, spanning sebaceous gland differentiation, CNS myelin maintenance, sphingolipid metabolism (MIPC), general phosphorylation, antibiotic response, CoA biosynthesis, steroid metabolism (androgen, testosterone), mitochondrial inheritance, and nitrate assimilation. There is no single cohesive function or pathway that ties these together, suggesting the cluster is not functionally unified or may reflect annotation noise.","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":2},{"id":"GO:0032286","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1541106126221220477","title":"Neural signaling and sensory perception","description":"The majority of terms point to neuronal signaling and sensory functions (ERK cascade regulation, dopamine uptake in synaptic transmission, visual perception, locomotory behavior, and regulation of membrane potential), indicating a cluster tied to neural activity and sensory processing. A few outlier terms (e.g., cell proliferation, cell wall metabolism) are less representative.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0051586","count":7},{"id":"GO:0007601","count":6},{"id":"GO:0010513","count":6}]},{"hash":"2061465674206914284","title":"Neurodevelopmental Signaling Pathways","description":"The top GO terms cluster around neural and organ development (kidney and nervous system development, neuron fate determination) and include key signaling cascades (Roundabout/ROBO and Smoothened/SHH) that regulate cell fate and morphogenesis. Additional terms on protein localization, stability, and cytoskeletal-related assembly (melanosomes, podosomes) support a theme of signaling-driven differentiation and dynamic cellular architecture. Together, these suggest a functional grouping of proteins involved in developmental signaling with a neural emphasis.","confidence":"Medium","size":13,"edges":35,"triangles":31,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":12},{"id":"GO:0007399","count":12},{"id":"GO:0035385","count":12},{"id":"GO:0007224","count":12},{"id":"GO:0050852","count":12}]},{"hash":"144402041934123511","title":"Ribosome biogenesis and translation","description":"Cluster centers on ribosome biogenesis and translation, with support from RNA-modification processes (pseudouridine synthesis, snoRNP assembly) essential for mature ribosomes, while a few terms reflect incidental processes.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":8},{"id":"GO:0006412","count":8},{"id":"GO:0031120","count":4},{"id":"GO:0000185","count":4},{"id":"GO:0000492","count":4}]},{"hash":"105635202999813495","title":"Complement Activation, Coagulation, and ECM Remodeling","description":"Most frequent terms point to innate immune activation via complement pathways (lectin and classical), acute-phase response, and coagulation (Factor XII), with collagen catabolic activity and tissue remodeling indicating extracellular matrix remodeling. A few metabolic terms appear but do not dominate. Therefore, label centers on immune/coagulation signaling and tissue remodeling.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0006000","count":1},{"id":"GO:0046835","count":1}]},{"hash":"1017678174368920748","title":"Neural ECM remodeling and glycosylation","description":"This cluster is dominated by extracellular matrix turnover and neural-associated processes: hyaluronan catabolic process, chondroitin sulfate proteoglycan catabolic process, and astrocyte cell migration point to remodeling of the neural extracellular matrix. Additional terms for protein N-linked glycosylation and carbohydrate metabolic process suggest supportive biosynthetic/metabolic roles. Some terms reference neural sensory systems (rhodopsin biosynthetic process, sensory perception of sound) but still fit within a neural tissue context. Overall, the common theme is neural ECM remodeling.","confidence":"Medium","size":13,"edges":19,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0030214","count":2},{"id":"GO:0043615","count":2}]},{"hash":"815412731334257470","title":"Dopaminergic signaling and cocaine response","description":"Top GO terms center on nervous system signaling and sensory processing, notably dopaminergic synaptic transmission and visual and pain perception, with a strong signal for cocaine-related behavioral response. The ERK1/2 cascade and visual learning terms further support neural plasticity and reward pathway involvement. A few peripheral terms (immune/dsRNA responses) appear as outliers rather than defining the cluster\u2019s core function.","confidence":"High","size":13,"edges":60,"triangles":131,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0071333","count":8},{"id":"GO:0008542","count":8},{"id":"GO:0010759","count":8},{"id":"GO:0070374","count":8}]},{"hash":"1411416667991263789","title":"ECM Organization and Tissue Morphogenesis","description":"This cluster shows strong representation of extracellular matrix components and processes (collagen fibril organization, integrin biosynthetic process, cell adhesion molecule production) along with various tissue morphogenesis terms (eye, skin, oviduct). The dominant theme is ECM assembly/organization linked to morphogenesis, with auxiliary glycosylation and signaling terms supporting but not defining the core function.","confidence":"High","size":13,"edges":29,"triangles":32,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048593","count":2},{"id":"GO:0043589","count":2},{"id":"GO:0060049","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0035269","count":1}]},{"hash":"547099553419488533","title":"Developmental and Reproductive Growth Signaling","description":"This cluster shows GO terms spanning morphogenesis, blastocyst formation, ovarian follicle growth, kidney development, and sperm binding, suggesting a shared role in developmental and reproductive biology. Additional terms for cell adhesion, prostaglandin response, and cytokine production (IFN/IL-4) hint at regulatory interactions across tissues during development and reproduction. The functions point to a broad developmental/reproductive theme rather than a single, narrow pathway.","confidence":"Medium","size":13,"edges":48,"triangles":108,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035912","count":1},{"id":"GO:0007160","count":1},{"id":"GO:0034695","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0001825","count":1}]},{"hash":"1726181568148066302","title":"Ribosome Biogenesis and RNA Processing","description":"Based on the top GO terms, the dominant theme is RNA maturation and ribosome-related processes, including ribosome biogenesis, nucleolus organization, and maturation of rRNA, with supporting signals from tRNA wobble modification. While a few terms touch on DNA replication/repair or other processes, they are comparatively rare, making ribosome assembly and RNA processing the most coherent theme for this cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":1},{"id":"GO:0016226","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0045226","count":1},{"id":"GO:0007000","count":1}]},{"hash":"290614621725146315","title":"Synaptic vesicle trafficking and exocytosis","description":"Top GO terms cluster around SNARE-mediated vesicle fusion, exocytosis at both presynaptic and postsynaptic sites, and ER-Golgi transport and Golgi organization. This points to a cohesive module of proteins governing vesicle trafficking and exocytosis at the synapse, with direct relevance to excitatory transmission and synaptic plasticity (LTP). ","confidence":"High","size":13,"edges":26,"triangles":7,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0035493","count":6},{"id":"GO:0098967","count":6},{"id":"GO:0048280","count":6},{"id":"GO:0006888","count":5}]},{"hash":"1650800838013242915","title":"Rab-regulated endocytosis and recycling","description":"This cluster is best captured by terms related to vesicle trafficking: synaptic vesicle endocytosis, endocytic recycling, and regulation of Rab protein signal transduction, which together point to Rab-mediated endocytosis and recycling processes. While a few terms (insulin response, corneocyte development, apoptosis) are less central, the dominant pattern is membrane trafficking and Rab-regulated dynamics.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035745","count":1},{"id":"GO:0097194","count":1},{"id":"GO:1902041","count":1},{"id":"GO:0032869","count":1},{"id":"GO:0045175","count":1}]},{"hash":"1224987952786126900","title":"Mitotic and translation machinery with cytoskeleton dynamics","description":"The terms cluster around mitosis (mitotic cell cycle, spindle assembly, cell division) and core gene-expression processes (spliceosome-mediated splicing, translation initiation/reinitiation). TORC1 signaling and actin depolymerization with GTPase regulation reflect growth control and cytoskeletal remodeling tied to division, while neuron projection development suggests cytoskeletal roles in neurite growth. Together, these proteins seem to participate in proliferation-related machinery with cytoskeletal dynamics, justifying this label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0030042","count":4}]},{"hash":"690573929609087199","title":"Retroviral integration and proviral latency","description":"These terms cluster around retroviral/retroelement activities: DNA replication, recombination, integration, RNA-templated DNA synthesis, viral entry into the host nucleus, proviral latency, and retrotransposition, with an accompanying note on suppression of host RNAi pathways. Taken together, they point to a shared function in the retroviral/retroelement life cycle and genome integration into the host, i.e., proviral latency.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0075713","count":8},{"id":"GO:0046718","count":8},{"id":"GO:1903704","count":8},{"id":"GO:0006310","count":8}]},{"hash":"169691278072178531","title":"Unknown","description":"The terms span sensory detection, lipid catabolism, tissue differentiation (neural and cardiac), proteasome assembly, ubiquitination, and chemokine regulation, with no single dominant process linking all proteins. This diversity makes a cohesive, specific label unreliable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050960","count":4},{"id":"GO:0046475","count":4},{"id":"GO:1903444","count":4},{"id":"GO:0070682","count":4},{"id":"GO:1904908","count":4}]},{"hash":"1304239621102848359","title":"Neuronal development and dopamine signaling","description":"The terms cluster around neural development (axon extension, perineurial glial growth) and dopaminergic signaling (dopamine uptake and catabolism), with supporting hints from Rho-mediated cytoskeletal regulation and neural circuit functions (prepulse inhibition). This suggests a cohesive theme of neuronal development/remodeling coupled with dopamine-related signaling and glial involvement.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":2},{"id":"GO:0048675","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0010165","count":2},{"id":"GO:0042420","count":1}]},{"hash":"1403074633643310305","title":"Craniofacial and cartilage morphogenesis","description":"This cluster\u2019s top GO terms cluster around palate roof development, cartilage morphogenesis, mesoderm development, and left-right pattern formation, plus EMT in endocardial cushion formation, which together point to craniofacial and skeletal morphogenesis and patterning. Some terms about RNA processing appear incidental and do not define the main theme. The dominant signal is craniofacial cartilage and related morphogenesis, so this name is representative.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0031069","count":3},{"id":"GO:0007498","count":3},{"id":"GO:0060972","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1838511400971234232","title":"Membrane Transport of Nutrients and Xenobiotics","description":"The majority of top GO terms describe transmembrane transport for a wide range of substrates (nitrite, nitrate, sodium, galactose, fucose, vitamins, 4-hydroxyphenylacetate, xenobiotics), indicating this cluster is defined by membrane-transport activity rather than a single substrate. The diversity of substrates points to a general transporter function family.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0015707","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0015757","count":3}]},{"hash":"449179747320363778","title":"Rho/Rap and GPCR/Wnt Signaling Regulators","description":"These proteins are annotated with several GO terms about regulating signaling pathways, including Rho and Rap signaling as well as GPCR signaling and Wnt-related spindle positioning, plus some developmental contexts. The lack of internal connections (no edges) suggests this cluster reflects a broad set of regulatory proteins that influence multiple signaling pathways rather than a single cohesive pathway module.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0000335","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0021987","count":2}]},{"hash":"1972267962095374255","title":"Glutamatergic Synaptic Transmission and Plasticity","description":"Based on the top GO terms, the cluster is dominated by neuronal synaptic functions such as vesicle priming, glutamatergic transmission, and short-term synaptic plasticity, with supporting signaling routes (Rho/Ral) that drive cytoskeletal remodeling essential for synaptic changes. A few terms touch on morphine response, angiogenesis, and immune signaling, but these are secondary to the core neuronal signaling theme. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016082","count":2},{"id":"GO:0032485","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0048172","count":2}]},{"hash":"1905442142288256957","title":"Broad-Substrate Membrane Transporters","description":"GO terms indicate transmembrane transport across a wide range of substrates (xenobiotics, nitrite/nitrate, sugars, vitamins, sodium ions, fucose, and aromatic compounds). This pattern suggests a cluster of generalist membrane transport proteins with diverse substrate specificities rather than a single substrate-specific transporter or metabolic enzyme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1092841449033131734","title":"Multicellular Development and Differentiation","description":"This cluster centers on broad developmental processes, including multicellular organism development, nervous system development, and tissue-specific differentiation (osteoblasts, antennal tissue, heart morphogenesis), with transcriptional regulation features implied by GO terms. The varied but cohesive theme is developmental regulation rather than a single tight pathway, and the absence of strong interactions suggests a broad, representative category rather than a tightly connected module.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0070262","count":2}]},{"hash":"1018482617288760024","title":"Ubiquitination and Proteasomal Degradation","description":"The proteins are enriched for ubiquitination-related processes (polyubiquitination, ubiquitin-dependent degradation, SCF-dependent degradation, ERAD, autoubiquitination, and K63-linked ubiquitination) indicating a cohesive role in tagging proteins for proteasomal catabolism.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0016567","count":3}]},{"hash":"156815219678875565","title":"Embryonic heart morphogenesis","description":"Top terms cluster around heart and cardiac development, including cardiac chamber development, aortic valve morphogenesis, and pericardium morphogenesis, with other embryogenesis-related terms such as somitogenesis. This suggests the proteins function together in embryonic heart formation, though a few terms point to broader development contexts. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001756","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0003180","count":1},{"id":"GO:0003146","count":1},{"id":"GO:0042733","count":1}]},{"hash":"1318945012746046509","title":"Innate Immune Sensing and Inflammasome Signaling","description":"The cluster's top GO terms cluster around innate immune detection (diacyl lipopeptide detection and cellular response to diacyl lipopeptide), inflammasome assembly (NLRP3) and interferon production, with B cell proliferation as supportive immune activity; a few development-related terms appear, but the dominant signal is immune sensing and inflammatory signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060427","count":9},{"id":"GO:0060658","count":9},{"id":"GO:0007169","count":8},{"id":"GO:0042496","count":8},{"id":"GO:0034346","count":8}]},{"hash":"534900130172778648","title":"Multi-Organ Development","description":"The top GO terms cluster around development across multiple organs and nervous system structures (spinal cord, thalamus, dentate gyrus, heart, lung, kidney, pancreas) and related regulatory processes, with vitamin D response linked to developmental signaling, indicating a broad developmental theme rather than a single tissue-specific function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":2},{"id":"GO:0021794","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0071305","count":2},{"id":"GO:0021542","count":2}]},{"hash":"720601904550406607","title":"Proteolysis-related tissue remodeling","description":"Top GO terms are dominated by peptide/protein catabolism (neuropeptide and bradykinin), general proteolysis, and bone resorption, pointing to proteolytic activity driving tissue remodeling. Associated terms include decidualization and epithelial tube branching in lung morphogenesis, indicating developmental remodeling contexts. While a few terms touch immune cytotoxicity and hormone responses, the unifying thread is proteolysis- and remodeling-centric biology across reproductive, skeletal, and developmental settings. Therefore a concise label is Proteolysis-related tissue remodeling.","confidence":"Medium","size":12,"edges":50,"triangles":118,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":9},{"id":"GO:0060441","count":9},{"id":"GO:0051603","count":9},{"id":"GO:0045453","count":9},{"id":"GO:0035593","count":9}]},{"hash":"884568431380926765","title":"Heparan sulfate proteoglycan biosynthesis and modification","description":"The top GO terms concentrate on glycosaminoglycan production and remodeling, especially heparan/heparan sulfate proteoglycan biosynthesis, including enzymatic modification, and related dermatan sulfate and N-acetylglucosamine metabolism. This points to proteins involved in building and modifying extracellular matrix proteoglycans rather than disparate metabolic pathways, with some secondary mentions of xenobiotic or catecholamine metabolism. Overall, the strongest theme is HS proteoglycan biosynthesis and modification.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":3},{"id":"GO:0006584","count":3},{"id":"GO:0006044","count":3},{"id":"GO:0042403","count":3},{"id":"GO:0002002","count":3}]},{"hash":"472308154465096446","title":"Amino acid catabolism and TCA cycle","description":"The cluster\u2019s most represented functions are central metabolism-related: the tricarboxylic acid cycle and catabolic processes for amino acids such as alanine and kynurenine, which points to energy and amino acid turnover as the core theme. Some outlier terms (Notch signaling, female gonad development) and obsolete GO annotations appear, but they do not dominate the overall metabolic signal.","confidence":"Medium","size":12,"edges":44,"triangles":92,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006537","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0019878","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0097053","count":2}]},{"hash":"2257819640180231636","title":"mRNA splicing and translation regulation","description":"Based on the top GO terms, the proteins cluster around regulation of post-transcriptional mRNA processing and translation initiation: multiple entries focus on spliceosome-mediated regulation of mRNA splicing (including alternative splicing), polyadenylation and tail shortening, and assembly of the eIF4F complex, with some ncRNA-mediated gene silencing involved. This collection points to a cohesive role in controlling gene expression after transcription rather than at the transcriptional level.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0001825","count":3}]},{"hash":"1168328584048133168","title":"Brain and sensory organ development","description":"The cluster is dominated by GO terms related to neural and sensory structure formation, including brain development, cerebellum development, and cochlea morphogenesis, along with a term on neuron apoptotic regulation. While there are broader developmental terms (multicellular organism development, digit morphogenesis), the strongest signal centers on neural and sensory organ ontogeny.","confidence":"Medium","size":12,"edges":16,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":7},{"id":"GO:0001889","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0090103","count":7},{"id":"GO:0008584","count":6}]},{"hash":"1480314951024893871","title":"Diverse substrate transmembrane transport","description":"The top GO terms are all related to transporting a variety of substrates across membranes (xenobiotics, nitrite/nitrate, sugars like galactose and fucose, vitamins, sodium ions, and related compounds), suggesting the cluster represents a broad set of membrane transport proteins rather than a single pathway. One metabolic term (fucose metabolic process) is adjacent to these transport roles, but the dominant signal is transmembrane transport.","confidence":"High","size":12,"edges":29,"triangles":28,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0042891","count":1},{"id":"GO:0015757","count":1}]},{"hash":"2290282987323804986","title":"Chromatin assembly and transcription during cell division","description":"The top terms point to centromeric chromatin assembly (CENP-A), DNA-templated transcription and transcription elongation, and cell division, which together suggest a core function in chromatin organization and transcription regulation during mitosis. Additional terms related to microtubule dynamics and vesicle transport/chaperone-mediated assembly imply supportive roles in cell-cycle machinery and protein complex assembly. Overall, these proteins appear to coordinate chromatin maintenance and transcription control in cell division, with some peripheral links to trafficking and quality control processes.","confidence":"Medium","size":12,"edges":24,"triangles":18,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0032968","count":2}]},{"hash":"1594075631325452061","title":"Splicing and mRNA processing with translational regulation","description":"The cluster is dominated by GO terms for mRNA splicing via the spliceosome, regulation of polyadenylation, and regulation of translational initiation, plus components involved in assembling the eIF4F complex and ncRNA-mediated gene silencing. This points to a cohesive functional module coordinating RNA processing (splicing and polyadenylation) with control of translation initiation, rather than a single isolated process. Some terms appear development-related, but overall the dominant theme ties RNA maturation to translation regulation.","confidence":"High","size":12,"edges":60,"triangles":165,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0006378","count":8},{"id":"GO:1900363","count":7},{"id":"GO:0006446","count":7},{"id":"GO:0031047","count":7}]},{"hash":"553292614592156782","title":"Neuronal signaling and development","description":"This cluster is dominated by GO terms tied to neural processes: visual perception and learning, nervous system development, calcium-dependent exocytosis, and ERK signaling, all pointing to neuronal signaling and maturation. Potassium ion transport also relates to neuronal excitability, supporting a neuronal-centric theme, though a couple of terms (e.g., heart development) may reflect broader developmental roles or annotation overlap.","confidence":"Medium","size":12,"edges":57,"triangles":144,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0006813","count":5},{"id":"GO:0008542","count":5},{"id":"GO:0010759","count":5},{"id":"GO:0070374","count":5}]},{"hash":"1083328615228615378","title":"Ion Transport and Sensory Perception","description":"The top GO terms cluster around potassium ion transmembrane transport and membrane potential changes (hyperpolarization, repolarization) and sensory modalities such as touch and temperature detection, indicating a common theme of ion-channel\u2013mediated signaling and sensory transduction. Some developmental terms appear as secondary associations.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0060081","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0050976","count":6},{"id":"GO:0098914","count":6}]},{"hash":"1798103161098632475","title":"RNA Pol II transcription regulation","description":"This cluster centers on DNA-templated transcription by RNA polymerase II, including transcription elongation, preinitiation complex assembly, and regulation of transcriptional fidelity, with additional terms related to mRNA export from the nucleus. This points to a cohesive set of nuclear transcription regulatory proteins involved in initiation/elongation and RNA processing/export.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0001193","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0060303","count":2}]},{"hash":"1196967933169605929","title":"Neural development and synaptic signaling","description":"The terms cluster around neural development (CNS development, multicellular development, melanocyte migration via neural crest connections) and synaptic function (presynaptic membrane organization, GABA signaling, sensory perception). This points to a theme of neural development and neurotransmission, with broader developmental terms likely reflecting shared regulatory programs. Overall, a neural development and synaptic signaling cluster.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0097324","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0001661","count":2}]},{"hash":"882102811684537061","title":"Unknown","description":"The cluster's top GO terms cover unrelated processes including stem cell maintenance, androgen signaling, transcription initiation, immune signaling, reproduction, plant root development, and gas transport, with no shared pathway. The absence of edges and triangles further suggests a lack of functional coupling, so there is no coherent theme to assign a more specific name beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019827","count":1},{"id":"GO:0030521","count":1},{"id":"GO:0006367","count":1},{"id":"GO:2001199","count":1},{"id":"GO:0038095","count":1}]},{"hash":"1528526613739774917","title":"Stress-Response and Transcription Regulation","description":"This cluster centers on stress-related processes (response to lipopolysaccharide, response to cold) and transcriptional control (regulation of DNA-templated transcription, negative regulation of transcription by RNA polymerase II), with occasional links to apoptosis and protein turnover (proteasome regulatory particle assembly) and growth. The recurring theme is cellular stress signaling integrated with transcriptional regulation, rather than a single, cohesive pathway, supporting this label as a concise representative description.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0051573","count":3}]},{"hash":"1223638039410815510","title":"Mitochondrial Energy Metabolism and Inflammation","description":"This cluster centers on energy production and heat-related processes (electron transport chain, diet-induced thermogenesis, temperature response) but also includes signaling and immune-related terms (GPCR signaling, Rho pathway, inflammatory response, pain perception, chemokine regulation). The combination suggests proteins involved in coordinating metabolic energy with immune/stress signaling, rather than a single clear function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5}]},{"hash":"1432386711901172509","title":"Dendritic spine morphogenesis and synaptic remodeling","description":"Most top GO terms point to neural development and plasticity, including dendrite morphogenesis, dendritic spine morphogenesis, receptor clustering, and visual learning. Some terms about muscle activity and cell cycle may reflect common signaling pathways rather than a separate function, but the dominant theme is neuronal dendrite/spine development and synaptic organization.","confidence":"High","size":12,"edges":26,"triangles":19,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0031647","count":11},{"id":"GO:0060044","count":11},{"id":"GO:0014850","count":11},{"id":"GO:0000082","count":11},{"id":"GO:0051092","count":11}]},{"hash":"1992039541147894513","title":"Unknown","description":"The top GO terms are diverse (development: male gonad development and EMT in endocardial cushion formation) and include multiple, loosely related metabolic processes (spliceosome-mediated mRNA splicing; glycosaminoglycan, hormone, and ethanol metabolism; angiotensin regulation). There is no single shared function or pathway connecting all proteins, and there are no edges to support a cohesive cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0030210","count":1},{"id":"GO:0006584","count":1}]},{"hash":"170153056067787065","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"The shared GO terms point to mitotic progression (G2/M), SCF-dependent proteasomal degradation and K11-linked ubiquitination, and meiotic DNA double-strand break formation and repair, with a developmental context in embryogenesis. This suggests a cohesive role in regulating cell cycle transitions and DNA repair via ubiquitin-mediated proteolysis. ","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":12},{"id":"GO:0001701","count":12},{"id":"GO:0070979","count":12},{"id":"GO:0031146","count":12},{"id":"GO:0000086","count":12}]},{"hash":"410873403441501820","title":"Osteogenesis and cell adhesion cluster","description":"This cluster strongly centers on bone formation and osteoblast-related processes (bone trabecula formation; positive regulation of osteoblast differentiation) and includes adhesion-related terms (heterophilic cell-cell adhesion; cell-matrix adhesion), suggesting a cohesive role in skeletal development and extracellular matrix interactions. Additional terms like thyroid hormone generation, complement activation (lectin pathway), and Smoothened signaling appear peripheral but may reflect broader regulatory or tissue-specific contexts. Overall, the core theme is osteogenesis linked with cell adhesion, with some ancillary signals present.","confidence":"Medium","size":12,"edges":11,"triangles":5,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0006590","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0060346","count":6},{"id":"GO:0045669","count":6}]},{"hash":"837033796243765916","title":"RNA and Histone Methylation Machinery","description":"Based on the top GO terms, the cluster is enriched for methylation-related processes, including rRNA methylation, arginine methylation, glutamine methylation, and histone H4-R3 methylation. These point to enzymes (methyltransferases) modifying RNA and chromatin components, potentially linking to transcription regulation and cell cycle/growth. While there are a few metabolic terms (antibiotic biosynthesis, cobalamin biosynthesis), the strongest shared function is methyltransferase activity tied to RNA and histone modification, supporting a cohesive methylation-focused cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0019919","count":2},{"id":"GO:0043985","count":2}]},{"hash":"144014671827617020","title":"DNA Replication and Proteostasis","description":"The top terms point to genome maintenance activities (DNA replication, CENP-A chromatin assembly, mitotic checkpoint signaling) alongside protein quality control and stress responses (proteasome regulation/assembly, misfolded protein response, oxidative stress, and even peroxisomal import). This mix suggests a cluster centered on linking DNA replication/cell-cycle control with proteostasis and stress pathways. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0061641","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0031117","count":1}]},{"hash":"233492730369489972","title":"Organismal Development Across Tissues","description":"The terms indicate development in multiple organs (tooth, brain/forebrain, retina, gonad) and associated apoptotic processes, implying a broad, tissue-spanning developmental theme rather than a single function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042475","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0060041","count":2}]},{"hash":"786991020669473819","title":"Mitochondrial respiration and ion transport","description":"The top GO terms show strong enrichment for mitochondrial electron transport and ATP synthesis (NADH to ubiquinone, coupled respiration), which defines a core energy-metabolism module. Supported by ion-transport and pH-response terms, the cluster appears linked to mitochondrial energy production and ionic/homeostatic functions. Some terms (e.g., nylon catabolic process, larval turning behavior) may reflect misannotations but do not alter the main theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019876","count":2},{"id":"GO:0042773","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0050965","count":1},{"id":"GO:0035179","count":1}]},{"hash":"2113049591186247418","title":"Mitochondrial Metabolite Transport","description":"The top GO terms cluster around transport across membranes, especially into/out of mitochondria (malate-aspartate shuttle, NAD and iron import, various metabolite transports). This pattern suggests a cohesive group of mitochondrial transporter proteins and shuttle components involved in energy metabolism and cofactor handling.","confidence":"High","size":11,"edges":34,"triangles":56,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043490","count":2},{"id":"GO:0060546","count":2},{"id":"GO:1990845","count":2},{"id":"GO:0035352","count":2},{"id":"GO:0031921","count":2}]},{"hash":"635704193362994930","title":"Nuclear proteostasis and RNA transport","description":"The proteins are enriched for nuclear-centered processes: unfolded protein response and nuclear ubiquitin-proteasome\u2013mediated quality control, regulation of protein export from the nucleus, and tRNA import into the nucleus, with supporting links to DNA replication and protein complex oligomerization. This suggests a core theme of nuclear proteostasis and RNA trafficking, even though some developmental terms appear. ","confidence":"Medium","size":11,"edges":51,"triangles":131,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0001707","count":6},{"id":"GO:0006986","count":6},{"id":"GO:0071374","count":6},{"id":"GO:0006452","count":6}]},{"hash":"1729859148956696537","title":"Nucleolar ribosome biogenesis and chromatin remodeling","description":"This cluster shows strong enrichment for nucleolar/ribosome-related processes (assembly of large subunit preribosome, ribosome biogenesis, LSU-rRNA maturation) and chromatin-related functions (DNA-templated transcription, transcription regulation by RNA Pol II, chromatin remodeling, CENP-A chromatin assembly). The presence of TGF-beta signaling and osteoblast differentiation hints at broader regulatory roles, but the core theme is nuclear/nucleolar activities governing ribosome production and chromatin organization.","confidence":"High","size":11,"edges":13,"triangles":6,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0071560","count":3}]},{"hash":"92304874669013401","title":"Sex hormone biosynthesis and sexual development","description":"The cluster is dominated by GO terms for androgen metabolic process and testosterone biosynthetic process (6 annotations each), with supporting terms for sex differentiation and female genitalia development (4 each). This suggests a common theme of sex hormone production and sexual development. Additional terms related to lipid signaling and plant hormones (triglyceride metabolism, oxylipin biosynthesis, brassinosteroid biosynthesis, ent-kaurene oxidation) broaden the context to lipid-based pathways, but the strongest signal centers on sex hormone metabolism and differentiation.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":6},{"id":"GO:0061370","count":6},{"id":"GO:0033280","count":4},{"id":"GO:0061298","count":4},{"id":"GO:0006641","count":4}]},{"hash":"2020024632327293026","title":"Membrane Transporters: Ions and Sugars","description":"The cluster is driven by multiple transmembrane transport GO terms across diverse substrates (nitrite, nitrate, phosphate, several sugars) and an associated vesicular neurotransmitter loading term, pointing to a common function in membrane transport rather than a single substrate. This supports labeling as general membrane transporters handling ions and sugars.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0035435","count":3}]},{"hash":"1208013343651538317","title":"Translesion Synthesis and Nucleotide Excision Repair","description":"This cluster is driven by GO terms for both error-free and error-prone translesion synthesis and for nucleotide-excision repair/gap filling, pointing to DNA damage tolerance and repair functions. Regulatory phosphorylation/dephosphorylation terms reinforce the idea of controlled repair processes, while the other, less-connected terms (adenosine metabolism, mesoderm formation, proteoglycan biosynthesis) contribute little to the core theme.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070987","count":2},{"id":"GO:0042276","count":2},{"id":"GO:0006297","count":2},{"id":"GO:0016310","count":1},{"id":"GO:0006195","count":1}]},{"hash":"1190549995406232511","title":"Innate Immune Signaling and Inflammasome Activation","description":"The cluster is enriched for innate immune and inflammatory terms: detection and response to diacyl bacterial lipoproteptides, activation of cell surface receptor tyrosine kinase signaling, positive regulation of the NLRP3 inflammasome, interferon production, and B cell proliferation in immune response. While a few terms (axonogenesis, regulation of kinase activity, VEGF signaling) are broader or developmental, the core signals point to pathogen sensing and downstream inflammatory signaling. This suggests a cohesive functional theme around immune sensing and inflammasome-related pathways.","confidence":"High","size":11,"edges":18,"triangles":10,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0007190","count":6},{"id":"GO:1900747","count":5},{"id":"GO:0007169","count":4}]},{"hash":"502801631933694922","title":"DNA replication and damage repair","description":"Most terms center on DNA replication and DNA damage repair pathways (replication, recombination, NER, TC-NER, SOS response, translesion synthesis). The presence of CENP-A\u2013containing chromatin assembly supports chromatin maintenance during replication. A single outlier term (embryonic cranial skeleton morphogenesis) is minor, so the core theme remains DNA replication/repair.","confidence":"High","size":11,"edges":43,"triangles":84,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0006310","count":5},{"id":"GO:0019079","count":5},{"id":"GO:0006272","count":5},{"id":"GO:0070987","count":5}]},{"hash":"1266410241692877055","title":"Developmental Signaling and Organogenesis","description":"The top GO terms point to developmental and organogenesis processes, including heart development, mesoderm formation, axonogenesis, and visual perception, with supporting signaling/regulatory terms like negative regulation of protein kinase activity and activation of adenylate cyclase, plus transcription regulation. This suggests a theme of coordinated developmental signaling and neural- and organ-system differentiation, rather than a single narrow function. Some ancillary terms (DNA replication, unfolded protein response) may reflect broader cellular roles of these proteins during development or stress. ","confidence":"Medium","size":11,"edges":17,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0007601","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0007190","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1632147335528477601","title":"Neurovascular development and immune signaling","description":"The terms cluster around developmental processes, especially nervous system development and synapse assembly, plus vascular differentiation and adhesion, with supporting immune-related terms. This suggests proteins involved in coordinated neurovascular development with immune interactions, hence a neurovascular-development/immune-signaling theme.","confidence":"Medium","size":11,"edges":20,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0003273","count":3},{"id":"GO:0002455","count":3},{"id":"GO:1905065","count":3},{"id":"GO:0042102","count":3}]},{"hash":"851736232194658977","title":"Developmental and mitotic regulation","description":"The top GO terms point to embryonic and spinal cord development as well as regulation of mitosis, kinase activity, autophagy, and nuclear signaling, suggesting a cluster of proteins that broadly regulate development in concert with cell-cycle and stress-response pathways rather than a single, cohesive pathway. Confidence is moderate due to the diverse and sometimes disparate terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0021510","count":1},{"id":"GO:0043117","count":1},{"id":"GO:0043508","count":1},{"id":"GO:0034501","count":1}]},{"hash":"890268380515224375","title":"Neuronal signaling and plasticity","description":"The top GO terms cluster around neuronal communication and plasticity\u2014excitatory postsynaptic potential, calcium ion transport, long-term memory, and response to amphetamine\u2014along with phosphorylation/dephosphorylation and regulation of DNA binding, all of which point to synaptic signaling and activity-dependent gene regulation. A single term related to muscle regeneration may reflect protein multifunctionality rather than an alternative theme, so the core signal remains neuronal signaling and plasticity.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0006816","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0033234","count":2}]},{"hash":"964927872852346192","title":"Signaling and Stress Response Regulators","description":"This cluster shows enrichment in signaling-related terms (negative regulation of protein kinase activity; activation of adenylate cyclase), stress/quality-control (response to unfolded protein), and regulatory processes (nuclear export regulation, protein complex oligomerization), suggesting proteins that modulate signaling and stress responses with downstream effects on metabolism and transcription. Some annotations (DNA replication, mesoderm formation) appear more peripheral, indicating a broad rather than tightly cohesive theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0005980","count":4},{"id":"GO:0007190","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0001707","count":3}]},{"hash":"1857633180521083481","title":"Innate Immune Response and Cell Adhesion","description":"The proteins cluster around innate immune functions (innate immune response, defense against virus, vitamin D response) and cell\u2013cell adhesion (heterophilic and homophilic adhesion), suggesting a coherent theme of immune signaling at intercellular junctions with some developmental remodeling context. Confidence: Medium","confidence":"","size":11,"edges":20,"triangles":20,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0051965","count":3}]},{"hash":"2252966041112365870","title":"Chromatin assembly and histone modification regulation","description":"The set includes terms for CENP-A chromatin assembly, histone methylation regulation (H3-K27/K4), and transcriptional regulation by RNA polymerase II, pointing to a chromatin organization and gene-expression control theme. Some terms (defense response to Gram-positive bacteria, osteoblast differentiation) appear as outliers, suggesting additional roles or annotation noise.","confidence":"Medium","size":11,"edges":6,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0061641","count":5},{"id":"GO:0035093","count":5}]},{"hash":"1124581344661438877","title":"DNA Repair and Genome Maintenance","description":"The top GO terms are dominated by DNA recombination, DNA catabolic process, and base-excision repair, suggesting a core theme around genome integrity and DNA repair. Supporting terms like cellular response to hydrogen peroxide hint at a broader DNA-damage response, while several other terms (peptide hormone stimulus response, phosphatidylinositol dephosphorylation, corneocyte development, aging) appear more peripheral or context-dependent. Overall, the dominant signal is DNA repair/genome maintenance, with moderate, non-exclusive supporting associations, giving a Medium confidence label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0006308","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0006284","count":2},{"id":"GO:2000327","count":2}]},{"hash":"1046285160877105902","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around embryogenesis and tissue formation, including left/right pattern formation, cartilage morphogenesis, EMT in endocardial cushion formation, endocrine system development, placental and pancreatic cell development, indicating a coherent theme of embryonic development and organ morphogenesis. A couple of housekeeping terms (splicing and ribosome biogenesis) appear but are less representative of the main function. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0035270","count":7},{"id":"GO:0060707","count":7}]},{"hash":"1738075134277421247","title":"Neuronal signaling and development regulators","description":"The top GO terms cluster around neural development and signaling: cerebellum development, positive regulation of calcium-mediated signaling, desensitization of GPCR signaling, regulation of neuron maturation, and cellular responses to glucose\u2014together suggesting proteins involved in neuronal signaling and development. There are outlier terms like DNA replication and regulation of protein stability that may reflect multi-function annotations or broader cellular roles, so the label emphasizes the neural signaling/development theme while acknowledging some annotation noise.","confidence":"Medium","size":11,"edges":22,"triangles":10,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0021549","count":9},{"id":"GO:0071333","count":9},{"id":"GO:0031647","count":9},{"id":"GO:0050850","count":9}]},{"hash":"1878858398179699208","title":"GPCR-Mediated cAMP/cGMP Signaling","description":"The top GO terms point to G protein-coupled receptor signaling with activation of adenylate cyclase and production of cAMP, as well as receptor guanylyl cyclase signaling and cGMP biosynthesis. Terms like adenosine receptor signaling, forskolin response, and blue light signaling support a shared GPCR-second-messenger theme centered on cyclic nucleotide signaling. While a couple terms may reflect broader or context-specific roles, the core function appears to be GPCR-driven modulation of intracellular cAMP/cGMP levels.","confidence":"High","size":11,"edges":8,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0052565","count":11},{"id":"GO:0071880","count":11},{"id":"GO:1900194","count":11},{"id":"GO:0035556","count":11},{"id":"GO:0001973","count":11}]},{"hash":"1111762459858387794","title":"Transmembrane Na+/K+ Ion Transporters","description":"The top GO terms are dominated by potassium and sodium ion transmembrane transport, pointing to a cluster of membrane transporter proteins handling Na+/K+ flux. Other terms (morphine response, steroid biosynthesis, apoptosis, plant meristem, lipid signaling) appear peripheral, suggesting incidental or multifunctional annotations, but the core theme is ion transport across membranes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0017196","count":1},{"id":"GO:0006701","count":1}]},{"hash":"1696434266211299059","title":"Embryonic development and hematopoietic differentiation","description":"Top GO terms such as positive regulation of megakaryocyte differentiation, positive regulation of erythrocyte differentiation, in utero embryonic development, and cerebral cortex development suggest a common theme of developmental differentiation, particularly in hematopoietic and neural lineages. Although there are additional metabolic and chromatin-related terms, they do not define a single cohesive pathway; the prevailing signal is developmental specification, especially during embryogenesis and blood cell lineage formation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045654","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0035563","count":3},{"id":"GO:0051572","count":3}]},{"hash":"402517252676690745","title":"Developmental Morphogenesis and Tissue Remodeling","description":"The top GO terms span developmental patterning (axis specification, organ development), cell migration, tissue growth, and wound healing, suggesting a cluster of proteins involved in developmental morphogenesis and subsequent tissue remodeling rather than a single specific pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048632","count":4},{"id":"GO:0007313","count":3},{"id":"GO:0018996","count":3},{"id":"GO:0001657","count":2},{"id":"GO:0010763","count":2}]},{"hash":"207478613662930769","title":"Vesicle trafficking and protein transport","description":"Top GO terms cluster around intracellular transport along the secretory pathway: several entries describe vesicle-mediated transport between ER and Golgi, intra-Golgi trafficking, and endosome-to-vacuole sorting, as well as general protein transport and vesicle coating. Although a couple of items touch on snoRNP assembly or amino acid transport, the dominant signal is membrane trafficking and protein trafficking processes characteristic of the secretory pathway.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006891","count":1},{"id":"GO:0032511","count":1},{"id":"GO:0006901","count":1}]},{"hash":"207201817990449892","title":"Oxidative detox and innate immune response","description":"The enriched GO terms cluster around detoxification of oxidants and xenobiotics (cellular oxidant detoxification, xenobiotic catabolic process) together with innate immune signaling (response to LPS, NF-kappaB regulation, nitric oxide production) and myeloid development cues. While a couple terms touch on hypoxia or heart development, the dominant theme is oxidative/xenobiotic handling coupled with inflammatory signaling in immune-related contexts, justifying a label focused on detox and innate immunity.","confidence":"High","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0035726","count":3},{"id":"GO:0043124","count":3},{"id":"GO:0071638","count":3}]},{"hash":"796018459195118046","title":"Cross-tissue development and differentiation","description":"The proteins show several differentiation-related GO terms across different tissues (oligodendrocyte differentiation, cerebellar granule cell differentiation, brown fat cell differentiation, and cardiac right atrium morphogenesis), suggesting a broad developmental role rather than a single pathway. Additional terms (ubiquitination, proteasome assembly, and cell-cycle regulation) point to general cellular regulation that underpins differentiation. This mix supports a label describing a broad developmental theme spanning multiple tissues rather than a precise function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0050960","count":4},{"id":"GO:0046475","count":4},{"id":"GO:1903444","count":4},{"id":"GO:0070682","count":4},{"id":"GO:1904908","count":4}]},{"hash":"639774373375362764","title":"DNA replication and chromosome maintenance","description":"This cluster centers on processes involved in genome replication and stability, including DNA replication, telomere maintenance, chromatin condensation around rDNA, cohesin-related loading, and repair of replication-associated DNA breaks. A couple of terms (innate immune response) are less directly related, but the dominant signals point to replication, chromatin organization, and genome maintenance, with TOR signaling reflecting growth context. Overall, the recurring theme is genome replication and chromosome maintenance rather than a single signaling pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0034502","count":1},{"id":"GO:0072443","count":1},{"id":"GO:1904263","count":1},{"id":"GO:1904515","count":1}]},{"hash":"2067618905151252770","title":"Steroid and lipid hormone biosynthesis","description":"The GO terms point to diverse biosynthetic pathways for steroid- and lipid-derived signaling molecules (cortisol, brassinosteroids, ent-kaurene/kaurenoic acid, oxylipins, P450 epoxygenases) and related metabolic processes (vitamin D response, triglyceride metabolism). The development terms (retina vasculature, sex differentiation, female genitalia) are often linked to hormonal control, supporting a unifying theme of hormone and lipid signaling across taxa. The mix of plant- and animal-associated pathways suggests a broad lipid/hormone biosynthesis cluster. ","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0061298","count":4},{"id":"GO:0006641","count":4},{"id":"GO:0010241","count":4},{"id":"GO:0030540","count":4}]},{"hash":"1885195740091455499","title":"Oxidative Phosphorylation","description":"The cluster is dominated by GO terms related to mitochondrial electron transport and ATP synthesis (proton transmembrane transport and NADH dehydrogenase to ubiquinone), pointing to oxidative phosphorylation as the core function. A few other terms appear but are much less represented and do not define the group. Therefore, the label reflects the main energy-production theme of the cluster.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0001707","count":1}]},{"hash":"1084265788745479183","title":"DNA replication and repair machinery","description":"This cluster centers on DNA replication, recombination, unwinding, primer synthesis, topological changes, and repair, with SOS response and UV protection signals, indicating a cohesive set of proteins involved in genome maintenance and damage response. While one term (nonsense-mediated decay) is more RNA-centric, the dominant terms point to core DNA replication/repair functions.","confidence":"Medium","size":10,"edges":38,"triangles":77,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0009432","count":5},{"id":"GO:0006268","count":5},{"id":"GO:0006269","count":5},{"id":"GO:0000184","count":5}]},{"hash":"2133179743203931704","title":"Energy production via respiration and photosynthesis","description":"Top GO terms show mitochondrial electron transport and ATP synthesis, NADH dehydrogenase to ubiquinone, and photosynthesis light reactions, pointing to core energy metabolism. Additional terms related to transport and stress responses (cold, starvation) suggest regulation of metabolism under stress, fitting a cluster centered on energy generation with cross-organelle coordination. Confidence reflects a strong, coherent theme across the dominant terms.","confidence":"High","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009791","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0019684","count":3}]},{"hash":"1650312279881708801","title":"Detoxification and Diverse Catabolic Pathways","description":"The GO terms show a mix of detox-related activity (cellular oxidant detoxification) and various catabolic processes (juvenile hormone, triglyceride, uracil, 3-phenylpropionate) plus lipid remodeling and related biosynthetic steps, suggesting proteins involved in broad metabolic breakdown and detoxification rather than a single specific pathway.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0006719","count":2},{"id":"GO:0046839","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0019380","count":2}]},{"hash":"328468692409727433","title":"Plant arabinogalactan protein glycosylation and mucilage biosynthesis","description":"The cluster shows a coherent plant glycoprotein theme: arabinogalactan protein metabolism, hydroxyproline O-glycosylation, and processes like root hair development and seed coat mucilage, pointing to plant cell-wall glycoprotein biosynthesis; a couple of insect-associated terms exist but do not dominate.","confidence":"High","size":10,"edges":39,"triangles":79,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001744","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0042248","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0018258","count":2}]},{"hash":"1567289518545523680","title":"Unknown","description":"The top GO terms are highly diverse, spanning neural development (substantia nigra), eye/photoreceptor morphogenesis, plant hormone signaling, immune activation, cardiac morphogenesis, metabolism, and cell cycle, with little unifying function. This suggests no coherent, exclusive theme for the cluster, likely reflecting noisy or cross-species annotations rather than a single biological module.","confidence":"","size":10,"edges":13,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0021762","count":6},{"id":"GO:0051384","count":6},{"id":"GO:0008594","count":6},{"id":"GO:0009738","count":6}]},{"hash":"1368884184772461566","title":"Unknown","description":"This cluster includes multiple morphogenesis terms across different organs (kidney, brain, retina, heart) but also unrelated processes like glycogen catabolism and cell cycle, so there is no single cohesive theme linking all terms. Hence Unknown.","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":4},{"id":"GO:0021762","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0008594","count":3},{"id":"GO:0009738","count":3}]},{"hash":"467538798176332696","title":"DNA replication and cell cycle with proteostasis regulation","description":"This cluster centers on DNA replication and cell cycle processes (DNA replication, leading strand elongation, mitotic cell cycle, centriole elongation) and includes protein turnover and stress-related regulation (proteasome assembly, oxidation-dependent catabolic processes, SCF disassembly). The combination suggests a theme of replication/cycle control tightly linked with proteostasis and stress-responsive protein regulation, with a nod to viral genome replication as a shared replication context. ","confidence":"High","size":10,"edges":7,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0019079","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0070682","count":6},{"id":"GO:0030420","count":6}]},{"hash":"1768305022549063086","title":"Actin cytoskeleton remodeling and cell migration","description":"This cluster is enriched for GO terms involving actin nucleation and patch/filopodium assembly, polarity establishment/maintenance, substrate-dependent migration and spreading, and Rac/Rho/Ras signaling regulation, all indicating coordinated actin cytoskeleton remodeling driving cell movement and shape change.","confidence":"High","size":10,"edges":12,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000147","count":5},{"id":"GO:0044855","count":5},{"id":"GO:0071963","count":5},{"id":"GO:0006930","count":5},{"id":"GO:0051127","count":5}]},{"hash":"1349650987555134128","title":"Drosophila egg chamber development and ubiquitin sorting","description":"This cluster\u2019s GO terms center on germarium- and egg chamber\u2013related development (germarium-derived egg chamber formation, follicle cell stalk formation, sperm individualization) and on ubiquitin-dependent proteolysis and trafficking (MVB sorting pathway, protein targeting to membranes, negative regulation of ubiquitination). Together this suggests a motif of Drosophila oogenesis coupled with ubiquitin-mediated protein trafficking/degradation. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0030713","count":1},{"id":"GO:0043162","count":1}]},{"hash":"1029002453591691334","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":6},{"id":"GO:0007626","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0007275","count":4}]},{"hash":"646229759096220816","title":"Phosphorylation-Driven Signaling and Cell Cycle Regulation","description":"This cluster is dominated by GO terms about regulation of phosphorylation (serine/threonine), as well as positive regulation of PI3K/AKT signaling, and cell cycle checkpoints. These together point to signaling pathways controlled by phosphorylation that influence cell growth and division. Some development-related terms (placenta, inner ear) seem incidental rather than defining the core function, so the central theme remains signaling and cell-cycle control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0033138","count":2}]},{"hash":"167092771326398146","title":"Membrane Ion and Metabolite Transporters","description":"TheGO terms show a clear enrichment for transmembrane transport with multiple substrate-specific transport activities (sodium, potassium, calcium-related response, citrate, malate, succinate, arsenite, monoatomic anions) and regulation of phosphate transport. This pattern points to a cluster of proteins functioning as membrane transporters for a variety of ions and metabolites, rather than a single enzymatic or signaling role.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071277","count":3},{"id":"GO:0006814","count":2},{"id":"GO:0015743","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0015746","count":2}]},{"hash":"2178634847519334425","title":"Unknown","description":"The top terms span chromatin-related processes (subtelomeric heterochromatin formation) and a wide mix of biosynthetic and acetylation pathways (melatonin biosynthesis, arginine, GlcNAc, mycothiol biosynthesis, putrescine acetylation), with some terms marked obsolete. There is no clear, single functional theme binding these proteins, so a coherent, specific label cannot be confidently assigned.","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":8},{"id":"GO:0030187","count":8},{"id":"GO:0060358","count":8},{"id":"GO:0071962","count":8},{"id":"GO:0019491","count":8}]},{"hash":"25626447722285612","title":"Nuclear protein handling and RNA transport","description":"The cluster\u2019s terms largely point to nucleus-centric processes: DNA replication; regulation of protein export from the nucleus; nuclear protein quality control by the ubiquitin-proteasome system; and tRNA import into the nucleus. These suggest a common theme around nuclear maintenance and RNA handling, including associated protein folding and quality control (unfolded protein response). A few terms relate to developmental signaling and hormone response, which are less directly connected and could be outliers or reflect broader cellular state contexts. Overall, the strongest signal is nuclear protein handling and genome maintenance with some peripheral themes.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0001707","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0071374","count":1},{"id":"GO:0006452","count":1}]},{"hash":"893243638362995289","title":"Unknown","description":"The top terms cover endocrine development (adenohypophysis morphogenesis, thyroid hormone generation), cardiovascular and signaling processes (regulation of blood pressure, response to cAMP), redox and stress responses (hydrogen peroxide biosynthetic process, oxidation-reduction), and immune/apoptotic pathways (TNF signaling, NF-kappaB regulation, p53-related apoptosis), plus insect cuticle development. This mix across species and broad pathways suggests no single cohesive function defining the cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0008217","count":2},{"id":"GO:0008365","count":2},{"id":"GO:0051591","count":2},{"id":"GO:0006590","count":2}]},{"hash":"1459834349986481663","title":"Unknown","description":"The top GO terms span diverse processes (DNA damage checkpoint signaling, protein deglycosylation, dendrite morphogenesis, cell migration, endopeptidase regulation, eating behavior, and RNA-templated transcription) with no clear unifying function. Several terms are obsolete or peripheral, and there are no edges connecting the proteins, making it hard to assign a coherent, specific label. Therefore, I cannot derive a representative shared function for this cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031573","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0050774","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0016477","count":2}]},{"hash":"946918734355528403","title":"Type I Interferon Antiviral Response","description":"The cluster is dominated by GO terms related to innate immunity and antiviral signaling, especially cellular response to type I interferon, response to dsRNA, and innate immune activity, which together point to an interferon-driven antiviral defense theme. A few other terms (cell division, xenobiotic response) appear less related, suggesting some noise in the data but not enough to override the primary antiviral theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071357","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0071360","count":2},{"id":"GO:0050689","count":2}]},{"hash":"934961940838666423","title":"Sterol and lipid biosynthesis","description":"This cluster is dominated by lipid metabolism terms, including cholesterol and ergosterol biosynthesis, fatty acid and ether lipid metabolism, and sphingolipid-related processes, plus sterol oxidation and tissue contexts like myelin. The converging theme is lipid biosynthesis and sterol metabolism across diverse biological contexts, suggesting the proteins group around lipid synthesis pathways rather than a single signaling function.","confidence":"Medium","size":10,"edges":13,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":3},{"id":"GO:0033490","count":3},{"id":"GO:0006696","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0006633","count":3}]},{"hash":"1522049895157578818","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The cluster features several actin- and cytoskeleton\u2013related terms (actin crosslink formation, microspike assembly, mitotic actomyosin contractile ring assembly) together with processes governing cell shape, polarity, and adhesion, pointing to a cohesive module around actin-driven remodeling and cell polarity/adhesion; a few signaling terms (Wnt, IL-2) appear tangentially but do not override the core theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0030035","count":2}]},{"hash":"1716816295670944405","title":"Lipid metabolism and organelle organization","description":"The top GO terms show multiple lipid-related processes (fatty acid catabolic, galactolipid and triglyceride biosynthesis, lipid droplet organization) along with processes tied to organelle structure (endoplasmic reticulum and nucleus organization) and some cell-division activities. This pattern best supports a theme around lipid metabolism integrated with organelle maintenance/architecture, rather than a single narrow function.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0009062","count":2},{"id":"GO:0007029","count":2},{"id":"GO:0019375","count":2},{"id":"GO:0007078","count":2}]},{"hash":"988289046053252870","title":"Nuclear transport and cell cycle regulation","description":"The GO terms point to nuclear trafficking (NLS-bearing nuclear import, mRNA transport) and cell-cycle processes (mitotic sister chromatid separation, meiotic cell cycle regulation), with ancillary regulatory signals (TORC1 signaling, transcription by RNA Pol III, GTPase regulation, desumoylation). The dominant theme is coordination of nuclear transport with cell-cycle control, supported by related regulatory processes. Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0045945","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0001938","count":3},{"id":"GO:0006607","count":3}]},{"hash":"843657370804459659","title":"Muscle Cytoskeleton and Sarcomere Organization","description":"Based on the top GO terms, multiple entries point to actin filament polymerization, sarcomere organization, and skeletal muscle fiber adaptation, indicating cytoskeletal remodeling in muscle. Additional terms related to microtubule-based chromosome movement and mitochondrial inheritance suggest broader cytoskeletal dynamics and organelle transport; a few terms are less directly related, but the core theme is cytoskeletal structure and muscle function.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0043503","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0030041","count":3}]},{"hash":"1504387703472135689","title":"Neural signaling and RNA splicing","description":"The cluster shows two prominent themes: neuronal communication (positive regulation of glutamatergic synaptic transmission, synapse assembly, neurotransmitter secretion, learning) and RNA processing (mRNA splicing via spliceosome). These suggest proteins involved in neural signaling that also participate in RNA processing. Some viral-related terms appear but are less representative of the main theme. Overall, the link appears to be neuronal signaling linked with RNA splicing.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0051968","count":2},{"id":"GO:0071372","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1700436071445734885","title":"Muscle differentiation and translation control","description":"The cluster combines clear muscle-related processes (skeletal muscle differentiation and contraction) with multiple translation-related terms (translation, ribosome disassembly, regulation of translation, selenocysteine incorporation), suggesting proteins associated with muscle development that are also tied to protein synthesis machinery. A few terms (e.g., hematopoietic progenitor differentiation, heterochromatin regulation, antibiotic response) seem less connected, likely reflecting broader or multi-functional proteins. Overall, the dominant theme points to muscle differentiation interconnected with translational regulation.","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0032790","count":3},{"id":"GO:0002244","count":3},{"id":"GO:0001514","count":3},{"id":"GO:0045901","count":3}]},{"hash":"1253743549442423961","title":"Unknown","description":"Top terms span caffeine response, temperature sensing, tissue development, cardiac action potential, gastric secretion, and chemokine regulation\u2014disparate functions with no unifying pathway. No edges link proteins, so there\u2019s no coherent theme. Hence Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071313","count":1},{"id":"GO:0050960","count":1},{"id":"GO:0010754","count":1},{"id":"GO:1903444","count":1},{"id":"GO:0007275","count":1}]},{"hash":"1560555453863170799","title":"Neurotransmitter transport and glycinergic/dopaminergic signaling","description":"The top GO terms point to amino acid transport (proline, leucine, taurine, glycine) and neuronal signaling processes (dopamine catabolic process; dopamine uptake in synaptic transmission; regulation of glycinergic transmission; glycine import and secretion). The presence of brain-related terms (thalamus development, perineurial glial growth) further supports a neural context. Together, these suggest a cluster of proteins involved in neurotransmitter transport/metabolism and glycinergic/dopaminergic signaling rather than a single metabolic pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042420","count":1},{"id":"GO:0015824","count":1},{"id":"GO:0015820","count":1},{"id":"GO:0015734","count":1},{"id":"GO:0051583","count":1}]},{"hash":"1349132873346573035","title":"Immune cell chemotaxis and inflammatory regulation","description":"The top GO terms cluster around immune cell movement (dendritic cell chemotaxis, eosinophil chemotaxis) and control of inflammatory signaling, with supporting signals from membrane potential and voltage-gated calcium channel activity that link signaling to cell motility. Additional terms like response to peptide and general locomotory processes suggest broader motility involvement, but the strongest theme is immune cell migration and inflammatory regulation.","confidence":"Medium","size":9,"edges":26,"triangles":30,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":9},{"id":"GO:0090198","count":9},{"id":"GO:0016998","count":9},{"id":"GO:0007626","count":9},{"id":"GO:0042391","count":9}]},{"hash":"1950533453308654860","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0097310","count":1},{"id":"GO:0006370","count":1},{"id":"GO:0036265","count":1}]},{"hash":"330589975646008542","title":"Transmembrane Ion and Metabolite Transport","description":"Top GO terms are dominated by transmembrane transport across membranes, including specific ions (K+, Na+), metabolites (malate, citrate, succinate), and monoatomic anions, with a peripheral forebrain development term likely incidental; this suggests the cluster comprises membrane transport proteins focused on ions and small molecules.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0006813","count":5},{"id":"GO:0006814","count":3},{"id":"GO:0015743","count":3},{"id":"GO:0055085","count":3},{"id":"GO:0015746","count":3}]},{"hash":"350264248585884399","title":"Auditory hair cell stereocilium organization and signaling","description":"The GO terms strongly point to inner ear hair cell biology: sensory perception of sound, stereocilium organization, actin cytoskeleton, and tight junction assembly, with receptor guanylyl cyclase signaling also appearing, all characteristic of mechanotransduction in auditory hair cells. Some annotations (e.g., renal transport) may reflect broader roles of the same proteins but do not negate the core theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0090630","count":2},{"id":"GO:0007168","count":2},{"id":"GO:0060088","count":2},{"id":"GO:0070433","count":2}]},{"hash":"2300295962307720344","title":"Unknown","description":"The terms include bacterial exopolysaccharide biosynthesis (O antigen, colanic acid), diverse biosynthetic pathways (phenylpropanoid, estrogen, retinol), and core nuclear processes (DNA replication/repair) plus a starvation response, indicating no single cohesive function. The network is sparse (one edge, no triangles), suggesting the proteins do not share a common pathway or function.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006261","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0042594","count":2},{"id":"GO:0001889","count":2}]},{"hash":"1307927400427132572","title":"Multi-tissue cell differentiation","description":"These terms consistently reference cell differentiation and fate commitment across diverse tissues (insect Malpighian tubules, ear, pancreas, stomata, kidney, muscle, etc.). This points to a general differentiation program rather than a single organ-specific pathway, so the cluster is best described as a multi-tissue cell differentiation module.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061382","count":8},{"id":"GO:0021750","count":8},{"id":"GO:0003326","count":8},{"id":"GO:0003329","count":8},{"id":"GO:0010374","count":8}]},{"hash":"1725502080569796942","title":"Unknown","description":"The GO terms span a wide and incongruent set of processes (muscle growth regulation, cuticle/molting, temperature and cold sensing, brown fat differentiation, chemokine and immune signaling, heart electrical activity, and pain sensation). There is no single coherent function that ties these terms together across the proteins, so a specific, representative cluster label cannot be confidently assigned.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048632","count":2},{"id":"GO:0018996","count":2},{"id":"GO:0050960","count":2},{"id":"GO:1903444","count":2},{"id":"GO:0071651","count":2}]},{"hash":"1987670102224847351","title":"Transmembrane Ion and Nutrient Transport","description":"The GO terms show transmembrane transport for a variety of substrates (potassium and proton ions, nitrite/nitrate, vitamins, galactose, xenobiotics, organic anions), indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate. This makes \"Transmembrane Ion and Nutrient Transport\" a concise, representative label.","confidence":"High","size":9,"edges":12,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0006855","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0035461","count":1}]},{"hash":"2052284970038701348","title":"Golgi vesicle trafficking and SNARE exocytosis","description":"The cluster centers on GO terms for ER-to-Golgi and intra-Golgi transport, vesicle fusion with the Golgi, SNARE complex assembly, and exocytic delivery of receptors, with supporting terms related to LTP and exocytosis in specialized cells (acrosome reaction). This set points to a cohesive theme of SNARE-mediated vesicle trafficking through the Golgi and membrane fusion, including neuronal receptor trafficking. ","confidence":"High","size":9,"edges":27,"triangles":38,"max_degree":8,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:0006888","count":9},{"id":"GO:0090161","count":9},{"id":"GO:0006891","count":9},{"id":"GO:0048280","count":9},{"id":"GO:0035493","count":8}]},{"hash":"2136014757254300526","title":"Ribosome Biogenesis and Translation Regulation","description":"This cluster is dominated by GO terms related to ribosome assembly and protein synthesis, including translation, ribosome biogenesis, initiation/elongation/termination of translation, and export of the large ribosomal subunit, plus selenocysteine incorporation. These points together strongly indicate a group of proteins involved in the ribosome lifecycle and translational control; a couple of auxiliary terms (antibiotic response, glial proliferation) are present but secondary to the core translation theme.","confidence":"High","size":9,"edges":24,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000055","count":2},{"id":"GO:0001514","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0045901","count":2}]},{"hash":"1430062672648657051","title":"Regulation of mRNA splicing and translation initiation","description":"This cluster is dominated by spliceosome- and splice variant\u2013related mRNA processing terms (positive/negative regulation of mRNA splicing, regulation of alternative splicing, spliceosome involvement) and by initiation of translation (regulation of translational initiation, eIF4F complex assembly), indicating a coherent theme of post-transcriptional RNA processing and translation control in eukaryotes. A developmental term (blastocyst formation) appears but does not redefine the core function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001825","count":2}]},{"hash":"559773698068815719","title":"Neuronal differentiation and synaptic plasticity","description":"The terms point to neural development and synaptic function: striatal medium spiny neuron differentiation and long-term neuronal synaptic plasticity, with Rac signaling regulating neuronal morphology and signaling. While some terms (epithelial polarity, blood vessel development) are non-neuronal, the dominant theme across the cluster is neuronal differentiation and synaptic regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090162","count":5},{"id":"GO:0035156","count":4},{"id":"GO:0035020","count":4},{"id":"GO:1900740","count":4},{"id":"GO:1902498","count":4}]},{"hash":"132449629353328539","title":"Unknown","description":"The GO terms span immune processes (innate immune response, T cell homeostasis, negative regulation of activated T cell proliferation), neural/behavioral terms (visual learning, startle response, behavioral response to ethanol), receptor clustering, and microtubule localization, plus cell cycle activity, with no single cohesive function tying them together. This heterogeneity suggests no clear, shared biological role for the cluster, so the appropriate label is Unknown with no confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0051092","count":2}]},{"hash":"949499734928324209","title":"Microtubule-driven spindle dynamics and cell migration","description":"The top GO terms point to microtubule-based processes: mitotic spindle assembly/elongation, plus-end-directed vesicle transport along microtubules, nuclear migration, and developmental invasion/migration (cerebellar structure, ureteric bud). These together suggest a theme of cytoskeletal remodeling and intracellular transport driving cell division and movement, with signaling terms (Rap signaling, extracellular regulation) likely modulating these processes. An outlier plant term (chloroplast movement) also engages microtubule-associated transport, supporting the broader cytoskeletal theme. Overall, the cluster appears centered on microtubule-dependent dynamics.","confidence":"Medium","size":9,"edges":12,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021693","count":8},{"id":"GO:0032487","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0000743","count":8},{"id":"GO:0072092","count":8}]},{"hash":"2920032114659010","title":"T cell activation and ECM remodeling","description":"This cluster centers on immune cell signaling and movement: T cell activation via TCR-MHC interaction, integrin-mediated signaling, and cellular adhesion/extravasation. It is reinforced by extracellular matrix\u2013related processes (hyaluronan metabolism, metallopeptidase activity) and matrix remodeling that facilitate cell migration. While development terms appear, the dominant theme is immune activation coupled with ECM remodeling.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002291","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0007161","count":4},{"id":"GO:0030212","count":4}]},{"hash":"573320544863115099","title":"Diverse substrate catabolism and sporulation","description":"The top GO terms point to several substrate-specific catabolic processes (methylamine, D-galactarate, L-alanine, formate) and related metabolic activities (L-methionine cycle, pyridoxine biosynthesis), plus a sporulation-related process. This suggests a cluster of proteins involved in varied metabolic pathways with a sporulation context, rather than a single cohesive function. The terms are diverse and partly obsolete, so the label should remain broad and representative rather than overly specific.","confidence":"Low","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0030416","count":1},{"id":"GO:0046392","count":1},{"id":"GO:0042853","count":1},{"id":"GO:0071268","count":1}]},{"hash":"1100837385933579924","title":"Epigenetic Transcription Regulation","description":"Dominant terms point to chromatin modification and transcription control (DNA-templated transcription; histone H3-K4/K36 demethylation; H3-K9 trimethylation). These indicate epigenetic regulation of gene expression. The metabolism-related terms are more peripheral, but do not override the core epigenetic signal. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0034720","count":2},{"id":"GO:0070544","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0061428","count":2}]},{"hash":"2186102341270974159","title":"Steroid and Lipid Metabolism","description":"The cluster\u2019s GO terms are dominated by lipid- and steroid-related metabolic processes (fatty acid catabolic process, estrogen biosynthesis, retinol metabolism, C21-steroid hormone metabolism, and melanin biosynthesis), suggesting a cohesive theme around steroid/hormone and lipid metabolism. Additional terms like endoplasmic reticulum organization and mitochondrial translation point to cellular machinery supporting these metabolic activities. Some terms (e.g., nylon catabolic process, regulation of transcription) may reflect broader annotations or artifacts rather than a single pathway. Confidence: Medium","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0009062","count":4},{"id":"GO:0007029","count":4},{"id":"GO:0019876","count":4},{"id":"GO:0032543","count":4}]},{"hash":"59978039594913091","title":"Auditory and GABAergic synaptic signaling","description":"GO terms cluster around auditory sensory perception and synaptic inhibition, with emphasis on GABAergic signaling and calcium import at the plasma membrane, indicating a neural signaling module governing auditory processing and inhibitory synaptic transmission. Some terms (e.g., triglyceride catabolic process) are less central, but the core pattern is auditory/sensory signaling linked to inhibitory synaptic activity and calcium dynamics.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0001661","count":2},{"id":"GO:0098703","count":2}]},{"hash":"1623446474354298703","title":"Vacuolar trafficking and proton/ion transport","description":"GO terms converge on vacuolar targeting, acidification, vacuole organization, and Golgi-to-vacuole transport, alongside proton transmembrane transport and proton motive force-related processes, with ion homeostasis (sodium, copper) linked to membrane transport. This points to a cohesive role in vesicle trafficking to the vacuole and maintenance of proton/ion gradients. The inclusion of vesicle budding terms further supports a vesicular transport theme.","confidence":"High","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":2},{"id":"GO:0006878","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0042777","count":1}]},{"hash":"1084823661747439758","title":"Developmental transcription and cell division","description":"The top GO terms point to multicellular organism development and DNA-templated transcription, with spindle assembly highlighting cell division, suggesting the proteins collectively participate in developmental gene regulation and mitosis. While there are some metabolic terms and a couple of obsolete terms, the central theme appears to be developmentally regulated gene expression and cell cycle processes rather than a single metabolic pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0070562","count":2}]},{"hash":"541327159993866257","title":"Transposons and Proviral Integration","description":"The terms show multiple facets of mobile genetic elements: DNA transposition, retrotransposition, DNA integration, recombination, and proviral latency. The viral/host interaction terms (viral penetration into host nucleus, establishment of integrated proviral latency) reinforce a theme of genome mobility and integration events. A label focusing on transposon and proviral integration best captures the shared function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0000147","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0032197","count":2},{"id":"GO:0075713","count":2}]},{"hash":"1976496927013211987","title":"Arabinogalactan protein glycosylation and plant cell wall biosynthesis","description":"The cluster prominently features terms tied to plant extracellular matrix and glycoprotein biology, especially arabinogalactan protein metabolic processes, AGP glycosylation (poly-N-acetyllactosamine, Lewis a epitope), and mucilage biosynthesis in seed coat, plus root hair development. This points to a cohesive theme of AGP-related glycosylation and cell wall biosynthesis in plants, with associated aspects of cell adhesion and polarity. Confidence: Medium","confidence":"","size":9,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":1},{"id":"GO:0030311","count":1},{"id":"GO:0001744","count":1},{"id":"GO:0018258","count":1},{"id":"GO:0010405","count":1}]},{"hash":"1736902038717052879","title":"Unknown","description":"The GO terms cover meiotic chromosomal events, RNA silencing, adipogenesis, brain development, epithelial polarity, immune cell recruitment, phagolysosome assembly, and TLR9 signaling, which Together do not point to a single coherent function or pathway for the protein set. Therefore, no specific cluster label can be reliably determined.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051026","count":1},{"id":"GO:0007129","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0045599","count":1},{"id":"GO:0021987","count":1}]},{"hash":"1682006147390604322","title":"Unknown","description":"The GO terms are highly diverse (thermoception, lipid catabolism, brown fat differentiation, proteasome assembly, chromatid cohesion, ubiquitination, oligodendrocyte and cerebellar differentiation, heart morphogenesis, and chemokine production), with no single unifying function. Therefore a clear, representative label cannot be assigned with confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050960","count":1},{"id":"GO:0046475","count":1},{"id":"GO:1903444","count":1},{"id":"GO:0070682","count":1},{"id":"GO:1904908","count":1}]},{"hash":"905351358084495788","title":"Axon Guidance and ECM Organization","description":"The GO terms cluster around neuronal development, especially axon guidance, fasciculation, and extension, with collagen fibril organization and receptor tyrosine kinase signaling indicating extracellular matrix interactions and neuron\u2013ECM signaling. Some terms are obsolete, but the recurring theme points to axon pathfinding and ECM remodeling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0007253","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007169","count":2},{"id":"GO:0071169","count":2}]},{"hash":"1729560090285095451","title":"Diverse development and proteostasis","description":"The terms point to multiple differentiation pathways (oligodendrocyte, cerebellar granule cell, brown fat, cardiac morphogenesis) alongside protein turnover processes (ubiquitination, proteasome assembly), suggesting a theme of development guided by proteostasis rather than a single focused pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050960","count":2},{"id":"GO:0046475","count":2},{"id":"GO:1903444","count":2},{"id":"GO:0070682","count":2},{"id":"GO:1904908","count":2}]},{"hash":"760023289106141697","title":"Multimodal sensory detection and Na+ homeostasis","description":"This cluster is dominated by GO terms tied to detecting various stimuli that influence sensory perception\u2014temperature and mechanical stimuli (pain), as well as taste (salty and sour)\u2014along with iron/ion balance processes like sodium ion transport and sodium ion homeostasis. This combination points to a functional theme of sensory signal detection paired with ionic regulation, with a few related physiological processes that may support sensory function. Therefore, a concise label capturing both sensory perception across modalities and sodium homeostasis seems most representative.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050965","count":2},{"id":"GO:0035179","count":2},{"id":"GO:0050966","count":2},{"id":"GO:0050914","count":2},{"id":"GO:0071467","count":2}]},{"hash":"2176137280966650930","title":"Auditory neural development and mechanosensory signaling","description":"This cluster's GO terms largely involve nervous system development and sensory perception of sound, notably auditory receptor cell development and mechanosensation, with associated signaling and myelination processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0060117","count":2},{"id":"GO:0050910","count":2}]},{"hash":"21688811793474667","title":"Sperm-Zona Pellucida Interaction","description":"Based on the top GO terms, the cluster is anchored by fertilization-related processes: regulation of acrosome reaction, binding to the zona pellucida, and zona pellucida penetration. The additional terms cover broad developmental and tissue remodeling processes that may reflect pleiotropic annotations or shared pathways, but the strongest, cohesive signal is gamete interaction and fertilization. ","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060046","count":2},{"id":"GO:0060058","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0030879","count":2},{"id":"GO:0021680","count":2}]},{"hash":"1305270288247872718","title":"Nucleotide biosynthesis and DNA replication","description":"The top GO terms are dominated by nucleotide metabolism (AMP salvage, purine ribonucleotide interconversion, ITP metabolic process, ADP and CDP biosynthesis, nucleoside monophosphate phosphorylation, nucleotide phosphorylation) and DNA replication, suggesting a cohesive role in supplying nucleotides for DNA synthesis. Brain and liver development terms may reflect broader or multi-functional annotations rather than a core cluster function.","confidence":"High","size":8,"edges":21,"triangles":30,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0044209","count":3},{"id":"GO:0015951","count":2},{"id":"GO:0046041","count":2},{"id":"GO:0006172","count":2}]},{"hash":"941379463483657459","title":"Unknown","description":"These terms cover mitochondria inheritance, lipid/sterol metabolism, nitrate assimilation, nitric oxide biosynthesis, and diverse developmental processes across different tissues, with no clear shared pathway or function uniting the cluster.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0006675","count":1}]},{"hash":"917765216802649071","title":"Histone acetylation and chromatin modification","description":"The top GO terms are dominated by histone acetylation/deacetylation and other histone modification events, suggesting a wrap of chromatin regulation and epigenetic control of gene expression. A few terms appear unrelated (aging, gastrulation, dopamine catabolic process), but the predominant pattern links to histone-based chromatin dynamics.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":4},{"id":"GO:0007568","count":3},{"id":"GO:0007369","count":3},{"id":"GO:0043966","count":2},{"id":"GO:0043981","count":2}]},{"hash":"2272021198466671516","title":"Unknown","description":"The Top Terms span diverse processes (mevalonate/isoprenoid biosynthesis, brain development, inflammatory regulation, cell cycle, morphine response, chromatin binding, ascospore formation, cardiac hypertrophy), with no clear single function tying the proteins together. This suggests the cluster is functionally heterogeneous rather than a cohesive pathway.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900486","count":8},{"id":"GO:0021762","count":8},{"id":"GO:0051343","count":8},{"id":"GO:0050728","count":8},{"id":"GO:0000082","count":8}]},{"hash":"2198028753628166369","title":"RNA splicing and translation regulation","description":"The top GO terms cluster around spliceosome-mediated regulation of mRNA splicing (including alternative splicing), plus regulation of translational initiation and assembly of the eIF4F complex, along with ncRNA-mediated gene silencing and mRNA tail shortening/polyadenylation control. This points to a functional group involved in post-transcriptional gene expression regulation, especially splicing decisions and initiation of translation, with some connective context to RNA silencing and mRNA maturation. Blastocyst formation appears as a developmental context but is less central to the shared function than the RNA processing signals.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1900363","count":5},{"id":"GO:0006446","count":5},{"id":"GO:0001825","count":5}]},{"hash":"1577056740704957242","title":"Neural Development and Neuronal Differentiation","description":"This cluster is dominated by GO terms for nervous system development and various neuronal differentiation pathways, including motor neuron specification, interneuron differentiation, and oligodendrocyte fate. The recurring theme is neural lineage specification and brain development, with RNA polymerase II transcription reflecting regulatory control of these programs; a few terms (bronchiole/pancreas development) may reflect broader developmental roles but do not override the neural theme.","confidence":"Medium","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0031018","count":5},{"id":"GO:0035914","count":4},{"id":"GO:0021520","count":4},{"id":"GO:0060163","count":4}]},{"hash":"2010949378762168267","title":"Diverse solute transporters","description":"Based on the top GO terms, the proteins cluster around transporting a variety of solutes across membranes\u2014nitrite, nitrate, urate, sodium, phosphate, and dehydroascorbic acid\u2014with an additional note on vesicular neurotransmitter loading. This points to a common function as membrane transporters handling diverse substrates, rather than a single substrate class. ","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":3},{"id":"GO:0070837","count":3},{"id":"GO:0015747","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":3}]},{"hash":"1482342626841313575","title":"Vision-related GPCR signaling","description":"The top GO terms point to regulation of opsin-mediated signaling, visual perception, and GPCR internalization, all characteristic of photoreceptor signaling; additional terms about GTPase activity and membrane potential support a GPCR/phototransduction theme. Some terms appear less connected (heart development, cell wall catabolic process), but the dominant, specific signal is vision-centric GPCR signaling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0022400","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0002031","count":3}]},{"hash":"1912411830977295198","title":"Ubiquitin-dependent ERAD and ER membrane targeting","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes and ER-associated degradation, plus post-translational targeting to the ER membrane and tail-anchored membrane protein insertion, suggesting a shared role in ER quality control and membrane protein trafficking. Innate immune and antiviral defense terms are present but less central, making ERAD/ER targeting the most representative theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1021814650221286612","title":"Embryonic Organogenesis","description":"The GO terms center on development across multiple tissues (chondrocyte/cartilage, heart, digits, cerebellum, cortex) and general multicellular organism development, indicating a broad embryonic organogenesis/theme rather than a single function. This makes Embryonic Organogenesis a concise, representative label for the cluster.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002063","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0048664","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0042733","count":1}]},{"hash":"1908222683665454206","title":"Unknown","description":"Top GO terms are not reported for this cluster and there are no edges or triangles, so there is no apparent shared function binding these proteins. Although some proteins were re-added by ReCIPE, the lack of functional annotations and interactions means a precise, representative label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2284829630814535647","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016578","count":1},{"id":"GO:0043085","count":1},{"id":"GO:0007412","count":1},{"id":"GO:0045893","count":1},{"id":"GO:0006351","count":1}]},{"hash":"1024391526482144818","title":"Unknown","description":"The GO terms span immune signaling, neural development, epithelial migration and barrier formation, with no dominant shared function across these proteins, so a specific, representative label is not identifiable.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902227","count":2},{"id":"GO:0051045","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0034165","count":2},{"id":"GO:0061582","count":2}]},{"hash":"1398133537997415087","title":"Innate antiviral dsRNA sensing and IFN signaling","description":"The terms converge on sensing exogenous dsRNA in the cytoplasm and triggering type I interferon responses, including innate immunity, cytoplasmic PRR signaling, and antiviral defense, which together define an antiviral dsRNA sensing and IFN production pathway.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071360","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0032481","count":1},{"id":"GO:0002230","count":1},{"id":"GO:0032608","count":1}]},{"hash":"1422315548724707557","title":"Mitochondrial metabolism and apoptotic signaling","description":"Based on the GO terms, the proteins are linked to mitochondrial processes: regulation of ATP metabolism and ATP-dependent activity, mitochondrial depolarization, outer membrane permeabilization in apoptotic signaling, cristae formation, and heme biosynthesis\u2014all mitochondria-centered. This combination points to a theme of mitochondrial energy status and apoptosis rather than a different cellular compartment or pathway. Therefore, the label Mitochondrial metabolism and apoptotic signaling is appropriate and representative.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032780","count":1},{"id":"GO:0001937","count":1},{"id":"GO:1903578","count":1},{"id":"GO:1903214","count":1},{"id":"GO:0030218","count":1}]},{"hash":"2106984185597787923","title":"Unknown","description":"The GO terms span reproductive processes (regulation of acrosome reaction, sperm binding to zona pellucida, zona pellucida penetration) as well as development and wound healing (mammary gland development, angiogenesis in wound healing, epithelial proliferation) and neural development (Purkinje cell layer development) and visual learning. The lack of a single cohesive function or pathway across the cluster makes a specific, concise label unreliable. Therefore, a neutral Unknown label is most appropriate.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060046","count":2},{"id":"GO:0060058","count":2},{"id":"GO:0030879","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0021680","count":2}]},{"hash":"1153284168749165314","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":4},{"id":"GO:0000472","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0000462","count":4}]},{"hash":"1008513072292364887","title":"Histone deacetylation and heterochromatin maintenance","description":"This cluster is defined by epigenetic regulation: DNA-templated transcription linked to chromatin state, plus multiple terms for heterochromatin formation at rDNA and subtelomeres and for histone/peptidyl-lysine deacetylation and nucleosome density control. Together, these point to chromatin remodeling and transcriptional silencing via histone deacetylation. A few peripheral terms (e.g., red light signaling) are likely non-core. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0070932","count":5},{"id":"GO:0010870","count":4},{"id":"GO:0006348","count":3},{"id":"GO:0034983","count":3}]},{"hash":"1037281326930057119","title":"ER Stress Response and Unfolded Protein Handling","description":"This cluster is dominated by GO terms tied to ER stress and protein quality control, such as cellular response to unfolded protein and SRP-dependent cotranslational targeting to the ER. The presence of negative regulation of ER stress-induced apoptotic signaling and related oxidative stress\u2013linked pathways further supports a role in modulating cell survival under stress. A few terms like DNA replication and fungal cell wall biosynthesis are less directly related, but the core pattern points to ER-associated protein handling and stress response.","confidence":"High","size":8,"edges":9,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006880","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0034620","count":2},{"id":"GO:0006616","count":2}]},{"hash":"2171032945775980592","title":"Neural Development and Synaptic Plasticity","description":"The cluster shows a clear tilt toward nervous system development and function: myelination, substantia nigra development, endothelial barrier formation (relevant to the brain\u2019s vasculature), tight junction assembly, and regulation of long-term neuronal synaptic plasticity. While a couple terms touch on immune signaling (B cell receptor pathways), these are outnumbered by neural-related terms, suggesting the proteins collectively participate in brain development and synaptic regulation rather than immune processes.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0021762","count":1},{"id":"GO:0061028","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0050861","count":1}]},{"hash":"1892894703100068012","title":"Podosome-Driven Bone Remodeling and Organelle Assembly","description":"The top terms cluster around podosome assembly and bone resorption, which are hallmark features of osteoclast activity; melanosome assembly suggests a theme of organelle biogenesis in specialized cells. Additional terms about protein complex localization and ER-to-Golgi transport point to secretory/trafficking processes that support cytoskeletal remodeling and organelle formation. While a couple terms seem less related, the dominant pattern is cytoskeletal organization coupled with organelle assembly and trafficking.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":3},{"id":"GO:0048664","count":2},{"id":"GO:0034629","count":2},{"id":"GO:0031647","count":2},{"id":"GO:1903232","count":2}]},{"hash":"1852445448850224294","title":"Autophagy and stress-response regulators","description":"Top GO terms point to autophagy-related processes (substrate localization to autophagosome, type 2 mitophagy) and glucocorticoid-stress signaling, with additional hints at protein turnover and immune/epithelial regulation. The common thread appears to be cellular response to stress and regulation of autophagy/mitophagy, making this label representative of the cluster\u2019s central theme. Medium","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000413","count":5},{"id":"GO:0014809","count":4},{"id":"GO:0060360","count":4},{"id":"GO:0045732","count":4},{"id":"GO:0042921","count":4}]},{"hash":"2011060065526791480","title":"Embryonic Angiogenesis and Mesodermal Morphogenesis","description":"The GO terms cluster around blood vessel development (angiogenesis, endothelial proliferation) and mesoderm-derived organ formation (mesonephric duct, nephron morphogenesis, mesodermal cell fate), supported by signaling pathways (PI3K/AKT and MAPK) that drive developmental processes. While there is a broader development signal, the strongest cohesive theme is embryonic vascular and mesodermal morphogenesis.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0043410","count":1},{"id":"GO:0014068","count":1},{"id":"GO:0001938","count":1}]},{"hash":"758161024510874043","title":"Embryonic heart, skeletal, and neural development","description":"The GO terms point to broad embryonic organogenesis across multiple tissues, including heart (pulmonary myocardium development, heart development), craniofacial skeleton and cartilage (cranial skeleton morphogenesis, cartilage development, digit morphogenesis), and neural development (neuron migration, cerebellum development). This indicates a cohesive developmental program spanning heart, skeletal, and neural tissues rather than a single pathway, justifying a label focused on embryonic organogenesis across these systems.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0001759","count":5},{"id":"GO:0048701","count":5},{"id":"GO:0003350","count":5},{"id":"GO:0001764","count":5}]},{"hash":"991013195528944660","title":"Neuronal Development and MAPK Signaling","description":"The terms cluster around nervous system development, dendrite morphogenesis, axon growth regulation, and activation of MAPK cascades (ERK1/2 and JNK), suggesting a cohesive role in neural development and axon signaling, despite a couple of outlier terms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031647","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0048813","count":8},{"id":"GO:0050771","count":8},{"id":"GO:0045773","count":8}]},{"hash":"1976439370950584661","title":"Unknown","description":"The top terms include separate DNA-centric processes (DNA-templated transcription, DNA replication, DNA integration) and diverse developmental/signaling terms (neural development, dendritic spine morphogenesis, calcium signaling, p53-mediated signaling, glucose response, sperm capacitation). The mix does not point to a single cohesive function or pathway for the cluster, so a unified label is not supported.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0015074","count":2},{"id":"GO:0021549","count":2}]},{"hash":"937516859754784446","title":"Root hair development and cell wall biosynthesis","description":"The cluster is dominated by GO terms linking root hair cell development, cell wall organization, and RG-II (pectin) biosynthesis, suggesting a cohesive role in plant epidermal differentiation and cell wall construction. A few other terms (apoptosis, DNA repair) appear less prominently and may reflect broader, pleiotropic annotations or noise. ","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":4},{"id":"GO:0071555","count":3},{"id":"GO:0010306","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0006308","count":1}]},{"hash":"8267837558495375","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048024","count":1},{"id":"GO:0000395","count":1},{"id":"GO:0035196","count":1},{"id":"GO:0030422","count":1},{"id":"GO:0000380","count":1}]},{"hash":"1791378846976452692","title":"Developmental transcriptional regulation","description":"This cluster shows enrichment for DNA-templated transcription and multiple development-related terms (skin, spinal cord, multicellular organism development), suggesting the proteins act as transcriptional regulators guiding development. A lone term about Fe-S cluster assembly is less representative of the main theme. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0036086","count":1},{"id":"GO:0044571","count":1},{"id":"GO:1903026","count":1}]},{"hash":"1600702775001674467","title":"Unknown","description":"The proteins show a highly diverse set of GO terms\u2014mitochondrial inheritance, equilibrioception, sperm-egg binding, mitotic spindle orientation, brush border assembly, third ventricle development, and VEGF-linked cell migration\u2014without a single clear shared function; with no edges connecting members, there isn\u2019t a coherent theme to summarize.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009826","count":3},{"id":"GO:0000001","count":2},{"id":"GO:0050957","count":2},{"id":"GO:1903478","count":2},{"id":"GO:0007339","count":2}]},{"hash":"1840117370520721922","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035194","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0035307","count":1},{"id":"GO:0006398","count":1},{"id":"GO:0030846","count":1}]},{"hash":"1042428744163444497","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for ribosome biogenesis and translation (including ribosome biogenesis, ribosomal small subunit biogenesis, and translation) with supporting tRNA modification, indicating a cohesive function in ribosome assembly and protein synthesis. Cell cycle and division terms appear as likely co-regulated processes linked to growth, while other terms like cell septum assembly are related but secondary.","confidence":"High","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0042274","count":4},{"id":"GO:0006400","count":3},{"id":"GO:1901001","count":3},{"id":"GO:0090529","count":3}]},{"hash":"907415695600413233","title":"Retinoic acid signaling in embryonic organogenesis","description":"This cluster centers on GO terms for retinoic acid response and retinol metabolism, plus development of organs and tissues (blood vessels, endothelial proliferation, ureter, digestive tract, Harderian gland). Together they suggest proteins involved in retinoid signaling guiding embryonic organogenesis and vascular formation, with one obsolete term not altering the overall theme.","confidence":"High","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":7},{"id":"GO:0036293","count":7},{"id":"GO:0001568","count":7},{"id":"GO:0001936","count":7},{"id":"GO:0006537","count":7}]},{"hash":"634492480538742522","title":"Membrane Energetics and Small-Molecule Metabolism","description":"The top GO terms point to diverse metabolic pathways (methane/methanol, cholesterol, glycine betaine) alongside membrane-associated energy processes (proton motive force-driven ATP synthesis) and ion homeostasis (sodium/copper) and vacuolar pH regulation, suggesting the cluster centers on energy transduction at membranes and transport/metabolism of small molecules.","confidence":"Medium","size":7,"edges":14,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046188","count":3},{"id":"GO:0015945","count":3},{"id":"GO:0008203","count":3},{"id":"GO:0019285","count":3}]},{"hash":"662769565858919019","title":"Diverse biosynthesis of metabolites and polysaccharides","description":"The GO terms point to multiple biosynthetic processes: plant secondary metabolite pathways (anthocyanin and phenylpropanoid biosynthesis), UDP-sugar biosynthesis for various polysaccharides (colanic acid, O antigen, UDP-xylose/arabinose/rhamnose), and ergosterol metabolism, indicating a broad theme of synthesis across different molecular classes and kingdoms. One outlier term (B cell chemotaxis) likely reflects noise rather than core function. This justifies a general label of diverse biosynthetic activities rather than a single specific pathway.","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0035754","count":2},{"id":"GO:0009242","count":2},{"id":"GO:0009243","count":2}]},{"hash":"1626102157708256271","title":"Steroid and lipid hormone biosynthesis","description":"Most terms point to hormone biosynthesis and lipid-based signaling (cortisol; brassinosteroids; ent-kaurene/kaurenoic acid; oxylipins; epoxygenase P450 pathway; vitamin D response). The developmental GO terms (sex differentiation, female genitalia development, retina vasculature development) are commonly influenced by hormones, suggesting the cluster centers on steroid and lipid hormone metabolism and related regulation. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":7},{"id":"GO:0061298","count":7},{"id":"GO:0006641","count":7},{"id":"GO:0010241","count":7},{"id":"GO:0030540","count":7}]},{"hash":"1472513839930606432","title":"Ubiquitin-dependent protein degradation","description":"The top GO terms cluster around ubiquitination and proteasome-mediated degradation (polyubiquitination, SCF-dependent degradation, autoubiquitination, and various ubiquitin linkages), indicating a group of proteins involved in tagging substrates for destruction. Peroxisomal import and cadmium-response terms suggest supporting roles in ubiquitin-mediated turnover and stress responses, but the core theme is ubiquitin-dependent protein catabolism.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0016558","count":3}]},{"hash":"1306632213078901210","title":"Vertebrate Embryonic and Neural Development","description":"The top GO terms cluster around vertebrate embryo formation and neural development, including cerebellum and cerebral cortex interneuron fate commitment, diencephalon morphogenesis, and digit/cartilage/roof-of-mouth morphogenesis. This suggests a cohesive theme of embryogenesis with a strong emphasis on neural patterning and tissue morphogenesis, despite some obsolete terms present. The lack of interactions does not negate the functional coherence seen in these developmental processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0051216","count":3},{"id":"GO:0021549","count":3},{"id":"GO:0042733","count":3},{"id":"GO:0060021","count":3}]},{"hash":"1043594793407605186","title":"Immune cell chemotaxis and anti-inflammatory regulation","description":"The top GO terms point to immune cell movement (dendritic cell and eosinophil chemotaxis) and controls on inflammatory signaling (negative regulation of chemokine production and inflammatory response), with additional terms about membrane potential and calcium channels suggesting shared signaling pathways. Taken together, the cluster seems best described by immune cell migration and anti-inflammatory regulation, despite some peripheral neuronal signaling hints.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":7},{"id":"GO:0090198","count":7},{"id":"GO:0016998","count":7},{"id":"GO:0007626","count":7},{"id":"GO:0042391","count":7}]},{"hash":"29026680172542341","title":"ERK signaling and cell migration in development and immunity","description":"The cluster centers on signaling and movement: notable GO terms include positive regulation of the ERK1/ERK2 cascade, heart development, and chemotaxis of dendritic cells and eosinophils, plus regulation of membrane potential and synaptic-related processes. These suggest a shared theme of ERK-mediated signaling coupled with cell movement across developmental, neural, and immune contexts. The connections are broad but cohesive around signaling and migration, so a moderate level of confidence is appropriate.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0007507","count":2},{"id":"GO:1901652","count":1},{"id":"GO:0090198","count":1},{"id":"GO:0016998","count":1}]},{"hash":"282713571901961925","title":"Mitochondrial Transport and Metabolism","description":"The top GO terms cluster around transport across mitochondrial membranes (malate-aspartate shuttle; NAD, phosphate, thiosulfate, and deoxynucleotide transport; iron import into mitochondrion) and energy-related processes (adaptive thermogenesis; regulation of necroptotic processes), all pointing to mitochondrial metabolism and metabolite transport as the unifying theme. This makes \"Mitochondrial Transport and Metabolism\" a representative, specific label for the cluster.","confidence":"High","size":7,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043490","count":3},{"id":"GO:0060546","count":3},{"id":"GO:1990845","count":3},{"id":"GO:0035352","count":3},{"id":"GO:0031921","count":3}]},{"hash":"2157931411247222065","title":"Calcium-dependent vesicle exocytosis in development","description":"The cluster is dominated by terms tied to calcium-dependent exocytosis and vesicle fusion, including positive regulation of calcium ion-dependent exocytosis and vesicle fusion, plus Rho signaling that influences cytoskeletal and trafficking dynamics. The presence of developmental terms (brain, nervous system, heart, skeletal development) suggests these trafficking and signaling functions are engaged in developmental processes, making a neurodevelopmental/vesicle-trafficking theme the most representative.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009789","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007124","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0045956","count":7}]},{"hash":"1804458631293403068","title":"Regulation of tissue development and barrier integrity","description":"The GO terms span neural development (cerebellar cortex formation, Bergmann glial differentiation), barrier-related processes (adherens junction organization, endothelial/intestinal barrier establishment, intestinal epithelial migration), and immune signaling modulation (TLR9 signaling, cytokine pathways). This suggests a coherent theme of regulatory signaling governing development and barrier function across tissues.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902227","count":1},{"id":"GO:0051045","count":1},{"id":"GO:0061000","count":1},{"id":"GO:0034165","count":1},{"id":"GO:0061582","count":1}]},{"hash":"1740643546990256710","title":"Cell Signaling and Motility Regulators","description":"These proteins appear to participate in signaling cascades (GPCR signaling, Rho signaling) that regulate cell movement and immune-cell trafficking (dendritic cell chemotaxis, locomotory behavior, chemokine production). Regulation of membrane potential also supports a role in cellular excitability linked to movement. The electron transport chain term is likely incidental rather than central to the cluster\u2019s core function.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0035025","count":6},{"id":"GO:0010579","count":6},{"id":"GO:1901652","count":5}]},{"hash":"728753421308659055","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0039702","count":1},{"id":"GO:0048026","count":1}]},{"hash":"49041116211396623","title":"Nuclear transcription regulation and chromatin remodeling","description":"The cluster includes GO terms tied to transcription (DNA-templated transcription, SAGA complex localization to transcription regulatory regions), RNA processing (mRNA export from nucleus) and chromatin-related processes (histone deubiquitination, proteasome assembly), plus genome maintenance (DNA repair) and translation regulation. This pattern points to a cohesive theme of nuclear gene expression control and chromatin dynamics, with some broader links to development and genome stability. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0040025","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0072742","count":1}]},{"hash":"1955839010680424487","title":"Hematopoiesis and vascular development","description":"This cluster centers on blood/hematopoietic lineage and vascular formation, with terms like hematopoietic stem cell proliferation, somatic stem cell maintenance, regulation of hemocyte differentiation, megakaryocyte differentiation, blood circulation, and blood vessel morphogenesis. Some terms (e.g., oenocyte delamination, obsolete BMP signaling) are less directly related or organism-specific, but the overall pattern points to developmental coordination of blood cell formation and vascular biology.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071425","count":1},{"id":"GO:0060803","count":1},{"id":"GO:1902895","count":1},{"id":"GO:1902262","count":1},{"id":"GO:0060233","count":1}]},{"hash":"78743313890985706","title":"Neural and sensory organ development","description":"The top GO terms cluster around nervous system and sensory organ formation: retina development, visual perception, inner ear and brain development, and locomotory behavior. These indicate proteins involved in neural circuit and sensory organ development/function, with membrane potential regulation supporting neuronal activity. Heart development appears as a broader developmental signal, but the dominant theme centers on neural/sensory processes.","confidence":"High","size":7,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0048839","count":2}]},{"hash":"1512264963400902300","title":"mRNA Splicing and Translation Regulation","description":"These proteins are enriched for controls of RNA processing and translation initiation: multiple terms center on spliceosome-mediated mRNA splicing regulation (positive and negative), regulation of polyadenylation and alternative splicing, and assembly or regulation of the eukaryotic translation initiation machinery. Together, they point to a cohesive role in modulating mRNA maturation and initiation of protein synthesis, with a few broader gene-expression terms likely reflecting pleiotropic functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":3},{"id":"GO:1900363","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1217081065412197847","title":"Signaling and Cytoskeletal Regulation","description":"The proteins cluster around membrane signaling and cytoskeletal dynamics: receptor guanylyl cyclase signaling, GTPase activation, JNK regulation, and actin cytoskeleton organization (plus tight junction assembly and stereocilium organization in sensory cells). While a few terms (renal sodium transport, carnitine transport) are more transport-focused, the dominant theme is signaling coupled to cytoskeletal remodeling and cell adhesion. This supports labeling the cluster as Signaling and Cytoskeletal Regulation. ","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0090630","count":1},{"id":"GO:0007168","count":1},{"id":"GO:0060088","count":1},{"id":"GO:0070433","count":1}]},{"hash":"1504044004649412566","title":"Unknown","description":"This cluster shows a mix of chromatin-related terms (nucleosome assembly, histone modification) and various developmental processes, with no shared mechanism or protein\u2013protein connections evident (edges = 0). The terms do not converge on a single, cohesive function, so Unknown is the most appropriate label.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040022","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0014904","count":1},{"id":"GO:0001207","count":1},{"id":"GO:0031452","count":1}]},{"hash":"1831454467777756331","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006293","count":1},{"id":"GO:0006370","count":1},{"id":"GO:0006296","count":1},{"id":"GO:0000717","count":1},{"id":"GO:0070816","count":1}]},{"hash":"728608495448546045","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051083","count":1},{"id":"GO:0006620","count":1},{"id":"GO:0051661","count":1},{"id":"GO:0060487","count":1}]},{"hash":"2090086361393610252","title":"Stress-induced Translational Regulation","description":"The cluster is characterized by GO terms tied to stress signaling and control of protein synthesis, including GCN2-mediated signaling, EIF2\u03b1 phosphorylation in ER stress, and translation regulation during glucose starvation, UV exposure, and acidic pH, indicating a cohesive theme of translational reprogramming under cellular stress. The skin development term appears incidental and does not align with the core translational stress signature.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060733","count":2},{"id":"GO:0043588","count":2},{"id":"GO:1990497","count":1},{"id":"GO:1990451","count":1},{"id":"GO:0031333","count":1}]},{"hash":"3321923290268565","title":"Intestinal and endothelial barrier regulation","description":"The top GO terms center on cell junctions and barrier integrity, including positive regulation of adherens junction organization and establishment of the intestinal endothelial barrier, plus intestinal epithelial migration, suggesting a theme around barrier maintenance and junction dynamics. Other terms indicate signaling regulation (TGF-beta response, TLR9 signaling) and broader transcriptional processes, which can be part of the regulatory network underlying barrier function, though neural-related terms are present as well. Overall, there is a coherent emphasis on barrier/junction regulation across tissues, with some peripheral signals, giving a plausible but not exclusively barrier-focused interpretation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071560","count":2},{"id":"GO:1902227","count":2},{"id":"GO:0051045","count":2},{"id":"GO:0061000","count":2}]},{"hash":"2133312013369769140","title":"Mitochondrial dynamics and membrane potential regulation","description":"The terms cluster around mitochondrial biology\u2014inheritance, stress-induced fusion, regulation of mitochondrial membrane potential, and cardiolipin metabolism\u2014indicating a common theme of mitochondrial dynamics and energetic regulation. A few outliers related to development or signaling (podocyte development, T cell polarity, PKC signaling) are likely context-specific or secondary to the core mitochondrial function. Thus, the proteins likely participate in controlling mitochondrial structure and function.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0060355","count":1},{"id":"GO:1901585","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0072249","count":1}]},{"hash":"1879315500043043235","title":"Actin Cytoskeleton Remodeling and Migration","description":"Enriched for actin remodeling and cell migration: GTPase activity regulation, actin filament branching, podosome assembly, cell spreading, and fibroblast migration. Endocytosis also ties to cytoskeletal dynamics. Some unrelated terms exist but the dominant signal is cytoskeletal remodeling and motility.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0021762","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1138592336364166695","title":"DNA replication and chromosome maintenance","description":"This cluster centers on nuclear processes linked to DNA replication, centromeric chromatin assembly (CENP-A), and mitotic replication checkpoint signaling, which together define chromosome maintenance during cell division. Additional terms about proteostasis and microtubule dynamics appear as supporting processes tied to cell-cycle progression and stress response, reinforcing the overall theme of replication-associated chromosomal maintenance. ","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0035617","count":4},{"id":"GO:0003341","count":3},{"id":"GO:0061641","count":3}]},{"hash":"659217624594658107","title":"Organogenesis and tissue development","description":"The top GO terms are dominated by tissue- and organ-level development (multicellular organism development, skin development, skeletal system development, retina development), indicating a cohesive theme around organogenesis and tissue morphogenesis across different tissues. While there are some general cellular-process terms (mitotic cell cycle, transcription, GTPase regulation, stress responses), the strongest signal centers on developmental processes, supporting this label despite the lack of observed interactions in the graph.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0043588","count":4}]},{"hash":"300146703308812260","title":"Neural development and ECM proteoglycans","description":"The cluster\u2019s top terms include axonogenesis and peripheral nervous system myelination, indicating neural development. Additionally, proteoglycan biosynthetic processes (chondroitin sulfate and heparan sulfate) point to extracellular matrix components influencing neural signaling. Some inflammation-related terms appear but likely reflect incidental annotations rather than a core function. Overall, the group seems tied to neural development with extracellular matrix proteoglycans as a mediating factor.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060385","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0015015","count":2},{"id":"GO:0010888","count":1},{"id":"GO:0006953","count":1}]},{"hash":"581527382047316225","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0036205","count":4},{"id":"GO:0002635","count":3},{"id":"GO:0061158","count":3},{"id":"GO:0033280","count":3}]},{"hash":"1564114810675400435","title":"Cilium and Centrosome Organization with Transport","description":"This cluster's GO terms cluster around cilium-related processes (intraciliary transport, ciliogenesis, left-right symmetry) and centrosome functions (centrosome localization, spindle assembly checkpoint), suggesting a theme of organizing ciliary/centrosomal structures and associated intracellular trafficking. Additional terms\u2014mitochondrial membrane organization and inheritance, Golgi regulation, and synaptic vesicle budding\u2014point to broader membrane trafficking and organelle coordination that often intersect with centrosome/cilium biology. Overall, a concise label emphasizing cilium and centrosome organization with transport best captures the predominant functional thread.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007368","count":1},{"id":"GO:1902017","count":1},{"id":"GO:0035735","count":1},{"id":"GO:0090267","count":1},{"id":"GO:0051642","count":1}]},{"hash":"1027982251109919131","title":"Magnesium and manganese ion homeostasis","description":"The top GO terms strongly point to metal ion balance, especially magnesium and manganese, including homeostasis and magnesium transport, which seems to be the core theme. The other terms relate to general metabolism (carbohydrate, nucleotide, lipid biosynthesis) and nutrient stress, suggesting broader metabolic adjustments but not a single, overriding function beyond ion homeostasis and metabolism. Confidence: Medium","confidence":"","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010960","count":3},{"id":"GO:0030026","count":3},{"id":"GO:1903830","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0005975","count":2}]},{"hash":"1073431786008472297","title":"Unknown","description":"The top terms are spread across neural development, signaling (calcium signaling, GPCR desensitization), metabolism and stress responses, and reproduction, with no dominant shared process; plus there are no edges tying the proteins together, making a cohesive functional label unsupported.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021549","count":1},{"id":"GO:0071333","count":1},{"id":"GO:0031647","count":1},{"id":"GO:0050850","count":1},{"id":"GO:1901796","count":1}]},{"hash":"1150756154982906009","title":"Lipid Biosynthesis and Membrane Lipid Metabolism","description":"The top GO terms are dominated by lipid-related processes (cardiolipin biosynthetic, phosphatidylcholine metabolic, phosphatidic acid biosynthetic, lipid catabolic), suggesting a cohesive function in lipid production, turnover, and membrane lipid remodeling across the proteins. Other terms touch on membrane-associated processes and regulation but do not override the central lipid metabolism theme, supporting a focused cluster around lipid biosynthesis and membrane dynamics.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032049","count":1},{"id":"GO:0032534","count":1},{"id":"GO:0046470","count":1},{"id":"GO:0016042","count":1},{"id":"GO:0006654","count":1}]},{"hash":"901246700627983512","title":"Steroid hormone and vitamin metabolism","description":"GO terms in this cluster cluster around biosynthesis and metabolic processes for steroids (estrogen, C21-steroid, glucocorticoids), retinol (vitamin A), and related pigment/cofactor pathways (melanin, tetrahydrobiopterin). This suggests a shared theme of steroid hormone and vitamin/pigment biosynthesis, with a few regulatory terms (dephosphorylation, JNK regulation, transcription regulation) appearing less central. Overall, the core theme is coherent but not perfectly cohesive, giving a moderate level of confidence.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":2},{"id":"GO:0046329","count":1},{"id":"GO:0006703","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0008207","count":1}]},{"hash":"1142282447966342259","title":"Neural signaling and actin cytoskeleton remodeling","description":"The cluster centers on signaling pathways (Rho GTPase, JNK, guanylyl cyclase) and cytoskeletal regulation (actin organization) with sensory/neural context (auditory stereocilium organization and grooming behavior). This suggests a cohesive group of proteins involved in signaling-driven cytoskeletal dynamics in neural or sensory cells.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:2000821","count":6},{"id":"GO:0043113","count":6},{"id":"GO:0070433","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0090630","count":4}]},{"hash":"1598266769474736154","title":"Lipid and Steroid Biosynthesis","description":"The top GO terms cluster around lipid metabolism and steroid/isoprenoid biosynthesis: very long-chain fatty acid biosynthesis, fatty acid elongation, dolichol-linked oligosaccharide biosynthetic process, polyprenol catabolic process, brassinosteroid biosynthetic process, and androgen/testosterone biosynthetic processes. This indicates a cohesive theme of lipid and steroid/isoprenoid pathways driving the cluster, with some general metabolic terms like aerobic respiration providing background context.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042761","count":3},{"id":"GO:0030497","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0009060","count":2},{"id":"GO:0006629","count":2}]},{"hash":"1811483508283336524","title":"T cell and germinal center development","description":"This cluster's top terms cluster around adaptive immunity\u2014T cell development and germinal center regulation (T follicular helper cell differentiation, thymic T cell proliferation, and IgE isotype switching). While a few other terms touch on general development and ubiquitin-related pathways, the strongest signal is immune cell development and germinal center biology.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002635","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060528","count":2},{"id":"GO:0061470","count":2}]},{"hash":"2030608442344936404","title":"Vertebrate neural and neuromuscular development","description":"Based on the prominent GO terms for brain and motor system formation (cerebellum development, interneuron fate commitment, diencephalon morphogenesis, neuromuscular process, locomotory behavior), the proteins likely participate in vertebrate neural and motor development. While a few terms refer to broader embryonic patterning (e.g., cartilage and digit morphogenesis), the neural/motor signals dominate, supporting a coherent developmental theme.","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":1},{"id":"GO:0021549","count":1},{"id":"GO:0042733","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0021918","count":1}]},{"hash":"2045861581173888185","title":"Transcriptional Regulators in Development","description":"The cluster centers on transcriptional regulation by RNA polymerase II (both positive and negative), suggesting these proteins act as transcriptional regulators or chromatin modifiers. The presence of neural development terms (midbrain development, axonogenesis) points to roles in neural development, while protein methylation aligns with epigenetic regulation of transcription. Some immune/xenobiotic response terms may reflect broader stress-responsive regulatory functions, but the core theme appears to be transcriptional control linked to development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0030901","count":3},{"id":"GO:0045944","count":3}]},{"hash":"441736274090338302","title":"Myogenesis and muscle fiber assembly","description":"The proteins are enriched for muscle development functions, including regulation of GTPase/Rho signaling, JNK cascade modulation, myoblast fusion, satellite cell activation, and sarcomere organization, which together point to myogenesis and muscle fiber assembly as the central theme. Some terms (viral process, obsolete proteolysis) appear peripheral and do not override the main muscle-related signal.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0031030","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0035023","count":2}]},{"hash":"367784191208035284","title":"Viral Integration and Genome Rearrangement","description":"These proteins cluster around DNA integration, transposition, and DNA recombination, with multiple terms for proviral latency and RNA-templated DNA synthesis (reverse transcription). Additional terms about symbiont entry into host cells and host apoptosis activation point to host\u2013pathogen interaction. Together, the shared theme is retroviral-like genome integration and genome rearrangement processes, indicating mobility elements and viral entry/restriction dynamics.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006313","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2}]},{"hash":"950626599157796583","title":"Central Metabolism and Amino Acid Catabolism","description":"The GO terms cluster around glycolysis and the TCA cycle, with several amino acid catabolic processes (glutamine, leucine, alanine) and quinolinate biosynthesis, indicating a core metabolic theme focused on energy production and carbon skeleton turnover. Peripheral terms like cell wall organization and sodium ion transport appear less central to the primary function of this cluster.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0006096","count":2}]},{"hash":"1922671074305175129","title":"Bacterial thiol biosynthesis and stress response","description":"The top GO terms prominently feature specific thiol biosynthesis pathways (bacillithiol and mycothiol), which are characteristic of particular bacteria, along with responses to xenobiotics and sorbitol\u2014indicating a theme of redox-related biosynthesis linked to stress defense. While there are general terms like DNA replication present, the strong signal from thiol biosynthesis terms suggests the cluster centers on bacterial thiol-based metabolism and stress response. ","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0071793","count":2}]},{"hash":"1110002408849053872","title":"Lipid, vitamin, and porphyrin biosynthesis","description":"Top GO terms point to multiple biosynthetic pathways: fatty acid and sphinganine biosynthesis (lipids), biotin biosynthesis (vitamin), and protoporphyrinogen IX biosynthesis (porphyrins). Although a transcription-related term and some obsolete annotations appear, the dominant theme is diverse biosynthesis of small molecules, suggesting a metabolic biosynthesis cluster.","confidence":"Medium","size":6,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009102","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006782","count":2},{"id":"GO:0019518","count":2}]},{"hash":"1641581210089962756","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006207","count":4},{"id":"GO:0044205","count":4},{"id":"GO:0006178","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0042417","count":3}]},{"hash":"308722824841983460","title":"Cell Cycle and Stress Signaling","description":"The proteins cluster around cell-cycle control and stress response processes\u2014mitotic G2 checkpoint signaling, meiosis cytokinesis, apoptosis, and p53/MAPK\u2013related signaling, plus ufmylation as a post-translational modification linker. While developmental terms appear (axonogenesis, gastrulation epiboly), the dominant themes are regulation of cell division and stress-responsive signaling pathways.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007111","count":1},{"id":"GO:0015914","count":1},{"id":"GO:0007409","count":1},{"id":"GO:1901798","count":1},{"id":"GO:0071569","count":1}]},{"hash":"1429252319768904039","title":"mRNA processing and translation regulation","description":"The terms cluster around post-transcriptional RNA processing and control of protein synthesis, including mRNA stability, splicing, polyadenylation, translation initiation, and ncRNA-mediated silencing, with a few peripheral terms (e.g., blastocyst formation) that are less central to this theme.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:1900363","count":3},{"id":"GO:0006446","count":3}]},{"hash":"1790580870000660029","title":"Mitochondrial Respiration and Redox Balance","description":"The top GO terms center on mitochondrial energy production: the TCA cycle, mitochondrial electron transport (NADH to ubiquinone), and oxidative detoxification, which together reflect respiration and redox homeostasis. Additional terms like regulation of membrane potential support a mitochondrial energy theme. A few annotations (sperm capacitation, development-related terms) appear peripheral to the core metabolic signal. Overall, the cluster appears to represent mitochondrial respiration and redox regulation.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0042391","count":4},{"id":"GO:0048240","count":4}]},{"hash":"576456192453057295","title":"Unknown","description":"This cluster shows a mix of GO terms across transcription regulation, development (angiogenesis and osteoblast differentiation), cell adhesion/migration, proteasome storage granule assembly, membrane transport/ATP synthesis, vacuolar acidification, and bacterial secretion, with no single shared process. Because the terms reflect disparate biological themes, there is no coherent functional theme to label. Thus Unknown, confidence None","confidence":"","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006933","count":1},{"id":"GO:1902906","count":1},{"id":"GO:0042777","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0015991","count":1}]},{"hash":"900988100859269562","title":"Unknown","description":"No GO terms are provided to indicate a shared function among the six proteins, so there is no clear theme to name the cluster; label unknown until terms are available.","confidence":"","size":6,"edges":11,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[]},{"hash":"874372911237916490","title":"Proviral integration and viral entry","description":"GO terms point to virus\u2013host interactions: proviral latency, entry into host cells, nuclear penetration, and DNA integration. Some unrelated terms exist (DNA replication, development), but the dominant theme is proviral integration and viral entry.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0039651","count":2}]},{"hash":"898322436010906543","title":"Multitissue development and stimulus response","description":"The terms cluster around development across multiple tissues (skin, heart, vestibular-related regions) and general multicellular development, with additional sensory and regulatory aspects such as caffeine response, temperature sensing, gastric acid secretion, and chemokine production. This points to a broad theme of tissue development with accompanying stimulus-responsive regulation, rather than a single specific pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071313","count":2},{"id":"GO:0050960","count":2},{"id":"GO:0010754","count":2},{"id":"GO:1903444","count":2},{"id":"GO:0007275","count":2}]},{"hash":"309281821006405867","title":"Epigenetic control of plant development","description":"The terms point to chromatin state regulation (heterochromatin formation, histone remodeling, chromatin-related processes) and transcription initiation, tied to developmental processes like phase transition and segment specification, with supporting layers from ncRNA-mediated gene silencing and stress-responsive translation\u2014together suggesting epigenetic and regulatory control of development.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0048510","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0006367","count":1}]},{"hash":"677901760757989161","title":"Unknown","description":"The top terms are heterogeneous: DNA-templated transcription, apoptosis, immune cell chemotaxis, and several biosynthetic processes across different organisms. There is no single shared function that ties the proteins together, so a coherent label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0019835","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0035754","count":2}]},{"hash":"137038084358910548","title":"General Stress Responses and Cell Growth","description":"This cluster has multiple stress-related terms (unfolded protein response, lead ion response, morphine response, etc.) alongside cell cycle and division terms, suggesting a broad theme of cellular stress responses linked with growth/division rather than a single precise function. I hence label it as a general stress and growth-associated cluster.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1901215","count":3},{"id":"GO:2000531","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0010288","count":3},{"id":"GO:0000278","count":3}]},{"hash":"858282441793279488","title":"Ribosome Biogenesis and Translation","description":"This cluster is most strongly tied to ribosome assembly and protein synthesis, given the GO terms for translation and maturation of LSU- and 5.8S rRNA. Other terms suggesting mitochondrial autophagy and mitotic processes appear marginal, so the core signal is ribosome-related biology.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":1},{"id":"GO:0000463","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000466","count":1}]},{"hash":"245814763730750573","title":"Nucleosome assembly and heterochromatin organization","description":"This cluster is dominated by chromatin-related functions: nucleosome assembly, heterochromatin organization, and histone modification marks (H3K4/H3K27). Even though several GO terms are marked obsolete, they point to histone methylation states and chromatin state maintenance. The shared theme of chromatin packaging and genome organization explains the presence of hints about nucleus size regulation as well.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":6},{"id":"GO:0080182","count":6},{"id":"GO:0016584","count":6},{"id":"GO:0006334","count":6},{"id":"GO:0097298","count":6}]},{"hash":"1877684288566857904","title":"Chromosome segregation and genome maintenance","description":"Dominant GO terms center on cell division, microtubule severing, and CENP-A chromatin assembly, indicating roles in chromosome segregation and mitosis. Related terms about DNA unwinding in replication and mRNA surveillance further support genome maintenance themes. A few terms (embryonic development, SOS response, ER-Golgi transport) appear less connected to the core cluster, suggesting annotation noise. Overall, the strongest signal is chromosomal dynamics during cell division, so the label reflects that core function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":2},{"id":"GO:0032508","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0006268","count":2},{"id":"GO:0090305","count":2}]},{"hash":"1437006118787464334","title":"Vesicle trafficking and GTPase regulation","description":"This cluster centers on intracellular trafficking within the endomembrane system, with frequent GO terms for endosome-to-Golgi, endosome-to-lysosome/late endosome, and retrograde Golgi-to-ER transport, all consistent with regulation by small GTPases. While some cell-cycle and signaling terms appear, the dominant pattern is vesicle transport and Golgi\u2013ER cycling, suggesting endomembrane trafficking as the unifying theme for these proteins.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0034498","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0045022","count":2}]},{"hash":"269651799285296631","title":"DNA Damage Response and Cell Cycle Signaling","description":"These proteins cluster around core processes of the DNA damage response and cell cycle control, with ties to stress signaling. The top GO terms point to mitotic cell cycle, meiotic DNA double-strand-break formation, homologous recombination repair, and G1 DNA damage checkpoint signaling, along with stress-induced pathways such as the JNK cascade and ER-stress\u2013triggered apoptosis, plus an embryonic development annotation. This combination suggests a coherent theme of coordinating genome integrity maintenance with cell cycle progression and apoptotic/stress responses.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0033128","count":6},{"id":"GO:1903955","count":6},{"id":"GO:0042138","count":6},{"id":"GO:0000724","count":6}]},{"hash":"683290367789173485","title":"Neural development and synaptic transmission","description":"The dominant terms describe neurons and synapses\u2014glutamatergic synaptic transmission, short-term synaptic plasticity regulation, and axon guidance/morphogenesis in neural pathways (dopaminergic neurons and corticospinal tract). While a couple terms relate to polarity or vascular maturation, the core theme centers on neural connectivity and synaptic function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0043278","count":2},{"id":"GO:0048172","count":2},{"id":"GO:0036514","count":1},{"id":"GO:0021957","count":1}]},{"hash":"955353169025575381","title":"Embryonic Hematopoiesis and Angiogenesis","description":"The proteins are enriched for developmental processes linking blood cell formation (definitive/primitive erythrocyte differentiation, T cell differentiation, myeloid regulation) with vascular development (angiogenesis, venous vessel development, angioblast migration), suggesting a coordinated embryonic program of hematopoiesis and vessel formation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060216","count":2},{"id":"GO:0048703","count":1},{"id":"GO:0030217","count":1},{"id":"GO:0035476","count":1},{"id":"GO:0006355","count":1}]},{"hash":"1205284316489768533","title":"Immune adhesion and coagulation signaling","description":"Most terms cluster around adhesion to the extracellular matrix and signaling (integrin signaling, cell-matrix and heterotypic adhesion, extravasation) together with immune and coagulation processes (complement activation, blood coagulation, T cell activation). Hyaluronan metabolism also relates to ECM dynamics. Taken together, the proteins likely participate in adhesion-driven cell migration within an immune/coagulation context, such as leukocyte extravasation and vascular remodeling. Hence the name Immune adhesion and coagulation signaling.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0007229","count":1},{"id":"GO:0034113","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0007161","count":1}]},{"hash":"1029364223075972355","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006293","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0006296","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0048455","count":2}]},{"hash":"1151458793467130677","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0006369","count":1}]},{"hash":"2104222595482024162","title":"ECM remodeling and developmental morphogenesis","description":"The GO terms center on extracellular matrix remodeling (collagen catabolic process, basement membrane disassembly) and morphogenetic processes (lung branching, intramembranous ossification, decidualization), indicating a theme of tissue remodeling during development and reproduction rather than a single pathway.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":1},{"id":"GO:0001957","count":1},{"id":"GO:0010813","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0060441","count":1}]},{"hash":"1491142696384893418","title":"Unknown","description":"The GO terms in this cluster cover a wide range of processes (vitamin D response, intracellular signal transduction, thermoception, lipid catabolism, brown fat differentiation, proteasome assembly, ubiquitination, oligodendrocyte and heart morphogenesis) with no clear, single shared function linking the proteins. This lack of a cohesive theme makes a reliable, specific label difficult, so I am assigning Unknown with no confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0050960","count":1},{"id":"GO:0046475","count":1},{"id":"GO:1903444","count":1}]},{"hash":"83726510994042511","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0060416","count":2}]},{"hash":"1728782761422511704","title":"Steroid hormone and pigment biosynthesis","description":"The proteins are enriched for GO terms such as estrogen biosynthetic process, C21-steroid hormone metabolic process, glucocorticoid biosynthetic process, retinol metabolic process, and melanin biosynthesis, indicating a core theme of steroid hormone and pigment production. Some related, but more distant, biosynthetic terms (mycolic acid, antibiotic, tetrahydrobiopterin) suggest broader metabolic biosynthesis activity, but the dominant signal points to steroid-related and pigment biosynthesis pathways.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006703","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0008207","count":3},{"id":"GO:0042438","count":3},{"id":"GO:0006355","count":3}]},{"hash":"2167906824000893855","title":"Diverse Metabolic and Redox Processes","description":"The GO terms are spread across several distinct metabolic activities (methanol/methane metabolism, cholesterol metabolism, glycine betaine biosynthesis, thiamine biosynthesis, dopamine catabolism) plus a redox-related/activation term, with one regulatory GO (activation of GTPase activity). There isn\u2019t a single cohesive pathway, but the cluster collectively points to broad metabolic and redox/regulatory roles, hence a label focusing on diverse metabolism and redox processes. ","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046188","count":1},{"id":"GO:0015945","count":1},{"id":"GO:0008203","count":1},{"id":"GO:0019285","count":1}]},{"hash":"1696893121538752891","title":"Ubiquitin-Dependent Protein Turnover","description":"This cluster is best named for its strong association with protein ubiquitination and ubiquitin-dependent protein catabolic processes, indicating a focus on proteostasis and regulated protein degradation, often intertwined with phosphorylation. The presence of a neuron-related term (synapse assembly) suggests a potential neuronal context, though riboflavin biosynthesis and oxidative stress signaling appear as outliers. Overall, the dominant shared function appears to be ubiquitin-mediated regulation of protein turnover.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0016310","count":1},{"id":"GO:0009398","count":1},{"id":"GO:0006747","count":1},{"id":"GO:0033864","count":1}]},{"hash":"1121658325253228475","title":"Neuronal development and signaling","description":"The top GO terms point to optic nerve morphogenesis, axonal protein localization, and long-term synaptic plasticity, with accompanying hormone signaling (prolactin, FSH) and immune signaling (IL-27). This pattern suggests the proteins participate in neuronal development and neural communication, with potential endocrine and immune modulation rather than a single isolated process.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902771","count":5},{"id":"GO:0048170","count":5},{"id":"GO:0071206","count":5},{"id":"GO:0008284","count":5},{"id":"GO:1902955","count":5}]},{"hash":"836073140653393768","title":"Nucleokinesis in brain development","description":"The prominent GO terms relate to nuclear movement within cells, specifically nucleokinesis during radial glial-guided migration in brain development, along with nuclear membrane/cytoskeletal anchoring and Rho signaling regulation. This combination points to a cohesive function centered on nuclear migration dynamics as part of neural development, despite a few unrelated terms present.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031022","count":2},{"id":"GO:0021817","count":2},{"id":"GO:0090286","count":2},{"id":"GO:0090292","count":2},{"id":"GO:0035023","count":2}]},{"hash":"533846357016880344","title":"Unknown","description":"The top GO terms span several disparate areas (reproductive development, heart tissue morphogenesis, metabolism, and general cellular regulation). There isn\u2019t a single cohesive function that ties the proteins together, so a specific, representative label cannot be assigned. ","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048550","count":4},{"id":"GO:0033327","count":4},{"id":"GO:2000020","count":4},{"id":"GO:0050728","count":4},{"id":"GO:1901522","count":4}]},{"hash":"1021854917862398457","title":"Ubiquitin-Dependent NF-kB Signaling Regulators","description":"This cluster is characterized by strong signals for ubiquitination processes (polyubiquitination, autoubiquitination, K6-linked ubiquitination) and for inflammatory signaling pathways (positive regulation of canonical NF-kappaB signaling, TNF-mediated signaling) as well as transcriptional regulation terms. Together, these terms suggest proteins that link ubiquitin modification to regulation of NF-kB/TNF signaling and transcription, rather than a single structural or metabolic function. The absence of observed interactions in the dataset does not diminish the coherence of the functional theme around ubiquitin-mediated signaling and transcriptional control. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1577779365224604822","title":"Neural signaling and behavior","description":"The top GO terms cluster around behavioral responses and learning, including behavioral responses to psychoactive substances (ethanol, amphetamine), locomotory behavior, maternal behavior, and visual learning, with dopamine catabolic process pointing to dopaminergic signaling involved in reward and motivation. While a few terms like leukocyte migration and blood vessel remodeling are less directly tied to neural behavior, the dominant theme is brain-related regulation of behavior and learning, suggesting a neural/behavioral function cluster. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048149","count":2},{"id":"GO:0042420","count":1},{"id":"GO:0007626","count":1},{"id":"GO:0006035","count":1},{"id":"GO:0001974","count":1}]},{"hash":"2153780110686875490","title":"Fatty acid metabolism and acyl-CoA biosynthesis","description":"Based on the top GO terms, the cluster centers on acyl-CoA metabolic processes and fatty acid biosynthesis/catabolism across chain lengths (long-, medium-, and palmitic acid). This suggests a cohesive lipid metabolism role for the proteins. A few terms (enterobactin biosynthesis and transcription regulation) are present but do not shift the overall theme away from fatty acid metabolism.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006637","count":1},{"id":"GO:0036116","count":1},{"id":"GO:1900535","count":1},{"id":"GO:0009239","count":1},{"id":"GO:0010124","count":1}]},{"hash":"948515250263919005","title":"Ubiquitin-Dependent Protein Degradation","description":"Most of the top GO terms point to ubiquitin-mediated protein catabolism (ubiquitin-dependent proteolysis and autoubiquitination), suggesting the cluster comprises components of the ubiquitin-proteasome system that tag and degrade proteins. There are also hints of regulation of signaling pathways and protein remodeling, but the dominant theme is ubiquitin-dependent degradation. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035331","count":2},{"id":"GO:0030579","count":2},{"id":"GO:2000324","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1133049751170191782","title":"Mitophagy and mitochondrial dynamics regulators","description":"Based on the top terms, the cluster centers on autophagy/mitophagy and mitochondrial dynamics (mitophagy, negative regulation of autophagosome maturation, and negative regulation of mitochondrial fusion), indicating a coherent module of mitochondrial quality control and autophagy regulation. Other terms (translation, GPCR regulation) are less cohesive with this core theme, but do not override the dominant pattern.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904021","count":5},{"id":"GO:0071816","count":5},{"id":"GO:0000423","count":5},{"id":"GO:0045759","count":5},{"id":"GO:0006412","count":5}]},{"hash":"1826736120551798055","title":"Ribosome Biogenesis and Translation","description":"The dominant terms are translation (GO:0006412) and ribosome assembly (GO:0042255), with an rRNA processing step (ITS2 cleavage) pointing to ribosomal RNA maturation. Together these suggest a module focused on ribosome biogenesis and protein synthesis, with some secondary stress- or damage-related annotations that may reflect regulatory links to DNA damage or UV responses.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000448","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0042255","count":1},{"id":"GO:1902167","count":1}]},{"hash":"158735672797632349","title":"Unknown","description":"The top terms are scattered across transcription (DNA-templated) and diverse metabolic processes (several amino acid catabolic pathways, sphingolipid biosynthesis, and oxaloacetate metabolism), with several obsolete GO terms. The small cluster size and a single edge offer little cohesive functional signal, making it hard to tie these proteins to a single clear biological theme.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0033362","count":1},{"id":"GO:0097053","count":1},{"id":"GO:0042853","count":1},{"id":"GO:0046511","count":1}]},{"hash":"2267723466123920755","title":"Steroid and lipid metabolism","description":"The cluster\u2019s top GO terms are dominated by biosynthetic and metabolic processes for steroids and related lipids (estrogen, C21-steroid hormones, glucocorticoids, retinol, methyl-branched fatty acids), suggesting a lipid/hormone synthesis theme. While melanin biosynthesis and sporulation appear among the terms, they are less central to the core function indicated by the majority of terms.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006703","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0008207","count":3},{"id":"GO:0042438","count":3},{"id":"GO:0006355","count":3}]},{"hash":"537484026912630004","title":"Steroid, terpenoid, and oxylipin biosynthesis","description":"The top GO terms indicate biosynthesis pathways for steroids (cortisol), plant terpenoids (brassinosteroids, ent-kaurene oxidation), and oxylipins (epoxygenase P450 pathway, oxylipin biosynthesis), along with related hormone-related processes (vitamin D response, sex differentiation). While spanning plant and animal contexts, they collectively point to lipid-derived hormone and signaling molecule production, with accompanying lipid metabolism terms (triglyceride metabolism). This makes \u201cSteroid, terpenoid, and oxylipin biosynthesis\u201d a coherent, concise label for the cluster.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0010241","count":2},{"id":"GO:0030540","count":2}]},{"hash":"1562706615901264788","title":"P450-driven hormone and lipid metabolism","description":"This cluster centers on lipid- and hormone-related biosynthesis and metabolism, highlighted by GO terms for epoxygenase P450 pathways, ent-kaurene oxidation to kaurenoic acid, brassinosteroid biosynthesis, and cortisol biosynthesis, as well as triglyceride metabolism. While it also includes broader development and vitamin D response terms, the common thread appears to be cytochrome P450\u2013mediated metabolic processes shaping lipid signaling and hormone production, suggesting a cohesive functional theme despite cross-kingdom clues.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":1},{"id":"GO:0061298","count":1},{"id":"GO:0006641","count":1},{"id":"GO:0010241","count":1},{"id":"GO:0030540","count":1}]},{"hash":"11962140533758936","title":"Immune signaling and dendritic cell chemotaxis","description":"The top GO terms point to immune-related signaling (GPCR-mediated pathways, regulation of chemokines) and cell migration in dendritic cells, suggesting a theme of immune signaling and movement. However, several outlier terms (electron transport chain, cell wall catabolic process) reduce coherence, implying only modest confidence that the proteins share a single, tight function.","confidence":"Low","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045777","count":3},{"id":"GO:0022900","count":3},{"id":"GO:0010579","count":3},{"id":"GO:1901652","count":2},{"id":"GO:0090198","count":2}]},{"hash":"911678055885584509","title":"Post-transcriptional mRNA processing and translation regulation","description":"These proteins cluster around post-transcriptional control: regulation of translational initiation, spliceosome-mediated (including alternative) mRNA splicing, poly(A) tail regulation, and ncRNA-mediated gene silencing, plus assembly of the eIF4F complex. The shared theme is mRNA maturation and initiation of translation, rather than a single enzymatic function, with a developmental term likely incidental. ","confidence":"High","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0001825","count":1}]},{"hash":"1379225518679060558","title":"Germ-line meiosis and spermatogenesis with translational regulation","description":"Strong signals for male germ cell development (meiotic division, spermatid differentiation, germ-line cyst formation, chromosome segregation) and translational control (cap-dependent initiation, translation, deadenylation).","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0019827","count":1},{"id":"GO:0007112","count":1},{"id":"GO:0001662","count":1}]},{"hash":"2007388346169467257","title":"Nuclear RNA Processing and Transcription Regulation","description":"The top GO terms cluster around nuclear RNA maturation and transcription control, including import into nucleus, spliceosomal snRNP assembly, mRNA decapping, RNA Pol II termination, and tRNA processing, with supporting signals from histone mRNA metabolism and chromatin-related processes. While a term like P-body assembly hints at cytoplasmic RNA metabolism, the dominant theme is nuclear RNA processing coupled with transcription regulation, suggesting a cohesive functional group. Confidence: Medium","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051170","count":5},{"id":"GO:0000387","count":5},{"id":"GO:0000290","count":5},{"id":"GO:0009414","count":5},{"id":"GO:0006369","count":5}]},{"hash":"1758531795047019420","title":"Translation Machinery","description":"Top GO terms are dominated by translation and translational elongation, with a note on translational fidelity, pointing to a protein-synthesis\u2013focused cluster. Additional terms about actin regulation, ubiquitination, and stress responses appear only as single hits and likely do not define the core function of this group. Thus, the most representative theme is protein synthesis-related activity, albeit with some annotation noise. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1990145","count":1},{"id":"GO:0006414","count":1},{"id":"GO:0032232","count":1},{"id":"GO:0071479","count":1}]},{"hash":"1018740314071535455","title":"Retina Development & Photoreceptor Differentiation","description":"Given GO terms such as camera-type eye photoreceptor cell differentiation and retina vasculature development, the cluster seems centered on retinal development and photoreceptor specification. Additional terms point to signaling modulation (Notch, integrin) that can influence ocular tissue patterning, supporting a retina-focused role. A few terms (paranodal junction assembly, lysosome localization, virion attachment) are less directly related and may reflect shared cellular processes or annotation noise. Overall, the dominant retina-related terms justify the label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060219","count":2},{"id":"GO:0061298","count":1},{"id":"GO:0046813","count":1},{"id":"GO:0045747","count":1},{"id":"GO:2001046","count":1}]},{"hash":"864526503859141852","title":"Spliceosome-driven mRNA splicing regulation","description":"The GO terms clustered here are dominated by mRNA splicing via the spliceosome, spliceosomal snRNP assembly, and regulation of splicing, with supporting signals related to RNA processing and nucleolar localization. This points to a nuclear RNA processing role centered on spliceosome activity and mRNA maturation, despite no observed interactions in this set. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":1},{"id":"GO:0000387","count":1},{"id":"GO:2000825","count":1},{"id":"GO:0007049","count":1},{"id":"GO:1900363","count":1}]},{"hash":"1811575339582928895","title":"Chromosome condensation and separation","description":"This cluster centers on chromosome dynamics during cell division, as highlighted by mitotic sister chromatid separation, mitotic chromosome condensation, meiotic chromosome separation, and synaptonemal complex assembly. Other terms like spliceosome-mediated mRNA splicing, TORC1 signaling, and RNA polymerase III transcription regulation suggest broader nuclear coordination accompanying these processes. The core theme tying the terms together is chromosome condensation and segregation during mitosis and meiosis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0038202","count":1},{"id":"GO:0051306","count":1},{"id":"GO:0007130","count":1},{"id":"GO:0045945","count":1}]},{"hash":"939765480360408639","title":"Ribosome biogenesis and LSU rRNA maturation","description":"The set is dominated by GO terms about large subunit (LSU) ribosome biogenesis: maturation of LSU rRNA, assembly of the large subunit, assembly of preribosome, and export of the LSU from the nucleus. These consistently point to ribosome biogenesis and rRNA processing as the cluster\u2019s core function, with a few peripheral terms (e.g., transcription and differentiation) likely representing broader or incidental associations. High","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":1},{"id":"GO:0000027","count":1},{"id":"GO:1902626","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000466","count":1}]},{"hash":"545655749766400343","title":"Tissue morphogenesis and neural development","description":"The top GO terms indicate morphogenesis across multiple tissues (ossification, metanephric tubule morphogenesis, lymph vessel morphogenesis) plus neural development signals (axon guidance, regulation of neuron maturation). Although a few terms are general (cell cycle, mechanical response), the prevailing theme is developmental morphogenesis spanning organ systems, justifying a label of broad tissue morphogenesis with neural development. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0072237","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1593245612609059496","title":"DNA damage response and cell cycle control","description":"This cluster is dominated by GO terms tying genome maintenance to cell-cycle progression: global genome nucleotide-excision repair, chromosome segregation, G2/M transition, exit from mitosis, and mitotic cell cycle, plus SCF-dependent ubiquitin-mediated proteolysis that regulates cell-cycle proteins. These together point to a cohesive theme of sensing and repairing DNA damage while coordinating progression through mitosis, with viral process likely a secondary association. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":5},{"id":"GO:0007059","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0000086","count":5}]},{"hash":"398876547996395538","title":"Ribosome Biogenesis and Translation","description":"The cluster\u2019s top GO terms are dominated by ribosome-related processes\u2014translation, maturation of LSU rRNA, and assembly of the large subunit preribosome\u2014indicating a cohesive function in ribosome production and protein synthesis, with some related RNA processing signals.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0046677","count":1},{"id":"GO:0046898","count":1},{"id":"GO:0031047","count":1}]},{"hash":"880624065100803468","title":"Apoptosis Regulation and DNA Damage Signaling","description":"Based on the top GO terms, the proteins in this cluster predominantly relate to regulation of apoptosis (positive and negative), mitochondrial fragmentation linked to apoptosis, and DNA damage checkpoints/signaling, suggesting a shared role in cellular stress responses that govern cell fate. A few terms like Wnt signaling and Golgi-to-lysosome transport are peripheral but do not override the central theme of apoptosis and DNA damage response.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0042752","count":1},{"id":"GO:2000003","count":1},{"id":"GO:0090311","count":1}]},{"hash":"133060859464753782","title":"Embryonic heart and craniofacial development","description":"The top GO terms are dominated by embryonic development and organogenesis, including multicellular organism development, organ induction, embryonic cranial skeleton morphogenesis, heart development, and neuron migration. This strong emphasis on early development and formation of heart and craniofacial structures suggests a cluster of proteins involved in embryonic organogenesis, with other terms like lipid catabolism or proteasome assembly likely representing ancillary cellular processes rather than core functions.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0003350","count":2},{"id":"GO:0001764","count":2}]},{"hash":"1683537135481376041","title":"Unknown","description":"This cluster shows a highly diverse set of GO terms, spanning RNA regulation, development, immune signaling, neuronal processes, and PI3K/AKT signaling, with no single dominant function linking the proteins. There isn\u2019t a coherent, interpretable theme to assign a specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050779","count":1},{"id":"GO:1902895","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0071285","count":1},{"id":"GO:0050728","count":1}]},{"hash":"993160058283305647","title":"DNA Replication and Repair","description":"The proteins here are enriched for DNA-related processes: DNA replication, DNA ligation in recombination, single-strand break repair, and mitochondrial DNA repair, indicating a core role in nucleic acid maintenance. Some other terms (proteoglycan biosynthesis, amyloid-beta response) appear noisy or secondary, but the strongest signal centers on DNA replication/repair pathways.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":2},{"id":"GO:0015015","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0051102","count":1},{"id":"GO:0000012","count":1}]},{"hash":"1750391575638857706","title":"Ion Transport and Homeostasis","description":"The terms cluster around ion gradients and membrane potential maintenance\u2014sodium, potassium, and calcium homeostasis and transmembrane cation transport\u2014so the core function is Ion Transport and Homeostasis; some lipid/membrane-related terms are supplementary but do not override the main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086009","count":4},{"id":"GO:0019373","count":4},{"id":"GO:0046839","count":4},{"id":"GO:0006883","count":4},{"id":"GO:1905122","count":4}]},{"hash":"784730251977883918","title":"Developmental signaling and proliferation control","description":"The cluster centers on developmental processes (spinal cord development, multicellular organism development) and cell growth regulation (mitotic cell cycle, positive regulation of cell population proliferation), with supporting roles for signaling (GTPase activity, transcription factor localization) and broader cellular regulation such as ubiquitination and stress-related apoptosis. This points to a cohesive theme of developmental signaling intertwined with control of growth and division.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008284","count":2}]},{"hash":"1178427872729342418","title":"Myoblast differentiation and tissue remodeling","description":"The terms cluster around myoblast proliferation and differentiation (GO:0051450, GO:0048771), with supporting growth-factor signaling (GO: cellular response to hepatocyte growth factor stimulus; GO:1900744 regulation of p38MAPK cascade) and extracellular remodeling activities (GO:0031639 plasminogen activation, GO:0051918 negative regulation of fibrinolysis, GO:0045445 myoblast differentiation). Ribosome biogenesis (GO:0042254) appears as a general background process rather than the core theme. Taken together, the cluster points to growth-factor\u2013driven muscle lineage differentiation and associated tissue remodeling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0060763","count":1},{"id":"GO:0051450","count":1},{"id":"GO:0045445","count":1},{"id":"GO:0048771","count":1}]},{"hash":"284829920667387482","title":"Unknown","description":"The GO terms span protein ubiquitination and proteasome-related processes, vitamin D response, temperature sensation, lipid catabolism, and several differentiation/morphogenesis terms (oligodendrocyte, cerebellar granule cell, cardiac right atrium). This set reflects diverse, unrelated biological processes rather than a single cohesive function, so a specific functional label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0050960","count":3},{"id":"GO:0046475","count":3},{"id":"GO:1903444","count":3}]},{"hash":"1896922669861839082","title":"Ribosome Assembly and Translation Initiation Regulation","description":"This cluster centers on components involved in ribosome biogenesis (90S preribosome assembly) and the initiation of translation, including stress-responsive regulation of cytoplasmic translation and formation of the translation preinitiation complex. A few transcription-related terms appear, but the dominant theme ties to ribosome assembly and initiation control, often in response to stress.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0000291","count":1},{"id":"GO:0032057","count":1},{"id":"GO:0034463","count":1},{"id":"GO:2000676","count":1}]},{"hash":"2159031994769838849","title":"Developmental regulation and genome maintenance","description":"GO terms point to development (osteoblast differentiation, spinal cord development, multicellular organism development) but also to genome maintenance and transcriptional control (mitotic cell cycle, homologous recombination repair, ubiquitination, histone methylation, transcription factor localization). The mix suggests a cluster centered on how development proceeds in concert with DNA repair, protein turnover, and epigenetic regulation, rather than a single simple pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":2},{"id":"GO:0021510","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0000724","count":1}]},{"hash":"164156047937968165","title":"Ribosome Biogenesis and rRNA Maturation","description":"This cluster is dominated by GO terms for ribosome biogenesis and maturation of LSU-rRNA, suggesting a nucleolar or ribosome-assembly role for these proteins. The presence of other terms such as development and DNA repair may reflect multifunctionality or annotation noise, but the strongest, most frequent signals center on ribosome production and rRNA processing.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0021510","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0000278","count":4}]},{"hash":"2178483621923648767","title":"Cell signaling and cytoskeletal regulation","description":"The GO terms cluster around signaling pathways (ephrin receptor signaling, TGF-beta response, GTPase regulation, tyrosine phosphorylation) and cytoskeletal control (barbed-end actin capping), with links to cell division and apoptosis. While splicing and oligomerization are present, the dominant theme is signaling-driven regulation of proliferation, cytoskeleton, and cell fate.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0050731","count":2}]},{"hash":"1973066745104143519","title":"Vertebrate development and endocrine signaling","description":"This cluster shows enrichment for vertebrate development terms (pituitary gland, cerebellum and lung morphogenesis) and hormone response (thyroid hormone stimulus), suggesting roles in organogenesis and endocrine signaling; other terms like methylation and tRNA modification appear as ancillary cellular processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0000122","count":2},{"id":"GO:2000179","count":2}]},{"hash":"1391827827970398518","title":"TGF-\u03b2/SMAD signaling regulation","description":"The dominant GO terms cluster around attenuation of TGF-\u03b2/BMP signaling and SMAD pathway control, including negative regulation of TGF-\u03b2 receptor signaling and BMP signaling, SMAD-related regulation, and peptidyl-threonine dephosphorylation, suggesting phosphatase activity terminating SMAD signaling; a cellular response to TGF-\u03b2 stimulus reinforces this theme. A photosystem-related term appears as an odd outlier, likely an annotation artifact.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030514","count":4},{"id":"GO:0030512","count":4},{"id":"GO:0010991","count":4},{"id":"GO:0042347","count":3},{"id":"GO:0080005","count":3}]},{"hash":"884659937760272565","title":"Embryonic Morphogenesis and Tissue Differentiation","description":"The top GO terms cluster around embryonic development and tissue morphogenesis across many lineages (left-right patterning, cartilage morphogenesis, mesoderm and placenta development, heart cushion EMT, pancreatic cell development, hair follicle morphogenesis), suggesting a shared role in embryogenesis and differentiation. A splicing term is present but secondary.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060707","count":5}]},{"hash":"1344930763604504367","title":"Unknown","description":"The top terms span vastly different biological areas, including mitochondrial electron transport, inflammatory responses, GPCR signaling, and plant- or cell-wall\u2013related biosynthetic processes, with little overlap or a single unifying function. With no edges or connectivity among proteins, there is no cohesive theme to label, so Unknown is the appropriate choice. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022900","count":2},{"id":"GO:0045777","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0010579","count":2},{"id":"GO:0010192","count":1}]},{"hash":"72749042338277015","title":"Neurotransmission and ion transport","description":"The GO terms cluster around neuronal signaling and membrane ion handling: regulation of circadian sleep/wake cycle, startle response, excitatory and inhibitory postsynaptic potentials, sodium and calcium ion transport, and synaptic transmission (including micturition). This suggests a common theme of neuronal excitability and neurotransmitter signaling, with potential circadian modulation; the acrosome reaction term may reflect vesicle fusion processes also relevant to neurotransmitter release. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":4},{"id":"GO:0001964","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0060079","count":4}]},{"hash":"2204518853724494302","title":"Sphingolipid transport and metabolism","description":"The top GO terms center on ceramide transport (ER to Golgi), ceramide phosphate transport, glycolipid and glycosphingolipid metabolic/transport processes. This points to a shared function in sphingolipid trafficking and metabolism, with a few ancillary transport or immune-related terms, but the core theme is sphingolipid handling in membranes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035621","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0015695","count":1},{"id":"GO:0072488","count":1},{"id":"GO:0009816","count":1}]},{"hash":"2019467620712922779","title":"Sperm-Zona Pellucida Interaction and Acrosome Regulation","description":"GO terms in this cluster center on fertilization, notably regulation of the acrosome reaction, binding of sperm to the zona pellucida, and zona pellucida penetration, indicating a cohesive sperm-egg interaction theme. Peripheral terms related to mammary gland development or wound healing are present but less central to the core function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0060046","count":1},{"id":"GO:0060058","count":1},{"id":"GO:0060054","count":1},{"id":"GO:0030879","count":1}]},{"hash":"1165555079046006159","title":"Embryonic development and proliferation control","description":"These proteins are linked to vertebrate embryogenesis (neural tube closure, retina development) and to cell-cycle and cytoskeletal processes (cell proliferation, mitotic spindle assembly, actin remodeling) with calcium signaling, suggesting a developmental program tightly coordinating proliferation and morphogenesis. A stress response to cadmium is present but less central to the core theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1630487689375492418","title":"Gene expression regulation by transcription and splicing","description":"The cluster\u2019s top GO terms cluster around negative regulation of RNA polymerase II transcription, ncRNA-mediated gene silencing, and regulation of mRNA splicing via the spliceosome, suggesting a coherent theme of controlling gene expression at transcriptional and post-transcriptional levels. A few terms related to differentiation and cell cycle reflect broader regulatory contexts that accompany these processes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0033327","count":1},{"id":"GO:0000320","count":1}]},{"hash":"273496889751889344","title":"Translation initiation machinery","description":"The top GO terms are dominated by translation initiation-related processes (regulation of translational initiation; eukaryotic translation initiation factor 3 complex assembly; formation of cytoplasmic translation initiation complex), pointing to a cluster centered on initiation factors and initiation complex assembly. While a few other terms (proteasome assembly, trafficking, development) appear, they are less prominent, so the core theme is translation initiation machinery.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090160","count":2},{"id":"GO:0006446","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0070196","count":1},{"id":"GO:0043248","count":1}]},{"hash":"1922079100143560668","title":"BMP signaling in skeletal and cardiac development","description":"The GO terms converge on BMP pathway regulation and downstream effects on mesoderm-derived tissues: cranial skeletal morphogenesis, chondrocyte differentiation and cartilage condensation, heart development, and muscle-related differentiation. SMAD phosphorylation is an integrated step in BMP/TGF-\u03b2 signaling, reinforcing the BMP-centric theme. Kidney development is also listed, consistent with BMP roles in mesodermal organogenesis, but the strongest signal remains skeletal and cardiac morphogenesis via BMP signaling.","confidence":"High","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":3},{"id":"GO:0048701","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0048378","count":2},{"id":"GO:0045663","count":2}]},{"hash":"1930577220859403416","title":"Cardiac morphogenesis and conduction","description":"Based on the top GO terms, the cluster is strongly associated with heart development (heart morphogenesis, ventricular muscle tissue morphogenesis, trabecula formation) and cardiac conduction/electrical coupling, with calcium signaling relevant to heart function, indicating a cohesive cardiac structural/functional theme. A single outlier term exists, but the cardiac terms dominate the cluster\u2019s functional signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901710","count":1},{"id":"GO:0060347","count":1},{"id":"GO:0060315","count":1},{"id":"GO:0086064","count":1},{"id":"GO:0055010","count":1}]},{"hash":"867929772404999840","title":"Lipid metabolism and hormone biosynthesis","description":"The GO terms include triglyceride metabolic process, oxylipin biosynthesis, and epoxygenase P450 pathways, indicating lipid-derived signaling routes. They also include cortisol and brassinosteroid biosynthetic processes, plus ent-kaurene oxidation, suggesting steroid/hormone biosynthesis. The presence of vitamin D response and sex differentiation terms adds cross-kingdom hormone context. Taken together, they point to a cluster centered on lipid-based signaling and hormone production, albeit from mixed species annotations.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0010241","count":2},{"id":"GO:0030540","count":2}]},{"hash":"757645281894199401","title":"Membrane transporters and vesicle loading","description":"This cluster shows enrichment for multiple transmembrane transport GO terms (nitrite, nitrate, sodium, phosphate, urate, dehydroascorbic acid/L-ascorbic acid transport) and a vesicular loading term (neurotransmitter loading into synaptic vesicle), suggesting a functional grouping around membrane transport and vesicle-related cargo handling.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0070837","count":2},{"id":"GO:0015747","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015706","count":2}]},{"hash":"2224178283475670466","title":"Diverse tissue cell differentiation programs","description":"The top GO terms cluster around differentiation and fate specification across multiple tissues (insects Malpighian tubule, brain vestibular nucleus, pancreatic islet cells, stomatal complexes, kidney mesenchyme, auditory receptors, skeletal muscle, etc.). This pattern points to a general role in directing cell fate rather than a single tissue-specific function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061382","count":4},{"id":"GO:0021750","count":4},{"id":"GO:0003326","count":4},{"id":"GO:0003329","count":4},{"id":"GO:0010374","count":4}]},{"hash":"885460078586342836","title":"Nuclear RNA Processing and Spliceosome Assembly","description":"The terms cluster around nuclear RNA metabolism\u2014import into the nucleus, spliceosomal snRNP assembly, deadenylation-dependent decapping of nuclear-transcribed mRNA, transcription termination, and tRNA/histone mRNA processing\u2014often co-occurring with chromatin-related processes. This suggests a coherent group of proteins involved in RNA maturation and processing within the nucleus.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051170","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0000290","count":2},{"id":"GO:0009414","count":2},{"id":"GO:0006369","count":2}]},{"hash":"2227617856087898396","title":"Unknown","description":"The GO terms span both animal steroid biosynthesis (cortisol, aldosterone) and vertebrate development (retina vasculature development, sex differentiation, response to vitamin D), as well as plant-specific biosynthetic pathways (kaurene oxidation, brassinosteroid, oxylipin) with no clear, single functional theme connecting all four proteins. The lack of interactions (Edges: 0) reinforces that there is no cohesive biological role tying the cluster together.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034651","count":3},{"id":"GO:0032342","count":3},{"id":"GO:0033280","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0006641","count":2}]},{"hash":"1444432905920403817","title":"Immune cell chemotaxis and inflammatory regulation","description":"The GO terms are dominated by immune-cell movement (dendritic cell and eosinophil chemotaxis) and regulation of inflammatory signaling (negative regulation of chemokine production and inflammatory response), with supporting notes on signaling and membrane potential that can affect immune cell activation. This points to a cohesive theme of immune cell trafficking and inflammation control rather than a metabolic or structural process.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1901652","count":4},{"id":"GO:0090198","count":4},{"id":"GO:0016998","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0042391","count":4}]},{"hash":"721841943690311148","title":"Developmental and reproductive processes","description":"The top GO terms span multiple developmental and morphogenetic contexts (dorsal aorta, blastocyst, kidney, ovarian follicle growth) and include reproductive interactions (sperm binding) and prostaglandin signaling, suggesting a broad role in development and reproduction rather than a single specific function. Some immune or sensory terms appear as ancillary associations, but the overarching theme centers on development and reproductive biology.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035912","count":1},{"id":"GO:0007160","count":1},{"id":"GO:0034695","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0001825","count":1}]},{"hash":"385674153341783275","title":"Sodium-independent small-molecule transport","description":"The top GO terms are dominated by sodium-independent transport of small molecules: icosanoids, organic anions, and microcystin. The other terms touch on development and transcription, but those seem less connected to the transport theme and likely reflect broader annotations. With no observed interactions among proteins, the shared transport function is the most representative label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071718","count":1},{"id":"GO:1905431","count":1},{"id":"GO:0043252","count":1},{"id":"GO:0045316","count":1},{"id":"GO:0006355","count":1}]},{"hash":"695769090614898388","title":"RNA processing and ribosome biogenesis","description":"This cluster shows a coherent theme around nuclear RNA maturation and ribosome production: positive regulation of mRNA splicing via spliceosome, poly(A)+ mRNA export from the nucleus, and assembly of large subunit preribosome. These relations point to RNA processing and ribosome biogenesis as the core shared function among the proteins. Minor terms like DNA repair or metabolic processes may reflect additional nuclear roles or annotation noise in a small set of proteins, but the strongest signal centers on RNA processing and ribosome assembly.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0036065","count":1},{"id":"GO:0019303","count":1},{"id":"GO:0060180","count":1},{"id":"GO:0042354","count":1},{"id":"GO:0031047","count":1}]},{"hash":"2192181320000374625","title":"Stress-Responsive Transcription and Growth Regulation","description":"Based on the GO terms, the cluster centers on responses to stressors (xenobiotic stimulus, hypoxia via HIF-1alpha signaling) and on modulation of transcription and growth (regulation of DNA-templated transcription, DNA topology, cell size). Some terms (telomerase assembly, placenta development, secondary growth) appear less directly linked and may reflect broader or species-specific annotations, but the dominant signal is stress-induced regulation of gene expression and cellular growth.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:1901389","count":2},{"id":"GO:0097411","count":2},{"id":"GO:1905323","count":2},{"id":"GO:0045793","count":2}]},{"hash":"2144408600505828355","title":"Thermoregulation and signaling pathways","description":"Overall, the top GO terms cluster around temperature-responsive processes (cellular response to temperature stimulus, diet-induced thermogenesis, electron transport chain) and signaling through GPCRs affecting physiological functions (adenylate cyclase\u2013activating GPCR signaling, blood pressure regulation, pain perception). This suggests a theme of thermoregulation coupled with receptor-mediated signaling and metabolic control, though a few terms (e.g., cell wall catabolic process, locomotory behavior) may reflect broader or species-specific annotations. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022900","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0045777","count":3},{"id":"GO:0010579","count":3}]},{"hash":"2108652989558596660","title":"Neuronal Morphogenesis and Axon Growth Regulation","description":"The GO terms cluster around nervous system development, dendrite morphogenesis, axonogenesis/axon extension, and signaling pathways (Wnt, ERK) that regulate neuronal morphology, suggesting the proteins jointly regulate neuronal development and axon/dendrite formation.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031647","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0050771","count":2},{"id":"GO:0045773","count":2}]},{"hash":"1161121445587932591","title":"Axon and dendrite morphogenesis","description":"The cluster is dominated by GO terms tied to neuronal process development, including axon extension/axonogenesis and dendrite morphogenesis, with supporting processes like ERK signaling and endocytosis that are often involved in neurite outgrowth and remodeling. This suggests the proteins collectively participate in neurite development and morphology changes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031647","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0048813","count":4},{"id":"GO:0050771","count":4}]},{"hash":"906734028477877513","title":"Caveolin-mediated endocytosis in neural development","description":"The cluster is dominated by terms for caveolin-mediated endocytosis (GO:0072584) and its regulation (GO:2001286), with neural development signals such as striatal medium spiny neuron differentiation (GO:0021773) and Rac signaling regulation (GO:0035020). While there are a few peripheral terms (e.g., mitochondrial depolarization, podosome assembly), the strongest common theme is caveolin-dependent endocytic processes linked to neural differentiation, justifying the chosen label.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035156","count":1},{"id":"GO:0035020","count":1},{"id":"GO:1900740","count":1},{"id":"GO:1902498","count":1},{"id":"GO:0072584","count":1}]},{"hash":"2048955455986888584","title":"Mitochondrial dynamics and membrane potential","description":"This cluster is dominated by mitochondrial-related terms: mitochondrion inheritance, stress-induced mitochondrial fusion, positive regulation of mitochondrial membrane potential, and cardiolipin metabolism. Some terms about podocyte development, T cell polarity, and PKC signaling appear, but are less central. Thus it is best described as mitochondrial dynamics and membrane potential.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0060355","count":2},{"id":"GO:1901585","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0072249","count":2}]},{"hash":"707180531696340962","title":"Hormone- and drug-induced apoptotic signaling","description":"TheGO terms point to responses to hormonal signals (glucocorticoid, estradiol) and xenobiotic/drug stimuli (nicotine, staurosporine) with a core emphasis on apoptosis (extrinsic apoptotic signaling, apoptotic DNA fragmentation). Additional related terms touch on cell cycle regulation and immune aspects (CDK activity, T cell homeostasis). While a few terms are less directly connected (e.g., sensory perception of sound), the central pattern is stress- and hormone-related activation of apoptotic pathways.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":1},{"id":"GO:0006309","count":1},{"id":"GO:0035094","count":1},{"id":"GO:0008635","count":1},{"id":"GO:0032355","count":1}]},{"hash":"884422600332173801","title":"Organ development and morphogenesis","description":"This cluster\u2019s GO terms cluster around developmental processes across tissues\u2014imaginal disc growth, eye-antennal disc development, digestive tract development, and blood vessel development\u2014suggesting involvement in organ formation. Supporting terms about nucleolus organization and endocytosis reflect cellular machinery that underpins development, while some terms (apoptotic signaling, neutrophil chemotaxis) are broader but not inconsistent. Overall, the proteins appear tied to developmental programs, making this a reasonable label, though not perfectly specific to a single tissue.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045572","count":1},{"id":"GO:0035214","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0001568","count":1},{"id":"GO:0051044","count":1}]},{"hash":"35167774847716272","title":"Planar polarity in organ morphogenesis","description":"The top terms cluster around planar polarity (establishment of planar polarity and planar subdivisions) and lung morphogenesis (branching, lateral/orthogonal subdivisions), with supporting elements like cell adhesion and receptor clustering. This suggests a developmental module tied to planar polarity cues guiding organ morphogenesis, rather than a single enzymatic function. Some terms about neuron guidance and brown fat differentiation appear but do not dominate the signal.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0036514","count":2},{"id":"GO:0060489","count":2},{"id":"GO:0060488","count":2},{"id":"GO:0007156","count":2}]},{"hash":"1583058130122762275","title":"Neural development and myelination","description":"The cluster shows strong representation of brain development and connectivity processes\u2014corpus callosum development, axonal fasciculation, myelination, and positive regulation of synapse assembly\u2014along with signaling pathways (cell surface receptor tyrosine kinase and PI3K) and ECM involvement (collagen fibril organization). Taken together, these terms point to neural development and myelin formation as the core theme of the group.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007169","count":2},{"id":"GO:0032474","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0071372","count":2}]},{"hash":"1477820590321010004","title":"Mitosis and DNA replication","description":"The prominent GO terms center on chromosome maintenance and cell division (DNA replication, CENP-A chromatin assembly, mitotic DNA replication checkpoint signaling) and spindle/microtubule dynamics (cilium movement, microtubule depolymerization), with supportive roles in proteostasis and transcriptional preinitiation complex assembly. This suggests a cohesive theme around mitosis and genome maintenance, albeit with some auxiliary functions, which justifies the label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003341","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0061641","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0016311","count":1}]},{"hash":"1424883556840410417","title":"Neural development and embryogenesis regulators","description":"The top GO terms point strongly to neural and embryonic development (forebrain development, neural tube closure, multicellular organism development) with supporting signals of transcriptional regulation and cell cycle. A few terms also reflect general stress or defense responses, but the dominant theme is developmental regulation, especially neural development. Confidence: Medium","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0006351","count":4}]},{"hash":"328352970969378670","title":"Unknown","description":"The GO terms are dispersed across embryonic and neural development and a variety of signaling processes, with no single unifying function linking the four proteins. There are no observed interactions (edges 0), so it\u2019s not possible to assign a cohesive, specific label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010754","count":1},{"id":"GO:0060159","count":1},{"id":"GO:0032026","count":1},{"id":"GO:0061743","count":1},{"id":"GO:0060481","count":1}]},{"hash":"1144962650018270599","title":"DNA replication and centromeric chromatin assembly with proteostasis","description":"The cluster is dominated by GO terms for DNA replication, CENP-A centromeric chromatin assembly, and mitotic replication checkpoint signaling, with additional links to proteostasis (proteasome assembly) and cellular stress responses (misfolded protein response, oxidative stress). This suggests a cohesive role in coordinating DNA replication and centromere/chromatin maturation during the cell cycle, while maintaining protein quality control. The blastocyst development term may reflect developmental context but does not override the core replication/chromatin theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001824","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0061641","count":3},{"id":"GO:0071218","count":3},{"id":"GO:0031117","count":3}]},{"hash":"4444254180653011","title":"Mitochondrial RNA processing and transcription","description":"The most frequent GO terms cluster around mitochondrial gene expression: tRNA and rRNA methylation, maturation of SSU rRNA from mitochondrial transcripts, and transcription initiation/regulation at the mitochondrial promoter, indicating a coherent theme of mitochondrial RNA processing and transcription control. A couple of outliers (pheromone signaling, arsenic response) are present but do not override the dominant RNA-processing/transcription signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":2},{"id":"GO:1903108","count":2},{"id":"GO:0006391","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0006479","count":2}]},{"hash":"2063406822027382799","title":"Bacterial cell wall polysaccharide biosynthesis","description":"The GO terms point to synthesis and organization of bacterial cell wall components and related glycosylation pathways (teichoic acid, mycolate layer, cellulose, hyaluronan) as well as general cell wall biosynthesis, indicating proteins likely function in envelope construction rather than cytosolic processes. One outlier term (immunoglobulin production) is not representative of the cluster\u2019s main theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006011","count":1},{"id":"GO:0018243","count":1},{"id":"GO:0036108","count":1},{"id":"GO:0070592","count":1},{"id":"GO:0019350","count":1}]},{"hash":"1096375169670682150","title":"Neuronal development, axon targeting, and synaptic plasticity","description":"The four proteins cluster around neural development and synaptic function, with terms related to dendrite self-avoidance, optic nerve morphogenesis, juxtaparanode axon localization, and long-term synaptic plasticity, along with neuronal signaling pathways. This coherently points to roles in neural wiring and synaptic regulation rather than general cellular processes.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902771","count":4},{"id":"GO:0007169","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0048170","count":4},{"id":"GO:0071206","count":4}]},{"hash":"243687265616085719","title":"Vesicle trafficking and protein degradation","description":"The top GO terms cluster around intracellular transport between the ER, Golgi, and endosomes (ER\u2013Golgi and endosome\u2013Golgi routes), plus autophagy and proteasome regulatory assembly, pointing to a cohesive theme of vesicle trafficking coupled with protein quality control/degradation. Some terms are developmental or obsolete, but the dominant signal supports a label centered on trafficking and degradation pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006914","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0045212","count":1},{"id":"GO:0016358","count":1}]},{"hash":"1578496247413653508","title":"Unknown","description":"The GO terms span many unrelated processes (lysosome localization, anterograde synaptic vesicle transport, extrinsic apoptotic signaling via death receptors, mitochondrial outer membrane permeabilization, regulation of the cell cycle, DNA-templated transcription, protein kinase activation, and subtelomeric heterochromatin formation), with no dominant theme. The lack of interactions (Edges 0, Triangles 0) and the presence of several obsolete terms further indicate there is no cohesive function tying this cluster together. As a result, there is no clear, representative label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032418","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0008625","count":1},{"id":"GO:0097345","count":1},{"id":"GO:0051726","count":1}]},{"hash":"1678246241573205531","title":"Gonadal steroidogenesis and cholesterol regulation","description":"The cluster highlights Leydig cell differentiation and positive regulation of male gonad development, with cholesterol homeostasis and cholesterol efflux as core GO terms, pointing to cholesterol-based steroid hormone production in the gonads. Some terms about pinocytosis, inflammatory response, and cardiac morphogenesis appear as outliers, but the dominant theme is gonadal steroidogenesis tied to cholesterol management.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048550","count":1},{"id":"GO:0033327","count":1},{"id":"GO:2000020","count":1},{"id":"GO:0050728","count":1},{"id":"GO:1901522","count":1}]},{"hash":"501295619589500225","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":2},{"id":"GO:0045060","count":2},{"id":"GO:0009236","count":1},{"id":"GO:0006189","count":1},{"id":"GO:0001768","count":1}]},{"hash":"622168324587952075","title":"Neural development and axon/dendrite morphogenesis","description":"The terms center on nervous system development, dendrite morphogenesis, and regulation of axon extension/axonogenesis, along with signaling pathways such as ERK/MAPK and Wnt. This points to a coordinated role in neuronal differentiation and neurite outgrowth, linking morphogenesis with key signaling cascades.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031647","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0050771","count":3},{"id":"GO:0045773","count":3}]},{"hash":"1712388582395743026","title":"Retroviral entry, integration, and latency","description":"The top GO terms point to proviral-related processes: establishment of integrated proviral latency, viral entry into the host nucleus, DNA integration, RNA-templated DNA biosynthesis, DNA recombination, and DNA replication. This collection strongly suggests retroviral-like activity involving entry, reverse transcription, genome integration, and latency establishment, with additional signals of host\u2013pathogen interactions. While some terms hint at broader symbiont-host interactions, the core theme centers on proviral integration and latency.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0046718","count":1},{"id":"GO:1903704","count":1}]},{"hash":"1823267216342945854","title":"DNA transposition and proviral integration","description":"The GO terms cluster around mobility of genetic elements and viral integration, including DNA recombination, DNA transposition, retrotransposition, DNA integration, and proviral latency, as well as related processes like viral entry into the host nucleus and RNA-templated DNA biosynthesis. A few terms touch on host-pathogen interaction and siRNA-mediated regulation, but the central theme is transposon/retroelement activity and proviral integration. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006313","count":1}]},{"hash":"785075533510484469","title":"Retroviral DNA integration and latency","description":"The top terms center on proviral latency establishment and DNA integration, with related processes such as RNA-templated DNA biosynthesis (reverse transcription), DNA replication/recombination, and viral penetration into the host nucleus. While there are terms about symbiont entry and host apoptosis, the dominant signal is retroviral genome integration and latency, justifying a label focused on retroviral DNA integration and latency.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0046718","count":2}]},{"hash":"56308159797949508","title":"Cardiac and vascular morphogenesis","description":"The cluster\u2019s GO terms are dominated by heart and vessel development (aortic valve, ventricle, right atrium, aorta morphogenesis), suggesting the proteins commonly participate in cardiac/vascular morphogenesis. A few terms about signaling regulation or metabolism appear incidental noise. High confidence that the label represents the cluster\u2019s function.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003180","count":1},{"id":"GO:0010754","count":1},{"id":"GO:0048050","count":1},{"id":"GO:0033159","count":1},{"id":"GO:0003208","count":1}]},{"hash":"1721617338316568307","title":"Membrane Transporters and Stress Response","description":"The top GO terms are dominated by various transport activities (carbohydrate, taurine, thiamine, cysteine transport; phospholipid translocation), indicating membrane transport roles. There are also stress-related signals (response to antibiotic; SOS response), suggesting adaptation to stress. A translation term appears as a secondary function, possibly reflecting core cellular machinery. Overall, the cluster appears enriched for membrane transport functions with accompanying stress response features.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0045332","count":1},{"id":"GO:0008643","count":1},{"id":"GO:0015734","count":1}]},{"hash":"349059169471989055","title":"Central carbon metabolism and redox defense","description":"The cluster features GO terms tied to core energy metabolism (TCA cycle, glyoxylate cycle, isocitrate metabolism) and redox homeostasis (NADPH regeneration, glutathione metabolism) as well as an oxidative stress response, suggesting a shared role in energy production and redox balance. Some terms appear unrelated (gonad development, glial migration) and may reflect annotation noise, but the dominant theme is metabolism and redox processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":1},{"id":"GO:0008585","count":1},{"id":"GO:0006097","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0006740","count":1}]},{"hash":"1969727935380647611","title":"Nuclear genome maintenance and protein quality control","description":"The cluster's top GO terms are dominated by nuclear processes (DNA replication, tRNA import into nucleus, regulation of protein export from nucleus, nuclear protein quality control by the ubiquitin-proteasome system, etc.), suggesting proteins function in genome maintenance and nuclear proteostasis. Some terms like mesoderm formation and neural tube patterning are outliers, but the overall theme is nuclear maintenance.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0006452","count":2}]},{"hash":"638331515508117667","title":"Retinoic Acid Signaling and Angiogenesis","description":"The cluster is dominated by retinoic acid\u2013related processes (response to retinoic acid, retinol metabolism) and vascular development (blood vessel development, regulation of endothelial cell proliferation), suggesting a function in RA-regulated angiogenesis and broader RA-driven organ development.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":3},{"id":"GO:0036293","count":3},{"id":"GO:0001568","count":3},{"id":"GO:0001936","count":3},{"id":"GO:0006537","count":3}]},{"hash":"1351385376270746085","title":"Mitophagy and mitochondrial fusion regulation","description":"The top GO terms cluster around mitochondrial quality control: mitophagy, and both negative and positive regulation of mitochondrial fusion, with supporting signals of proteostasis like aggresome formation and ubiquitination. This suggests a shared role in handling mitochondrial damage and maintaining protein homeostasis under stress, rather than unrelated processes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000423","count":2},{"id":"GO:0010637","count":2},{"id":"GO:0033132","count":2},{"id":"GO:0070842","count":2},{"id":"GO:1905366","count":2}]},{"hash":"2264954927639708544","title":"Immune signaling and host-pathogen interaction","description":"The GO terms show adaptive immune processes (isotype switching to IgG, T cell\u2013mediated immune response) and aspects of host-pathogen interaction (virion assembly, translocation of proteins into the host cell cytoplasm), suggesting a cluster of proteins involved in immune signaling and interactions with pathogens. Some terms (ROS regulation, telomere localization) are less cohesive with the main theme, but the immune/host-interaction signals are prominent.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903427","count":3},{"id":"GO:0007339","count":3},{"id":"GO:0048291","count":3},{"id":"GO:0019068","count":3},{"id":"GO:0033198","count":3}]},{"hash":"2258571635025666252","title":"Transmembrane transporters (ions and metabolites)","description":"This cluster's GO terms are all related to transmembrane transport of ions and small molecules (nitrite, nitrate, sodium, potassium, phosphate, galactose, arabinose, sialic acid), with one vesicle-loading term, indicating a general membrane-transport function rather than a single substrate. Therefore the label reflects the common theme of membrane transport.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0035435","count":2}]},{"hash":"738058544356547596","title":"Nucleolus Organization","description":"The only strongly represented GO term is GO:0007000 (nucleolus organization), with a single annotation among the three proteins. This points to a shared role in nucleolar structure/assembly rather than broader cellular processes, so the cluster is best characterized as nucleolus organization at this level of evidence.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007000","count":1}]},{"hash":"1347407742923250905","title":"Ubiquitin-regulated immune signaling","description":"These proteins point to regulation of immune signaling pathways (cytokine production, IL-17 signaling, RIG-I sensing) with ubiquitination as a key modulatory mechanism (I-kappaB phosphorylation, protein and polyubiquitination). The presence of translational elongation and mRNA decay terms suggests additional post-transcriptional control. Overall, the cluster likely represents a regulatory module of immune signaling rather than a single dedicated function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045085","count":1},{"id":"GO:0002635","count":1},{"id":"GO:1900153","count":1},{"id":"GO:1903883","count":1},{"id":"GO:0016567","count":1}]},{"hash":"2033053768018845073","title":"Translation initiation and mRNA processing regulation","description":"This cluster\u2019s top GO terms concentrate on regulation of translation initiation (preinitiation complex formation, EIF4F assembly) and regulation of mRNA processing/splicing, indicating a coordinated role in RNA-level control of gene expression rather than a single protein complex. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1900363","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048026","count":1}]},{"hash":"429657716197081782","title":"Unknown","description":"The GO terms span several unrelated developmental themes (plant photomorphogenesis and root development; ciliary basal body organization and axoneme assembly; vertebrate brain development and CSF secretion), with no single function common to all proteins. There are no edges, and each term appears only once, suggesting weak or incidental annotations rather than a cohesive pathway. Because of this dispersion, a specific, representative label cannot be confidently assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055121","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0010099","count":1},{"id":"GO:0080022","count":1},{"id":"GO:0032053","count":1}]},{"hash":"863471302642199029","title":"Spermatogenesis and Spermatid Development","description":"Based on the top GO terms, the cluster is dominated by spermatogenesis and spermatid development, suggesting these proteins participate in male germ cell formation and maturation. Some additional terms point to general gene expression processes (RNA splicing, transcription regulation) that can accompany germ cell development, while a few terms are broader and less specific (immune response, mechanosensory behavior). Overall, the germ cell development theme best explains the cluster, though the weaker terms prevent higher confidence.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0007638","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0007286","count":2}]},{"hash":"794283273540547854","title":"Clathrin-Mediated Endocytosis","description":"The terms listed point to clathrin coat assembly, endocytic vesicle formation, and vesicle trafficking (including synaptic vesicle maturation and receptor-mediated endocytosis), with connections to early endosome to Golgi transport and related actin-associated processes. These collectively indicate a shared function in clathrin-driven endocytosis and vesicle trafficking, despite some obsolescent terms. Therefore, a concise label focusing on the endocytosis/vesicle transport role is most representative.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016188","count":1},{"id":"GO:0048268","count":1},{"id":"GO:1902961","count":1},{"id":"GO:0006919","count":1},{"id":"GO:0000147","count":1}]},{"hash":"1172951214984960214","title":"Unknown","description":"The listed GO terms span diverse biological contexts (vitamin D response, ubiquitination, placenta morphogenesis, immune rearrangement, signaling, catabolic regulation, etc.) and there is no unifying function or pathway linking them. The cluster has no interactions (edges/triangles) and the proteins appear to be a heterogeneous collection, so there is no coherent theme to name beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":1},{"id":"GO:0085020","count":1},{"id":"GO:1902261","count":1},{"id":"GO:0060669","count":1},{"id":"GO:0031664","count":1}]},{"hash":"110029106857429302","title":"Developmental epigenetic transcription regulation","description":"This cluster centers on transcriptional control tied to chromatin state during development, highlighted by terms for negative regulation of RNA Pol II transcription, nucleosome assembly, and regulation of DNA demethylation and histone modification. The placental morphogenesis signal reinforces a developmental context where epigenetic regulation shapes gene expression, with a few peripheral terms suggesting broader developmental or signaling roles. Overall, the shared theme is epigenetic control of transcription in development.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060669","count":2},{"id":"GO:1901536","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0045869","count":2},{"id":"GO:0061087","count":1}]},{"hash":"1827671908256069790","title":"Vesicle trafficking and cytoskeletal signaling","description":"Top GO terms indicate regulation of vesicle transport (ER to Golgi, Golgi transport) and exocytosis, alongside regulation of actin-driven processes (Rac signaling, podosome assembly, dendritic spine development). This combination suggests a cohesive role in coordinating membrane trafficking with cytoskeletal remodeling, rather than a single, narrow pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902647","count":1},{"id":"GO:0071803","count":1},{"id":"GO:0035021","count":1},{"id":"GO:0033028","count":1},{"id":"GO:0061000","count":1}]},{"hash":"1206395113445473717","title":"Developmental regulation and genome maintenance","description":"These proteins touch both developmental processes (spinal cord development, skin development, multicellular organism development) and genome maintenance/cell cycle functions (mitotic cell cycle, homologous recombination repair), plus stress and quality-control mechanisms (ER-stress\u2013related apoptotic signaling, ubiquitination). The combination suggests a theme of coordinating development with genome stability and cellular stress responses, rather than a single narrow pathway. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1130245546475026631","title":"Microtubule-based cytoskeleton and spindle dynamics","description":"The cluster\u2019s GO terms center on microtubule- and cytoskeleton-driven processes: neural tissue structural organization, mitotic spindle assembly/elongation, and plus-end-directed vesicle transport along microtubules, with nuclear migration and cytoskeletal regulation via signaling pathways. Although some terms touch on tissue-specific or plant-specific contexts, the unifying theme is cytoskeletal dynamics governing cell division and intracellular transport.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021693","count":3},{"id":"GO:0032487","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0000743","count":3},{"id":"GO:0072092","count":3}]},{"hash":"1381385560048485344","title":"Cofactor and Amino Acid Biosynthesis","description":"The top GO terms point to multiple biosynthetic pathways, including thiamine, tetrahydrofolate, glutathione, L-glutamate, and beta-alanine biosynthesis, plus nitrate assimilation, suggesting the proteins collectively participate in diverse metabolite and cofactor production. Some terms relate to redox stress or membrane potential, but the dominant theme is biosynthesis of vitamins/cofactors and amino acids. Confidence: Medium","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":1},{"id":"GO:0070276","count":1},{"id":"GO:0006749","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0042391","count":1}]},{"hash":"56995929255580663","title":"Mitochondrial central carbon metabolism","description":"The GO terms cluster around core mitochondrial metabolism: TCA cycle, pyruvate decarboxylation to acetyl-CoA, 2-oxoglutarate metabolism, gluconeogenesis, and fatty acid biosynthesis via malonyl-CoA, along with amino-acid catabolism feeding acetyl-CoA, suggesting a cohesive theme of mitochondrial carbon flux and energy production. Some terms (e.g., sodium transport, obsolete genome maintenance) are peripheral, but the dominant signal points to mitochondrial carbon metabolism.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":1},{"id":"GO:0006814","count":1},{"id":"GO:2001295","count":1},{"id":"GO:0006094","count":1},{"id":"GO:0006086","count":1}]},{"hash":"739545642723712697","title":"Ubiquitin-Dependent Proteolysis and Mitophagy","description":"The GO terms show strong signals for ubiquitin-dependent protein catabolic process and polyubiquitination, suggesting roles in ubiquitin\u2011mediated degradation; the mitophagy/autophagy of mitochondrion term supports involvement in mitochondrial quality control via ubiquitin signaling. Some noise terms exist, but the core theme ties proteostasis to mitophagic turnover.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:1903599","count":1},{"id":"GO:0000083","count":1},{"id":"GO:0046685","count":1},{"id":"GO:0045736","count":1}]},{"hash":"1850113599377919389","title":"Angiogenesis and inflammatory signaling","description":"This cluster centers on vascular development and endothelial function, with terms for multicellular development, endothelial barrier establishment, sprouting angiogenesis regulation, and heart/valve morphogenesis, plus inflammatory and immune responses and ECM remodeling (hyaluronan biosynthesis). The mechanical stimulus term aligns with blood-flow\u2013related signaling. A couple entries (e.g., grooming behavior) may reflect annotation noise rather than core function, but the dominant theme is vascular development and associated inflammation/ECM processes.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2000821","count":2},{"id":"GO:0043113","count":2},{"id":"GO:1900127","count":2}]},{"hash":"2146561449505103625","title":"Neuronal gene expression and synaptic vesicle dynamics","description":"The cluster seems to mix transcription-related processes (DNA-templated transcription initiation, RNA Pol II preinitiation complex assembly, Notch target transcription) with neuronal functions (dopamine metabolism, synaptic vesicle endocytosis) and cytoskeletal/ER organization, suggesting a set of proteins involved in neuronal gene regulation alongside synaptic machinery. Although some terms are obsolete or broad, the recurring theme points to neuronal transcriptional control integrated with vesicle dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":1},{"id":"GO:0006352","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0051090","count":1},{"id":"GO:0007221","count":1}]},{"hash":"757884209554799968","title":"Diverse Metabolic Biosynthesis and Catabolism","description":"Dominant theme is various metabolism processes, including retinol metabolism, sugar and fatty acid biosynthesis, and alcohol-related catabolism; a few terms hint at signaling or are obsolete, but overall the cluster centers on metabolic pathways rather than a single signaling function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1901159","count":1},{"id":"GO:1900116","count":1},{"id":"GO:0045777","count":1}]},{"hash":"1365503783668141963","title":"Immune cell chemotaxis and platelet activation","description":"The top GO terms cluster around platelet activation and immune cell chemotaxis (dendritic cells and eosinophils), with related regulation of chemokines and signaling that controls membrane potential and calcium channels. Together, these terms point to a shared role in immune cell trafficking and activation rather than a single metabolic process.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030168","count":2},{"id":"GO:1901652","count":1},{"id":"GO:0090198","count":1},{"id":"GO:0016998","count":1},{"id":"GO:0007626","count":1}]},{"hash":"1063205061050344765","title":"Genome stability and cell cycle control in plants","description":"The top GO terms cluster around telomere maintenance, DNA repair and damage response, and progression through mitosis (sister chromatid cohesion, metaphase/anaphase transition), with supporting processes like sumoylation and regulation of kinase activity. A few terms touch plant development (cytokinin signaling, root meristem growth), but the dominant theme points to genome integrity maintenance and cell cycle regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":1},{"id":"GO:0034184","count":1},{"id":"GO:0080038","count":1},{"id":"GO:0010082","count":1},{"id":"GO:0071901","count":1}]},{"hash":"618190906699991643","title":"Ubiquitin-Modifications and Signaling","description":"Top GO terms center on ubiquitination and deubiquitination (K6, K48, K63 linkages) and related post-translational modifications like deacetylation, with accompanying signaling processes (TNF signaling, I\u03baB phosphorylation). While a few terms appear unrelated (V(D)J recombination, peroxisome import), the prevailing theme is ubiquitin-mediated modification and its role in signaling, justifying this label. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085020","count":1},{"id":"GO:0071108","count":1},{"id":"GO:0034983","count":1},{"id":"GO:0070537","count":1},{"id":"GO:0033151","count":1}]},{"hash":"1414971773407923507","title":"Mitotic cell cycle progression and chromosome condensation","description":"Strong enrichment for G1/S and G2/M transitions, re-entry into mitosis, spindle pole separation, and chromosome condensation points to a cohesive mitotic cell cycle control theme. While a couple of terms touch on transcription or signaling, the dominant pattern is mitotic progression and chromosome dynamics, justifying this label.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0046626","count":3},{"id":"GO:2000775","count":3}]}]