[{"hash":"1622911926839621087","title":"Vertebrate brain and sensory organ development","description":"This cluster centers on vertebrate neural and sensory organ formation, with recurrent terms for midbrain development, habenula formation, peripheral nervous system neuron development, embryonic eye morphogenesis, and pituitary gland development. Additional terms like primitive streak formation and hindlimb morphogenesis reflect broad embryogenesis but still connect to early neural/sensory organ specification and endocrine tissue development. Overall, the dominant theme is brain and sensory organ developmental programs in vertebrates.","confidence":"High","size":29,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":11},{"id":"GO:0021983","count":11},{"id":"GO:0090009","count":10},{"id":"GO:0048935","count":10}]},{"hash":"952146938299550041","title":"Innate Immune Response and Inflammation","description":"The top GO terms are dominated by innate immune and inflammatory processes, including response to lipopolysaccharide, complement activation, leukocyte migration in inflammation, neutrophil-mediated killing, and plasminogen activation. While there are also development and transcription regulation terms present, the immune-related terms are prominent and representative of the cluster\u2019s functional theme. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":12},{"id":"GO:0032496","count":10},{"id":"GO:0045944","count":9},{"id":"GO:0006958","count":8}]},{"hash":"521723670524253081","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000472","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0042273","count":3}]},{"hash":"1616014988039397739","title":"Membrane Transporters for Ions, Metabolites, and Neurotransmitters","description":"The GO terms are centered on transmembrane transport across membranes, including nitrite/nitrate transport, various nutrient and metabolite transports, sodium ion transport, and even neurotransmitter loading into vesicles. The cluster therefore seems dominated by membrane transporter proteins with a broad substrate range, rather than a single specific substrate. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0015706","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0035725","count":4}]},{"hash":"1626016655535837535","title":"Membrane Transporters","description":"Top GO terms show transmembrane transport of ions and small molecules (sodium, potassium, nitrate, sugars, vitamins, xenobiotics) and vesicular neurotransmitter loading, indicating the proteins mainly function as membrane transporters moving substrates across membranes (with some sugar metabolism links such as fucose).","confidence":"High","size":29,"edges":7,"triangles":2,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035725","count":10},{"id":"GO:0071805","count":10},{"id":"GO:0015706","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0098700","count":9}]},{"hash":"644613728404747636","title":"Embryogenesis and axis patterning","description":"This cluster is dominated by GO terms tied to developmental processes: pole cell formation, left/right pattern formation, maternal specification of axes, endocrine system development, placenta-related differentiation, and EMT in heart development. The common thread is embryonic development and body-plan patterning across tissues, rather than a single molecular function, so the label \u201cEmbryogenesis and axis patterning\u201d best captures the shared biology.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007279","count":29},{"id":"GO:0045998","count":29},{"id":"GO:0060536","count":29},{"id":"GO:0060707","count":29},{"id":"GO:0060972","count":29}]},{"hash":"393839887241689593","title":"Neuronal Adhesion and Synapse Assembly","description":"The cluster is driven by terms related to synapse assembly and cell adhesion (both homophilic and heterophilic), alongside nervous system development and specialized axon regions (paranodal and juxtaparanodal areas). This points to a cohesive function in neuronal connectivity through adhesion molecules and synapse formation, with broader developmental context. ","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":17},{"id":"GO:0007157","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0001501","count":13},{"id":"GO:0014068","count":13}]},{"hash":"1183163600663675004","title":"Ubiquitin-Dependent Translation and DNA Repair","description":"This cluster is driven by GO terms for ubiquitin-dependent protein catabolic processes and deubiquitination (K48/K11), plus regulation of translational initiation, and DNA repair. The presence of developmental and neuronal terms (axial mesoderm formation, dendritic spine morphogenesis, social behavior) suggests ubiquitin-mediated regulation of translation and genome maintenance that also influences neural development.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006446","count":5},{"id":"GO:0035522","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0048320","count":4},{"id":"GO:0060997","count":4}]},{"hash":"894510947227553405","title":"Synaptic vesicle trafficking and secretion","description":"The GO terms show a clear emphasis on synaptic vesicle priming, SNARE complex assembly, and regulation of synapse formation, along with various secretory processes (insulin, histamine, growth hormone) and axonogenesis. While mitochondrial terms appear, the dominant theme is vesicle trafficking and secretion in neurons and endocrine cells, pointing to a function in synaptic transmission and related secretion pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042407","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0051963","count":2},{"id":"GO:0030431","count":2},{"id":"GO:0032024","count":2}]},{"hash":"2249186697857093918","title":"Cytoskeleton remodeling and receptor signaling","description":"This cluster centers on cytoskeletal dynamics, endocytosis, and receptor-mediated signaling, with multiple terms pointing to actin remodeling (filopodium assembly, actin cytoskeleton reorganization), GTPase regulation, endocytosis, cell spreading, and signaling pathways (T cell receptor, ephrin receptor, Wnt), indicating a cohesive theme of coordinated cytoskeleton changes with cell signaling and adhesion.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0006897","count":6},{"id":"GO:1900026","count":5},{"id":"GO:0050852","count":5}]},{"hash":"206008062047724916","title":"Steroid hormone biosynthesis and lipid metabolism","description":"The cluster is dominated by GO terms for steroid and lipid metabolism, including testosterone biosynthetic process, androgen metabolic process, bile acid biosynthetic process, cholesterol catabolic process, and oxylipin biosynthetic process, suggesting core involvement in steroid hormone production and lipid-derived signaling. Some stress and environmental response terms (response to food, response to ozone, immobilization stress) may reflect broader regulatory shifts accompanying metabolic pathways, while endothelial cell\u2013cell adhesion could relate to signaling cross-talk tied to lipid mediators. ","confidence":"High","size":29,"edges":34,"triangles":56,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":13},{"id":"GO:0008209","count":13},{"id":"GO:0032094","count":13},{"id":"GO:0071603","count":11},{"id":"GO:0035902","count":11}]},{"hash":"420334117556272236","title":"ERAD and Ubiquitination Regulation","description":"This cluster is dominated by ubiquitin-related processes, especially protein deubiquitination and the ubiquitin-dependent ERAD pathway, along with autoubiquitination. The presence of regulatory terms affecting endocytosis, calcium channels, and mitochondrial fusion suggests involvement in broader ubiquitin-mediated quality control and trafficking regulation, centering on ERAD/ubiquitin pathways.","confidence":"High","size":29,"edges":405,"triangles":3627,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":13},{"id":"GO:0030433","count":11},{"id":"GO:1904378","count":9},{"id":"GO:0034140","count":8},{"id":"GO:1901340","count":8}]},{"hash":"639756199282544819","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster centers on ubiquitin-dependent protein catabolism, with strong signals for SCF-dependent proteasomal degradation and protein polyubiquitination, indicating the ubiquitin-proteasome system as the core function. Some terms also touch on linked processes like circadian regulation and stress-related DNA damage responses, which can be regulated via degradation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0031146","count":13},{"id":"GO:0000209","count":12},{"id":"GO:1903378","count":11},{"id":"GO:1902916","count":10}]},{"hash":"804615498506079033","title":"Developmental Signaling and Organogenesis","description":"Proteins in this cluster are enriched for broad developmental processes across multiple tissues (kidney, spermatid, nervous system development, bone ossification) and key signaling pathways (positive regulation of ERK1/2 cascade, Smoothened/Hedgehog signaling) plus transcriptional regulation. The convergence on diverse organ development and signaling suggests a cohesive theme of developmental signaling networks guiding organogenesis and patterning.","confidence":"High","size":29,"edges":22,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":10},{"id":"GO:0007286","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0007224","count":8}]},{"hash":"262037680009147525","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":11},{"id":"GO:0001731","count":11},{"id":"GO:0042254","count":9},{"id":"GO:0032933","count":8},{"id":"GO:0048705","count":8}]},{"hash":"1180809801221868760","title":"Innate immune signaling and chemokine production","description":"The top terms indicate activation of innate immune pathways (GPCR signaling, NOD2 signaling) and upregulation of chemokines (CCL5, CXCL1), which strongly points to inflammatory signaling and chemokine-mediated communication. While there are some developmental terms related to vasculature and organs, the central theme across most terms is immune signaling and cytokine/chemokine production, with a secondary link to inflammatory/m tissue remodeling contexts.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0070431","count":7},{"id":"GO:0071651","count":7},{"id":"GO:0090501","count":7},{"id":"GO:0048265","count":7}]},{"hash":"1909993769881669733","title":"Lymphocyte Development and Activation","description":"This cluster centers on immune cell development and activation, with GO terms tied to hematopoiesis, NK T cell differentiation, IL-4 and IL-7\u2013related responses, and signaling through T cell and B cell receptors, plus downstream pathways like PI3K-AKT and NF-kappaB. The common thread is the development and activation of adaptive immune cells (T and B cells) and their signaling networks.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030097","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0001865","count":5},{"id":"GO:0050852","count":5},{"id":"GO:2001275","count":5}]},{"hash":"312756199082727957","title":"Mitotic progression and ER-Golgi trafficking","description":"The Top Terms show strong representation of mitosis-related processes (mitotic cell cycle, cell division, mitotic spindle assembly) along with vesicle trafficking between the ER and Golgi (COPII-coated vesicle budding, ER-to-Golgi transport). Additional terms tied to gene expression (DNA-templated transcription, formation of translation preinitiation complex) suggest a combined theme of cell proliferation with basic biosynthetic and secretory functions. This supports a label focusing on both mitotic progression and secretory pathway activity as representative of the cluster.","confidence":"Medium","size":29,"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:0006351","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0051301","count":3}]},{"hash":"1512731598359466228","title":"Immune Signaling and Angiogenesis Regulation","description":"This cluster centers on immune signaling components (notably Toll signaling) and the negative regulation of vascular remodeling and angiogenesis, coupled with cytoskeletal and cell-motility processes (filopodium assembly, GTPase activation, extravasation regulation, and adhesion-dependent spreading). While some terms touch on developmental processes (vitellogenesis, midbrain morphogenesis), the dominant theme links immune signaling with suppression of blood vessel remodeling and related cell movement.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0008063","count":3},{"id":"GO:0046847","count":2}]},{"hash":"2127307180583438314","title":"Immune cell differentiation and regulation","description":"The top GO terms are dominated by immune-related processes\u2014pro-T cell differentiation, dendritic cell differentiation, and regulatory terms affecting mast cells and IgE isotypes\u2014along with ubiquitin-dependent protein processing, suggesting a theme of immune cell development and its regulation via ubiquitin-mediated pathways. A few non-immune developmental/metabolic terms (glycogen biosynthesis, distal tubule morphogenesis, skeletal muscle fiber development) appear, but the strongest signal centers on immune cell development and signaling control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":4},{"id":"GO:0045497","count":3},{"id":"GO:2000176","count":3},{"id":"GO:0072156","count":3},{"id":"GO:0048294","count":3}]},{"hash":"1382529027588775094","title":"Vertebrate embryonic brain and craniofacial development","description":"Top terms center on vertebrate embryogenesis and development of head structures (midbrain, retina, pituitary, cranial skeleton, roof of mouth, primitive streak) and cartilage morphogenesis, suggesting a cohesive theme of embryonic organogenesis and craniofacial development. The presence of negative regulation of transcription by RNA polymerase II points to transcriptional control during these processes, while the lipopolysaccharide response appears less central.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0030901","count":14},{"id":"GO:0021983","count":13},{"id":"GO:0048701","count":10},{"id":"GO:0007275","count":10}]},{"hash":"1201143162368582995","title":"Angiogenesis and ECM remodeling with coagulation","description":"This cluster is enriched in angiogenesis (GO:0001525, GO:0045766), ECM/collagen turnover (GO:0030574, GO:0022617), and coagulation/fibrinolysis (GO:0007596, GO:0042730, GO:0031639). Complement activation terms (classical and lectin pathways) point to inflammatory/wound-healing context, suggesting the proteins collectively promote vessel growth and extracellular matrix remodeling in a coagulative environment. Confidence in this label is High.","confidence":"","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0042730","count":5},{"id":"GO:0001525","count":5}]},{"hash":"1343131469411583305","title":"Unknown","description":"The top GO terms are highly diverse, spanning pain perception, multicellular development, ion transport, nuclear export, and signaling (cGMP/cAMP) with no single unifying biological process. The cluster shows very low connectivity (edge 1, no triangles, max degree 1) and a broad, disparate set of functions, suggesting heterogeneous proteins or annotation noise rather than a coherent functional module.","confidence":"","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007275","count":17},{"id":"GO:0071805","count":14},{"id":"GO:0046827","count":12},{"id":"GO:0071321","count":12}]},{"hash":"17692427750806581","title":"Embryonic heart and neural organogenesis","description":"The top terms cluster around developmental processes affecting heart formation (heart development, embryonic heart tube left/right pattern formation, pulmonary myocardium development), neural/visual system development (retinal bipolar neuron differentiation, visual perception, trigeminal ganglion development, neuron migration), organ induction, and cell migration (lamellipodium assembly), all pointing to coordinated embryonic organogenesis across cardiovascular and nervous systems. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0007601","count":4},{"id":"GO:0060040","count":4},{"id":"GO:0003350","count":4},{"id":"GO:0001759","count":3}]},{"hash":"252022214668674180","title":"Mitosis and DNA replication regulation","description":"This cluster centers on mitotic processes and DNA replication, as evidenced by terms like mitotic spindle assembly, mitotic sister chromatid cohesion, APC-dependent catabolic process, and Okazaki fragment processing in mitotic DNA replication. Additional terms such as cell division, nuclear pore localization, and DNA-templated transcription suggest broader cell-cycle involvement; the obsolete aging term reflects legacy annotations. Overall, the proteins likely function in mitosis and coordination of genome duplication.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0007568","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0031081","count":7},{"id":"GO:0051301","count":7}]},{"hash":"1034070642918477086","title":"RNA processing and translation initiation regulation","description":"The cluster\u2019s top GO terms converge on mRNA processing, splicing regulation, mRNA stability in response to stress, and various aspects of translation initiation (preinitiation complex formation, IRES-dependent initiation, and initiation factor assembly), indicating a cohesive role in RNA maturation and control of protein synthesis at the initiation stage.","confidence":"High","size":28,"edges":371,"triangles":3098,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":21},{"id":"GO:0006378","count":20},{"id":"GO:0031047","count":18},{"id":"GO:0048026","count":18},{"id":"GO:0002188","count":18}]},{"hash":"1923724041439229429","title":"Bacterial lipoteichoic acid and fatty acid biosynthesis","description":"The top GO terms point strongly to lipid metabolism and cell envelope production, notably lipoteichoic acid biosynthetic process and multiple fatty acid\u2013related pathways (fatty acid biosynthesis, very long-chain fatty acid metabolism, and medium-chain fatty acid transport). This suggests a cluster centered on lipid biosynthesis and related membrane processes in Gram-positive bacteria. Some terms like bioluminescence and seed germination appear as outliers across species, but the dominant signal supports a lipid metabolism/regulation theme.","confidence":"Medium","size":28,"edges":65,"triangles":39,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070395","count":12},{"id":"GO:0033076","count":8},{"id":"GO:0019427","count":8},{"id":"GO:0010124","count":8},{"id":"GO:0008218","count":8}]},{"hash":"1262225522245814699","title":"Corneocyte development and stress response","description":"This cluster shows a clear emphasis on corneocyte development (skin) and cellular stress responses, including hydrogen peroxide and xenobiotic response, along with apoptosis and cell-cycle regulation signals. Together these terms point to epidermal differentiation processes coupled with stress-induced remodeling, rather than a single linear pathway. Some terms (like renal water transport) may be peripheral or multi-functional, but the skin/differentiation theme is dominant.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0014912","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0003335","count":5},{"id":"GO:2001153","count":5},{"id":"GO:0070301","count":5}]},{"hash":"1017895706413270260","title":"Neurodevelopmental and Developmental Signaling","description":"The terms converge on developmental biology with a notable emphasis on neural development (nervous system development, dendritic spine morphogenesis) and related structural formation (angiogenesis, skeletal system development) across multicellular contexts, complemented by signaling and inflammatory cues (peptidyl-tyrosine phosphorylation, IL-1 response) and apoptotic processes. This suggests a cohesive theme of neurodevelopmental processes within broader developmental signaling. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0006915","count":2}]},{"hash":"257707045499953383","title":"Ribosome biogenesis and cell cycle","description":"The top GO terms are dominated by ribosome-related processes (ribosomal large subunit export from nucleus; ribosome biogenesis) and cell proliferation (cell division; cell cycle), indicating a cluster centered on protein synthesis and division. Peripheral terms like ion transport and steroid biosynthesis are less defining of the core function. ","confidence":"High","size":28,"edges":23,"triangles":3,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000055","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0006828","count":4}]},{"hash":"916212153212328149","title":"Mitochondrial translation and respiration","description":"The top GO terms center on mitochondrial functions: mitochondrial translation and general translation, plus mitochondrial electron transport and proton transmembrane transport, pointing to mitochondrial protein synthesis and oxidative phosphorylation. Additional terms about leucine catabolism and starvation response align with mitochondrial metabolism and energy stress adaptation. Together these indicate a cohesive set of mitochondrial translation and energy-generation proteins, hence the label. ","confidence":"High","size":28,"edges":16,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0055114","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0006552","count":3}]},{"hash":"579684807180675463","title":"Ribosome biogenesis and translation machinery","description":"The top GO terms are dominated by translation (GO:0006412), ribosome biogenesis (GO:0042254), and tRNA modification (GO:0006400), with supporting cell-cycle terms like cell cycle and chromosome segregation. This points to a cohesive cluster of proteins involved in protein synthesis and ribosome assembly, with some links to cell division. A few terms related to viral DNA integration or symbiont entry appear but do not define the main theme.","confidence":"Medium","size":28,"edges":6,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0006400","count":3}]},{"hash":"1433937071195593114","title":"Multisystem Signaling Regulators","description":"The terms point to regulators across multiple signaling pathways (GTPase activity, Wnt, Hedgehog/Smoothened, EGFR, TCR) and processes tied to Golgi localization, plus neuronal excitability, suggesting a set of proteins that modulate signaling networks and trafficking across cell types rather than a single pathway. ","confidence":"Medium","size":28,"edges":121,"triangles":85,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0000042","count":7},{"id":"GO:0043525","count":7},{"id":"GO:0007224","count":6}]},{"hash":"1554976342276242447","title":"Transmembrane transporters for xenobiotics and ions","description":"The top GO terms point to various transmembrane transport activities (xenobiotic, nitrate, sodium ion, and aromatic compound transport), indicating a transporter-centered cluster. A few translation-related and developmental terms appear, but the dominant signal is membrane transport, justifying a transporter-focused label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0007420","count":2}]},{"hash":"1232196532571391663","title":"Chromatin Regulation and Transcription Initiation","description":"The top GO terms cluster around chromatin modification (histone acetylation, histone H3 methylation, DNA methylation) and transcription initiation (RNA polymerase II preinitiation complex). This suggests a shared role in epigenetic regulation of gene expression. The presence of unrelated terms (cardiac morphogenesis, IgA isotype switching) and the lack of edges among proteins imply some annotation noise or heterogeneity, so the label remains a best-effort general theme rather than a specific pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":2},{"id":"GO:0003290","count":2},{"id":"GO:0048298","count":2},{"id":"GO:0003289","count":2},{"id":"GO:0010452","count":2}]},{"hash":"1281516367248056196","title":"Ribosome biogenesis and rRNA maturation","description":"The top GO terms include maturation of LSU-rRNA and 5.8S rRNA and RNA guanine-N7 methylation, which tightly align with ribosome assembly and rRNA processing. Other terms (e.g., nodulation, neural tube closure, defense response) appear as peripheral annotations and do not strongly define a single cohesive theme, so the ribosome-related processes provide the most coherent cluster signal.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007584","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1874853066251245919","title":"Neuromuscular and cardiac development with synaptic regulation","description":"The cluster centers on development of muscle and nervous system plus heart formation, with terms for motor neuron axon guidance, somite specification, muscle fiber transitions, and regulation of synaptic potentiation, along with a visual perception component. This suggests a vertebrate developmental program linking neuromuscular and cardiovascular formation and neural signaling control.","confidence":"Medium","size":27,"edges":58,"triangles":38,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0007507","count":3},{"id":"GO:1900271","count":3},{"id":"GO:0001757","count":2},{"id":"GO:0008045","count":2}]},{"hash":"572585362578919523","title":"Embryonic patterning and organogenesis","description":"This cluster centers on developmental patterning and subsequent organ formation, with terms for maternal/oocyte axis specification, pole cell formation, left-right patterning, and endocrine/pancreas development as well as heart-associated EMT. It reflects coordinated regulation by transcription and protein kinase signaling during embryogenesis and organogenesis.","confidence":"Medium","size":27,"edges":30,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071902","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0007279","count":2},{"id":"GO:0007311","count":2}]},{"hash":"1552754032061920623","title":"mRNA splicing regulation and translation initiation","description":"This cluster exhibits strong representation of spliceosome-associated mRNA processing terms (mRNA splice site recognition; regulation of alternative splicing) together with translation initiation components (preinitiation complex formation, IRES-dependent initiation, translation reinitiation), indicating a group of proteins involved in post-transcriptional gene expression and initiation of translation in eukaryotes.","confidence":"High","size":27,"edges":19,"triangles":10,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":5},{"id":"GO:0006376","count":5},{"id":"GO:0075522","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1113254839110697115","title":"Neural signaling and amino acid transport","description":"The cluster\u2019s top GO terms cluster around neural processes: thalamus development, glycinergic synaptic transmission, serotonin secretion and uptake, and perineurial glial growth, plus transport of amino acids such as leucine and taurine. This points to a shared role in neural development and neurotransmission, with accompanying amino acid transport functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021794","count":8},{"id":"GO:0042420","count":6},{"id":"GO:0009228","count":5},{"id":"GO:0042066","count":5},{"id":"GO:0014064","count":5}]},{"hash":"1283657953444231817","title":"Gonadal steroidogenesis and lipid metabolism","description":"The top GO terms are dominated by steroid and lipid pathways, including testosterone biosynthetic process, cholesterol catabolic process, bile acid biosynthesis, and female gonad development, which together point to steroid hormone production and lipid metabolism associated with gonadal function. Some terms (e.g., endothelial adhesion, stress responses) appear as noise, but the strongest signal centers on steroidogenesis and lipid metabolism, justifying the label.","confidence":"Medium","size":27,"edges":14,"triangles":2,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0008585","count":21},{"id":"GO:0071603","count":20},{"id":"GO:0061370","count":20},{"id":"GO:0035902","count":20},{"id":"GO:0031408","count":20}]},{"hash":"1694588259073370829","title":"Unknown","description":"No cohesive biological theme emerges from the listed GO terms; they span insect cuticle development, vesicle trafficking, RNA processing, immune response, and developmental patterning, suggesting no single representative function for this cluster.","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":5},{"id":"GO:0072583","count":2},{"id":"GO:0016183","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0090197","count":2}]},{"hash":"324551850324846212","title":"Glycan biosynthesis in development","description":"The top terms cluster around glycosylation and glycan-related biosynthetic processes (poly-N-acetyllactosamine, arabinogalactan protein metabolism, Lewis A epitope, seed mucilage) alongside developmental processes (root hair development, Notch signaling modulation, insect visual primordium formation, follicle cell adhesion). This combination suggests a group of proteins involved in building/modifying glycans that influence morphogenesis and development. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0007386","count":4},{"id":"GO:0030311","count":4},{"id":"GO:0001744","count":4},{"id":"GO:0080147","count":4}]},{"hash":"227166888740776694","title":"Vascular-immune signaling and chemokine production","description":"The cluster centers on innate immune and inflammatory signaling (NOD2 pathway, response to pain, vitamin D\u2013related immunomodulation) and concurrent vascular/heart-related processes (endothelial delamination, right atrium morphogenesis) as well as chemokine production regulation (CCL5, CXCL1). This suggests a theme of immune-vascular signaling with chemokine involvement, rather than a single narrow function. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0070431","count":4},{"id":"GO:0071651","count":4},{"id":"GO:0048265","count":4}]},{"hash":"1436233636290469552","title":"RNA processing and translation regulation","description":"The cluster shows a clear enrichment for post-transcriptional control processes: translation initiation (IRES-dependent initiation, eIF4F complex assembly, preinitiation complex formation) and translation reinitiation, together with regulation of mRNA splicing via the spliceosome. There is also a note of regulatory ncRNA-mediated gene silencing. A single outlier term about larval cuticle development likely reflects annotation noise rather than a shared function. Overall, the proteins appear to co-localize to RNA-level regulation rather than a single structural or metabolic pathway.","confidence":"High","size":27,"edges":63,"triangles":31,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0008363","count":12},{"id":"GO:0031047","count":3},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0002188","count":2}]},{"hash":"2008934029040908150","title":"Unknown","description":"The GO terms cover insect cuticle development, neuronal spine regulation, GTPase signaling, coagulation, TGF-beta/BMP signaling control, hepatocyte apoptosis, endosome trafficking, podosome assembly, and lipoprotein particle assembly. This broad mix points to no single shared function tying all proteins, so the cluster is best labeled Unknown.","confidence":"","size":27,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":5},{"id":"GO:0061000","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007596","count":2},{"id":"GO:0030512","count":2}]},{"hash":"480121575352550320","title":"Developmental morphogenesis across tissues","description":"These proteins are enriched for a range of developmental and morphogenetic processes across different tissues (left/right patterning, hair follicle and cartilage morphogenesis, placental and pancreatic development, endocardial cushion EMT), with Hedgehog signaling noted as a developmental pathway. This suggests a broad theme of embryonic tissue morphogenesis rather than a single, specific function. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0035270","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3}]},{"hash":"813709147515324254","title":"Ubiquitin-Dependent Protein Degradation","description":"Most terms describe ubiquitin-dependent proteolysis and proteasome- or ERAD-mediated degradation, including ubiquitin-dependent protein catabolic process, polyubiquitination, and SCF-dependent proteasomal ubiquitin-dependent protein catabolic process. The presence of circadian rhythm regulation and stress-related GO terms suggests regulation of degradation linked to cellular timing and responses, but the core theme remains ubiquitin-mediated protein turnover.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0000209","count":11},{"id":"GO:0042752","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0071276","count":8}]},{"hash":"2018718048414217438","title":"Neuronal ion channels and synaptic signaling","description":"This cluster is enriched for neuronal signaling terms: potassium and sodium ion transport (ion channels), receptor clustering, glutamatergic synaptic transmission, and synaptic plasticity (long-term depression), with associated behavioral terms like locomotion and social behavior, suggesting a core of neuronal signaling and synaptic function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0097194","count":3},{"id":"GO:0035023","count":3}]},{"hash":"34727722630049512","title":"Ion transport and cyclic nucleotide signaling","description":"The cluster shows a coherent emphasis on membrane ion transport (potassium export, sodium import, intracellular magnesium homeostasis) alongside signaling via cyclic nucleotides (cellular response to cGMP, cAMP, and regulation of guanylyl cyclase signaling). The inclusion of sensory/pain\u2013related terms suggests a broader theme of signaling used in mechanosensory or nociceptive contexts. Some terms (e.g., aerotaxis, obsolete glycosylation) appear peripheral, but the central pattern ties to ion transport coupled with cyclic nucleotide signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0071321","count":3},{"id":"GO:0098719","count":3},{"id":"GO:0010754","count":3}]},{"hash":"383865448916046490","title":"Cardiac GPCR signaling and calcium handling","description":"This cluster centers on GPCR signaling (GO:0007205) and calcium ion transport, with links to SA node action potential regulation and stress-related cardiac hypertrophy, suggesting a cohesive theme of cardiac electrophysiology and remodeling driven by GPCR pathways. The presence of related apoptosis and proliferation terms further supports remodeling processes in cardiac cells.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0016477","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0098907","count":4}]},{"hash":"137649924771429857","title":"Ion Transmembrane Transport","description":"This cluster is dominated by GO terms for ion transmembrane transport (sodium and potassium) and related membrane transport processes (xenobiotic and vitamin transport), pointing to proteins that function as transporters across membranes. There are also development-related terms, but the strongest signal is membrane ion/solute transport, supporting a transporter-focused label.","confidence":"High","size":26,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0060021","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007626","count":4}]},{"hash":"1603882895589744501","title":"Innate immune defense: complement and neutrophils","description":"Most represented GO terms point to innate immune defense against bacteria, especially classical complement activation and neutrophil-mediated killing of Gram-positive bacteria, plus response to lipopolysaccharide. This pattern suggests the cluster centers on bacterial recognition and effector innate immune responses, with some unrelated transcription regulation and development terms likely representing annotation noise rather than core function. Overall, the dominant signal is innate immune defense mechanisms.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":7},{"id":"GO:0060021","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0014068","count":6}]},{"hash":"351877426825002391","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":241,"triangles":1226,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000463","count":16},{"id":"GO:0000472","count":16},{"id":"GO:0090394","count":16},{"id":"GO:0000466","count":16},{"id":"GO:0000398","count":16}]},{"hash":"1637575056102410514","title":"Skeletal muscle development and regeneration","description":"The cluster shows strong signals for skeletal muscle development and regeneration, with terms for satellite cell activation, regulation of muscle contraction, myofibril dynamics, and angiogenesis to support tissue growth, along with translation and glucocorticoid response reflecting remodeling and protein synthesis in muscle tissue. Overall, the terms cohere around muscle formation, growth, and repair programs.","confidence":"High","size":26,"edges":138,"triangles":250,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0051384","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001525","count":3}]},{"hash":"592119373440916035","title":"Rho GTPase\u2013Mediated Signaling and Actin Remodeling","description":"This cluster is dominated by GO terms for Rho protein signal transduction and small GTPase activity, plus lamellipodium assembly, indicating a core theme of Rho GTPase-driven signaling that regulates actin cytoskeleton dynamics and cell movement; other terms like Golgi-to-plasma-membrane transport and nutrient response appear as secondary contexts but do not outweigh the central motif.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0007584","count":6},{"id":"GO:0007264","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0046909","count":5}]},{"hash":"17354350619118067","title":"EMT and Growth Regulation in Development","description":"This cluster centers on epithelial\u2013mesenchymal transition (EMT) and developmental growth signals, including lung development, regulation of organ and cell growth, and growth hormone receptor signaling. Additional terms point to immune modulation and neural context, suggesting a broad developmental remodeling/regulatory theme rather than a single specific pathway. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001837","count":6},{"id":"GO:0030324","count":5},{"id":"GO:0046621","count":5},{"id":"GO:0001558","count":5},{"id":"GO:0042518","count":5}]},{"hash":"908964811510928093","title":"Vacuolar amino acid transport","description":"The GO terms are dominated by import and export of amino acids across the vacuolar membrane (histidine, alanine, tyrosine, lysine, arginine, glutamine/glutamate), indicating a cohesive function in vacuolar amino acid transport and nitrogen/nutrient homeostasis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061402","count":2},{"id":"GO:0090513","count":2},{"id":"GO:0015808","count":2},{"id":"GO:1901481","count":2},{"id":"GO:2000487","count":2}]},{"hash":"1796761528061841144","title":"Endocytosis and MAPK Signaling","description":"This cluster\u2019s top GO terms cluster around receptor internalization pathways (clathrin-dependent endocytosis and GPCR internalization) and downstream signaling cascades (ERK/MAPK), with related regulatory processes (protein binding, phosphorylation) and apoptosis. While DNA replication and visual perception appear less connected, the dominant theme is proteins involved in endocytosis coupled to MAPK signaling regulation. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0033138","count":3}]},{"hash":"963230490912204896","title":"Nuclear RNA processing and ribosome biogenesis","description":"The top GO terms cluster around nuclear RNA metabolism and ribosome production: mRNA processing, rRNA processing, nuclear polyadenylation-dependent RNA decay pathways, and ribosomal large subunit biogenesis, suggesting a coherent program of nuclear RNA processing and ribosome assembly; additional signals of DNA replication/repair and protein turnover reflect broader cell-cycle maintenance and quality control.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0071035","count":2},{"id":"GO:0071039","count":2},{"id":"GO:0071042","count":2}]},{"hash":"1234789621440277956","title":"Tyrosine phosphatase\u2013mediated signaling regulation","description":"This cluster is dominated by GO terms involving negative regulation of signaling pathways (e.g., T cell receptor signaling, ERK cascade, PI3K/AKT signaling) and includes peptidyl-tyrosine dephosphorylation, pointing to protein tyrosine phosphatases as central regulators. Additional terms about kinase activity regulation, focal adhesion, kinetochore localization, and postsynaptic density assembly fit with broad regulatory roles of phosphatases in signaling, cell cycle, and structural organization. Overall, the theme is signaling regulation mediated by tyrosine phosphatases and related regulators.","confidence":"High","size":26,"edges":319,"triangles":2463,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":23},{"id":"GO:0000200","count":23},{"id":"GO:0070373","count":23},{"id":"GO:0034501","count":16},{"id":"GO:1903984","count":16}]},{"hash":"1947799829001416552","title":"Developmental kinase signaling and actin remodeling","description":"The top terms indicate kinase-driven signal transduction, with multiple phosphorylation-related regulations (serine/threonine and tyrosine) and GTPase activity, coupled with developmental processes (skin and multicellular development) and actin cytoskeleton remodeling via Arp2/3. This suggests a cohesive theme of developmental signaling coordinating cytoskeletal dynamics.","confidence":"High","size":26,"edges":10,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":10},{"id":"GO:0071902","count":9},{"id":"GO:0031954","count":9},{"id":"GO:0050731","count":8},{"id":"GO:0043588","count":8}]},{"hash":"2025728754434825995","title":"Nuclear transport and genome maintenance","description":"The top GO terms cluster around nuclear-focused processes: import into the nucleus (ribosomal protein import, general nuclear translocation), nuclear pore complex assembly, and DNA replication, with sister chromatid cohesion tied to chromosome maintenance. Additional terms point to nuclear protein quality control and cofactors (unfolded protein response, chaperone-related refolding, iron-sulfur cluster assembly) that support genome maintenance functions. Together, these indicate a module centered on maintaining genome integrity through nuclear transport, replication, and chromatin organization.","confidence":"High","size":26,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0051754","count":6},{"id":"GO:0034620","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0016226","count":6}]},{"hash":"1714323712374101018","title":"Mitotic spindle and cytoskeleton dynamics","description":"The dominant GO terms center on mitosis (mitotic cell cycle; mitotic spindle assembly) and actin cytoskeleton remodeling (stress fiber assembly; cytoskeleton reorganization), with additional signaling (Rap, ERK cascade) and intracellular trafficking processes (endosome transport, Cvt pathway). This suggests the cluster reflects proteins involved in coordinating cell division with cytoskeletal dynamics and related signaling/trafficking pathways, despite some older or peripheral annotations. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0051496","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0032258","count":4}]},{"hash":"1252185990752434012","title":"Oocyte Meiosis and Nucleolar Ribosome Biogenesis","description":"The cluster shows strong signals for meiotic regulation (meiotic nuclear division, oocyte differentiation, G2/M transition) and nucleolar/rRNA\u2013related processes (rRNA transcription/export, protein localization to nucleolus), plus translation control via eIF2 alpha phosphorylation. These together suggest a coherent theme around germ cell meiosis with ribosome biogenesis and nucleolar activity, with translation regulation as a linked layer; an immune term (lipopolysaccharide response) is present but not central. Overall, the label reflects the dominant nutritional of meiosis and nucleolar ribosome biogenesis in this cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0045836","count":2},{"id":"GO:0060735","count":2},{"id":"GO:0010826","count":2},{"id":"GO:1902751","count":2}]},{"hash":"1284717421322198965","title":"Neuronal development and vesicle trafficking","description":"This cluster centers on neural development (brain/hippocampus) and related signaling, with concurrent enrichment for vesicle transport between the Golgi, ER, and plasma membrane, suggesting proteins coordinating neural growth with intracellular trafficking.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006893","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0032258","count":4}]},{"hash":"1800071966990537697","title":"Unknown","description":"The GO terms are highly diverse (immune complement activation, nervous system myelination, lipid signaling, ubiquitination, stress response, RNA processing, chromatin regulation, xenobiotic response, metabolism). With only a single edge and no clear shared function, there isn\u2019t a reliable unifying theme to label this cluster.","confidence":"","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0009408","count":3}]},{"hash":"1725655926076369962","title":"Endosomal trafficking and actin remodeling","description":"The cluster shows strong enrichment for endosomal transport/organization and lysosome localization, plus intracellular transport, and lamellipodium/actin filament organization, indicating a cohesive role in endocytic trafficking and cytoskeletal remodeling. Some terms like platelet aggregation and apoptosis are present but do not define the core function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0016197","count":3},{"id":"GO:0007032","count":3},{"id":"GO:0006886","count":3}]},{"hash":"1516496248575688673","title":"Ubiquitination and NF-\u03baB inflammatory signaling","description":"The top GO terms are dominated by ubiquitination and immune-related pathways (NOD2 signaling, chemokine production, pain response), suggesting a theme of NF-\u03baB\u2013driven inflammatory signaling regulated by ubiquitin processes. Some listed terms touch on transcription regulation and adipocyte functions, which can be connected to stress and immune-metabolic crosstalk, but the core appears to be ubiquitination coupled with inflammatory signaling. Confidence in this label is High.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0032088","count":6},{"id":"GO:0000083","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0071260","count":6}]},{"hash":"2018961240969014005","title":"Fungal Cytoskeleton and Cell Division","description":"The GO terms center on actin crosslinking and cytoskeletal organization (actin, terminal web), vesicle trafficking (exocytosis, Cvt pathway), and cell cycle control (mitotic cycle, spindle orientation checkpoint, CDK activity). The presence of fungal mating-related processes (karyogamy) and ascospore formation further suggests a fungal-specific context. Together, these terms imply coordinated cytoskeletal dynamics and division/maintenance processes in fungi.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051764","count":4},{"id":"GO:1902896","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0000742","count":3},{"id":"GO:0030437","count":3}]},{"hash":"1194060299805884704","title":"Unknown","description":"The GO terms are highly diverse, spanning photosynthesis, visual perception, immune signaling, development, and hypoxia, with no clear shared function across the 26 proteins. Because there are no network connections (edges) and only a scattered mix of terms, there is no coherent theme to label the cluster beyond Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":2},{"id":"GO:0015979","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0032613","count":2}]},{"hash":"1913055357706185883","title":"Embryonic organogenesis","description":"This cluster is enriched for embryonic development and morphogenesis terms across multiple organs, notably eye/retina development (camera-type eye development, retina development) and additional morphogenetic processes in heart outflow tract, bone, lung, and brain structures, indicating a cohesive theme of organogenesis and tissue patterning during development.","confidence":"High","size":25,"edges":222,"triangles":923,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0006366","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0043010","count":7},{"id":"GO:0060041","count":7}]},{"hash":"1349188628492077988","title":"Innate immune response and coagulation","description":"The top GO terms cluster around innate immunity and inflammatory processes: response to lipopolysaccharide, leukocyte migration in inflammatory response, complement activation (classical pathway), neutrophil-mediated killing, and plasminogen activation linked to coagulation. While a few terms relate to development (midbrain, biomineral tissue) or transcription regulation, the prevailing signal points to immune defense and coagulation pathways. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0042127","count":11},{"id":"GO:0032496","count":10},{"id":"GO:0031214","count":10}]},{"hash":"1511289605641138112","title":"Broad catabolic metabolism and detoxification","description":"The top GO terms point to multiple catabolic processes (uracil, 3-phenylpropionate, 1,2-dichloroethane catabolism) along with related metabolic transformations (alkaloid metabolism, PHB biosynthesis) and detoxification of cellular oxidants. The terms are diverse and do not converge on a single pathway, suggesting a broad cluster of metabolic and detoxification activities rather than a single specific function. Therefore, a broad label reflecting catabolism and detoxification is appropriate.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0098869","count":6},{"id":"GO:0042619","count":5},{"id":"GO:0006212","count":5},{"id":"GO:0019740","count":4}]},{"hash":"1798880518150333125","title":"Xenobiotic and nutrient transmembrane transporters","description":"The GO terms are all transmembrane transport across diverse substrates (xenobiotics, vitamins, ions, and metabolites), indicating a cohesive group of membrane transport proteins with broad substrate specificity.","confidence":"High","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":23},{"id":"GO:0035461","count":23},{"id":"GO:0042891","count":20},{"id":"GO:0071805","count":17},{"id":"GO:0042908","count":16}]},{"hash":"224274537566695271","title":"Membrane transporters of diverse substrates","description":"Top GO terms are dominated by various transport activities (transmembrane transport, potassium ion transport, succinate transport, arsenite transport, and regulation of phosphate transport). Although some terms refer to development or neural functions, the strongest common feature across the cluster is membrane transport across diverse substrates, justifying the label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0042552","count":2},{"id":"GO:0007605","count":2}]},{"hash":"976406711037970324","title":"Immune and Xenobiotic Detox Response","description":"The GO terms cluster around responses to external challenges, including lipopolysaccharide and xenobiotic stimuli, along with detoxification and oxidative stress management, suggesting a cohesive theme of innate immune and chemical detox pathways. Some terms (coagulation, membrane potential, serotonin regulation) appear ancillary, but the dominant signals support a detox/immune response theme.","confidence":"Medium","size":25,"edges":12,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0007596","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2}]},{"hash":"2008534707560815767","title":"Embryogenesis and organ morphogenesis","description":"The proteins are linked to a broad set of developmental processes across different tissues, including axis formation, placental and pancreatic development, cartilage morphogenesis, and EMT in heart formation. This pattern suggests a shared theme of embryonic patterning and tissue morphogenesis rather than a single, narrow function.","confidence":"High","size":25,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007279","count":16},{"id":"GO:0045998","count":16},{"id":"GO:0060536","count":16},{"id":"GO:0060707","count":16},{"id":"GO:0060972","count":16}]},{"hash":"1629754850647543948","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around neural connectivity and signaling, including synapse assembly, excitatory postsynaptic potentials, retinal axon guidance, Wnt signaling, and balance (equilibrioception), suggesting roles in neural development and synaptic function. Some terms (e.g., T cell proliferation, brush border) are non-neural outliers, but the dominant theme supports neural development and signaling pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0045617","count":3},{"id":"GO:2000463","count":3}]},{"hash":"90322698458269313","title":"Motor neuron axon guidance and development","description":"The proteins in this cluster are enriched for neuronal development and axon guidance terms, including motor neuron axon guidance, peripheral nervous system neuron axonogenesis, and lateral motor column neuron migration, suggesting a cohesive theme of motor neuron development and axon navigation. Additional terms such as cell-matrix adhesion support the notion of guidance and migration processes, while retinol/retinal metabolism terms may reflect related metabolic contexts; overall, the dominant signal points to nervous system development with a focus on axon pathfinding.","confidence":"Medium","size":25,"edges":289,"triangles":2070,"max_degree":24,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0042572","count":9},{"id":"GO:0097477","count":9},{"id":"GO:0070527","count":9},{"id":"GO:0048936","count":8}]},{"hash":"1357454422109541576","title":"Translation machinery and neural development","description":"This cluster is dominated by translation-related GO terms (translation; methionyl-tRNA aminoacylation; regulation of translational fidelity), suggesting core protein synthesis machinery. The presence of axonogenesis and cerebral cortex development points to neural development roles, while mitochondrial electron transport and apoptotic terms reflect energy and cell fate processes commonly linked to development. Overall, the proteins appear tied to translation with notable neural development associations.","confidence":"Medium","size":25,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0048240","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0006450","count":3},{"id":"GO:0007409","count":3}]},{"hash":"213319125526810142","title":"RNA Splicing and Translation Initiation Regulators","description":"This cluster shows strong enrichment for RNA processing and splicing regulation (positive/negative regulation of mRNA splicing via spliceosome, regulation of alternative splicing) alongside multiple translation initiation-related terms (formation of translation preinitiation complex, translation reinitiation, eIF4F complex assembly, IRES-dependent initiation). The co-occurrence suggests a cohesive role in post-transcriptional gene expression control, coordinating RNA processing with initiation of translation, possibly via ncRNA-mediated mechanisms.","confidence":"High","size":25,"edges":12,"triangles":1,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0002188","count":16},{"id":"GO:0001731","count":16},{"id":"GO:0075522","count":14}]},{"hash":"465812479396058077","title":"Viral replication and host-cell interaction","description":"The top terms are strongly centered on stages of the viral life cycle (virion assembly, viral budding via ESCRT, viral release, DNA integration, proviral latency), indicating a cluster related to virus-host interactions and genome integration. While a couple of terms pertain to host cellular processes (splicing, nucleosome assembly, miRNA turnover) or insect cuticle development, the prominent viral-related terms suggest a cohesive theme around viral replication and how the virus interfaces with the host cell. Confidence: Low","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0006334","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0019076","count":1},{"id":"GO:0030260","count":1}]},{"hash":"1496746418051666894","title":"RNA processing and translational initiation","description":"The cluster\u2019s top GO terms cluster around translation initiation machinery (formation of translation preinitiation complex, IRES-dependent initiation, eIF4F complex assembly, translation reinitiation) and RNA processing/regulation (spliceosome-mediated mRNA splicing regulation, ncRNA-mediated gene silencing). This suggests proteins are generally involved in RNA metabolism and the early steps of translation, justifying a label that pairs RNA processing with translation initiation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":11},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0048025","count":8}]},{"hash":"1367419198523617360","title":"T cell receptor signaling and thymocyte development","description":"The cluster is dominated by immune-related terms, especially T cell receptor signaling (GO:0050852) and beta selection, suggesting a strong association with T cell development and maturation. Related signaling processes such as mitotic cell cycle and PI3K/MAPK pathway activity support proliferative/activation aspects in thymocytes, with Wnt signaling also tying into thymic development. While a few terms touch on neural morphogenesis, the predominant theme is immune signaling and thymocyte development.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":19},{"id":"GO:0043552","count":19},{"id":"GO:0090263","count":19},{"id":"GO:0006813","count":19},{"id":"GO:0000278","count":18}]},{"hash":"1908500294851705120","title":"Lipid and pigment biosynthesis","description":"The terms cluster around biosynthesis of lipids and related pigments and retinoids (fatty acid elongation, sphingolipid biosynthesis, melanin, retinal and retinoic acid biosynthesis), with testosterone biosynthesis suggesting a broader lipid-derived biosynthetic theme.","confidence":"High","size":25,"edges":212,"triangles":910,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":25},{"id":"GO:0030497","count":25},{"id":"GO:0055114","count":25},{"id":"GO:0006666","count":25},{"id":"GO:0030148","count":25}]},{"hash":"1506022437681359890","title":"Drosophila Innate Immune Signaling","description":"Top terms are dominated by innate immune functions (defense response to Gram-positive bacteria; innate immune response; TLR9 signaling; non-canonical NF-kappaB signaling; GPCR signaling), suggesting a core theme of immune signaling. Some terms relate to neural development and epithelial polarity, which may reflect multifunctional proteins active in development and signaling in Drosophila. Overall, the cluster is best characterized by innate immune signaling with related developmental links.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0048681","count":4},{"id":"GO:0042346","count":4}]},{"hash":"1420049476835066382","title":"Immune and stress-response signaling proteins","description":"The top GO terms point to innate immune response, regulation of unfolded protein response, translation initiation, and other stress- and signaling-related processes (IP3 biosynthesis, UPR regulation) with additional developmental and tissue-remodeling terms. This suggests a cohesive theme around signaling networks that link immune responses, cellular stress management, and differentiation, rather than a single precise function. Therefore, a label emphasizing both immune signaling and stress-response functions fits best.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048863","count":4},{"id":"GO:0043278","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0032959","count":3},{"id":"GO:0010954","count":3}]},{"hash":"813304698019796173","title":"Nuclear import and nuclear pore complex assembly","description":"This cluster is dominated by GO terms related to transporting proteins into the nucleus and assembling the nuclear pore (e.g., ribosomal protein import, NLS-bearing protein import, and nuclear pore complex assembly). A few terms touch on chromatid cohesion and RNA Pol III transcription, but the central signal points to nuclear transport and pore structure, implying a role in nuclear import machinery and pore maintenance during the cell cycle.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":7},{"id":"GO:0051292","count":7},{"id":"GO:0006610","count":7},{"id":"GO:0000060","count":7},{"id":"GO:0043547","count":7}]},{"hash":"665244889326862462","title":"Neuronal GPCR Signaling and Metabolic Regulation","description":"The GO terms point to GPCR-driven signaling (adenylate cyclase\u2013activating pathways, dopamine signaling) combined with metabolic and thermogenic processes (electron transport chain, thermogenesis, temperature response), plus neural-related functions (pain perception, synapse assembly) and cardiovascular aspects, suggesting a cohesive theme of neural signaling linked to energy metabolism and physiological regulation.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0019233","count":7},{"id":"GO:0071380","count":6}]},{"hash":"1770712837660107584","title":"Unknown","description":"The top GO terms span immune differentiation and B cell signaling, neuronal development and synaptic plasticity, endothelial barrier establishment, tight junctions, transcytosis, eisosome assembly, myelination, and apoptosis regulation. This diversity provides no single, cohesive biological function linking the proteins, making it inappropriate to assign a specific cluster function beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002337","count":3},{"id":"GO:0070941","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0045056","count":3}]},{"hash":"264903816402688813","title":"Neural development and synaptic assembly","description":"The proteins cluster around neural development and synaptic organization, with terms like neuroblast differentiation, retina development, neurexin clustering in presynaptic membrane assembly, and cytoskeletal organization at the active zone. These imply a coherent theme of synapse formation and maturation in developing neural tissue, complemented by postsynaptic regulation of excitatory signals and broader transcriptional and metabolic support. ","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":14},{"id":"GO:0002087","count":14},{"id":"GO:0002076","count":14},{"id":"GO:0006366","count":12},{"id":"GO:0019695","count":11}]},{"hash":"67466922812550470","title":"Neural signaling and sensory organ morphogenesis","description":"This cluster centers on ion transport and action potential terms, plus nerve and sensory organ development (vestibulocochlear and optic nerves), suggesting proteins involved in neuronal excitability and sensory pathway morphogenesis, with some broader tissue growth themes as secondary signals.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0021562","count":6},{"id":"GO:0003428","count":6},{"id":"GO:1905920","count":6},{"id":"GO:0035725","count":6}]},{"hash":"246827394010482268","title":"Nuclear import and ribosome biogenesis","description":"This cluster is enriched for GO terms tied to nuclear transport (nuclear pore complex assembly, NLS-bearing protein import into nucleus, ribosomal protein import into nucleus) and regulators of GTPase activity, suggesting proteins involved in nucleocytoplasmic trafficking and ribosome assembly in the nucleus. A few RNA-processing terms are present but are obsolete or peripheral, so the dominant theme is nuclear transport and ribosome biogenesis.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051292","count":3},{"id":"GO:0006610","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0060188","count":3}]},{"hash":"1487426862453716301","title":"Broad Transmembrane Transporters","description":"The top GO terms are dominated by transmembrane transport activities for a wide range of substrates (nitrate, nitrite, sodium, potassium, galactose, fucose, xenobiotics), plus a few related metabolic/assimilation terms. This pattern strongly suggests a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate-specific function. Confidence: High","confidence":"","size":24,"edges":54,"triangles":36,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":18},{"id":"GO:1900754","count":18},{"id":"GO:0035725","count":18},{"id":"GO:0015757","count":18},{"id":"GO:0015707","count":18}]},{"hash":"1314631875931814605","title":"Sterol and lipid metabolism","description":"This cluster is dominated by lipid/sterol-related processes: bile acid biosynthesis, cholesterol catabolic, oxylipin biosynthesis, lipid hydroxylation, and testosterone biosynthetic pathways, indicating a core theme of sterol and lipid metabolism and associated signaling. Some non-lipid terms appear (e.g., endothelial adhesion, cell cycle regulation) but do not override the primary lipid/metabolic signal.","confidence":"High","size":24,"edges":64,"triangles":40,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":23},{"id":"GO:0061370","count":23},{"id":"GO:0035902","count":23},{"id":"GO:0031408","count":23},{"id":"GO:0010193","count":23}]},{"hash":"1122866194734362048","title":"Ubiquitination-Regulated Immune Cell Differentiation","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, and K33-linked ubiquitination), suggesting a strong ubiquitin pathway signal. Several terms also point to immune cell development and differentiation (pro-T cell differentiation, dendritic cell differentiation, germinal center formation, regulation of IgE isotype switching, mast cell cytokine production). Together, they imply a role for ubiquitination in governing immune cell development and function. Some terms may reflect annotation noise (e.g., distal tubule morphogenesis), but the core theme remains coherent.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0000209","count":5},{"id":"GO:0045497","count":5},{"id":"GO:2000176","count":5},{"id":"GO:0072156","count":5}]},{"hash":"1043804134836906224","title":"RNA processing and ribosome biogenesis","description":"Top GO terms point to RNA splicing, mRNA capping, and ribosomal large subunit biogenesis, suggesting a cluster centered on gene-expression machinery involving RNA processing and ribosome assembly. Some terms are obsolete, but the recurring theme supports this interpretation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0019509","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0009088","count":3}]},{"hash":"1070295951306966112","title":"Cardiac and Skeletal Development with Rho-MAPK Signaling","description":"The Top Terms point strongly to heart and skeletal system development and general multicellular development, with notable signaling players such as Rho GTPase signaling, GTPase activity regulation, and ERK/MAPK cascade. This suggests the cluster reflects developmental programs in heart/skeletal tissues coordinated by Rho-MAPK signaling and related cell-adhesion processes, with some broader inflammatory signaling cross-talk. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0001501","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1316787258064298374","title":"Embryogenesis and tissue morphogenesis","description":"The GO terms point to embryonic development and tissue morphogenesis (pancreatic endocrine development, left-right patterning, placental/EMT processes, cartilage formation) with some supporting cellular processes (spliceosome activity, DNA repair, stress responses) that are common in development. Thus the label captures the main theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1820592416345153118","title":"Mitochondrial respiration and translation regulation","description":"This cluster is driven by mitochondrial energy metabolism terms (mitochondrial ATP synthesis coupled electron transport, aerobic respiration, mitochondrial electron transport) and by translation-related terms (translation and negative regulation of translation), suggesting a cohesive grouping around mitochondrial energy production with coordinated control of protein synthesis. Peripheral terms like nucleotide salvage/metabolism may reflect mitochondrial nucleotide metabolism links but are secondary to the core theme.","confidence":"High","size":24,"edges":252,"triangles":1575,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0042775","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0017148","count":2}]},{"hash":"2150178251520219006","title":"Embryonic development and organogenesis","description":"The top GO terms point to broad developmental and differentiation processes across tissues (pancreatic/endocrine development, left-right patterning, placenta/EMT-associated heart development, cartilage morphogenesis, trophoblast differentiation). A unifying theme is embryonic development and tissue formation, with RNA processing terms reflecting general gene expression activity in developing cells. Confidence in this theme is Moderate, since some terms are more specialized and not exclusively developmental.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0003323","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060806","count":5}]},{"hash":"560146995468930492","title":"Unknown","description":"The top GO terms span immune regulation (IL-12 and NF-kappaB-related), cardiac/mechanical signaling (muscle stretch response, SA node communication, mechanical stimulus response), membrane protein localization, apoptosis, dendritic cell differentiation, and general signaling/cell cycle. There is no single coherent biological function linking all proteins, and the network has no edges, suggesting a lack of a shared theme. Therefore, Unknown with None.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":4},{"id":"GO:0035994","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0072660","count":4},{"id":"GO:0086070","count":4}]},{"hash":"643914444047900146","title":"ECM Remodeling and Immune Signaling","description":"The cluster centers on extracellular matrix remodeling (collagen fibril organization, proteolysis) combined with immune-related activities (type II interferon signaling, B cell differentiation, leukocyte migration) and developmental morphogenesis (face morphogenesis, hard palate development), suggesting a theme of matrix dynamics intertwined with immune regulation and developmental processes.","confidence":"High","size":24,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0030199","count":2},{"id":"GO:0014911","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0006508","count":2}]},{"hash":"1516316503122235344","title":"Developmental signaling and tissue differentiation","description":"The top GO terms cluster around development and differentiation across tissues\u2014lens fiber differentiation, multicellular organism development, spermatogenesis, skeletal system development, and Wnt signaling\u2014suggesting a shared role in development and cell fate specification. Ribosome biogenesis and proteolysis point to concurrent growth and remodeling during development, while lipid remodeling and chemokine regulation may reflect broader maturation processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070306","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0016055","count":3}]},{"hash":"608470235870402263","title":"Transcription and Cell Cycle Signaling","description":"Top terms center on DNA-templated transcription and mitotic cell cycle, with signaling inputs from TORC1 and EGFR pathways. This suggests a cluster where transcriptional control interfaces with growth and division signals. Some terms like response to vitamin D or SA node activity are context-specific but do not override the overarching link between gene expression regulation and cell-cycle\u2013related signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0007173","count":3}]},{"hash":"1693391873347393967","title":"Developmental processes and cellular trafficking","description":"The top GO terms are dominated by development-related processes (nervous system development, endocrine system development, hair follicle morphogenesis, pancreatic cell development), pointing to a developmental biology theme. Additional terms about endosomal trafficking and centrosome dynamics suggest related cellular processes that support development. The cluster therefore seems to represent a set of proteins involved in developmental pathways with supporting cellular trafficking functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0007098","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0043552","count":2}]},{"hash":"357788964863477344","title":"Skeletal muscle differentiation and transcription regulation","description":"The top GO terms emphasize skeletal muscle cell differentiation and its regulation, alongside clear signals of transcriptional control (DNA-templated transcription, RNA polymerase II), with additional differentiation terms indicating a broader developmental regulatory module.","confidence":"High","size":23,"edges":244,"triangles":1611,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0006366","count":12},{"id":"GO:0035914","count":10},{"id":"GO:0031018","count":9},{"id":"GO:0060766","count":9}]},{"hash":"240561496966987968","title":"Cell cycle control and transcription regulation","description":"The cluster is dominated by GO terms for cell division and specific cell-cycle transitions (G1/S, G2/M) and by transcription-related terms (DNA-templated transcription, negative regulation of transcription by RNA Pol II, positive regulation of CDK activity). This combination points to proteins coordinating cell-cycle progression with transcriptional control, with some auxiliary notes on ER stress or development terms that are less central. ","confidence":"High","size":23,"edges":125,"triangles":301,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0033327","count":8},{"id":"GO:0060749","count":8},{"id":"GO:0006351","count":8}]},{"hash":"1417235759840190158","title":"Unknown","description":"The terms span diverse metabolic biosynthesis (fructose, retinol, testosterone, bile acids) and catabolic processes (naphthalene, D-xylose), plus oxidative stress response and cell proliferation/apoptosis signals, offering no single cohesive function to bind the cluster. Therefore, there is no clear theme to assign a specific name.","confidence":"","size":23,"edges":250,"triangles":1710,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0046370","count":17},{"id":"GO:0042572","count":17},{"id":"GO:0048661","count":16},{"id":"GO:0061370","count":16},{"id":"GO:2000353","count":16}]},{"hash":"1851348019488219597","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0000472","count":1},{"id":"GO:0090394","count":1}]},{"hash":"2294680958089637400","title":"Central Carbon Metabolism and Vitamin Biosynthesis","description":"This cluster is strongly enriched for core energy and carbon-flow pathways (glycolysis and the TCA cycle) and includes biosynthetic routes for essential cofactors (biotin, thiamine) and porphyrin precursors, suggesting a cohesive metabolic hub rather than a single pathway.","confidence":"High","size":23,"edges":230,"triangles":1361,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0006096","count":8},{"id":"GO:0006782","count":8},{"id":"GO:0055114","count":6},{"id":"GO:0033512","count":6}]},{"hash":"1690616355103237166","title":"Unknown","description":"The proteins span both developmental processes (midbrain development, multicellular organism growth, single fertilization) and immune/inflammatory functions (defense response to Gram-positive bacteria, neutrophil-mediated killing, leukocyte migration, complement activation, LPS response, plasminogen activation). With no cohesive, single GO theme and no edges connecting them, there isn't a clear, specific label that captures the cluster\u2019s function.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030901","count":12},{"id":"GO:0000122","count":12},{"id":"GO:0050830","count":9},{"id":"GO:0035264","count":9},{"id":"GO:0007338","count":8}]},{"hash":"1355915190530722582","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":19,"triangles":2,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":14},{"id":"GO:0045454","count":13},{"id":"GO:0006986","count":12},{"id":"GO:0006458","count":11},{"id":"GO:0070389","count":11}]},{"hash":"922595634013467235","title":"Unknown","description":"The top GO terms are highly diverse, spanning neural development, immune signaling (NFAT), xenobiotic response, metabolism, meiotic checkpoints, morphine response, DNA damage checkpoints, T cell homeostasis, muscle fiber transitions, and bacterial lipid A synthesis. There is no clear common function or pathway linking these proteins, suggesting either a mixed or mis-annotated cluster rather than a cohesive biological module. Therefore no specific functional label fits; Unknown with None confidence.","confidence":"","size":23,"edges":17,"triangles":2,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051533","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0005981","count":4},{"id":"GO:0072462","count":4}]},{"hash":"192051751182950214","title":"Innate Immune Signaling","description":"The top GO terms point to innate immune recognition, especially MyD88-dependent toll-like receptor signaling and detection of bacterial lipopeptides, suggesting the proteins function in innate immune signaling. Other terms indicate related regulatory processes such as stress responses and cytoskeletal remodeling, but the shared theme across the cluster appears to be immune sensing and signaling rather than a single non-immune pathway.","confidence":"Medium","size":23,"edges":11,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016336","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0071287","count":3},{"id":"GO:0035751","count":3},{"id":"GO:0070340","count":3}]},{"hash":"338131575461213549","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms point to ribosome production and the machinery for starting and reinitiating translation: ribosome biogenesis, maturation of rRNA, formation of the translation preinitiation complex, and translation reinitiation. These strongly suggest a core theme around assembling ribosomes and initiating protein synthesis, with some related RNA processing (mRNA splicing) and trafficking terms likely reflecting broader RNA processing and cellular transport connections. Overall, the cluster appears driven by ribosome-related processes, justifying this label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007584","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0030900","count":3}]},{"hash":"741622274026988147","title":"Neural development via SHH and ROBO signaling","description":"This cluster is dominated by terms related to neural development and signaling pathways: Smoothened/SHH signaling, Roundabout (ROBO) guidance, and regulation of ERK cascades, along with brain and nervous system development. There are also related terms for synaptic vesicle exocytosis and muscle-related processes, but the strongest signal centers on neural development and neuronal signaling, consistent with roles in neural patterning and guidance.","confidence":"High","size":23,"edges":147,"triangles":402,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0001822","count":9}]},{"hash":"1428290110723485957","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms for embryonic development and tissue/organ formation, including endocrine system development, pancreatic cell development, left/right patterning, placental/EMT processes, and cartilage morphogenesis, with some core gene-expression processes. The coherence of these developmental themes suggests a label reflecting embryonic tissue differentiation and organogenesis.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":14},{"id":"GO:0035270","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0003198","count":14}]},{"hash":"1035046960285333833","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"Based on the enriched terms, the cluster centers on actin cytoskeleton regulation, lamellipodium assembly, Rho signaling, and endosome organization, all of which reflect cytoskeletal remodeling driving cell shape changes and movement. The presence of immune-related terms (dendritic cell differentiation, neutrophil clearance) supports motility and trafficking in immune cells, complementing the core cytoskeletal theme. A few developmental terms are present, but the dominant signal is actin-driven motility and remodeling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0010765","count":4},{"id":"GO:2001200","count":3},{"id":"GO:0097350","count":3},{"id":"GO:0007422","count":3}]},{"hash":"71562859085571388","title":"Redox Homeostasis and Detoxification","description":"The top GO terms are dominated by oxidative stress and detoxification processes: cellular oxidant detoxification, cell redox homeostasis, response to toxic substance, toxin catabolic process, and regulation of mitochondrial membrane potential. These indicate a core theme of maintaining redox balance and handling harmful compounds. Additional terms touch on prostaglandin biosynthesis and growth-related regulation, suggesting linked signaling pathways and effects on cell proliferation and differentiation. Overall, the cluster appears to represent redox/detox pathways with ancillary signaling and growth regulation.","confidence":"Medium","size":23,"edges":222,"triangles":1223,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":12},{"id":"GO:0098869","count":9},{"id":"GO:0045454","count":9},{"id":"GO:0051726","count":8},{"id":"GO:1902476","count":8}]},{"hash":"1300573649229117805","title":"Cofactor and Secondary Metabolite Biosynthesis","description":"This cluster\u2019s top GO terms are dominated by biosynthetic processes for vitamins and cofactors (biotin, menaquinone, cobalamin) and antibiotic biosynthesis, alongside related aromatic metabolism. While the network structure is sparse, the shared theme appears to be involvement in diverse biosynthetic pathways producing small molecules and secondary metabolites, rather than a single unified function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0009102","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0019433","count":4}]},{"hash":"1484585001142369610","title":"Unknown","description":"The listed GO terms cover xenobiotic response, cAMP signaling, photosynthesis, transport, transcription regulation, muscle-related processes, satellite cell activation, and visual perception, spanning diverse biological contexts with no clear single theme. As a result, there isn\u2019t a cohesive function that unites these proteins into a specific, interpretable cluster name.","confidence":"","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0051591","count":3},{"id":"GO:0019684","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0010515","count":2}]},{"hash":"914454096105386069","title":"Diverse membrane transporters","description":"The cluster\u2019s GO terms are dominated by various membrane transport activities across multiple substrates (nitrate, sodium, vitamin, fucose, and 4-hydroxyphenylacetate) and processes like neurotransmitter loading into synaptic vesicles, pointing to a common theme of membrane transport functions. While there is an outlier term related to cuticle development, the strongest and most consistent signal across the set is transport across membranes. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042395","count":2},{"id":"GO:0032516","count":1},{"id":"GO:0032515","count":1},{"id":"GO:0007094","count":1},{"id":"GO:0015706","count":1}]},{"hash":"212049088747570257","title":"Neuronal signaling and ion transport","description":"The prominent GO terms point to nervous system functions: locomotory behavior, GABA signaling, excitatory postsynaptic potentials, conditioned taste aversion, and vestibulocochlear nerve development, all centered on neural signaling and behavioral responses. Ion transmembrane transport (sodium and potassium channels) underpins neuronal excitability, aligning with these neural processes. A couple of terms (acrosome reaction, chondrocyte intercalation) seem less connected, suggesting some noise, but the core theme remains neuronal signaling with membrane transport. ","confidence":"Medium","size":23,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":8},{"id":"GO:0035725","count":7},{"id":"GO:0007214","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0001661","count":7}]},{"hash":"858575350677285543","title":"Nuclear transport and cell cycle regulation","description":"This cluster is dominated by GO terms tied to nuclear import (NLS-bearing protein import into nucleus, ribosomal protein import into nucleus) and nuclear pore complex assembly, suggesting a core theme of nuclear transport. It also includes terms for cell cycle control (G1/S transition and regulation of cyclin-dependent kinase activity) and transcriptional regulation, desumoylation, which align with nuclear regulatory processes. The combination points to a cohesive group of proteins involved in moving components into the nucleus and coordinating cell cycle and transcriptional regulation within the nucleus.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0006610","count":3},{"id":"GO:0000060","count":3}]},{"hash":"969447949683501273","title":"Nuclear transcription regulation and chromatin","description":"This cluster is dominated by GO terms tied to nuclear transcription and chromatin state: DNA-templated transcription elongation, regulation of DNA-templated transcription, transcription by RNA polymerase II, and rDNA heterochromatin formation. These indicate a core function in controlling gene expression and chromatin dynamics, with a few outliers related to peptide export or antibiotic response that are less central to the cluster\u2019s main theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006354","count":3},{"id":"GO:0048478","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006366","count":2}]},{"hash":"864227266452776050","title":"Embryonic Wnt-driven Transcription and Translation Regulation","description":"This cluster centers on embryonic development signals (in utero development, Wnt pathway) and broad gene-expression control, including transcriptional regulation and multiple steps of translational initiation/reinitiation, suggesting a cohesive theme of developmental regulation at both transcriptional and translational levels. The presence of DNA repair terms adds some diversification but does not negate the core link to developmental gene expression control.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0060070","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0075522","count":2}]},{"hash":"340215205137359540","title":"Proteolysis and ECM remodeling","description":"The top GO terms are dominated by catabolic proteolysis (bradykinin, neuropeptide, collagen) and basement membrane disassembly, pointing to a cluster of proteins primarily involved in proteolytic degradation and extracellular matrix remodeling, with some auxiliary terms suggesting regulation of enzyme activity and related morphogenesis.","confidence":"High","size":23,"edges":245,"triangles":1619,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":23},{"id":"GO:0051603","count":23},{"id":"GO:0050790","count":23},{"id":"GO:0034769","count":23},{"id":"GO:0097067","count":23}]},{"hash":"1722440124264196752","title":"RNA capping and TORC1 signaling in development","description":"The top GO terms center on mRNA capping and guanine-N7 methylation, plus TORC1 signaling, suggesting a core of RNA maturation and growth pathway regulation. The accompanying developmental terms imply this cluster reflects gene-expression modulation during embryonic and organ development, tying RNA processing to differentiation processes such as endocrine development, placental formation, left-right patterning, and morphogenesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0003323","count":2},{"id":"GO:0035270","count":2}]},{"hash":"1575125963580403015","title":"RNA Processing: rRNA Maturation and Splicing","description":"The top GO terms are dominated by RNA maturation (LSU and 5.8S rRNA) and spliceosome-mediated mRNA splicing, pointing to a shared RNA-processing function. The other terms (immune signaling, vesicle fusion, phagocytosis, and neural development) may reflect broader roles or dataset noise, but do not override the core RNA-processing theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0002250","count":2},{"id":"GO:0031340","count":2}]},{"hash":"2018738100131206456","title":"Vertebrate Development and Differentiation","description":"The top GO terms point to developmental and differentiation processes across multiple tissues (endothelial proliferation, telencephalon development, in utero embryonic development, skeletal muscle differentiation, rhodopsin biosynthesis). While some terms are broad (transcription regulation, chromatin formation), their presence alongside tissue-specific developmental terms suggests a theme of vertebrate development and lineage specification. The connections are plausible but somewhat broad, so a moderate level of confidence is appropriate.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":3},{"id":"GO:0006348","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0021537","count":2},{"id":"GO:1903955","count":2}]},{"hash":"1079466472639020055","title":"Embryonic Development and Immunometabolic Regulation","description":"The top GO terms point to transcriptional control (RNA polymerase II) and diverse developmental processes (placenta, pancreas, segmental identity, dorsal identity), alongside immunometabolic signals (MHC class II biosynthesis, IL-4 response, cytokine production, fatty acid homeostasis, brown fat differentiation). This suggests a cluster of proteins involved in developmental programs that interface with immune signaling and metabolic regulation, typical of organogenesis-related networks with metabolic-immune integration.","confidence":"Medium","size":22,"edges":229,"triangles":1501,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0001892","count":8},{"id":"GO:0045348","count":8},{"id":"GO:0071353","count":8},{"id":"GO:0031018","count":8}]},{"hash":"1560409723109202145","title":"DNA replication and genome maintenance","description":"Top terms cluster around DNA replication and SOS response, with primer synthesis, unwinding, and topological changes; this indicates core replication/repair roles. A minority of terms point to RNA processing and ribosome biogenesis, suggesting additional roles in RNA metabolism and ribosome assembly. Overall, the cluster appears to represent DNA replication and genome maintenance.","confidence":"High","size":22,"edges":23,"triangles":21,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0009432","count":12},{"id":"GO:0006306","count":12},{"id":"GO:0006269","count":12},{"id":"GO:0006268","count":12}]},{"hash":"2226979557750324939","title":"Transcriptional regulation and apoptosis with redox homeostasis","description":"This cluster centers on transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II) and apoptotic regulation (apoptotic process and its negative regulation). It also includes redox and detoxification functions (cell redox homeostasis, cellular oxidant detoxification, oxidation-reduction processes) and related metabolic signaling (tetrahydrofolate metabolism, cellular response to cAMP), suggesting a cohesive theme of gene-expression control linked to preventing or modulating apoptosis under oxidative stress.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0098869","count":2}]},{"hash":"158323566060321361","title":"Mitochondrial translation and energy metabolism","description":"This cluster centers on mitochondrial-specific processes, with GO terms for translation and positive regulation of mitochondrial translation, alongside mitochondrial electron transport and related metabolic steps (e.g., dihydrolipoamide metabolism, 2-oxoglutarate, and folate metabolism). The combination strongly indicates involvement in mitochondrial protein synthesis and energy production.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0051573","count":1}]},{"hash":"762912646690427343","title":"Eukaryotic translation initiation machinery","description":"Dominant GO terms point to translation initiation, preinitiation complex formation, and eIF4F assembly (including IRES-dependent initiation and translation reinitiation), which strongly suggests the proteins function as components of the eukaryotic translation initiation machinery. Some regulatory terms about mRNA splicing and stability are present but appear ancillary to the main translation initiation theme.","confidence":"High","size":22,"edges":197,"triangles":977,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075522","count":7},{"id":"GO:0097010","count":7},{"id":"GO:0002188","count":7},{"id":"GO:1902625","count":7},{"id":"GO:1905663","count":7}]},{"hash":"1618391043925274369","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"Most top GO terms describe ubiquitin-dependent degradation, including SCF- and APC/C-mediated ubiquitination, ERAD, autoubiquitination, and polyubiquitination regulation. This points to proteins involved in tagging substrates for proteasomal degradation and coordinating cell-cycle progression, with auxiliary links to DNA repair and viral processes.","confidence":"High","size":22,"edges":101,"triangles":192,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0031146","count":13},{"id":"GO:0070979","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0051301","count":7}]},{"hash":"2002452406963802615","title":"Multicellular Development and Growth Signaling","description":"The top GO terms point to tissue and organismal development (skin, retina, multicellular development) together with cell proliferation/division and transcriptional/signal regulation (SREBP pathway, GTPase activity). This suggests a cluster centered on developmental growth and associated signaling rather than a single molecular function.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":10},{"id":"GO:0043588","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0051301","count":9},{"id":"GO:0000920","count":8}]},{"hash":"1495540267921952732","title":"Chromosome condensation and cell division","description":"This cluster is dominated by GO terms related to chromosome condensation and overall cell division (mitotic and meiotic), indicating a core theme around chromosome packing during division. While there are also terms touching vesicle transport and RNA processing, the strongest signals point to chromosome condensation as the representative function of the cluster. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0010032","count":2},{"id":"GO:1903342","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0007076","count":2}]},{"hash":"1257075036670540081","title":"Skeletal development and bone mineralization","description":"The cluster shows strong enrichment for bone-related processes: endochondral ossification, cementum mineralization, skeletal system morphogenesis, and vitamin D response, together with signaling and transcriptional regulation (protein dephosphorylation, GTPase activity regulation, kinase activity). These shared terms point to a cohesive role in skeletal development and bone mineralization rather than unrelated functions.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006470","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001958","count":3}]},{"hash":"1562496029251588728","title":"Chromatin remodeling and histone modification","description":"Reasoning: Several top GO terms point to chromatin regulation, including nucleosome disassembly and histone modifications (H3-K36 dimethylation, H3-K9 acetylation). This suggests the proteins are enriched for roles in altering chromatin structure and controlling transcription. Other terms such as protein transport and microtubule polymerization indicate broader cellular coordination, while innate immune response and long-term synaptic potentiation may reflect ancillary associations or pleiotropic roles. Overall, the dominant theme is chromatin remodeling and histone modification.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006337","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0008286","count":2},{"id":"GO:0097676","count":2}]},{"hash":"1579869279883845004","title":"ECM remodeling and inflammatory response","description":"The top terms cluster around extracellular matrix turnover (collagen catabolic process, extracellular matrix disassembly, plasminogen activation) and innate immune/inflammatory activities (complement activation, leukocyte migration in inflammation, neutrophil-mediated killing, response to LPS). These suggest a cohesive theme of ECM remodeling linked to inflammatory signaling, with a couple of development-related terms (amelogenesis, digestive system development) that are less central but reflect broader biological context. Negative regulation of transcription by RNA polymerase II appears less connected to the core theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030574","count":7},{"id":"GO:0022617","count":7},{"id":"GO:0097186","count":7},{"id":"GO:0006958","count":6}]},{"hash":"1987971415038924431","title":"Auditory neuron development and function","description":"The top GO terms cluster around nervous system development and auditory-related processes: vestibulocochlear nerve development, sensory perception of sound, action potential, and neuronal signaling (including sodium and zinc ion responses, and regulation of neuron apoptosis), suggesting a set of proteins involved in auditory neuron development and neural excitability. An outlier term related to cartilage morphogenesis is present but does not dominate the theme. ","confidence":"Medium","size":21,"edges":6,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0043524","count":6},{"id":"GO:0007626","count":5},{"id":"GO:0007605","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0021562","count":4}]},{"hash":"1942355498225030275","title":"Developmental signaling and morphogenesis regulators","description":"The proteins show enrichment in Wnt, Hippo, and TGF-\u03b2 signaling, plus apoptosis, differentiation (keratinocytes), and muscle development/morphogenesis terms (including branching morphogenesis and cardiac/skeletal muscle contexts), suggesting a coherent role in developmental signaling networks governing proliferation, differentiation, and morphogenesis.","confidence":"High","size":21,"edges":165,"triangles":754,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060044","count":9},{"id":"GO:0045944","count":9},{"id":"GO:0090263","count":9},{"id":"GO:0030216","count":9},{"id":"GO:0035329","count":9}]},{"hash":"927376406525900547","title":"Interferon-Mediated Antiviral Response","description":"Based on GO terms like cellular response to exogenous dsRNA, innate immune response, and cellular response to type I interferon, this cluster appears to group proteins involved in viral RNA sensing and interferon signaling. Some non-focused terms (striatum development, gibberellin signaling) seem like noise and do not reflect the core theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0021756","count":5},{"id":"GO:0071360","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0009938","count":4}]},{"hash":"543364986310262836","title":"Unknown","description":"The top terms cover diverse and unrelated processes, including immune responses (response to lipopolysaccharide; defense against Gram-positive bacteria), transcription regulation (negative regulation of RNA polymerase II), ribosome biogenesis, and cell cycle signaling (mitotic spindle checkpoint). There is no single coherent function tying these terms together, so a specific, intuitive label cannot be confidently assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0032496","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1063279321004242815","title":"Plant wax and pollen-wall lipid biosynthesis","description":"Top GO terms center on wax biosynthesis, sporopollenin biosynthesis (pollen wall), long-chain fatty-acyl-CoA metabolism, and phenylpropanoid biosynthesis, all characteristic of plant lipid-based surface structures and secondary metabolism. This supports a unifying theme of cuticle/pollen-wall lipid production and related metabolic pathways. Some terms (e.g., lipopolysaccharide biosynthesis and aminoadipic acid lysine biosynthesis) appear as outliers or annotation noise, but do not override the main plant-focused signal.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:1902987","count":10},{"id":"GO:0019878","count":8},{"id":"GO:0097171","count":7},{"id":"GO:0009103","count":7}]},{"hash":"1202704368780223608","title":"Polysaccharide and cell envelope biosynthesis","description":"The terms cluster around biosynthetic pathways for sugars and surface polymers\u2014lipopolysaccharide and its core, colanic acid, GDP-mannose, galactose metabolism, and related carbohydrate biosynthesis (with polyhydroxybutyrate and sporopollenin as polymeric biosynthesis examples). This suggests a common function in assembling polysaccharide-based cell envelope components and surface polymers.","confidence":"High","size":21,"edges":8,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":8},{"id":"GO:0097171","count":7},{"id":"GO:0009103","count":7},{"id":"GO:0080110","count":7}]},{"hash":"1050054004423572039","title":"Ribosome Biogenesis and Translation Regulation","description":"The top GO terms center on translation, ribosome biogenesis, and maturation of rRNA, including SSU-rRNA processing, formation of the translation preinitiation complex, and biogenesis of the small ribosomal subunit, plus positive regulation of cytoplasmic translation and translational elongation. This strongly suggests a cluster of proteins involved in ribosome assembly and control of protein synthesis. The presence of terms like response to antibiotic and mRNA decay hints at links between translation machinery, stress responses, and mRNA turnover, while glial cell proliferation aligns with broader growth-related translation needs. Together these indicate a coherent theme around ribosome biogenesis and translation modulation.","confidence":"High","size":21,"edges":162,"triangles":669,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0046677","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0001731","count":3}]},{"hash":"1828056308455209402","title":"Unknown","description":"The top GO terms cover a wide range of processes\u2014from TNF signaling and cell cycle/mitosis to insulin secretion and various aspects of neuronal secretion and synaptic function\u2014without a single unifying theme. The lack of edges/triangles suggests no functional connectivity within the cluster, supporting the idea that these proteins co-clustered for reasons other than a common function. Hence, no cohesive function can be inferred.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0030073","count":1},{"id":"GO:0046928","count":1}]},{"hash":"688149165161443523","title":"Proteostasis and protein quality control","description":"Top terms point to ubiquitin-proteasome degradation (ERAD), proteasome assembly, and autophagy-related processes, with supporting roles in protein trafficking and chromatin assembly. This pattern suggests a cohesive theme of cellular protein maintenance and quality control, rather than a single specific function.","confidence":"Medium","size":21,"edges":136,"triangles":448,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0070682","count":7},{"id":"GO:0006406","count":7},{"id":"GO:0070414","count":6}]},{"hash":"800239589846232937","title":"Lipid and pigment biosynthesis","description":"The top GO terms predominantly describe biosynthetic pathways for lipids (fatty acid elongation, sphingolipid metabolism, 3-keto-sphinganine, retinal/retinoic acid) and pigments (melanin), with additional metabolic processes like poly-hydroxybutyrate synthesis and a sporulation term. This suggests a cluster centered on diverse lipid- and pigment-related biosynthesis, with some broader metabolic roles. ","confidence":"Medium","size":21,"edges":43,"triangles":78,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":7},{"id":"GO:0030497","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0030435","count":7},{"id":"GO:0006666","count":7}]},{"hash":"1304664979987115996","title":"Post-transcriptional RNA Processing and Translation Regulation","description":"These terms cluster around mRNA splicing and stability, ncRNA-mediated gene silencing, and multiple aspects of translational initiation and reinitiation, indicating a cohesive module of post-transcriptional gene expression control, especially under stress.","confidence":"Medium","size":21,"edges":26,"triangles":13,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0010323","count":4},{"id":"GO:0075522","count":4}]},{"hash":"524762836460548262","title":"Neuroimmune Innate Immunity","description":"This cluster is driven by GO terms tied to innate immune defense (innate immune response, dsRNA response, defense against Gram-positive bacteria, LPS-mediated signaling, interferon-beta production), indicating a core role in innate immune signaling. A few terms also touch on neural processes (dopamine cellular response, synapse assembly, corpus callosum development), suggesting possible neuroimmune or brain-related modulation, but the dominant theme remains innate immunity. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0014068","count":8},{"id":"GO:0043330","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0045087","count":8},{"id":"GO:1903351","count":8}]},{"hash":"78153434418152056","title":"Neural development and cell migration","description":"Most represented terms point to neural development (spinal cord development) and cell motility (cell migration, microtubule-based movement), with supporting mentions of growth and cytoskeletal organization (cell growth, protein tetramerization). While a couple of GPCR-related terms are obsolete or broader, the dominant theme is neurodevelopmental cytoskeletal dynamics and movement.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0016126","count":3}]},{"hash":"810250100089394424","title":"Embryonic Morphogenesis and Transcriptional Regulation","description":"The top GO terms point to broad transcriptional control (negative regulation of transcription by RNA polymerase II; chromatin remodeling) alongside diverse embryonic organogenesis processes (pancreas, lens, otic placode, trachea, genitalia morphogenesis, neural crest migration). This suggests a cluster of proteins that regulate gene expression during development and organ formation.","confidence":"High","size":20,"edges":102,"triangles":255,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0031018","count":11},{"id":"GO:0043044","count":11},{"id":"GO:0048557","count":10},{"id":"GO:0090190","count":10}]},{"hash":"1694749120308131212","title":"Neural development and synaptic assembly","description":"The cluster is dominated by neural-related terms (retina development, neuroblast differentiation, neurexin clustering, EPSP regulation) and neurotransmitter-associated processes (choline metabolism), suggesting a coherent theme of neurodevelopment and synaptic organization, despite a few outliers like osteoblast development.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0002087","count":12},{"id":"GO:0060041","count":12},{"id":"GO:0002076","count":12},{"id":"GO:0006366","count":9},{"id":"GO:0019695","count":9}]},{"hash":"398498780471888553","title":"cGMP signaling with olfactory and cardiac-immune links","description":"The cluster shows enrichment for terms centered on guanylyl cyclase signaling and cGMP response, along with sensory perception of smell and regulation of cardiac muscle contraction as well as immune-related cytokine production. This suggests a shared theme where guanylyl cyclase/cGMP pathways influence olfactory signaling, heart function, and immune modulation, hence the chosen name.","confidence":"Medium","size":20,"edges":48,"triangles":39,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010754","count":9},{"id":"GO:0007608","count":9},{"id":"GO:0071321","count":9},{"id":"GO:1903206","count":7},{"id":"GO:0032754","count":7}]},{"hash":"1747254074021772955","title":"RNA processing and translation regulation","description":"The proteins appear to be involved in multiple aspects of RNA metabolism and control of gene expression at the mRNA level, including mRNA decay (deadenylation-dependent decay), translation initiation/reinitiation, cytoplasmic translation, and spliceosome-mediated splicing with regulation by ncRNAs. Although there is a single term related to seminiferous tubule development, the dominant signals cluster around RNA processing, splicing, and translation control, justifying a cohesive label. ","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900153","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1258805102358264238","title":"Lipid and pigment biosynthesis","description":"The top GO terms cluster around biosynthetic processes for lipids and lipid-derived molecules (testosterone biosynthesis, fatty acid elongation, sphingolipid biosynthesis, 3-keto-sphinganine metabolism, retinoic acid and retinal metabolism) and also include pigment production (melanin biosynthesis). This suggests a cohesive theme of synthesizing lipid-based metabolites and pigments, justifying this label.","confidence":"Medium","size":20,"edges":187,"triangles":1088,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":19},{"id":"GO:0030497","count":19},{"id":"GO:0055114","count":19},{"id":"GO:0006666","count":19},{"id":"GO:0030148","count":19}]},{"hash":"1883345363587876522","title":"Unknown","description":"The top GO terms span development (biomineral tissue development), immune/coagulation (blood coagulation, lectin pathway complement activation), signaling (Wnt pathway), and broad intracellular processes (RNA Pol II transcription regulation, RNA splicing, ribosomal export, DNA replication initiation). There is no single cohesive function tying these terms together, suggesting a heterogeneous or annotation-driven cluster rather than a single specific biology.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031214","count":5},{"id":"GO:0030194","count":5},{"id":"GO:0016055","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0001867","count":4}]},{"hash":"1107595327786433406","title":"Golgi-ER trafficking and cell cycle regulation","description":"This cluster is dominated by terms for Golgi organization and ER-to-Golgi vesicle transport, plus Rab signaling and mitotic cell cycle processes, indicating a shared role in intracellular trafficking linked to cell division and polarity. While it also includes broader signaling terms (e.g., Hedgehog pathway, axonogenesis regulation), the strongest cohesive theme is Golgi/ER trafficking coupled with cell cycle and polarity regulation.","confidence":"Medium","size":20,"edges":64,"triangles":128,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050771","count":12},{"id":"GO:0032482","count":12},{"id":"GO:0007224","count":11},{"id":"GO:0051301","count":11},{"id":"GO:0000278","count":11}]},{"hash":"817150038416007171","title":"Flowering Regulation and Photoperiod Response","description":"The cluster centers on plant reproductive development, with multiple GO terms for inflorescence and flower development, regulation of the vegetative-to-reproductive transition, and short-day photoperiodism, indicating proteins involved in flowering timing and development. Other terms appear tangential (oxidation-reduction, metabolism) and do not define the core theme. ","confidence":"High","size":20,"edges":21,"triangles":5,"max_degree":9,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0010229","count":4},{"id":"GO:0048575","count":4},{"id":"GO:0048510","count":4}]},{"hash":"1348199102061149799","title":"Complement-Driven Inflammatory Response","description":"Based on GO terms dominated by complement activation (classical and lectin pathways), response to lipopolysaccharide, leukocyte migration, and neutrophil-mediated antibacterial activity, this cluster appears to reflect innate immune activation and inflammation mediated by the complement system. Some transcription-related terms are present but do not define the core function of the cluster.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0014068","count":10},{"id":"GO:0045944","count":10}]},{"hash":"725616527472200079","title":"Adaptive immune signaling and hematopoietic development","description":"Based on the top GO terms, the proteins are enriched for immune-related processes (adaptive and innate immune responses, B cell receptor signaling, IL-2 production) and hematopoietic development (megakaryocyte development), with BMP signaling modulation and cell adhesion support. A nonimmune term (lens fiber differentiation) is an outlier, but the dominant theme is immune activation and blood cell lineage development, so this label best captures the cluster's functional coherence.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0030513","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0043552","count":2}]},{"hash":"723116096699781422","title":"Steroidogenesis and lipid metabolism","description":"The top GO terms cluster around lipid and steroid pathways: testosterone biosynthesis, bile acid biosynthesis, cholesterol catabolism, oxylipin biosynthesis, and lipid hydroxylation, pointing to lipid metabolism and steroidogenesis as the core theme. A few terms (endothelial adhesion, stress response) are peripheral but do not Overrides the dominant lipid/steroid pattern.","confidence":"Medium","size":20,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":20},{"id":"GO:0061370","count":20},{"id":"GO:0035902","count":20},{"id":"GO:0031408","count":20},{"id":"GO:0010193","count":20}]},{"hash":"760242810857336030","title":"Muscle contraction and sarcomere organization","description":"The Top Terms are dominated by muscle contraction and sarcomere-related processes (cardiac and skeletal contraction, sarcomere organization, regulation of contraction, and slow-twitch fiber contraction), indicating the proteins cluster around the contractile apparatus and its regulation across muscle types.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":3},{"id":"GO:0045214","count":2},{"id":"GO:0043057","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0032780","count":2}]},{"hash":"170871956636805174","title":"Insect larval cuticle development","description":"The dominant GO term is larval chitin-based cuticle development (9), suggesting a cohesive role in insect larval cuticle biogenesis. Other enriched terms point to related cellular remodeling processes (endocytosis regulation, ubiquitin-mediated trafficking, and autophagy) and general regulatory activities (GTPase activity, transcriptional control, apoptosis, and cell cycle checks) that often accompany developmental morphogenesis. Overall, the cluster appears to center on insect larval cuticle formation with associated cellular remodeling pathways.","confidence":"Medium","size":20,"edges":176,"triangles":918,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":9},{"id":"GO:0048260","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1633496146162203924","title":"RNA Processing and Translation Initiation Regulation","description":"This cluster centers on RNA-level control: ncRNA-mediated gene silencing, regulation of mRNA splicing, and several factors involved in translating initiation (IRES-dependent initiation, eIF4F complex assembly, and formation of the translation preinitiation complex). Developmental terms appear supportive context rather than core function. ","confidence":"Medium","size":20,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0048701","count":3},{"id":"GO:0075522","count":3}]},{"hash":"2271132476127940983","title":"Developmental signaling and apoptotic regulation","description":"The top GO terms cluster around signaling pathways (serine/threonine kinase signaling, PI3K signaling, tyrosine phosphorylation) and developmental processes (myoblast differentiation, telencephalon development) with a notable emphasis on apoptosis regulation. This suggests proteins involved in coordinating developmental signaling and cell fate decisions, rather than a single tissue-specific function. Confidence: Medium","confidence":"","size":20,"edges":147,"triangles":562,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045819","count":20},{"id":"GO:0046826","count":20},{"id":"GO:0014835","count":20},{"id":"GO:0043065","count":20},{"id":"GO:0007178","count":20}]},{"hash":"9749019936898147","title":"Developmental signaling and differentiation","description":"The Top Terms show neuronal differentiation (cerebellar granule cell differentiation), heart morphogenesis, and intracellular signaling, suggesting a broad grouping around development and signal transduction. While some terms (cell cycle, RNA hydrolysis) are less cohesive, the dominant theme points to developmental processes linked with signaling pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0070212","count":3},{"id":"GO:0090503","count":2}]},{"hash":"927491706726519140","title":"Neuronal excitability and synaptic signaling","description":"The top GO terms point to neural activity and ion-channel\u2013driven signaling (calcium and sodium transport, action potential, excitatory postsynaptic potential, neuron development, locomotory behavior), suggesting a cohesive cluster of neuronal excitability and synaptic transmission; a couple of terms are less related, but the overall theme is clear.","confidence":"High","size":20,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":7},{"id":"GO:0098703","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0043524","count":6},{"id":"GO:0021562","count":6}]},{"hash":"400666474720012732","title":"Neuronal development and signaling","description":"The GO terms point to neural-related development (substantia nigra development; excitatory postsynaptic potential) along with broader developmental processes (blood vessel branching, heart development) and core signaling activities (calcium transport, PI signaling, GTPase regulation, protein dephosphorylation, transcription by RNA polymerase II). This combination suggests a cluster enriched for developmental signaling with a neural emphasis rather than a single pathway, justifying a label centered on neuronal development and signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0001569","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0006470","count":2}]},{"hash":"217809701993308908","title":"Retina development and photoreceptor maintenance","description":"The top GO terms are dominated by retina- and photoreceptor-related processes (retina development in camera-type eye, photoreceptor cell maintenance) with supporting signals from GPCR-mediated adenylate cyclase activation and proliferation regulation, and even energy metabolism (electron transport chain) that align with photoreceptor function. This combination points to a theme centered on retina/photoreceptor biology and its signaling/metabolic support, making the label appropriate. Some terms are broader or less specific (e.g., blood pressure regulation), but they do not outweigh the retina-focused signals.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0010579","count":17},{"id":"GO:0060041","count":17},{"id":"GO:0008283","count":17}]},{"hash":"2182318400614356346","title":"Developmental Morphogenesis","description":"Top GO terms point to broad developmental and morphogenetic processes across tissues and organisms: larval chitin-based cuticle development; endocrine system development (pancreatic cell development, trophoblast differentiation, placental development); left-right pattern formation; epithelial-to-mesenchymal transition in endocardial cushion formation; and cartilage morphogenesis. The shared theme is involvement in growth, differentiation, and shaping of tissues during development, rather than a single molecular function. As such, this cluster seems to group proteins tied to developmental programs and morphogenesis, albeit across diverse contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060806","count":1}]},{"hash":"531140444818225045","title":"Neural, Cardiovascular, and Olfactory Signaling","description":"The top GO terms span nervous system plasticity (short-term memory, long-term potentiation), autonomic/cardiovascular regulation (regulation of heart rate), vascular development (angiogenesis, endothelial migration), and sensory/pheromone signaling (pheromone response, smell) along with social behavior and transport. This pattern suggests a cluster of proteins involved in broadly coordinated signaling across neural, cardiovascular, and sensory pathways rather than a single pathway. Therefore, the label reflects the combined themes of neural signaling, cardiovascular regulation, and olfactory/sensory communication.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0002027","count":7},{"id":"GO:0007614","count":7},{"id":"GO:0060291","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0010595","count":5}]},{"hash":"1843198893353854964","title":"Unknown","description":"The GO terms are diverse, spanning redox, carbohydrate and glycerol/fucose metabolism, purine metabolism, and regulatory processes like microtubule regulation and insulin response, with no single dominant function tying the cluster together. Therefore a cohesive, specific label is not supported.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0032886","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0019295","count":1}]},{"hash":"598083045466118596","title":"Unknown","description":"The top GO terms show a mix of cell division, innate immune response, neural development, Golgi trafficking, and stress responses, with no single dominant function. The lack of edges among the proteins suggests they do not form a cohesive functional cluster, so a specific label isn\u2019t supported.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0045053","count":3},{"id":"GO:2000172","count":2}]},{"hash":"662790510737230663","title":"Ribosome Biogenesis and rRNA Processing","description":"The terms show a clear core around nucleolar functions: maturation of LSU-rRNA, ITS1 processing steps, and general ribosome biogenesis, with related signals like DNA-templated transcription and nutrient response that tie to growth. Some developmental or behavioral terms appear as outliers, but the dominant theme is ribosome production and RNA processing.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0070317","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0060770","count":2},{"id":"GO:0007584","count":2}]},{"hash":"919844091836567411","title":"Gene expression and signaling regulators","description":"The top GO terms point to core gene expression processes (DNA-templated transcription and translation) intertwined with signaling activities (TORC1 signaling, positive regulation of GTPase activity, and regulation of Rho signaling) and immune/developmental roles (defense against Gram-positive bacteria, neural tube closure, apoptotic cell clearance). This pattern suggests a cluster of proteins that broadly regulate transcription/translation and signal transduction, rather than a single specific function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0032760","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0038202","count":2}]},{"hash":"357395055313443148","title":"Craniofacial ECM Remodeling & Amelogenesis","description":"The top terms emphasize collagen catabolic process, extracellular matrix disassembly, and proteolysis, indicating active ECM turnover. Amelogenesis and embryonic cranial skeleton morphogenesis point to craniofacial development and enamel formation, suggesting the cluster centers on ECM remodeling during craniofacial and dental development. The transcription and immune terms are present but less defining for the core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":6},{"id":"GO:0022617","count":6},{"id":"GO:0006508","count":6},{"id":"GO:0097186","count":6},{"id":"GO:0000122","count":6}]},{"hash":"334191390724110413","title":"Muscle and heart development and differentiation","description":"This cluster is dominated by muscle and heart development terms, including skeletal muscle cell differentiation, cardiac right ventricle formation, and cardioblast migration, with morphogenesis and transcriptional regulation (RNA polymerase II) and related signaling (SREBP) also represented; a few terms also touch on endocrine pancreas development and androgen signaling, but the core signal points to musculoskeletal and cardiovascular differentiation.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":14},{"id":"GO:0045668","count":14},{"id":"GO:2001016","count":13},{"id":"GO:0006366","count":13},{"id":"GO:0032933","count":12}]},{"hash":"325337766895736792","title":"Multi-tissue Development","description":"The terms span brain, muscle, cartilage, pancreas, and heart development (globus pallidus, dopaminergic neurons, skeletal muscle, etc.), indicating a broad developmental program rather than a focused function.","confidence":"Medium","size":19,"edges":8,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021759","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0007601","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0044708","count":4}]},{"hash":"1630979257280897796","title":"DNA replication and transcription cluster","description":"The top terms are dominated by DNA-templated transcription, replication, repair, cell cycle, and transcription regulation, pointing to a group of proteins involved in nuclear genome maintenance and expression. A couple of neuronal GO terms are low-frequency outliers and do not define the cluster's core function. Therefore the name reflects the central theme: DNA replication and transcription machinery.","confidence":"High","size":19,"edges":19,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2125669196765572003","title":"Steroidogenesis and Lipid Metabolism","description":"The cluster is dominated by lipid- and steroid-related processes: testosterone biosynthesis, bile acid biosynthesis, cholesterol catabolism, oxylipin biosynthesis, and lipid hydroxylation, all pointing to lipid metabolism and hormone/steroid signaling. A non-central term about endothelial adhesion appears, but overall the common theme is lipid metabolism with steroidogenesis or lipid-derived signaling. Confidence: Medium","confidence":"","size":19,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":10},{"id":"GO:0061370","count":10},{"id":"GO:0035902","count":10},{"id":"GO:0031408","count":10},{"id":"GO:0010193","count":10}]},{"hash":"300794757927131078","title":"Amino Acid Metabolism Core","description":"This cluster is dominated by amino acid catabolic and biosynthetic terms (alanine, aspartate, histidine) and oxaloacetate metabolism, with kynurenine catabolism also present, suggesting a core metabolism theme. Some terms such as Notch signaling and fruit ripening appear as outliers, likely due to annotation breadth.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"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:0033512","count":8},{"id":"GO:0009835","count":7}]},{"hash":"1170455161495853697","title":"Chromatin regulation and transcription control","description":"Many terms point to nuclear gene expression control: heterochromatin formation, DNA-templated transcription, transcriptional regulation by RNA polymerase II, and histone-related modifications and folding activities. These collectively suggest a chromatin remodeling/transcription regulation theme, with a few peripheral terms (UV response, virus uncoating, plant development) that may reflect broader or incidental roles. ","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030466","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0043966","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0071492","count":3}]},{"hash":"1313849667671513689","title":"Fatty acid biosynthesis and transport","description":"The top GO terms cluster around fatty acid metabolism across chain lengths (long-, medium-, very long-chain), including biosynthesis, import/transport, and related metabolic steps, pointing to a cohesive fatty acid metabolic module. Acetyl-CoA/acetate-related processes and pyruvate fermentation also support an overall energy- and lipid-related metabolism theme. A few outliers (bioluminescence, seed germination regulation) are present but do not define the core function of the cluster.","confidence":"High","size":19,"edges":101,"triangles":213,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019427","count":11},{"id":"GO:0010124","count":11},{"id":"GO:0008218","count":11},{"id":"GO:0006633","count":11},{"id":"GO:0001579","count":11}]},{"hash":"1712978001718877972","title":"Cellular stress response and fate regulation","description":"The terms point to oxidative and xenobiotic stress responses, signaling via cAMP, DNA turnover and apoptosis, and epidermal differentiation (corneocyte development), plus regulation of G1/S cell-cycle transition. This suggests a theme of stress sensing linked to cell fate decisions (survival, proliferation, and differentiation).","confidence":"Medium","size":19,"edges":109,"triangles":268,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0014912","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0003335","count":4},{"id":"GO:2001153","count":4},{"id":"GO:0070301","count":4}]},{"hash":"2190187411944574624","title":"Keratinocyte differentiation and signaling","description":"This cluster is dominated by keratinocyte differentiation along with major growth and signaling pathways (Hippo, Wnt, JNK) and apoptosis, suggesting a cohesive module tied to epidermal development and growth control. Transcription regulation also appears, with some broader terms like synapse organization and GTPase activity, but the strongest signals point to differentiation of skin cells governed by signaling networks. ","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030216","count":12},{"id":"GO:0035329","count":12},{"id":"GO:0060044","count":12},{"id":"GO:0090263","count":12},{"id":"GO:0006915","count":12}]},{"hash":"2102955966266451068","title":"ECM Remodeling and Angiogenesis","description":"The main GO terms point to collagen fibril organization and angiogenesis, with mechanotransduction (cellular response to mechanical stimulus) and related regulation of endothelial behavior; this suggests a coherent theme of extracellular matrix remodeling enabling blood vessel formation, boosted by mechanical cues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0055114","count":3}]},{"hash":"412139341526882359","title":"Organogenesis and Neural Differentiation","description":"This cluster centers on differentiation and development across multiple tissues \u2014 kidney morphogenesis, spinal interneuron specification, midbrain dopaminergic neuron differentiation, atrial cardiac muscle cell development, and pancreatic D cell development \u2014 suggesting a broad embryonic organogenesis/neurodevelopment theme. Some terms (sulfur oxidation, glucocorticoid signaling, immune signaling, fungal cell wall biosynthesis) appear unrelated and may reflect annotation noise rather than a shared function.","confidence":"Medium","size":19,"edges":140,"triangles":544,"max_degree":18,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0072284","count":6},{"id":"GO:0021521","count":6},{"id":"GO:2000324","count":6},{"id":"GO:0055011","count":6},{"id":"GO:1904948","count":6}]},{"hash":"1526357637429853299","title":"Redox Homeostasis and Detoxification","description":"Dominant GO terms are cellular oxidant detoxification and cell redox homeostasis, indicating a core function in managing reactive oxygen species. While there are ancillary regulatory terms (e.g., regulation of the cell cycle, TNF production), the redox-focused terms are most prevalent, justifying a label centered on redox balance.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":16},{"id":"GO:0045454","count":16},{"id":"GO:2000255","count":15},{"id":"GO:0051771","count":13},{"id":"GO:0051726","count":13}]},{"hash":"1497564769620103063","title":"Mitochondrial Transport and Energy Metabolism","description":"The top GO terms cluster around mitochondrial processes: coenzyme A transmembrane transport, ADP transport, malate-aspartate shuttle, iron import into mitochondrion, regulation of mitochondrial membrane permeability, apoptotic mitochondrial changes, adaptive thermogenesis, and cellular responses to insulin and amino acid starvation. This points to a cohesive module of mitochondrial transport and energy metabolism, including metabolite exchange, energy generation, and mitochondria-associated stress responses.","confidence":"High","size":19,"edges":8,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035349","count":13},{"id":"GO:0043490","count":13},{"id":"GO:0032869","count":13},{"id":"GO:0015866","count":13},{"id":"GO:1990845","count":13}]},{"hash":"1454528470089094464","title":"RTK Signaling and Developmental Apoptosis","description":"These proteins are enriched for receptor tyrosine kinase signaling (serine/threonine kinase pathways, tyrosine phosphorylation) and regulation of apoptotic signaling, alongside developmental processes like myoblast differentiation and telencephalon development. The shared theme appears to be RTK-driven signaling that governs cell fate, differentiation, and apoptosis during development, with metabolic context in muscle. ","confidence":"High","size":19,"edges":166,"triangles":887,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045819","count":19},{"id":"GO:0046826","count":19},{"id":"GO:0014835","count":19},{"id":"GO:0043065","count":19},{"id":"GO:0007178","count":19}]},{"hash":"995053077957819492","title":"Amino acid and vitamin/cofactor biosynthesis with TCA cycle","description":"This cluster's top GO terms are dominated by biosynthetic pathways for amino acids (lysine, histidine) and cofactors (biotin, menaquinone, protoporphyrinogen IX), along with central metabolism (tricarboxylic acid cycle, oxaloacetate). This suggests proteins involved in producing essential building blocks and energy metabolism. Some items (DNA-templated transcription, skeletal muscle tissue regeneration) seem less related and may reflect broader annotation noise, but the main signal points to biosynthesis and metabolism.","confidence":"Medium","size":19,"edges":86,"triangles":166,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":7},{"id":"GO:0006099","count":6},{"id":"GO:0006782","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0055114","count":5}]},{"hash":"1756516477168295167","title":"Diverse substrate membrane transporters","description":"This cluster is defined by a strong enrichment of transmembrane transport GO terms across a wide range of substrates\u2014ions (potassium, sodium), xenobiotics, vitamins, amino acids (proline), nitrates, sugars (fucose, sialic acid), and even neurotransmitter loading into synaptic vesicles. This pattern points to a cohesive group of membrane transporter proteins with broad substrate specificity, rather than functionally unrelated proteins. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0035725","count":5},{"id":"GO:0006855","count":4},{"id":"GO:0035461","count":4},{"id":"GO:0015824","count":3}]},{"hash":"529118395012686734","title":"Multisubstrate membrane transport and osmotic stress","description":"The top GO terms are dominated by various transmembrane transport processes (nitrate, sodium, galactose, phosphate, fructose, etc.) and a shared response to osmotic stress, with supporting metabolic terms such as L-ascorbic acid metabolism. This points to a cluster of transporter proteins handling diverse substrates and involved in osmotic regulation, rather than a single substrate-specific pathway.","confidence":"High","size":19,"edges":161,"triangles":815,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":19},{"id":"GO:0005989","count":19},{"id":"GO:1900754","count":19},{"id":"GO:0071332","count":19},{"id":"GO:0006970","count":19}]},{"hash":"1235312723553012892","title":"Neural signaling and plasticity regulators","description":"The terms cluster around neuronal signaling and plasticity (long-term memory, response to amphetamine, regulation of dendrite morphogenesis) and signaling cascades (calcineurin-NFAT, kinase activity), with broader references to chromatin binding regulation and vascular morphogenesis that reflect general regulatory roles. Overall, the dominant theme appears to be neural signaling and plasticity regulation, hence the label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0035562","count":2}]},{"hash":"1256875842664856291","title":"ER protein folding and ER stress response","description":"The cluster is dominated by GO terms tied to protein folding in the endoplasmic reticulum and ER stress response (GO:0034975, GO:0034976), suggesting the proteins participate in unfolded protein response and ER quality control. Other terms such as regulation of cardiac conduction, gluconeogenesis, and virus response appear but are less frequent, likely reflecting ancillary or broader annotations rather than a core ER-focused function.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":3},{"id":"GO:0001300","count":3},{"id":"GO:1903779","count":3},{"id":"GO:2000098","count":3},{"id":"GO:0045721","count":3}]},{"hash":"638222448083814569","title":"Cerebellar neuron development and Bergmann glia differentiation","description":"The cluster shows strong enrichment for cerebellar cortex formation, neuron development, and Bergmann glial cell differentiation, with related terms on axon regeneration and cell polarity. This points to a cohesive cerebellar neural development program, likely involving cerebellar neurons and Bergmann glia maturation. Some T cell and insulin signaling terms appear as secondary associations but do not override the neural development theme.","confidence":"High","size":19,"edges":52,"triangles":62,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032435","count":8},{"id":"GO:0050852","count":8},{"id":"GO:2001275","count":8},{"id":"GO:0021697","count":8},{"id":"GO:2000114","count":8}]},{"hash":"637585763662795103","title":"Developmental Growth Regulation","description":"The GO terms point to regulatory signaling that governs tissue development and cell proliferation, including positive regulation of GTPase activity and organ-specific development (kidney, bone, prostate gland). Additional terms hint at metabolic or nutrient-responsive regulation and other growth-control processes, suggesting a theme centered on developmental and growth modulation rather than a single pathway. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0007568","count":7},{"id":"GO:0001822","count":5},{"id":"GO:0060770","count":4},{"id":"GO:0007584","count":4}]},{"hash":"239257931417054259","title":"Cell Cycle Control and Tissue Development","description":"Top GO terms emphasize regulation of the cell cycle, cytokinesis, and apoptosis, alongside adherens junction assembly, pointing to growth control and tissue morphogenesis. Development-related terms like lung induction and proteoglycan biosynthesis support broader tissue development and cell\u2013ECM interactions; other terms (vacuole inheritance, plant cell wall biogenesis, proton transport) are more general cellular processes but do not override the central theme of growth and organization.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":16},{"id":"GO:0015991","count":16},{"id":"GO:0060492","count":15},{"id":"GO:0000011","count":15},{"id":"GO:0032467","count":15}]},{"hash":"44961083358734608","title":"Heart and cranial skeletal development","description":"The top terms are dominated by developmental processes, especially heart development and cranial skeletal system development, with accompanying cell migration. Additional terms for intracellular protein transport, phosphorylation, and regulation of GTPase activity suggest coordinated signaling and trafficking during morphogenesis. Some entries are obsolete metabolic terms, but the core signal points to a cluster enriched for heart/craniofacial development and related morphogenic processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0007507","count":2},{"id":"GO:1904888","count":2}]},{"hash":"491246250049983206","title":"Neuronal signaling and apoptosis regulation","description":"The top GO terms point to signaling pathways that regulate GTPase activity and Rho-mediated signal transduction, plus processes tied to neuron survival and apoptosis (including positive regulation of neuron apoptotic process and extrinsic apoptotic signaling). The presence of adult locomotory behavior suggests relevance to neuronal control of movement. Some terms (viral process, Golgi inheritance, amino acid stimulus response) reflect broader cellular stress or trafficking themes but do not override the neuron-centric signals, supporting a label focused on neuronal signaling and apoptosis regulation.","confidence":"Medium","size":19,"edges":37,"triangles":26,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:2001241","count":4},{"id":"GO:0008344","count":3},{"id":"GO:0010950","count":3},{"id":"GO:0016032","count":3}]},{"hash":"1666623098772873600","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006361","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0006293","count":2},{"id":"GO:0000717","count":2},{"id":"GO:0006363","count":2}]},{"hash":"829008475557653250","title":"Neural development and signaling","description":"The top GO terms are dominated by nervous system-related processes: cerebellar granule cell differentiation, forward locomotion, phototaxis, long-term memory, and behavioral/mood-related responses (to morphine and lithium ions), with sodium ion transmembrane transport supporting neuronal activity. While a couple of terms (bone mineralization and propylene metabolic process) are less aligned, the overall pattern points to neural development and function as the central theme. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900159","count":2},{"id":"GO:0018964","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0043056","count":2}]},{"hash":"1241581975867497184","title":"Inflammation and matrix remodeling","description":"Based on the top GO terms, there is a strong signal for innate immune/inflammatory processes (complement activation, neutrophil killing, response to lipopolysaccharide, leukocyte migration). Additionally, plasminogen activation and elastin catabolic process point to extracellular matrix remodeling. Some terms reference digestive/pancreatic development, which may be less connected; overall the cluster seems to reflect inflammation with tissue remodeling rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0003323","count":6},{"id":"GO:0006958","count":5},{"id":"GO:0070946","count":5},{"id":"GO:0032496","count":5}]},{"hash":"797505526817460407","title":"Ubiquitin-Dependent Immune Cell Differentiation","description":"This cluster is driven by ubiquitin-related processes (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination) and immune differentiation signals (positive regulation of pro-T cell differentiation, dendritic cell differentiation, germinal center formation, IgE isotype regulation, and mast cell cytokine regulation). The combination suggests a theme where ubiquitination governs immune cell development and function, though a few terms like distal tubule morphogenesis and gravitropism appear as outliers or annotation noise. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0045497","count":7},{"id":"GO:2000176","count":7},{"id":"GO:0072156","count":7},{"id":"GO:0048294","count":7}]},{"hash":"236495155139106198","title":"Developmental Growth Signaling","description":"The top GO terms point to development (pharyngeal system development, respiratory system process) and growth-related signaling (response to insulin-like growth factor stimulus, mitotic cell cycle, cell division), with additional stress/sensorimotor terms (sensory perception of pain, UV-A response, bradykinin catabolic process). The set doesn\u2019t converge on a single coherent function, but rather spans developmental and growth signaling with broader stress-response processes, so the label Developmental Growth Signaling is a reasonable, though not perfectly specific, summary.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0010815","count":2}]},{"hash":"258782897805304878","title":"Neural development and synapse assembly","description":"The set includes terms for retina development, neuroblast differentiation, neurexin clustering at presynaptic sites, and regulation of excitatory signaling, plus supporting terms like choline metabolism; despite a few bone-related terms, the dominant theme is neural development and synaptic organization.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":13},{"id":"GO:0002087","count":11},{"id":"GO:0002076","count":11},{"id":"GO:0019695","count":8},{"id":"GO:0090394","count":8}]},{"hash":"2258978410336844581","title":"Vertebrate craniofacial and neural development","description":"The terms show a cohesive theme around neural crest migration, hindbrain segmentation (rhombomere development, brain segmentation), and eye/retina morphogenesis, plus palate and bone (osteoblast) development, indicating a developmental program governing head and neural tissue formation in vertebrates. Transcriptional regulation terms further support coordinated control of these developmental processes.","confidence":"High","size":18,"edges":83,"triangles":101,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002087","count":5},{"id":"GO:0021571","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0048048","count":5}]},{"hash":"513083583648308395","title":"Embryonic Development and Neural Fate Specification","description":"This cluster combines GO terms across diverse embryonic tissues (endocrine pancreas, skeletal muscle, bronchiole formation, primitive streak) with neural lineage outcomes (spinal cord motor neuron and oligodendrocyte fate, subpallium neuron fate, peripheral nervous system neuron development) and general transcription regulation, suggesting a cohesive theme of embryonic development with an emphasis on neural differentiation and lineage specification.","confidence":"Medium","size":18,"edges":40,"triangles":11,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":9},{"id":"GO:0090009","count":9},{"id":"GO:0048935","count":9},{"id":"GO:0021530","count":9},{"id":"GO:0007519","count":9}]},{"hash":"732000933013368475","title":"Embryonic organogenesis","description":"The GO terms are dominated by diverse organ- and tissue-specific development (pituitary, heart, pancreas, eye, limb, prostate, midbrain, habenula), indicating a common theme of embryonic organ morphogenesis rather than a single tissue function.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":10},{"id":"GO:0003148","count":9},{"id":"GO:0031018","count":8},{"id":"GO:0035116","count":8},{"id":"GO:0048048","count":8}]},{"hash":"613255644979777225","title":"Embryonic Morphogenesis and Transcriptional Regulation","description":"The cluster is enriched for diverse embryonic development terms (midbrain, cartilage, pancreas, hindlimb, outflow tract, primitive streak and gonad development) along with positive and negative regulation of RNA polymerase II transcription, suggesting these proteins together coordinate developmental gene expression programs during embryogenesis and organ morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0035264","count":7},{"id":"GO:0051216","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0061113","count":6}]},{"hash":"2270503342423885700","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019876","count":4},{"id":"GO:0007029","count":4},{"id":"GO:0070681","count":4},{"id":"GO:0032543","count":4},{"id":"GO:0009062","count":4}]},{"hash":"1165207814003198106","title":"Neuronal development and spine morphogenesis","description":"The terms cluster around neuronal differentiation, dendritic spine morphogenesis, and actin/cytoskeletal remodeling (lamellipodium and actin bundle assembly), with connections to Wnt signaling and neurotrophin signaling\u2014indicating roles in neurite outgrowth and synapse formation. Some immune-related terms are present but appear peripheral to the main neuronal theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048666","count":6},{"id":"GO:0034446","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051017","count":6},{"id":"GO:0030032","count":6}]},{"hash":"110657019278445916","title":"Small-molecule Metabolism","description":"The top GO terms indicate a focus on metabolic processes involving small molecules (glycine betaine from choline, methanol, methane, glycerol, cholesterol). This points to a broad metabolic role for the proteins rather than a single pathway. A couple of terms like spinal cord development and mitotic M phase are less representative and may reflect annotation noise. Overall, the cluster seems best described as small-molecule metabolism.","confidence":"Medium","size":18,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019285","count":6},{"id":"GO:0015945","count":6},{"id":"GO:0046188","count":6},{"id":"GO:0008203","count":6},{"id":"GO:0055114","count":6}]},{"hash":"431542444292235829","title":"Immune signaling and actin cytoskeleton remodeling","description":"The cluster centers on immune-related signaling (innate immunity, B cell receptor signaling) while also showing strong associations with actin cytoskeleton dynamics (podosome assembly, lamellipodium morphogenesis) and Rho signaling. Ubiquitination and proteolytic turnover appear, suggesting regulated signaling cascades, with additional links to TGF-beta and Wnt pathway regulation, which can modulate immune responses and cell adhesion. This combination points to a cohesive theme of immune signaling intertwined with cytoskeletal remodeling and protein turnover.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071560","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0016567","count":8},{"id":"GO:0050853","count":8},{"id":"GO:0042787","count":8}]},{"hash":"945073609220235376","title":"Unknown","description":"The top GO terms are a scattered mix of immune defense, transcriptional regulation, chromatin modification, development, and stress responses, with no clear shared function tying the proteins together. Additionally, there are no edges in the cluster, suggesting the proteins do not form a cohesive functional group. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0007568","count":8},{"id":"GO:0061087","count":7}]},{"hash":"944389381804589295","title":"Neural development and signaling","description":"Terms like dendrite morphogenesis, potassium ion transport, sensory perception of pain, and chemotaxis strongly indicate neuronal development and signaling roles. The presence of transcription and nuclear export regulation suggests coordinated gene expression during neuronal differentiation and maturation. Glucose stimulus and dsRNA responses add metabolic and stress-related context, but the core theme centers on neural structure and signaling.","confidence":"High","size":18,"edges":112,"triangles":340,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071333","count":10},{"id":"GO:0043330","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0046827","count":9},{"id":"GO:0019233","count":9}]},{"hash":"2252130309583860876","title":"Nucleotide Salvage and Catabolism","description":"The top GO terms are dominated by nucleotide salvage and catabolic processes (AMP salvage, uridine and deoxyguanosine/guanosine catabolism, urate biosynthesis, nicotinate nucleotide salvage, etc.), suggesting proteins linked to nucleotide metabolism and salvage pathways. A couple of terms (menaquinone biosynthesis, T cell differentiation) may reflect annotation noise or broader contextual roles, but the core theme points to nucleotide metabolism and salvage.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0006738","count":3},{"id":"GO:0046638","count":3},{"id":"GO:0046115","count":3},{"id":"GO:0019358","count":3}]},{"hash":"255488103051338974","title":"Actin-driven vesicle trafficking in neural development","description":"This cluster centers on actin-dependent membrane dynamics and vesicle trafficking, evidenced by terms like filopodium assembly, endosomal vesicle fusion, endosome-to-melanosome transport, and exosomal secretion, together with neural development processes such as axon guidance and radial glial differentiation. While some terms point to broader cellular processes (neutrophil clearance, spermatid development), the recurring theme is actin remodeling coupled to vesicle transport in developmental and neural contexts.","confidence":"Medium","size":18,"edges":75,"triangles":145,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0097350","count":3},{"id":"GO:0021861","count":3},{"id":"GO:0031532","count":3},{"id":"GO:1990182","count":3},{"id":"GO:0046847","count":3}]},{"hash":"195949214965057345","title":"ER Stress and Unfolded Protein Response","description":"The cluster centers on endoplasmic reticulum\u2013associated processes: protein folding in the ER, response to unfolded/misfolded proteins, and ER-stress\u2013driven regulation of translation, with concurrent heat response signals. Although a cuticle development term appears, the dominant pattern links proteostasis under stress (UPR, ER folding, misfolded protein transport) and related signaling, suggesting a cohesive function in managing protein quality during stress.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008363","count":9},{"id":"GO:0036494","count":7},{"id":"GO:0009408","count":7},{"id":"GO:0034975","count":7},{"id":"GO:0051259","count":7}]},{"hash":"1023978103589423650","title":"Post-transcriptional RNA processing and miRNA regulation","description":"This cluster is dominated by GO terms tied to RNA processing and post-transcriptional control, including mRNA splicing via the spliceosome, mRNA stability and catabolic processes in response to stress, and miRNA-related regulation and silencing, plus mitochondrial mRNA polyadenylation. These collectively point to a core theme of post-transcriptional gene regulation, with a few outliers (like IPP biosynthesis regulation) that are less central to the main function. ","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0000398","count":10},{"id":"GO:0006402","count":7},{"id":"GO:2000627","count":7},{"id":"GO:0048024","count":7}]},{"hash":"1525451566242662458","title":"Neural crest development and migration","description":"The GO terms cluster around neural crest\u2013related processes: central nervous system development, neural crest cell migration, and melanocyte migration, along with Rho signaling regulation that supports cell movement. While there are immune-related terms and lens differentiation terms present, the strongest, cohesive theme is neural crest\u2013driven development and migratory behavior, justifying a label focused on this function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":4},{"id":"GO:0045765","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0090197","count":3}]},{"hash":"655396543282734971","title":"Steroid and lipid biosynthesis","description":"This cluster's top GO terms are dominated by lipid metabolism and steroid biosynthesis (testosterone biosynthetic process, bile acid biosynthesis, cholesterol catabolic process, oxylipin biosynthesis, lipid hydroxylation). These indicate a cohesive theme around lipid-derived molecules and sterol metabolism. While there are related terms about endothelial adhesion and stress responses, the shared functions point to lipid/steroid biosynthesis and signaling as the core.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":18},{"id":"GO:0061370","count":18},{"id":"GO:0035902","count":18},{"id":"GO:0031408","count":18},{"id":"GO:0010193","count":18}]},{"hash":"1850920603575225875","title":"Neuroimmune signaling and T cell activation","description":"The top GO terms span neural development and signaling (dendritic spine morphogenesis; neurotrophin TRK receptor signaling) together with immune activation pathways (IL-4 production; NK T cell differentiation; T cell receptor signaling; activated T cell proliferation) and RTK-like signaling (peptidyl-tyrosine autophosphorylation). This suggests a cluster of proteins involved in broadly coordinated signaling affecting both neuronal morphology and lymphocyte activation, justifying a neuroimmune signaling label with emphasis on T cell activation.","confidence":"Medium","size":18,"edges":25,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":4},{"id":"GO:0060997","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0001865","count":3}]},{"hash":"515249482451000281","title":"Cardiac ion transport and action potential regulation","description":"The top GO terms emphasize potassium/sodium ion transport and atrial membrane repolarization, pointing to cardiac electrophysiology and membrane potential control; additional terms for transcription and development may reflect broader protein roles, but the ion transport/heart-related signals are strongest.","confidence":"Medium","size":18,"edges":11,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0046827","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0071805","count":10}]},{"hash":"1618627515378059695","title":"Neural signaling and sensory perception","description":"Most of the top GO terms center on neural communication and processing: sensory perception (pain, vision), dopaminergic synaptic transmission, learning-related signaling, and ERK cascade pathways that regulate neuronal activity. A few terms like macrophage chemotaxis or heart development are less directly linked, but the dominant theme is neuronal signaling and sensory processing, including responses to drugs such as cocaine.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0006468","count":5},{"id":"GO:0010759","count":5},{"id":"GO:0008542","count":5},{"id":"GO:0070374","count":5}]},{"hash":"1867105371462888939","title":"Bacterial envelope polysaccharide biosynthesis","description":"Most terms point to biosynthesis of cell-surface components common in bacteria, including lipopolysaccharide (LPS) and O-antigen, colanic acid, and dTDP-rhamnose pathways, plus ADP-L-glycero-heptose and related lipid metabolism. The cluster appears to group proteins involved in assembling envelope polysaccharides and associated lipids, rather than forming obvious interaction networks, hence the focus on a common biosynthetic theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0019878","count":9},{"id":"GO:1902987","count":9},{"id":"GO:0097171","count":8},{"id":"GO:0009103","count":8}]},{"hash":"1545173165231917236","title":"Transmembrane nutrient and ion transporters","description":"GO terms here point to transmembrane transport of nitrate, nitrite, sugars, ions, and xenobiotics, indicating a set of membrane transporter proteins rather than metabolic enzymes. The common function is transporter activity across diverse substrates, supporting this cluster label as representing nutrient and ion transporters.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1278366589956989923","title":"Developmental morphogenesis across nervous, vascular, and epithelial tissues","description":"The cluster's top GO terms point to development and morphogenesis in multiple tissues\u2014nervous system differentiation (substantia nigra development, PNS myelination), vascular branching, epithelial changes (EMT, lung epithelial differentiation), and related signaling. This broad theme of tissue development across diverse lineages best fits the set rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":4},{"id":"GO:0001569","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0051533","count":4},{"id":"GO:1903799","count":4}]},{"hash":"349238240026117631","title":"Calcium signaling and ion transport in excitable cells","description":"Top GO terms indicate ion transport (Na+, K+), calcium release from the sarcoplasmic reticulum, and signaling pathways (cAMP/cGMP) tied to excitation-contraction and cardiac action potential, suggesting a coherent theme of ion handling and calcium-dependent signaling in excitable tissues. While some terms are broad or seemingly peripheral (development, pain), the dominant pattern centers on calcium-mediated signaling and ion transport in muscle/nerve cells.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0019233","count":6},{"id":"GO:0009454","count":6},{"id":"GO:0010754","count":6},{"id":"GO:0071320","count":6}]},{"hash":"2002794024129981448","title":"Mitochondrial Protein Import and Transport","description":"The terms cluster around import and insertion of proteins into mitochondria, along with transport of metabolites (ADP, CoA, iron) across mitochondrial compartments, plus metabolic processes like the malate-aspartate shuttle and energy-related responses such as adaptive thermogenesis and insulin signaling, indicating a cohesive mitochondrial import/transport and energy metabolism module.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":3},{"id":"GO:0070542","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0045039","count":2},{"id":"GO:0035349","count":2}]},{"hash":"4911719582654922","title":"Developmental gene regulation and signaling","description":"The top terms cluster around gene expression control (mRNA splicing, RNA methylation, histone acetylation) and transcriptional regulation (Notch target transcription), plus cell cycle and DNA repair, and developmental processes (multicellular growth, ECM disassembly). This mix suggests regulatory circuits governing development and tissue remodeling more than a single enzymatic pathway, despite some outliers like defense response. Therefore, Developmental gene regulation and signaling seems a concise, representative label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007221","count":2}]},{"hash":"1142642047439032592","title":"Angiogenesis and Immune Development","description":"This cluster centers on processes of organismal development with a strong emphasis on blood vessel formation (angiogenesis and its positive regulation) and broader developmental programs (multicellular development, forebrain development). It also includes adaptive immune response terms, indicating roles in immune signaling. A few terms point to host-microbial interactions (symbiont entry into host cell) and signaling (phosphorylation), suggesting a shared signaling axis linking development with immune and host-interaction pathways. Overall, a cohesive theme around developmental and immune processes, with angiogenesis as a key component.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0045766","count":3}]},{"hash":"1619378854690535765","title":"Neuroimmune modulation of synaptic plasticity","description":"Top GO terms mix innate immune response and signaling (e.g., response to morphine, LPS-mediated signaling) with neural functions (glutamatergic synaptic transmission, LTP/LTD) and social behavior. This suggests a cluster of proteins involved in neuroimmune crosstalk that modulates synaptic plasticity and behavior, rather than a single classic pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0031666","count":3},{"id":"GO:0030242","count":3},{"id":"GO:0001878","count":3}]},{"hash":"477575800683274668","title":"Neuronal Synapse Development and Plasticity","description":"The top terms cluster around neuronal communication and synapse dynamics (nerve impulse transmission, synapse organization, neuromuscular junction development, dendritic spine morphogenesis, long-term synaptic depression), pointing to a core theme of neuronal connectivity and plasticity. A few terms on immune signaling or non-neural processes are present but appear peripheral to the dominant neural theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019226","count":3},{"id":"GO:0035234","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0090197","count":3},{"id":"GO:0070830","count":2}]},{"hash":"2068102565369811007","title":"Drug-Responsive Neural and Muscle Development","description":"This cluster shows strong representation of GO terms for responses to cocaine and morphine and a cellular response to xenobiotic stimulus, indicating a theme of drug responsiveness. It also features neural development (substantia nigra development) and skeletal muscle fiber development with transitions between fast and slow fibers, suggesting involvement in developmental programs in both neural and muscular tissues that may be modulated by xenobiotics or drugs. The presence of other terms like regulation of glycogen catabolic process and DNA damage/immune related terms is present but secondary to the drug-response and tissue-development signals.","confidence":"Medium","size":17,"edges":107,"triangles":347,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042220","count":6},{"id":"GO:0035690","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0048741","count":6},{"id":"GO:0005981","count":5}]},{"hash":"1701758465183637052","title":"Unknown","description":"The most represented terms span very different biology: transcription regulation, several catabolic and xenobiotic/metabolic processes, and development in both plants and animals. With edges zero and no coherent shared pathway, there isn't a clear functional theme tying these proteins. Therefore the cluster cannot be named with a concrete, representative function.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0019391","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0051216","count":3}]},{"hash":"726197238887842295","title":"Cilium-associated lipid biosynthesis and vesicle trafficking","description":"The cluster is enriched for cilium assembly and various lipid biosynthetic processes (long-chain and unsaturated fatty acids, sphingolipids) as well as vesicle transport steps (post-Golgi, late endosome to vacuole via MVB). These features suggest a core theme of membrane formation and trafficking linked to ciliary membranes, with some peripheral terms like pheromone metabolism and courtship behavior likely reflecting species-specific or broader functional annotations.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":2},{"id":"GO:0042759","count":1},{"id":"GO:0032511","count":1},{"id":"GO:0030148","count":1},{"id":"GO:0042810","count":1}]},{"hash":"1125807558987267430","title":"Endocrine Pancreas Development","description":"The top terms strongly point to pancreatic endocrine tissue formation (pancreas morphogenesis, type B pancreatic cell development, endocrine system development) and broader embryonic development (left/right pattern formation, placental-related processes). The presence of transcriptional regulation terms (negative and positive regulation of transcription by RNA polymerase II) suggests the cluster comprises transcriptional regulators orchestrating these developmental programs. Overall, this cluster most coherently maps to endocrine pancreatic development with related developmental regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0061113","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0045944","count":4}]},{"hash":"492844406573330495","title":"Neural development and synaptic organization","description":"This cluster combines GO terms related to neural signaling and connectivity\u2014smoothened (Hedgehog) signaling, paranode axon localization, synapse organization, nerve impulse transmission, dendrite self-avoidance, cell adhesion, and potassium channel clustering, plus retina morphogenesis. Together they indicate a cohesive theme of neural development, axon/dendrite patterning, and synaptic assembly that supports neural signaling. The muscle myosin term is less central and does not detract from the core neural theme. ","confidence":"High","size":17,"edges":124,"triangles":522,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007224","count":9},{"id":"GO:0002175","count":9},{"id":"GO:0050808","count":9},{"id":"GO:0042517","count":9},{"id":"GO:0019226","count":9}]},{"hash":"486676780354259468","title":"Inflammation and Coagulation","description":"The top GO terms point to innate immune activation (response to lipopolysaccharide, neutrophil-mediated killing), hemostasis (blood coagulation, Factor XII activation), and related processes like angiogenesis, all characteristic of an inflammatory/hemostatic response. A couple of biosynthesis terms (biotin/antibiotic biosynthetic) seem less connected and may reflect annotation noise or mixed origins. Overall, the cluster seems centered on inflammatory and coagulation-related functions rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0070946","count":4}]},{"hash":"2280041180886459537","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for ribosome biogenesis, transcription by RNA polymerase II, and translation, pointing to a core group of proteins involved in gene expression and protein synthesis. The developmental terms are more secondary in frequency, suggesting the central theme is the assembly and function of the protein-synthesis machinery with some context-specific developmental roles. ","confidence":"High","size":17,"edges":132,"triangles":623,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0006366","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1372129282146787709","title":"RNA processing and translation regulation","description":"The top GO terms cluster around RNA metabolism and control of translation\u2014splicing, polyadenylation, mRNA stabilization, and formation of translation initiation complexes, plus translation reinitiation and miRNA-mediated silencing. This points to a core theme of post-transcriptional gene expression regulation, with additional terms touching on growth and antiviral responses as potential secondary roles. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3}]},{"hash":"974464373579314808","title":"Developmental signaling and differentiation","description":"This cluster shows enrichment for signaling pathways (RTK/serine-threonine kinase signaling, tyrosine phosphorylation) and regulation of apoptosis, together with differentiation programs in multiple lineages (myoblast/skeletal muscle, neural/telencephalon, and hematopoietic development). The shared theme is developmental signaling networks guiding cell fate decisions across tissues, rather than a single specialized function.","confidence":"Medium","size":17,"edges":38,"triangles":13,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045819","count":17},{"id":"GO:0046826","count":17},{"id":"GO:0014835","count":17},{"id":"GO:0043065","count":17},{"id":"GO:0007178","count":17}]},{"hash":"953102710163866611","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":65,"triangles":117,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":11},{"id":"GO:0001731","count":2},{"id":"GO:0090197","count":1},{"id":"GO:0002532","count":1},{"id":"GO:0006032","count":1}]},{"hash":"356923322483440857","title":"Rho/Rac GTPase signaling and actin remodeling","description":"These terms point to small GTPase pathways (Rho, Rac, Ras) regulating cytoskeletal dynamics, including lamellipodium and filopodium assembly, as well as signaling modulation (JNK/Ras). Immune-related terms (GM-CSF response, B cell maturation) likely reflect actin-driven signaling in immune cells, but the core cluster centers on GTPase-mediated cytoskeletal remodeling.","confidence":"Medium","size":17,"edges":15,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046329","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0035020","count":3}]},{"hash":"467446875968972225","title":"Synaptic organization and behavioral regulation","description":"The cluster is dominated by GO terms for synapse organization, receptor clustering, and regulation of Rho signaling, all pointing to synaptic architecture and signaling. Coupled with behavioral terms such as regulation of grooming behavior and vocalization, plus sensory perception of sound and light, the proteins likely participate in neural circuits that process sensory input and drive specific behaviors. Some terms (e.g., renal phosphate ion absorption) appear tangential and may reflect broader annotations rather than core functions of these proteins. Confidence: High","confidence":"","size":17,"edges":48,"triangles":57,"max_degree":15,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:2000821","count":11},{"id":"GO:0043113","count":11},{"id":"GO:0035023","count":10},{"id":"GO:0071625","count":10},{"id":"GO:0050808","count":10}]},{"hash":"323190854444105273","title":"Vascular remodeling and angiogenesis","description":"The dominant GO terms describe blood vessel formation and remodeling: positive regulation of angiogenesis, vascular-associated smooth muscle cell migration, and epithelium morphogenesis. Additional terms on ERK signaling, nitric oxide precursor transport (L-arginine import), and blood coagulation support a vascular-development theme where endothelial cells and smooth muscle cells coordinate migration, proliferation, and stabilization during vessel formation. Therefore, a concise label is \"Vascular remodeling and angiogenesis\".","confidence":"High","size":17,"edges":27,"triangles":0,"max_degree":12,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0014912","count":11},{"id":"GO:0032757","count":11},{"id":"GO:1904754","count":11},{"id":"GO:0002009","count":11},{"id":"GO:1905589","count":11}]},{"hash":"1055661212221100164","title":"Translation and ribosome biogenesis","description":"This cluster centers on protein synthesis and ribosome-related processes, with strong enrichment for translation (GO:0006412), ribosome biogenesis (GO:0042254), translational termination (GO:0006415), and elongation/fidelity terms, along with ribosome disassembly. A few decay and antiviral/antibiotic-associated terms are present, but the dominant theme is the translation machinery and ribosome maintenance.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0046677","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0045903","count":3},{"id":"GO:0042254","count":3}]},{"hash":"1206321726202882071","title":"Golgi vesicle trafficking and SNARE assembly in synapses","description":"The top GO terms point to vesicle transport between ER and Golgi and within the Golgi, Golgi ribbon formation, SNARE complex assembly, and exocytic insertion of neurotransmitter receptors at the postsynaptic membrane, along with processes like long-term synaptic potentiation and regulation of synaptic vesicle recycling. Together, these indicate a cluster of proteins involved in Golgi-mediated vesicle trafficking and SNARE-driven exocytosis at synapses, rather than a single isolated function. ","confidence":"High","size":17,"edges":20,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":12},{"id":"GO:0006891","count":11},{"id":"GO:0090161","count":11},{"id":"GO:0006888","count":11},{"id":"GO:0098967","count":9}]},{"hash":"396813786842497872","title":"mRNA export and translation initiation","description":"This cluster centers on RNA export and initiation of translation: mRNA export (GO:0006406), eIF4F complex assembly (GO:0097010), preinitiation complex formation (GO:0001731), and translation reinitiation (GO:0002188). Additional terms on mRNA splicing regulation and responses to antibiotics/xenobiotics may reflect regulatory stress responses, but the dominant theme ties together RNA processing and the initiation of protein synthesis.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"1979412008098959401","title":"Cerebellar neural development and signaling","description":"The top GO terms strongly point to cerebellar development (cerebellar cortex formation; Bergmann glial cell differentiation) and neural signaling (axon regeneration regulation; visual perception; insulin receptor signaling), suggesting proteins involved in brain development and neural communication. Some terms (e.g., T cell receptor signaling, ABA signaling) appear broader or cross-species annotations, but the dominant theme is cerebellar neural development and signaling.","confidence":"Medium","size":17,"edges":23,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008286","count":10},{"id":"GO:0048679","count":10},{"id":"GO:2001275","count":10},{"id":"GO:0021697","count":10},{"id":"GO:0060020","count":10}]},{"hash":"1964188789096413375","title":"Sphingolipid and fatty acid biosynthesis","description":"The top GO terms are dominated by lipid metabolism, especially sphingolipid pathways (sphinganine and sphingosine biosynthesis) and monounsaturated fatty acid biosynthesis, with related fatty acid response. This points to a cluster focused on lipid biosynthesis and signaling, despite a couple of peripheral or obsolete terms and a few non-lipid contexts like tarsal gland development and adipocyte differentiation.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0044130","count":12},{"id":"GO:0070542","count":12},{"id":"GO:1903966","count":12},{"id":"GO:0006667","count":12},{"id":"GO:0010873","count":12}]},{"hash":"2119343540414448596","title":"Mitochondrial respiration and GPCR-cAMP signaling","description":"This cluster shows strong representation of the electron transport chain (mitochondrial energy production) and GPCR-mediated signaling leading to adenylate cyclase activation, indicating a shared theme of energy metabolism linked to cAMP signaling. Additional terms touch on related regulatory and signaling processes across different tissues, supporting a cohesive theme of metabolism interfacing with signal transduction. Overall, the dominant axes appear to be mitochondrial respiration and GPCR-cAMP signaling.","confidence":"High","size":17,"edges":9,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":17},{"id":"GO:0010579","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0045494","count":16}]},{"hash":"1004743772022538675","title":"ER-Golgi vesicle trafficking (COPII)","description":"The two strongest terms\u2014ER-to-Golgi vesicle transport and COPII vesicle coating\u2014point to components of the secretory pathway and vesicle trafficking between the ER and Golgi, suggesting a cohesive vesicle-coating/trafficking function for the cluster. Other terms appear as outliers (metabolic, pigmentation, cuticle development) and do not define the main theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019509","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0019284","count":2}]},{"hash":"971509529544845392","title":"Ubiquitin-dependent turnover and immune differentiation","description":"Based on the GO terms, the cluster is strongly enriched for ubiquitin-related processes (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination) and for regulation of immune cell differentiation (pro-T cells, dendritic cells, mast cells, IgE isotype regulation). This suggests a coherent theme around ubiquitin-mediated protein turnover influencing immune development, despite some unrelated developmental terms that may reflect broader annotations. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0045497","count":6},{"id":"GO:2000176","count":6},{"id":"GO:0072156","count":6},{"id":"GO:0048294","count":6}]},{"hash":"1279087255927349129","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0032933","count":7},{"id":"GO:0048705","count":7}]},{"hash":"574205472641004765","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around neuronal development and regulation of signaling pathways (GABAergic synaptic transmission, Rho and Ras signaling, PI dephosphorylation), with notes on CNS morphogenesis (eye morphogenesis, cerebellar granule cell proliferation) and locomotor behavior, suggesting a cohesive theme of neural development and synaptic regulation rather than general metabolism.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060304","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0016525","count":2}]},{"hash":"1516605760909620972","title":"Photoreceptor and podocyte differentiation","description":"The GO terms show differentiation and maintenance of eye photoreceptors (including camera-type photoreceptors) and kidney cell types (podocytes, nephron tubule epithelium), with an overarching theme of embryonic development; this suggests a cluster focused on organ-specific cell-type differentiation 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:0055114","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0006146","count":2},{"id":"GO:0045494","count":2},{"id":"GO:2001287","count":2}]},{"hash":"495121711244454072","title":"Cardiac signaling and heart function","description":"The top GO terms cluster around heart-related processes, including cardiac muscle contraction, heart development, and regulation of heart contraction, plus signaling pathways such as GPCR, EGF, and tachykinin signaling that influence cardiac physiology. Although there are a couple of non-cardiac terms (e.g., B cell homeostasis), the dominant theme is cardiac signaling and heart function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:0002029","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0007217","count":2},{"id":"GO:0001782","count":2}]},{"hash":"2131536255663592119","title":"Heart and muscle development","description":"Based on the prominent GO terms, the cluster is enriched for differentiation and morphogenesis of heart and skeletal muscle, including cardiac right ventricle formation, pulmonic valve morphogenesis, cardioblast migration, and skeletal muscle cell differentiation. While a few terms touch on other lineages, the strongest signal is cardiomyogenesis and myogenesis, suggesting proteins involved in heart and muscle development pathways.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060766","count":16},{"id":"GO:0045668","count":16},{"id":"GO:0032933","count":15},{"id":"GO:0031018","count":15},{"id":"GO:0003219","count":15}]},{"hash":"403929776991299970","title":"Circadian Transcription Regulation","description":"The top GO terms cluster around DNA-templated transcription and circadian control (circadian rhythm regulation and circadian regulation of gene expression), indicating the proteins are mainly involved in transcriptional activity tied to circadian timing. A few tissue-development terms appear but do not override the central theme of circadian transcriptional regulation, suggesting the cluster represents circadian gene expression control rather than a single tissue program.","confidence":"High","size":16,"edges":72,"triangles":162,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0042753","count":10},{"id":"GO:0032922","count":10},{"id":"GO:0043433","count":9},{"id":"GO:0060534","count":8}]},{"hash":"227096914893410438","title":"Splicing and translation regulation network","description":"The top GO terms cluster around spliceosome-mediated mRNA splicing (including regulation of splicing, both positive and negative), regulatory ncRNA\u2013mediated gene silencing, and components of translation initiation and reinitiation (IRES-dependent initiation, eIF4F complex assembly). This suggests a cohesive set of proteins involved in post-transcriptional gene regulation, linking RNA processing with translational control.","confidence":"High","size":16,"edges":113,"triangles":471,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0010610","count":9},{"id":"GO:0048025","count":8},{"id":"GO:0000398","count":7}]},{"hash":"713850412320234323","title":"Innate immune response and coagulation","description":"This cluster shows strong enrichment for innate immunity and hemostasis: complement activation, leukocyte migration, response to lipopolysaccharide, neutrophil-mediated killing, plasminogen activation, and positive regulation of blood coagulation. These terms together point to inflammatory and coagulation-related functions as the central theme. A few terms (transcription regulation, biomineral development) are less directly connected, but do not override the dominant immune/coagulation signal.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0031214","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0006958","count":3}]},{"hash":"1839840013220939981","title":"Lipid Metabolism and Membrane Remodeling","description":"Top GO terms show a lipid metabolism emphasis (epoxygenase P450 pathway, cholesterol biosynthetic process, phospholipid dephosphorylation), suggesting a shared role in lipid biosynthesis and membrane lipid remodeling. Several non-lipid terms appear (peptidyl-tyrosine sulfation, cellular response to amino acid starvation, DNA replication), indicating broader cellular roles among these proteins. Overall, the strongest signal is lipid metabolism, justifying the label.","confidence":"Medium","size":16,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019373","count":3},{"id":"GO:0006478","count":3},{"id":"GO:0034198","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0070389","count":2}]},{"hash":"2128463949724717131","title":"Embryonic development and organ morphogenesis","description":"The terms span multiple organ systems (eye, nervous system, pituitary, pancreas, lung, muscle) and include both morphogenetic processes and transcriptional regulation during embryogenesis, suggesting a general developmental / organogenesis role rather than a single tissue-specific function.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0043010","count":8},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8}]},{"hash":"1389810459813382560","title":"Unknown","description":"The Top Terms span diverse nuclear processes (transcription-coupled nucleotide-excision repair, negative regulation of transcription, mRNA splicing) and development terms (roof of mouth, cranial skeletogenesis, pharyngeal system) as well as cholesterol metabolism terms, with no single cohesive function or pathway tying them together. This heterogeneity makes a specific, representative label unlikely.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0009432","count":2}]},{"hash":"655464428757357982","title":"Inflammation and ECM remodeling","description":"Based on the GO terms, the cluster shows strong inflammatory immune signals (response to lipopolysaccharide, complement activation, leukocyte migration, neutrophil-mediated killing) and tissue remodeling processes (plasminogen activation, elastin catabolic process). Some terms related to development appear but are less representative of the core theme. Overall, the dominant pattern ties immune response to extracellular matrix remodeling, warranting this label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":10},{"id":"GO:0030901","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0006958","count":9},{"id":"GO:0070946","count":9}]},{"hash":"2071823920461707984","title":"Inflammation and ECM remodeling","description":"The top GO terms include classic inflammatory and immune processes (complement activation, neutrophil killing, response to LPS, leukocyte migration) alongside tissue remodeling and development terms (angiogenesis, elastin catabolic process, biomineral tissue development). This pattern suggests a cluster centered on inflammatory responses coupled with extracellular matrix restructuring and tissue development. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":3},{"id":"GO:0006958","count":2},{"id":"GO:0070946","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0031639","count":2}]},{"hash":"1996472448605341819","title":"Retroviral DNA Integration and Latency","description":"Dominant GO terms point to activities in the retroviral life cycle: DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), DNA replication, and establishment of proviral latency, along with viral entry into the host nucleus. Additional terms referencing host-symbiont interactions and regulation of RNA silencing and signaling pathways bolster a theme of viral-host interaction and immune evasion. Overall, these functions coherently suggest a cluster centered on retroviral DNA integration and latency mechanisms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0006278","count":3},{"id":"GO:0075713","count":3},{"id":"GO:1903704","count":3}]},{"hash":"2072606510961803345","title":"Unknown","description":"The set of GO terms is highly heterogeneous, spanning viral entry/ replication terms (uncoating of virus, fusion of virus membrane with host plasma membrane, RNA-templated DNA biosynthetic process), general protein folding and isomerization (protein folding, peptidyl-prolyl isomerization), lipid droplet organization, UV-A response, and even plant organ development (sepal formation). Because there isn't a clear, single functional theme binding the proteins, a concise, representative label can't be confidently assigned.","confidence":"","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006457","count":2},{"id":"GO:0071492","count":1},{"id":"GO:0048453","count":1},{"id":"GO:2000276","count":1}]},{"hash":"1083490705027474124","title":"Mitotic Chromosome Dynamics and Cohesion","description":"The top GO terms strongly point to chromosome maintenance during cell division (CENP-A chromatin assembly, sister chromatid cohesion, and microtubule severing, plus general cell division), indicating a core theme of mitotic chromosome dynamics. Other terms like ribosome biogenesis and ER-Golgi transport are present but secondary to the primary mitotic/chromosome maintenance signal.","confidence":"Medium","size":16,"edges":92,"triangles":271,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000724","count":5},{"id":"GO:0042273","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0051301","count":4}]},{"hash":"80843456585867070","title":"Mitochondrial translation and Complex IV assembly","description":"The cluster is strongly centered on mitochondrial protein synthesis (mitochondrial translation), import into the mitochondrial matrix, and assembly of the respiratory chain (Complex IV), with supporting signals from ribosome assembly and transcription-related terms that may reflect mitochondrial gene expression processes. This combination points to a cohesive mitochondrial gene-expression and respiration-focused module.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0008535","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0060702","count":1}]},{"hash":"1099847476356682665","title":"RNA splicing and mRNA decay machinery","description":"The top GO terms point to core RNA processing activities: spliceosome-mediated mRNA splicing, spliceosomal snRNP assembly, tRNA processing, and deadenylation-dependent decapping, plus P-body assembly and nuclear import. This suggests a cohesive module focused on RNA maturation, surveillance, and turnover across nuclear and cytoplasmic contexts.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":11},{"id":"GO:0008033","count":8},{"id":"GO:0070317","count":7},{"id":"GO:0051170","count":7},{"id":"GO:0008334","count":7}]},{"hash":"940319680592927897","title":"Lipid and Steroid Metabolism","description":"These proteins show enrichment for lipid- and steroid-related biosynthetic and catabolic processes, including oxylipin biosynthesis, bile acid biosynthesis, cholesterol catabolic process, and testosterone biosynthesis, suggesting a theme around lipid signaling and steroid hormone metabolism. Other terms like uterus development or endothelial adhesion are broader contexts and less cohesive with the core lipid/metabolic theme, so the primary signal is lipid/steroid metabolism. ","confidence":"Medium","size":16,"edges":19,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0071603","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0031408","count":2}]},{"hash":"1512063016117840917","title":"Immune-vascular signaling cluster","description":"This cluster combines immune-related signaling (B cell receptor signaling, interleukin-4 production) with vascular development and blood-related processes (angiogenesis, endothelial cell migration, hemopoiesis, collagen-receptor signaling, calcium signaling, neurotrophin signaling). The convergence of immune regulation and angiogenic signaling suggests a unit tied to immune-vascular communication and hematopoietic regulation.","confidence":"Medium","size":16,"edges":12,"triangles":0,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0032436","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0030097","count":6}]},{"hash":"1333988256524356197","title":"Nuclear ribosome biogenesis and transport","description":"Proteins in this cluster are enriched for nuclear processes and ribosome biology: ribosome biogenesis, export of the large ribosomal subunit, import of ribosomal proteins into the nucleus, nuclear pore complex assembly, and mRNA export from the nucleus. The presence of NLS-bearing protein import and translocation terms reinforces a nucleocytoplasmic transport theme, while ribosomal protein and processing terms point to ribosome assembly. The combination suggests a functional module centered on assembling ribosomes in the nucleus and coordinating their export to the cytoplasm.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0051292","count":3}]},{"hash":"1676719842857779594","title":"Cardiac development and sarcomere organization","description":"The top GO terms are dominated by heart-related processes: heart development, cardiac muscle cell development, and sarcomere organization, with a couple of neural development terms that are less representative. The strongest cohesive theme across the cluster is cardiac muscle development and the organization of sarcomeric structure, which justifies naming it around cardiac development. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015032","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0061049","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0070478","count":1}]},{"hash":"1212084295430470574","title":"Insect larval metamorphosis and cuticle development","description":"The cluster centers on metamorphosis and larval chitin-based cuticle development, with lipid transport supporting energy needs during metamorphosis and a behavioral response to starvation reflecting metabolic adjustments in developing larvae.","confidence":"High","size":16,"edges":56,"triangles":83,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042595","count":2},{"id":"GO:0006869","count":1},{"id":"GO:0007552","count":1},{"id":"GO:0008363","count":1}]},{"hash":"713182207129086207","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0051666","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0016239","count":1}]},{"hash":"645428935191844248","title":"Mitochondrial Energy Metabolism and Transport","description":"The cluster centers on mitochondrial functions: ADP and CoA transport, the malate-aspartate shuttle, iron import into mitochondria, and regulation of mitochondrial membrane permeability with apoptotic changes. Supporting GO terms for insulin stimulus, adaptive thermogenesis, and amino acid starvation further point to mitochondrial energy production and stress signaling. Together, these terms define a coherent mitochondria-focused metabolism and apoptosis module.","confidence":"High","size":16,"edges":79,"triangles":172,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035349","count":13},{"id":"GO:0043490","count":13},{"id":"GO:0032869","count":13},{"id":"GO:0015866","count":13},{"id":"GO:1990845","count":13}]},{"hash":"2275944921362121638","title":"Unknown","description":"The term set spans mitochondrial electron transport, GPCR-cAMP signaling, and a variety of unrelated processes (blood pressure regulation, photoreceptor maintenance, immune development, uterine contraction, LPS response, heat generation), suggesting no single cohesive function tying the proteins together.","confidence":"","size":16,"edges":43,"triangles":34,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0007190","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0045494","count":14}]},{"hash":"1963823197503746817","title":"Bacterial Metabolism and Transcription Regulation","description":"The top GO terms are dominated by bacterial-associated processes: regulation of Rho-dependent transcription, various amino acid biosynthesis and salvage pathways, and enterobacterial common antigen biosynthesis, suggesting a module of metabolic and transcription-regulatory proteins in bacteria. A few immune signaling terms appear, but they are sparse and likely noise. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0009088","count":2}]},{"hash":"2159125230406348699","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902416","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0001308","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0000447","count":1}]},{"hash":"1217146050721255151","title":"Neural development and synapse organization","description":"The set is dominated by neural-focused GO terms: retina development, neuroblast differentiation, neurexin clustering at the presynaptic membrane, cytoskeletal organization at the active zone, and regulation of excitatory postsynaptic potentials, all pointing to neuron formation and synapse assembly/modulation. Supporting terms like choline metabolic process align with neurotransmission. A couple terms (osteoblast development, iodide transport) are less directly related, but the overall pattern centers on neural development and synaptic architecture.","confidence":"High","size":15,"edges":97,"triangles":365,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":9},{"id":"GO:0002087","count":9},{"id":"GO:0002076","count":9},{"id":"GO:0019695","count":6},{"id":"GO:0090394","count":6}]},{"hash":"1653874996695465920","title":"Vertebrate embryogenesis and organogenesis","description":"The top GO terms cluster around broad developmental processes across multiple tissues, including neural crest migration, pancreas, retina, cartilage, skeletal muscle development, forebrain proliferation, and primitive streak formation, plus broader transcription regulation. This combination points to a set of proteins involved in vertebrate embryonic development and organogenesis, rather than a single tissue-specific pathway.","confidence":"High","size":15,"edges":19,"triangles":3,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0001755","count":5},{"id":"GO:0031018","count":4},{"id":"GO:0051216","count":4},{"id":"GO:0002087","count":4}]},{"hash":"1400141184605818375","title":"Craniofacial biomineral development with innate immunity","description":"The top GO terms point to developmental processes affecting craniofacial and biomineral tissues (midbrain, palate roof, biomineral tissue, digestive system development) alongside innate immune activities (complement activation, LPS response, leukocyte migration, neutrophil killing, plasminogen activation). This suggests a functional module where craniofacial/dental tissue formation and remodeling intersect with innate immune signaling, justifying a combined label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0060021","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0070946","count":4}]},{"hash":"246485380981266231","title":"Unknown","description":"The top GO terms are scattered across neuromuscular development, organ morphogenesis, and various metabolic/processing activities, with no clear, cohesive functional theme linking the proteins. The lack of edges or a unifying process makes a reliable single-label name inappropriate. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043181","count":4},{"id":"GO:0000023","count":4},{"id":"GO:0070880","count":4},{"id":"GO:0050884","count":4},{"id":"GO:0006491","count":4}]},{"hash":"1978147362272921180","title":"Mitochondrial and peroxisomal maintenance under stress","description":"This cluster centers on processes involved in building and maintaining mitochondria and peroxisomes (protein import into peroxisome matrix, mitochondrial inner membrane insertion, Complex III assembly), as well as organelle quality control and stress responses (late endosomal microautophagy, heat acclimation). Although there are also broad terms related to transcription and cell division, the strongest cohesive theme is organelle biogenesis and maintenance under stress.","confidence":"Medium","size":15,"edges":87,"triangles":255,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0001319","count":5},{"id":"GO:0016558","count":5},{"id":"GO:0061738","count":5}]},{"hash":"1440305328852063492","title":"Unknown","description":"The GO terms span insect development (larval cuticle, wing disc development, pigment granule dispersal), neural signaling (glutamate reuptake, synaptic plasticity), immune and metabolic processes (TNF response, insulin secretion), and cardiac electrophysiology (atrial muscle repolarization). There is no single coherent function tying these terms together, suggesting the cluster is heterogeneous rather than functionally cohesive.","confidence":"","size":15,"edges":31,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":4},{"id":"GO:0046676","count":1},{"id":"GO:0014861","count":1},{"id":"GO:0051935","count":1},{"id":"GO:0051876","count":1}]},{"hash":"782841716660937998","title":"Immune Cell Differentiation and Germinal Center Formation","description":"Top GO terms predominantly describe immune system development and regulation (pro-T cell differentiation, dendritic cell differentiation, germinal center formation, and regulation of IgE isotype switching and cytokine production). Ubiquitin-dependent protein catabolic processes also appear, suggesting regulation of signaling pathways. A few terms (gravitropism, distal tubule morphogenesis) seem outliers, likely annotation noise, but the immune-related terms dominate. Therefore the label Immune Cell Differentiation and Germinal Center Formation captures the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045497","count":11},{"id":"GO:2000176","count":11},{"id":"GO:0072156","count":11},{"id":"GO:0048294","count":11},{"id":"GO:0032764","count":11}]},{"hash":"728988227096144459","title":"Amino acid and fatty acid catabolism","description":"Several top GO terms indicate specific catabolic pathways: L-valine catabolic process, L-leucine catabolic process, medium-chain fatty acid catabolic process, and fatty-acyl-CoA biosynthetic process. Together these point to a metabolic cluster centered on degradation and lipid-related metabolism. Although there are outliers such as liver development and starvation response (and some obsolete terms), the recurring theme is breakdown of amino acids and fatty acids, supporting a label focused on catabolic metabolism.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0001889","count":3},{"id":"GO:1904070","count":2},{"id":"GO:0019439","count":2},{"id":"GO:0042594","count":2}]},{"hash":"1823746569244904645","title":"Immune Differentiation and Ubiquitination Regulation","description":"Top GO terms center on immune system development and regulation (pro-T cell differentiation, dendritic cell differentiation, germinal center formation, isotype switching and mast cell cytokine production), with additional emphasis on ubiquitin-mediated protein turnover (ubiquitin-dependent catabolic process and K33-linked ubiquitination). While a couple of terms like distal tubule morphogenesis and gravitropism appear unrelated, the dominant signal is immune differentiation together with ubiquitin-regulated signaling, supporting this as the cluster theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045497","count":12},{"id":"GO:2000176","count":12},{"id":"GO:0072156","count":12},{"id":"GO:0048294","count":12},{"id":"GO:0032764","count":12}]},{"hash":"318604651996991843","title":"Diverse biosynthetic pathways","description":"The top GO terms are dominated by biosynthetic processes spanning SAM, sugar nucleotides (UDP-arabinose, galactose, galacturonate), lipids (long-chain fatty-acyl-CoA), and lipopolysaccharide biosynthesis, with a few outliers (sporopollenin biosynthesis, a B cell chemotaxis term). This suggests a broad theme of biosynthetic/metabolic functions rather than a single pathway, though the sparse connectivity (Edges: 2, max degree 1) indicates weak, non-specific cohesion beyond \u201cbiosynthesis.\u201d ","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006556","count":1},{"id":"GO:0097171","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0080110","count":1},{"id":"GO:0033358","count":1}]},{"hash":"2184589185789754892","title":"Ribosome biogenesis and translation regulation","description":"The cluster is dominated by GO terms for translation and ribosome functions (translation, initiation, elongation, ribosome biogenesis/disassembly, translational fidelity), including mitochondrial translation. Deadenylation-dependent decay links mRNA turnover to translation. A single term on glial cell proliferation may reflect broader growth signaling but overall the set points to protein synthesis machinery.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":4},{"id":"GO:0045901","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0032790","count":3}]},{"hash":"1702289047818399234","title":"Neural Development and Signaling","description":"This cluster is dominated by GO terms tied to nervous system development, brain development, and neural signaling pathways (Smoothened Hedgehog signaling, Roundabout signaling) as well as regulation of synaptic vesicle exocytosis. These together point to proteins involved in neural development and synaptic communication; a few terms about development in other organs (e.g., kidney) or immune signaling are present but secondary. The overarching theme is neural development and signaling. ","confidence":"High","size":15,"edges":99,"triangles":387,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007224","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0035385","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0001822","count":6}]},{"hash":"1585961674675283091","title":"Diverse Biosynthesis Pathways","description":"The proteins show enrichment across multiple biosynthetic processes\u2014from lipopolysaccharide and wax biosynthesis to phenylpropanoid, sporopollenin, and fatty/acyl-CoA\u2013related pathways, plus carbohydrate metabolism\u2014indicating a broad role in biosynthetic metabolism rather than a single pathway. This broad, cross-kingdom set of synthesis processes supports a general biosynthesis theme. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:1902987","count":7},{"id":"GO:0009103","count":7},{"id":"GO:0042619","count":7},{"id":"GO:0097171","count":6}]},{"hash":"320859377983101706","title":"Unknown","description":"The GO terms span nucleotide metabolism, peroxisomal import, endosomal microautophagy, chromatin assembly, and protein quality control, with several entries marked obsolete, indicating no single cohesive function tying the proteins together. This cluster appears to reflect diverse, low-specificity roles rather than a unified process.","confidence":"","size":15,"edges":21,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046940","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0070414","count":2}]},{"hash":"430222418339824752","title":"Plant secondary metabolism and shoot development","description":"The GO terms point to strigolactone biosynthesis and secondary shoot formation, with additional signals from alkaloid and phenylpropanoid metabolism and general detoxification processes. This combination suggests a cluster of plant-specific metabolic pathways linked to growth regulation and defense, making \u201cPlant secondary metabolism and shoot development\u201d an appropriate, representative label. ","confidence":"Medium","size":15,"edges":37,"triangles":15,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0046839","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0010223","count":1},{"id":"GO:0009820","count":1}]},{"hash":"1800860976333789751","title":"Unknown","description":"The terms mix developmental processes (vasculogenesis, uterus and female genitalia development, digestive tract development) with RNA modification/transcription functions (RNA methylation, rRNA modification, DNA-templated transcription), and even an unrelated antibiotic biosynthetic process; there isn\u2019t a single unifying function connecting these proteins, so a cohesive label isn\u2019t justifiable.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0003257","count":2},{"id":"GO:0001570","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0048565","count":2}]},{"hash":"1938426604029444460","title":"Chitin-based cuticle development and molting","description":"The top GO terms are dominated by chitin-related processes (chitin catabolic process, chitin-based cuticle development) and ecdysis, which together point to insect cuticle formation and molting as the core function of this cluster. While there are secondary terms related to apoptotic processes and cytokine responses (IL-8, IL-6), these do not define the main theme, which remains chitin/molt biology.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0072606","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0055114","count":2}]},{"hash":"245350433796468470","title":"Drosophila development and RNA regulation","description":"The terms point to developmental signaling (spermatid development; positive regulation of BMP and Hedgehog/Smoothened pathways) alongside extensive RNA-level control (mRNA splicing, deadenylation, stability, oskar mRNA localization, and ncRNA-mediated silencing) and tissue-specific processes (larval cuticle development). Together, they suggest a cluster of proteins coordinating development in a Drosophila/insect context with integrated post-transcriptional regulation.","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0030513","count":2},{"id":"GO:0060213","count":2},{"id":"GO:0010610","count":2},{"id":"GO:0045451","count":2}]},{"hash":"1095481604760471895","title":"Redox detoxification and oxidative stress response","description":"The cluster is dominated by GO terms for cellular oxidant detoxification, redox homeostasis, and detoxification of nitrogen compounds, suggesting a core function in managing reactive species and maintaining redox balance. Some terms relate to inflammation regulation and lineage development, but the predominant theme ties to detoxifying oxidants and preserving redox homeostasis.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":15},{"id":"GO:2000255","count":14},{"id":"GO:0045454","count":14},{"id":"GO:0070458","count":13},{"id":"GO:0051771","count":13}]},{"hash":"540473598101472503","title":"Mitotic Progression and DNA Repair","description":"This cluster is dominated by mitosis-related terms (exit from mitosis, chromosome segregation, G2/M transition) and genome maintenance (nucleotide-excision repair), plus evidence of regulated protein turnover via SCF-ubiquitin-proteasome pathways, suggesting a cohesive theme around cell-cycle control and DNA repair. Some terms like viral process, peroxisome import, and dipeptide transport may reflect annotation noise or broader functional links but do not overturn the core pattern.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0016032","count":15},{"id":"GO:0010458","count":15},{"id":"GO:0070911","count":15},{"id":"GO:0031146","count":15},{"id":"GO:0007059","count":15}]},{"hash":"240325382584278531","title":"Vesicle trafficking and intercellular signaling","description":"The cluster\u2019s GO terms center on vesicle-related processes (exosomal secretion, MVB sorting, vacuolar protein transport) and membrane-associated signaling (Wnt and Toll pathways, tight junction assembly). This suggests a cohesive theme around vesicle trafficking with modulation of intercellular signaling, despite some peripheral terms like translation-related processes. Confidence: Medium","confidence":"Medium","size":15,"edges":99,"triangles":382,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:1904669","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0043328","count":2},{"id":"GO:1903543","count":2}]},{"hash":"1851177758495038747","title":"Neural development and cytoskeletal dynamics","description":"The top GO terms converge on nervous system development, axon guidance, and actin-driven structures like filopodia and stress fibers, pointing to neural development with cytoskeletal remodeling as the core theme. Some other terms (cell cycle, Hedgehog signaling, mitochondrial permeabilization) are broader cellular processes that can intersect with development, but they do not dominate the cluster\u2019s focus. Therefore, the cluster is best described as neural development coupled with cytoskeletal dynamics.","confidence":"Medium","size":15,"edges":40,"triangles":37,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007286","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0007411","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0051496","count":12}]},{"hash":"2076615837759952592","title":"Unknown","description":"The top GO terms cover developmental processes (skeletal system development, forebrain development, neural tube closure), transcription (DNA-templated transcription), cell cycle, and diverse stress/defense responses (ER-stress\u2013related apoptosis, cadmium response, defense against Gram-positive bacteria), indicating a broad and heterogeneous mix rather than a single coherent function. A concise, representative label is not apparent.","confidence":"","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":9},{"id":"GO:0001843","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0006349","count":9},{"id":"GO:0050830","count":9}]},{"hash":"304233682360025778","title":"Diverse metabolism and PTMs","description":"This cluster's top GO terms include several biosynthetic processes (mycothiol, N-acetylglucosamine, ectoine, melatonin) and post-translational modification events (N-terminal acetylation, propionylation), as well as broader metabolic and regulatory terms (putrescine catabolic process, leaf formation regulation, subtelomeric heterochromatin formation). The common thread is a mix of metabolic biosynthesis pathways and protein modification, across different organisms, suggesting a general metabolic/PTM cluster rather than a single pathway. Therefore 'Diverse metabolism and PTMs' captures the overarching theme.","confidence":"Medium","size":15,"edges":103,"triangles":430,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":9},{"id":"GO:0006348","count":9},{"id":"GO:0061606","count":9},{"id":"GO:0017198","count":9},{"id":"GO:0006044","count":9}]},{"hash":"2067864510541984828","title":"Musculoskeletal and Organ Development","description":"This cluster centers on developmental processes across tissues, notably bone formation and organ development (ossification, metanephric tubule development, multicellular organism development) and muscle-related differentiation/regeneration (satellite cell activation, regulation of muscle contraction). While a few terms point to general regulatory processes (protein kinase activity, unfolded protein response), the dominant themes are musculoskeletal and organ development, suggesting proteins involved in differentiation and tissue formation. ","confidence":"Medium","size":15,"edges":30,"triangles":31,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0072221","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006986","count":4}]},{"hash":"1984655802550970233","title":"Neural development and signaling regulation","description":"The top terms cluster around nervous system development and neural morphogenesis (negative regulation of dendrite morphogenesis, substantia nigra development, myelination in PNS, transition between fiber types) and signaling modulation (calcineurin-NFAT, protein dephosphorylation, kinase activity). There are a few broader terms (xenobiotic response, vascular branching), but the dominant theme is neural development and neuronal signaling regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050774","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0014883","count":3},{"id":"GO:0001569","count":3},{"id":"GO:0021762","count":3}]},{"hash":"1818538548560669792","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0031915","count":3},{"id":"GO:0051301","count":3}]},{"hash":"235370002039416353","title":"Ribosome biogenesis and translation","description":"Top terms are dominated by translation and ribosome biogenesis (cytoplasmic translation and ribosome assembly), pointing to a core function in protein synthesis. A handful of endocytic trafficking and plant development terms appear peripheral. Thus, the cluster is best described by ribosome assembly and protein synthesis, with minor associated trafficking signals. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0032456","count":1},{"id":"GO:0090351","count":1}]},{"hash":"2181710762097887838","title":"DNA replication and cell cycle regulation","description":"The strongest terms in the cluster are DNA replication, meiotic cell cycle, and negative regulation of cell population proliferation, which together indicate a core function in cell cycle control and genome duplication. Additional terms related to transcription regulation during the mitotic cycle, inflammatory signaling, hormone response, and lipid metabolism are present but less central, suggesting these proteins may have supplementary roles beyond the primary cell cycle theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0009636","count":2},{"id":"GO:0051321","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0007070","count":2}]},{"hash":"2087846652914836119","title":"NOD2-Mediated innate immunity and chemokine production","description":"The GO terms show strong enrichment for innate immune signaling via the NOD2 pathway and for regulation of chemokine production (CCL5, CXCL1), which points to pathogen sensing and inflammatory chemokine responses. Some terms relate to development or vascular processes, but the dominant theme is innate immune activation and chemokine regulation, justifying this label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":6},{"id":"GO:0071651","count":6},{"id":"GO:0090501","count":6},{"id":"GO:0048265","count":6},{"id":"GO:0003213","count":6}]},{"hash":"1885552845774989403","title":"Mitochondrial protein import and respiratory complex assembly","description":"This cluster is dominated by mitochondrial-related terms: insertion of proteins into the inner membrane, protein targeting/import, and assembly of respiratory chain complexes (notably complex IV). It also includes proton transmembrane transport and electron transport-coupled ATP synthesis, suggesting a coherent role in mitochondrial protein handling and energy production.","confidence":"High","size":15,"edges":16,"triangles":6,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":3},{"id":"GO:0072321","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0033617","count":3},{"id":"GO:1902600","count":2}]},{"hash":"1064430399326610863","title":"Rho-GTPase Signaling and Membrane Trafficking","description":"Top terms center on Rho protein signal transduction and GTPase activity, with endocytic recycling and microvillus assembly highlighting cytoskeletal and membrane dynamics; the thrombin-activated receptor pathway further ties GPCR signaling to Rho activity. While a few terms are less related (lipid catabolism, dendritic cell apoptosis), the dominant theme is Rho/GTPase\u2013driven cytoskeletal and trafficking processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0019433","count":4},{"id":"GO:0043547","count":4},{"id":"GO:1990126","count":4},{"id":"GO:0070493","count":4}]},{"hash":"59712970130211172","title":"Unknown","description":"The top GO terms cover very different biological processes (Rho signal transduction regulation, PNS myelination, antibiotic response, phosphorylation, various biosynthetic and catabolic pathways, including some obsolete terms), with no clear single function tying the proteins together. The annotations appear heterogeneous, suggesting no cohesive cluster function to name.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0016310","count":2}]},{"hash":"951828275335539137","title":"Embryonic Development and Tissue Morphogenesis","description":"Our proteins are enriched for GO terms describing development across multiple tissues (midbrain, skeletal muscle, cartilage, pancreas, neural crest, ureteric bud). This points to a unifying theme of morphogenesis and organogenesis rather than a single pathway, with transcriptional regulation also playing a role in developmental gene control. Overall, the label captures the common function of supporting embryonic tissue formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1663869331198215824","title":"Post-transcriptional RNA processing and translation regulation","description":"The dominant GO terms point to post-transcriptional RNA processing and translation control, with ncRNA-mediated gene silencing, regulation of mRNA splicing and stability, mRNA polyadenylation, and initiation/reinitiation of translation (IRES-dependent initiation and eIF4F assembly). This indicates a coherent cluster centered on RNA-level regulation of gene expression.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:1901407","count":8},{"id":"GO:0010610","count":6},{"id":"GO:0006378","count":6}]},{"hash":"349405591663257470","title":"Cell cycle and proteostasis","description":"This cluster centers on core cell cycle processes (cell division, DNA replication, microtubule dynamics) and protein quality control (proteasome regulatory particle assembly, oxidative stress response). Mitochondrial protein import also appears, suggesting coordination with mitochondrial function. Overall, the proteins seem tied to genome maintenance and proteostasis during cell division.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0031117","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2111854046608900854","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by translation and SSU-rRNA maturation terms, indicating a core role in ribosome assembly and protein synthesis. While other metabolic and epigenetic-related terms appear, they are auxiliary noise relative to the strong ribosome-related signals.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051573","count":1},{"id":"GO:0046653","count":1}]},{"hash":"2305809572092854257","title":"Inflammation and ECM remodeling","description":"The top GO terms point to innate immune and inflammatory activity (complement activation, neutrophil killing, LPS response, leukocyte migration) along with extracellular matrix remodeling processes (plasminogen activation, elastin catabolism) and related tissue development/angiogenesis, suggesting a cluster centered on inflammatory defense and tissue remodeling. Some development terms may reflect broader tissue-context roles, but the core theme is inflammation coupled with ECM dynamics.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006958","count":6},{"id":"GO:0070946","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0031639","count":6}]},{"hash":"20145963751642088","title":"Translation initiation and RNA quality control","description":"The strongest shared themes are translation initiation, preinitiation complex formation, and IRES-dependent initiation, plus RNA quality control via nuclear mRNA surveillance. These terms cluster around ribosome assembly and initiation of translation, complemented by RNA surveillance mechanisms, suggesting a cohesive focus on how transcripts are processed and translated.","confidence":"Medium","size":14,"edges":22,"triangles":16,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071033","count":4},{"id":"GO:0000973","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4}]},{"hash":"1909238768124752269","title":"Muscle differentiation and tissue remodeling","description":"The terms cluster around muscle- and connective tissue-related processes: skeletal muscle atrophy, regulation of adipocyte differentiation, chondrocyte differentiation, vascular smooth muscle proliferation, cardiac epithelial-to-mesenchymal transition, SMAD/TGF-beta signaling, fibroblast migration, and cell-cell junction organization. Together they suggest coordinated remodeling and differentiation of muscle and surrounding connective tissue, mediated by intercellular signaling pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0014732","count":2},{"id":"GO:0045600","count":2},{"id":"GO:0032331","count":2},{"id":"GO:1904706","count":2}]},{"hash":"1491270129595171823","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0015937","count":3},{"id":"GO:0006402","count":2},{"id":"GO:0006808","count":2}]},{"hash":"313688427373579825","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms related to translation, cytoplasmic translation, translational initiation, and ribosome biogenesis (including ribosomal large subunit biogenesis), indicating a shared function in protein synthesis machinery; a few DNA damage response terms likely reflect incidental regulatory associations rather than defining the core function.","confidence":"High","size":14,"edges":88,"triangles":331,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0000462","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0006413","count":2}]},{"hash":"389096764666524663","title":"Innate immune defense and inflammation","description":"This cluster is dominated by immune-related GO terms: defense against bacteria, neutrophil-mediated killing, leukocyte migration, and classical complement activation, as well as responses to lipopolysaccharide. These point to a coherent theme of innate immune defense and inflammatory processes, with plasminogen activation linking immune response to tissue remodeling. Confidence in this label is high.","confidence":"High","size":14,"edges":29,"triangles":23,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0006958","count":3}]},{"hash":"886874957883780577","title":"DNA replication and cell cycle regulation","description":"The dominant GO terms are DNA-templated transcription, DNA replication, and cell division, which together point to cell-cycle\u2013related DNA processing and growth. Other terms (ER-to-Golgi transport, peroxisomal import, sterol metabolism, and autophagy-related processes) suggest complementary cellular maintenance and protein processing activities that often accompany proliferating cells. The edge connectivity is low, but the core signal supports cell-cycle\u2013associated functions rather than a single specialized pathway.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0016311","count":2}]},{"hash":"1728409814129290606","title":"Neurotransmission and membrane transport","description":"The cluster\u2019s GO terms cluster around neural signaling (pheromone response, smell, social behavior, neurotransmitter loading into synaptic vesicles) and multiple membrane transport activities (sodium and nitrate transport, vitamin and metabolite transport, and related metabolic processes). This combination suggests a coherent theme of neural communication supported by transporter functions, justifying a label focused on neurotransmission and transport.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019236","count":3},{"id":"GO:0007608","count":3},{"id":"GO:0006810","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0015706","count":3}]},{"hash":"1548703100430591012","title":"Cytoskeletal dynamics and signaling","description":"The top GO terms point to cytoskeletal organization (AMPA receptor clustering, podosome assembly, muscle thin filament assembly) alongside diverse signaling themes (insulin signaling, translation initiation, endocytosis). This suggests the proteins cluster around coordinating signal transduction with cytoskeletal remodeling across tissues, rather than a single, narrow function. ","confidence":"Medium","size":14,"edges":82,"triangles":267,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0097113","count":1},{"id":"GO:0045806","count":1},{"id":"GO:1903898","count":1},{"id":"GO:0071691","count":1},{"id":"GO:0014911","count":1}]},{"hash":"1197042531869154035","title":"Neuronal Development and Cytoskeletal Signaling","description":"The top GO terms cluster around Hedgehog signaling (Smoothened), Roundabout pathway, and Rac-driven cytoskeletal dynamics (lamellipodium/spine development), with hippocampus development highlighted. This points to neuronal morphogenesis and connectivity guided by signaling pathways and actin remodeling, rather than proliferation, with bone maturation and general cell division appearing as broader developmental themes. ","confidence":"High","size":14,"edges":76,"triangles":210,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":6},{"id":"GO:0060999","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0016601","count":6},{"id":"GO:0043931","count":6}]},{"hash":"1161174528759172618","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning bacterial biosynthetic pathways (lipopolysaccharide and ADP-L-glycero-beta-D-manno-heptose), plant sporopollenin biosynthesis, animal retinal/retinol metabolism, and immune-related chemotaxis, with several terms obsolete. There is no clear shared function or theme across these proteins, and the graph has no edges, so no cohesive cluster function can be inferred. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":5},{"id":"GO:0009103","count":4},{"id":"GO:0035754","count":4},{"id":"GO:0019878","count":4}]},{"hash":"1270736152802140556","title":"Vision- and Systemic Stimulus-Response Proteins","description":"The top GO terms cluster around visual perception and photoreceptor maintenance, but also include a range of immune, hormonal, and reproductive stimulus-response processes. This suggests the proteins have roles in sensing and responding to diverse stimuli across multiple systems, rather than a single cohesive pathway, hence a broad, multi-system label is most representative.","confidence":"Medium","size":14,"edges":52,"triangles":99,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045494","count":12},{"id":"GO:0033861","count":12},{"id":"GO:0070474","count":12},{"id":"GO:0032496","count":12},{"id":"GO:0031649","count":12}]},{"hash":"1483113192283568021","title":"Ammonium/Nitrogen Transport and Utilization","description":"The terms cluster around transport and utilization of nitrogen compounds, with multiple GO terms for ammonium transport (ammonium transmembrane/transepithelial) and nitrogen utilization and regulation, plus related transport of methylammonium and carbon dioxide transport. Some growth-related terms (lateral root branching, pseudohyphal and invasive growth) may reflect nutrient-responsive behavior, but the dominant theme is ammonium and nitrogen metabolism and transport. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006808","count":2},{"id":"GO:0015670","count":2},{"id":"GO:0019740","count":2},{"id":"GO:0060586","count":2},{"id":"GO:0015843","count":2}]},{"hash":"377818793216340891","title":"Retroviral entry, integration, and latency","description":"The terms cluster around steps of a retroviral life cycle: entry into the host cell and nucleus, reverse transcription (RNA-templated DNA synthesis), integration of viral DNA into the host genome, and establishment of proviral latency, with supporting roles for host DNA repair and apoptosis pathways. This coherent theme supports naming the cluster as Retroviral entry, integration, and latency.","confidence":"High","size":14,"edges":71,"triangles":191,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0046718","count":6},{"id":"GO:0075713","count":6},{"id":"GO:0039651","count":5}]},{"hash":"297362250561211061","title":"Immune Signaling and Actin Remodeling","description":"The cluster centers on immune-related signaling processes (innate immune response, B cell receptor signaling, IL-2 production, response to LPS) and includes strong links to cytoskeletal dynamics (actin filament organization, lamellipodium assembly, Rho signaling). This suggests a cohesive theme where immune cell activation and signaling are tightly coupled with actin-driven remodeling, supporting movement and immune responses. The presence of some additional pathways (e.g., insulin signaling) may reflect cross-talk but does not override the primary immune-actin association.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0008286","count":4},{"id":"GO:0031666","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0050853","count":4}]},{"hash":"48277720595046468","title":"Ubiquitin-Dependent Protein Degradation and Development","description":"The top GO terms are dominated by ubiquitin-related processes, especially ubiquitin-dependent protein catabolic process and K33-linked ubiquitination, pointing to a common role in ubiquitin-mediated protein turnover. The additional differentiation and development-related terms across tissues (muscle, cartilage, kidney tubule, placenta-like trophoblast, immune regulation) suggest these proteins are broadly involved in development and lineage specification, potentially modulated by ubiquitin signaling. The lack of network edges implies these proteins share annotations rather than a single, tightly connected pathway, so the name highlights the central ubiquitin-driven degradation theme with a nod to diversified developmental roles.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0045497","count":4},{"id":"GO:2000176","count":4},{"id":"GO:0072156","count":4},{"id":"GO:0048294","count":4}]},{"hash":"1664483520267778696","title":"Neuronal survival and autophagy signaling","description":"The cluster shows strong signals for neuronal development and survival, including neuron apoptotic processes and spinal cord development, together with autophagy and TORC1 signaling. This pattern suggests a cohesive role in neuronal cell fate decisions, balancing growth and autophagy-related processes, even as some terms are obsolete. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006914","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0043524","count":2},{"id":"GO:2000653","count":2}]},{"hash":"416066046849110452","title":"Developmental GPCR Signaling and Cell Movement","description":"Most prominent terms are GPCR signaling (GO:0007200) and regulation of GTPase activity, along with GPCR internalization and prostaglandin response, which points to GPCR-mediated signaling and trafficking. Coupled with terms for microtubule-based movement and major developmental processes (heart, spinal cord, seminiferous tubule, multicellular organism development), this cluster appears to reflect signaling pathways that guide development and cytoskeletal dynamics. The electron transport chain terms may reflect metabolic support for developing tissues. Overall, a developmental GPCR signaling and cell movement theme is best represented.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007200","count":4},{"id":"GO:0022900","count":4},{"id":"GO:0072520","count":4},{"id":"GO:0007275","count":4}]},{"hash":"729968190609497874","title":"Unknown","description":"The GO terms span mitochondrial assembly and metabolism, lysosome localization and receptor trafficking, and several eye/vision development terms, showing no single cohesive function linking all proteins; thus no specific cluster label can be confidently assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0007552","count":1},{"id":"GO:0061668","count":1},{"id":"GO:0006067","count":1},{"id":"GO:0061462","count":1}]},{"hash":"2217063237937132818","title":"CNS Myelination and Oligodendrocyte Differentiation","description":"The cluster shows strong representation for CNS myelin formation, positive regulation of myelination, and oligodendrocyte differentiation, pointing to a neural glial/myelin development theme. Other terms (mRNA processing, deubiquitination, necroptosis, cardiac fate) appear less central to this core signal, suggesting noise or broader cellular processes, but the myelination-related terms dominate the set.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0097264","count":1},{"id":"GO:0031643","count":1},{"id":"GO:0048714","count":1},{"id":"GO:0060912","count":1}]},{"hash":"1194093217166171736","title":"Lipid mediator synthesis and inflammatory signaling","description":"The cluster shows a convergence of lipid metabolism terms (prostaglandin, retinoic acid, and fatty acid biosynthesis) with immune signaling responses (response to lipopolysaccharide and extracellular negative regulation of signal transduction), suggesting a theme around lipid-derived mediators coordinating inflammatory signaling. Some redox and other metabolic terms are present, but the lipid-inflammation link is the strongest signal.","confidence":"Medium","size":13,"edges":56,"triangles":107,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0046294","count":5},{"id":"GO:0042573","count":5},{"id":"GO:0006069","count":5}]},{"hash":"168616766550363940","title":"Neural signaling, vision, and GPCR pathways","description":"This cluster centers on neuronal communication and sensory processing, with GO terms for GPCR signaling, MAPK/ERK cascades, prostaglandin responses, visual perception and learning, and behavior. While an electron transport chain term appears, the majority of terms point to signaling and sensory functions in neural contexts, suggesting a theme around neural signaling and vision-related pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0007626","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0006468","count":6}]},{"hash":"665171144933373700","title":"Mitochondrial respiration and ATP synthesis","description":"This cluster is dominated by GO terms tied to mitochondrial energy production\u2014proton transmembrane transport, ATP synthesis coupled electron transport, and assembly of respiratory chain complexes. Together these point to oxidative phosphorylation in mitochondria as the core function linking these proteins, with the other developmental terms likely incidental noise.","confidence":"High","size":13,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0034553","count":2},{"id":"GO:0072284","count":1},{"id":"GO:0021521","count":1}]},{"hash":"370144649121688061","title":"Transcriptional Regulation and Signaling","description":"This cluster centers on elements of gene expression control, highlighted by chromatin remodeling and transcription regulation terms (chromatin remodeling, negative regulation of transcription by RNA polymerase II, DNA-templated transcription). It also includes several signaling pathways (Wnt, Rho, T cell receptor) and related processes, suggesting the proteins collectively participate in regulating transcription while coordinating signal transduction and development. Overall, the shared theme is regulation of gene expression coupled with signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0036302","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0045819","count":2}]},{"hash":"1380204847481527997","title":"Germline Chromatin Regulation","description":"This cluster is dominated by GO terms related to chromatin dynamics and transcriptional control\u2014negative regulation of RNA Pol II transcription, heterochromatin formation (silent mating-type cassette and subtelomeric), and chromosome condensation\u2014titting with roles in chromatin remodeling during germline development and spermatogenesis (male gonad development). While a couple of terms (antibacterial humoral response, pericardium morphogenesis) are less directly connected, the central theme points to chromatin-mediated regulation in germline contexts.","confidence":"Medium","size":13,"edges":37,"triangles":47,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030466","count":7},{"id":"GO:0007283","count":7},{"id":"GO:0043966","count":7},{"id":"GO:0008584","count":7}]},{"hash":"2214185785731475005","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms point to the protein synthesis machinery: translation, ribosome biogenesis (including large and small subunit biogenesis), rRNA maturation and pseudouridine synthesis, and translation initiation/reinitiation. Together these indicate a cluster focused on ribosome assembly and translation processes; a single fertilization term appears as an outlier. ","confidence":"High","size":13,"edges":69,"triangles":204,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":6},{"id":"GO:0000462","count":3},{"id":"GO:0031120","count":3},{"id":"GO:0031118","count":3}]},{"hash":"77961303039763937","title":"Embryonic Organ Development and Metabolism","description":"This cluster centers on developmental processes across multiple organs (heart morphogenesis, neural crest cell development, ureter maturation, pancreas development, pattern formation) with associated metabolic activities (retinal/retinol metabolism, GABA catabolic process, folate-related catabolism). The common thread appears to be broad organogenesis and interconnected metabolic pathways rather than a single specific function.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0003007","count":11},{"id":"GO:0014032","count":11},{"id":"GO:0009450","count":11}]},{"hash":"1513357127043483877","title":"Neuronal microtubule dynamics and dendritic transport","description":"The top GO terms cluster around microtubule regulation in neurons: cytoplasmic and axonemal microtubule depolymerization, neuron projection maintenance, cerebellar Purkinje cell layer organization, nuclear migration along microtubules, and anterograde dendritic transport of neurotransmitter receptor complexes. Together these indicate proteins coordinating microtubule remodeling and transport essential for neuronal projections and dendrite function. Some terms related to spindle dynamics and development appear but the dominant theme is neuronal microtubule\u2013driven morphology and transport.","confidence":"High","size":13,"edges":27,"triangles":20,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0010938","count":11},{"id":"GO:1990535","count":11},{"id":"GO:0048364","count":11},{"id":"GO:0021693","count":11},{"id":"GO:0030473","count":11}]},{"hash":"1620717023685271224","title":"Neuronal microtubule dynamics and dendritic transport","description":"The top GO terms converge on microtubule dynamics (depolymerization, spindle elongation, nuclear migration) and neuronal architecture/transport (neuron projection maintenance, Purkinje cell layer organization, anterograde dendritic transport), suggesting a cohesive theme of microtubule-regulated neuronal structure and intracellular transport. While a few terms touch broader cell-cycle processes, the neuronal transport and projection maintenance terms dominate, supporting a neuronal microtubule-centric label.","confidence":"High","size":13,"edges":71,"triangles":222,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0010938","count":13},{"id":"GO:1990535","count":13},{"id":"GO:0048364","count":13},{"id":"GO:0021693","count":13},{"id":"GO:0030473","count":13}]},{"hash":"2136742484437997454","title":"Steroid and lipid metabolism","description":"The cluster shows enrichment for steroid- and lipid-related biosynthesis and catabolic processes, including testosterone biosynthetic process, androgen metabolic process, oxylipin biosynthetic process, bile acid biosynthetic process, and cholesterol catabolic process. These point to a cohesive lipid and steroid metabolism theme. A couple of other terms (endothelial cell\u2013cell adhesion, response to immobilization stress, ozone response, and cell cycle regulation) are less central to this theme, and may reflect broader signaling or stress-related connections rather than core functions of the cluster. Overall, the dominant signal is lipid and steroid metabolism.","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0071603","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0031408","count":2}]},{"hash":"109373907819426639","title":"Immune signaling and cell migration","description":"The cluster is enriched for terms tied to immune cell behavior (hemocyte migration, Fc-gamma receptor signaling in phagocytosis, negative chemotaxis) along with several signaling pathways (ERK cascade, Hedgehog/Smoothened, PI3K-related term) and processes related to proliferation and angiogenesis, suggesting a core theme of signaling that governs immune cell movement and function.","confidence":"Medium","size":13,"edges":26,"triangles":20,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045740","count":12},{"id":"GO:0002040","count":12},{"id":"GO:0043552","count":12},{"id":"GO:0035099","count":12},{"id":"GO:0070374","count":12}]},{"hash":"348653232063127802","title":"Neural Development and Hedgehog Signaling","description":"The cluster is dominated by nervous system development and Hedgehog pathway terms (GO:0007399, GO:0007224) and includes related neural differentiation elements such as dendritic spine development (GO:0060999) and small GTPase signaling (GO:0007264), suggesting a neural development module with signaling dynamics. While there are broader development terms like kidney development and hair follicle placode formation, the strongest signal comes from neural development and Hedgehog-related processes; a couple of terms are obsolete, which slightly lowers cohesion but does not undermine the main theme.","confidence":"Medium","size":13,"edges":21,"triangles":7,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007224","count":8},{"id":"GO:0060999","count":8},{"id":"GO:0046909","count":8},{"id":"GO:0007264","count":8}]},{"hash":"999954994623692665","title":"Glutamatergic Synaptic Transmission","description":"The cluster shows multiple GO terms centered on glutamatergic synapses and excitatory signaling, including synaptic transmission, glutamatergic and excitatory postsynaptic potential, plus receptor clustering, which together point to neural communication at glutamatergic synapses. Some terms like centriole replication and apoptotic process are more general cellular processes and may be incidental, but the dominant theme is glutamatergic synaptic function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007099","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0035249","count":2}]},{"hash":"1961885439671039523","title":"Unknown","description":"The GO terms span immune signaling, hair follicle development, taste, memory, neural signaling, calcium and GPCR pathways, and even plant cell wall catabolism, with no single coherent theme tying all terms together. Only a subset centers on neural communication, while others are unrelated, so there isn\u2019t a clear, specific function to label the cluster confidently.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060907","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0050917","count":1},{"id":"GO:0007614","count":1},{"id":"GO:0007214","count":1}]},{"hash":"314190296138893592","title":"Chemokine signaling and immune cell migration","description":"These terms cluster around immune signaling (positive regulation of chemokine production; T cell activation) and movement through tissues (cellular extravasation, hyaluronan metabolism, metallopeptidase activity), suggesting a group of proteins involved in immune cell trafficking and response. Though a few development-related terms appear, the dominant theme is immune activation and leukocyte migration.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":3},{"id":"GO:0035987","count":2},{"id":"GO:0031104","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0002291","count":2}]},{"hash":"908625358362248140","title":"Drosophila development and neuro-immune signaling","description":"This cluster centers on signaling pathways (RTK, GPCR, NF-kappaB), neural development (axon guidance, postsynaptic regulation, imaginal disc polarity), and innate immune signaling (TLR pathways, dendritic cell cytokine regulation), with several terms specific to Drosophila larval imaginal discs and cuticle development, suggesting a cohesive theme of developmental signaling coupled with neural-immune regulation in insects.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007169","count":2},{"id":"GO:0008363","count":1},{"id":"GO:0048681","count":1},{"id":"GO:0042346","count":1},{"id":"GO:0016336","count":1}]},{"hash":"258978858375872772","title":"Unknown","description":"The labeled GO terms span a broad and disparate mix of developmental, sensory, hormonal, and stress-response processes with no single cohesive function tying the 13 proteins together, and there are no edges or shared interactions to anchor a specific theme. This suggests no clear cluster label beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0090103","count":2},{"id":"GO:0042346","count":1}]},{"hash":"1674609017521806981","title":"Clathrin-mediated endocytosis and GPCR trafficking","description":"The top GO terms show strong enrichment for clathrin-dependent endocytosis and GPCR internalization, suggesting a core theme of receptor trafficking and membrane internalization. Additional terms point to supporting roles in cytoskeletal signaling (Rho regulation) and related pathways, but the clearest common function across the cluster is receptor internalization and vesicular trafficking rather than a single isolated process. Overall, a cohesive label is endocytosis and trafficking rather than disparate functions.","confidence":"Medium","size":13,"edges":11,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0005981","count":1}]},{"hash":"2106776647855340001","title":"Vacuolar acidification and protein turnover","description":"The terms are dominated by vacuole-related processes: proton transport, V-type ATPase assembly, and vacuolar protein catabolic activity, along with associated energy production and polyphosphate metabolism. A glutamatergic synaptic term appears but is less central. Together, the cluster points to a cohesive theme of vacuolar proton pumping, acidification, and degradation pathways.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0007039","count":2},{"id":"GO:0043181","count":2},{"id":"GO:0015991","count":2}]},{"hash":"1872959652505468823","title":"Cardiovascular development and endothelial-chemokine signaling","description":"The top GO terms cluster around heart and vessel development (cardiac right atrium morphogenesis, SA node regulation of action potential, endothelial delamination) and chemokine production (CXCL1, CCL5), with supporting signals from GPCR signaling and innate immune pathways (NOD2). This pattern points to a cohesive module centered on cardiovascular morphogenesis paired with endothelial-immune signaling, hence the label. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0098907","count":4},{"id":"GO:0070431","count":3},{"id":"GO:0071651","count":3},{"id":"GO:0090501","count":3}]},{"hash":"890695337529333947","title":"Teichoic/Lipoteichoic acid biosynthesis","description":"Top GO terms point to teichoic acid and lipoteichoic acid biosynthesis (including D-alanylation) and related cell wall biosynthesis, indicating these proteins mainly function in Gram-positive cell envelope construction; auxiliary terms for translation/transcription are present but secondary.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0016226","count":2},{"id":"GO:0006541","count":2}]},{"hash":"549904943572457214","title":"Phenylpropanoid and flavonoid biosynthesis","description":"This cluster centers on phenylpropanoid metabolism in plants, including lignin biosynthesis and diverse flavonoid pathways (kaempferol, quercetin, cyanidin O-glucosides) plus glycosylation/glucuronidation steps and responses to related compounds (genistein, xenobiotics). The GO terms point to a cohesive theme of lignin and flavonoid production and modification, with detoxification-related processes accompanying these pathways.","confidence":"High","size":12,"edges":16,"triangles":8,"max_degree":8,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009808","count":12},{"id":"GO:0030259","count":12},{"id":"GO:0052697","count":12},{"id":"GO:0033330","count":12},{"id":"GO:0052696","count":12}]},{"hash":"1990568987949683310","title":"Growth factor signaling in muscle and hematopoiesis","description":"This cluster centers on signaling pathways initiated by cell surface receptors (serine/threonine kinase signaling) and tyrosine phosphorylation, with links to myoblast differentiation and hemopoiesis, and downstream processes like glycogen metabolism and apoptosis. The coexistence of muscle differentiation and hematopoietic terms suggests a common theme of growth factor\u2013driven signaling controlling cell fate in muscle and blood lineages, despite some broader metabolic or immune-related terms present.","confidence":"Medium","size":12,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071333","count":9},{"id":"GO:0043330","count":9},{"id":"GO:0045819","count":7},{"id":"GO:0046826","count":7},{"id":"GO:0014835","count":7}]},{"hash":"724463113611193835","title":"Developmental patterning and organogenesis","description":"This cluster\u2019s GO terms cluster around embryonic axis patterning and organ development (left/right pattern formation, maternal axis specification, pole cell formation, pancreatic and endocrine development, hair follicle morphogenesis) with accompanying transcriptional regulation processes (translation initiation complex formation, transcriptional regulation, histone acetylation). Together they suggest a theme of developmental patterning and morphogenesis coupled with gene expression control.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0043981","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0007279","count":2}]},{"hash":"2067257077875010302","title":"Xenobiotic and Ion Transport","description":"This cluster is dominated by membrane transport GO terms involving xenobiotics, vitamins, and ions (xenobiotic transmembrane transport, xenobiotic transport, vitamin transmembrane transport, potassium ion transmembrane transport, cadmium ion import into vacuole, xenobiotic export). A few terms touch on other processes (cell cycle, endoribonuclease activity regulation, bacteriocin immunity), but the unifying theme is transport of xenobiotics and ions across membranes, with related trafficking such as oligopeptide export from mitochondrion.","confidence":"High","size":12,"edges":12,"triangles":3,"max_degree":7,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006855","count":8},{"id":"GO:0071805","count":8},{"id":"GO:0035461","count":8},{"id":"GO:0042908","count":7},{"id":"GO:0007049","count":5}]},{"hash":"1754762671879218934","title":"Diverse membrane solute transporters","description":"The top GO terms show transmembrane transport for a wide range of solutes (nitrate/nitrite, sugars, ions, xenobiotics), indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate pathway.","confidence":"High","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0035725","count":9},{"id":"GO:0015757","count":9},{"id":"GO:0015707","count":9}]},{"hash":"501793344665504973","title":"Chitin-based cuticle development","description":"The top GO terms center on larval and general chitin-based cuticle development, plus body morphogenesis, implying these proteins participate in insect exoskeleton formation and shaping during development. The limited terms and modest network connectivity suggest a cohesive but not heavily diversified set, making a \u201cChitin-based cuticle development\u201d label appropriate.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0040003","count":1},{"id":"GO:0010171","count":1}]},{"hash":"1648297166462263492","title":"Developmental signaling with Rho-mediated cytoskeleton dynamics","description":"The cluster shows strong enrichment for organ development terms (heart, skeletal, nervous system) and pathways involving Rho GTPase signaling, which governs cytoskeletal remodeling and cell migration essential for morphogenesis. The presence of calcium-dependent exocytosis regulation further aligns with secretory processes common in developing or differentiating neural tissues. Altogether, the proteins appear to participate in developmental signaling linked to cytoskeletal control.","confidence":"High","size":12,"edges":62,"triangles":182,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":10},{"id":"GO:0043547","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0007266","count":9},{"id":"GO:0045956","count":9}]},{"hash":"260435437556654542","title":"Vascular remodeling and angiogenesis","description":"The terms are centered on blood vessel formation and vascular cell behavior: positive regulation of angiogenesis; regulation of smooth muscle cell migration; vascular-associated smooth muscle migration; morphogenesis of epithelium; ERK signaling; and coagulation. Together these indicate a cluster enriched for vascular development, remodeling, and signaling pathways coordinating endothelial and smooth muscle dynamics during vessel formation and maturation.","confidence":"Medium","size":12,"edges":47,"triangles":86,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0014912","count":1},{"id":"GO:0032757","count":1},{"id":"GO:1904754","count":1},{"id":"GO:0002009","count":1},{"id":"GO:1905589","count":1}]},{"hash":"193621643722916546","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0019878","count":4},{"id":"GO:0006099","count":4}]},{"hash":"646273407708084654","title":"DNA Replication and Repair Machinery","description":"This cluster centers on genome replication and maintenance. Dominant terms include DNA replication, primer synthesis, DNA-templated transcription, and DNA unwinding, along with repair pathways such as synthesis-dependent strand annealing and the SOS response. A couple of terms (embryonic development, nonsense-mediated decay) are broader or context-specific, but the core signal points to replication and genome integrity maintenance.  ","confidence":"Medium","size":12,"edges":24,"triangles":14,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006269","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006268","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0051260","count":2}]},{"hash":"250543795346893413","title":"ER stress-induced protein folding and UPR","description":"The terms point to an ER stress/UPR\u2013driven protein quality-control module: ER protein folding, unfolded/misfolded protein response, and translation initiation in response to ER stress, with accompanying heat-response signals. Some general terms (protein kinase activity regulation, oligomerization) fit broader biology but do not contradict this core theme. Overall, these GO terms coalesce around ER stress\u2013induced protein folding and the unfolded protein response.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036494","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0006626","count":2}]},{"hash":"1185925018440454564","title":"Immune signaling and vesicle trafficking","description":"The GO terms point to immune regulation (negative regulation of T cell receptor signaling, negative regulation of IL-2 production, defense response to protozoan) together with membrane trafficking processes (ER membrane fusion, Golgi organization, protein localization to plasma membrane). The inclusion of mitochondrial and microtubule dynamics suggests broader cellular state coordination. Taken together, this cluster seems to center on modulating immune signaling alongside intracellular trafficking and organelle dynamics.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":2},{"id":"GO:0050860","count":1},{"id":"GO:0051260","count":1},{"id":"GO:0007019","count":1},{"id":"GO:0016320","count":1}]},{"hash":"966096446277042463","title":"Neuroimmune signaling and myelination","description":"This cluster contains immune-related signals (NOD2 pathway, NF-kappaB regulation, ubiquitination, LPS response, cytokine production) alongside neural development terms (synapse assembly, axonal fasciculation, myelination, mechanotransduction), suggesting a shared role in neuroimmune interactions and myelin/neuronal maturation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1345474199037771592","title":"Unknown","description":"The GO terms are scattered across ubiquitination, apoptosis, and various development processes (placental layers, antennal morphogenesis, meiosis), with no single cohesive function or clear protein\u2013protein interaction pattern tying the cluster together. This lack of a shared theme and zero edges make a specific, representative label unreliable.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902530","count":1},{"id":"GO:0061178","count":1},{"id":"GO:0051311","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0000209","count":1}]},{"hash":"1440371348043131057","title":"Cilium-Associated Signaling and Trafficking","description":"Top terms emphasize cilium assembly, visual perception, receptor recycling, and GTPase regulation, suggesting a role in ciliary signaling and membrane trafficking in sensory cells (notably photoreceptors). The presence of Hippo signaling regulation and mitotic cycle hints at broader cell-cycle signaling integration, but the core theme remains cilium-mediated signaling and trafficking.","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0042068","count":6},{"id":"GO:0060271","count":6}]},{"hash":"77339228288105312","title":"DNA replication initiation and heterochromatin formation","description":"The top GO terms cluster around DNA replication processes (initiation, elongation, pre-replicative complex assembly) and heterochromatin formation/silencing (subtelomeric and silent mating-type loci), suggesting a functional focus on coordinating replication with chromatin state and transcriptional silencing. Some signaling terms (epinephrine/cAMP response) appear ancillary rather than central. Overall, a label emphasizing replication initiation with chromatin regulation fits best.","confidence":"High","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0071872","count":5},{"id":"GO:0051591","count":5},{"id":"GO:1902975","count":4},{"id":"GO:0030466","count":4}]},{"hash":"356642489035690635","title":"Plant lipid and secondary metabolite catabolism","description":"This cluster shows strong enrichment for lipid catabolic processes (triglyceride, phospholipid, and phosphatidylserine catabolism) and multiple secondary metabolite pathways (alkaloid and phenylpropanoid/catabolic processes), plus strigolactone biosynthesis. There is also mention of nitrogen utilization and xenobiotic handling, and a developmental term (secondary shoot formation), which together suggest a plant metabolism-focused cluster centered on lipid turnover and specialized metabolite pathways, with a link to strigolactone biology.","confidence":"Medium","size":11,"edges":17,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:0019740","count":3},{"id":"GO:0010223","count":3},{"id":"GO:0009820","count":3},{"id":"GO:0055114","count":3}]},{"hash":"388282707185693916","title":"Ribosome and Translation Machinery","description":"This cluster is dominated by GO terms tied to protein synthesis: cytoplasmic translation, translation in general, and ribosomal large subunit assembly, plus mitochondrial seryl-tRNA aminoacylation and selenocysteine-related biosynthesis, all pointing to mainly translation-related functions. Other terms like transcription termination and responses to antibiotics appear as supporting signals but do not outweigh the core theme of ribosome function and translation machinery. The label \"Ribosome and Translation Machinery\" best captures the central function of the cluster.","confidence":"High","size":11,"edges":45,"triangles":96,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0046677","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0006353","count":2}]},{"hash":"354227298568122604","title":"Translation initiation and mRNA processing regulation","description":"Top terms indicate a coherent theme around translation initiation (eIF4F assembly, preinitiation complex formation, IRES-dependent initiation, reinitiation) and post-transcriptional regulation (spliceosome-mediated splicing, mRNA stability under stress). The larval cuticle development term is likely incidental noise. Overall, the cluster groups proteins involved in initiating translation and regulating mRNA processing/stability in response to stress.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":6},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0002188","count":2},{"id":"GO:1902625","count":2}]},{"hash":"68141735244322300","title":"Splicing and Translation Initiation","description":"The cluster centers on RNA processing and translational control: multiple terms relate to regulation of alternative mRNA splicing via the spliceosome and assembly/ initiation steps of translation (formation of the preinitiation complex, eIF4F assembly, translation reinitiation, and IRES-dependent initiation), with some stress-related mRNA stability regulation. A few terms appear evolutionary or unrelated (e.g., polar body extrusion), but the core signals point to post-transcriptional regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0040038","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0002188","count":2}]},{"hash":"1603279960608134510","title":"Diverse Transmembrane Transporters","description":"The Top Terms are clustered around transmembrane transport of various substrates (potassium, sodium, nitrate, nitrite, galactose, fucose, 4-hydroxyphenylacetate, xenobiotics, etc.), indicating a set of membrane transport proteins with diverse substrates rather than a single specific pathway. This supports naming the group as broadly related to membrane transporters with breadth of substrates.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":10},{"id":"GO:0015706","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0035725","count":9},{"id":"GO:0015757","count":9}]},{"hash":"1816404053374361724","title":"Steroid Hormone and Lipid Metabolism","description":"The proteins in this cluster largely map to cholesterol- and lipid-derived pathways: testosterone biosynthesis, bile acid biosynthesis, and cholesterol catabolic processes, plus oxylipin biosynthesis and Vitamin D response. These connect to steroid hormone production and lipid signaling, with secondary signals related to sex differentiation and vascular cell interactions. A few stress-response terms are present but do not override the lipid/steroid-focused theme. Overall, the cluster centers on steroid hormone and lipid metabolism.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":6},{"id":"GO:0007548","count":6},{"id":"GO:0071603","count":5},{"id":"GO:0061370","count":5},{"id":"GO:0035902","count":5}]},{"hash":"1460064056559035618","title":"Metabolism-Linked Transcription and Cell Division","description":"The top GO terms cluster around central carbon metabolism (tricarboxylic acid cycle, glyoxylate cycle, 2-oxoglutarate metabolism) and lipid regulation (phospholipid biosynthesis/catabolism), alongside transcriptional control (RNA polymerase II\u2013mediated transcription regulation) and a cell division term. This suggests a functional theme where metabolic state is coordinated with transcriptional programs and the cell cycle. The viral genome replication term is incidental, not defining the group. ","confidence":"Medium","size":11,"edges":28,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0001172","count":3},{"id":"GO:0019079","count":3},{"id":"GO:0032968","count":2},{"id":"GO:0045899","count":2}]},{"hash":"1057414641389726313","title":"Mitochondrial protein import and cristae biogenesis","description":"The top GO terms cluster around mitochondria, including mitophagy, cristae formation, protein import into mitochondrial compartments, RNA import into mitochondria, translocase assembly, and protein targeting, suggesting a cohesive theme of mitochondrial protein trafficking and inner-membrane organization. Some terms (RNA polymerase transcription and nucleotide-excision repair) seem less connected and may be secondary annotations, but the dominant signal points to mitochondrial import/biogenesis functions.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":2},{"id":"GO:0042407","count":2},{"id":"GO:0070816","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0006289","count":1}]},{"hash":"914364927536887852","title":"Unknown","description":"The GO terms are highly heterogeneous, covering apoptosis, hormone response (estradiol/estrous cycle), metabolism (glycogen and triglyceride), biomineral/tissue development, and cell migration, with no dominant theme. The absence of edges and a single prevailing function makes it hard to define a cohesive label. Therefore, no confident, specific label can be assigned beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006309","count":1},{"id":"GO:0031214","count":1},{"id":"GO:0031953","count":1},{"id":"GO:0071392","count":1},{"id":"GO:0045719","count":1}]},{"hash":"1700347612843771682","title":"Unknown","description":"These GO terms span inflammatory signaling (chemokine production, inflammatory mediator production), general metabolism (carbohydrate metabolism, ubiquitin-dependent protein catabolic process, proton transport) and development-related processes (placental morphogenesis, ossification, embryonic development), plus an odd chitin catabolic process. There is no single, coherent biological theme tying all terms together, suggesting the cluster combines proteins with diverse functions or mixed annotations rather than a specific pathway.","confidence":"","size":11,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0002532","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0042787","count":2}]},{"hash":"1332811670545447103","title":"Blue-light GPCR-cGMP/cAMP signaling","description":"This cluster centers on signaling pathways mediated by GPCRs and receptor guanylyl/adenylyl cyclases, with downstream second messengers like cAMP and cGMP. The presence of terms for receptor signaling, intracellular signal transduction, forskolin response, and both cGMP and cAMP\u2013related pathways supports a cohesive theme around light-associated and receptor-driven signaling cascades, despite some i.e. plant-specific terms. Confidence: Medium.","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009785","count":5},{"id":"GO:0071880","count":5},{"id":"GO:0006355","count":5},{"id":"GO:1900194","count":5},{"id":"GO:0035556","count":5}]},{"hash":"1199764502208384590","title":"Sugar and Ion Transporters Under Osmotic Stress","description":"This cluster is dominated by transmembrane transport GO terms for various nutrients and ions (nitrate, sodium, phosphate, galactose, lactose, fructose-related transport), plus a response to osmotic stress and related stimuli, indicating a cohesive set of membrane transport proteins involved in nutrient and ion uptake and osmoregulation. The presence of a metabolic term (L-ascorbic acid) fits within broader nutrient handling, supporting the transport-focused theme.","confidence":"High","size":11,"edges":41,"triangles":69,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":11},{"id":"GO:0005989","count":11},{"id":"GO:1900754","count":11},{"id":"GO:0071332","count":11},{"id":"GO:0006970","count":11}]},{"hash":"1579440062086155491","title":"Unknown","description":"The GO terms are highly diverse, spanning development in several tissues (spermatogenesis, distal tubule morphogenesis, skeletal muscle fiber development) and immune regulation (pro-T cell differentiation, IgE isotype switching, mast cell cytokine production), plus general cellular processes (translational initiation, ubiquitin-dependent protein catabolic process) and an obsolete oxidation-reduction term. There is no single biological function or pathway tying the proteins together, so a cohesive label is not supported.","confidence":"","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0045497","count":2},{"id":"GO:2000176","count":2}]},{"hash":"329345097418039912","title":"Chromatin organization and transcription regulation","description":"The top GO terms cluster around chromatin and nuclear processes: nucleosome assembly, heterochromatin organization, chromatin localization to the nucleus, and regulation of DNA-templated transcription. A few terms like GPCR signaling and nucleus size are likely pleiotropic or incidental rather than defining the module, but the dominant theme is chromatin architecture and transcription control.","confidence":"High","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0008277","count":2},{"id":"GO:0070828","count":1}]},{"hash":"1286162484861124381","title":"Unknown","description":"The top GO terms span diverse areas: GPCR-mediated cAMP signaling, mitochondrial energy processes (electron transport chain), vascular and muscular regulation, retina maintenance, immune response, thermogenesis, and lymphoid development. There isn\u2019t a single coherent biological theme tying these proteins together, so a precise functional label isn\u2019t supported. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0045494","count":8}]},{"hash":"2153544888671551919","title":"Embryonic development and transcriptional regulation","description":"The proteins here touch on several embryonic development processes (endocrine system development, left\u2013right patterning, placenta-related differentiation, heart EMT) and also on core gene expression mechanisms (transcriptional regulation by RNA Pol II, histone methylation, mRNA splicing, ribosomal export). This suggests a theme of coordinating development through transcriptional and RNA-processing control, rather than a single, narrow function.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0051569","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2}]},{"hash":"188760330250056693","title":"Telomere Maintenance and Genome Stability","description":"The Top Terms overwhelmingly point to telomere biology (telomere localization and capping, telomere lengthening maintenance) and related genome stability processes (DNA recombination, mitotic checkpoint signaling). Although several terms mention mitochondrial tRNA aminoacylation, the dominant pattern centers on telomere maintenance and genome integrity, suggesting a cluster focused on telomere-related functions with supporting genome stability roles.","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070200","count":4},{"id":"GO:0070154","count":4},{"id":"GO:0070146","count":4},{"id":"GO:0072581","count":4},{"id":"GO:0006422","count":4}]},{"hash":"835878012906429722","title":"Post-translational modification and autophagy","description":"This cluster is enriched for GO terms related to protein post-translational modifications (sumoylation, ufmylation, lipidation) and autophagy-related pathways (macroautophagy, Cvt/vacuole targeting). While other terms touch on cofactor biosynthesis and RNA modification, the strongest, recurring themes are modification-driven regulation and turnover via autophagic processes, suggesting a cohesive functional grouping.","confidence":"Medium","size":10,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0018192","count":3},{"id":"GO:0006777","count":3},{"id":"GO:0051726","count":3},{"id":"GO:0016236","count":3}]},{"hash":"690808117900684230","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around broad developmental processes across multiple tissues\u2014endocrine system development, left/right pattern formation, EMT in heart cushion formation, cartilage and hair follicle morphogenesis, and placental/ trophoblast differentiation\u2014indicating a theme of embryonic development and organ/tissue morphogenesis. Additional terms like the mitotic cell cycle and ribosomal export reflect proliferative states typical of developing tissues. Thus, the proteins likely participate in developmental morphogenesis rather than a single specialized pathway.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5}]},{"hash":"1594750889413286926","title":"RNA processing and translation initiation regulation","description":"This cluster features spliceosome-related splicing, transcription termination, and ncRNA-mediated gene silencing, along with translation initiation components (IRES-dependent initiation, eIF4F assembly, and translation reinitiation). The combination suggests a coordinated role in RNA maturation and gene expression control from transcription through translation, justifying the label.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0006378","count":5},{"id":"GO:1901407","count":5}]},{"hash":"280887746303363528","title":"Unknown","description":"The GO terms span diverse processes: lipid and sterol biosynthesis (unsaturated and long-chain fatty acids, ergosterol, sphingolipid metabolism), development/differentiation (sebaceous gland differentiation, metamorphosis), neural maintenance (central nervous system myelin maintenance), mitochondrial inheritance, nitrate assimilation, and nitric oxide production. This mix lacks a single cohesive biological function or pathway, suggesting the proteins in this cluster do not share a clear common theme. ","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":2},{"id":"GO:0032443","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0000001","count":1}]},{"hash":"1452797069545308491","title":"Energy metabolism and cell survival signals","description":"Top GO terms cluster around metabolic and energy-related processes (cholesterol metabolism, propionyl-CoA biosynthesis, ketone body catabolism) and stress/mitochondrial survival responses (response to starvation, regulation of mitochondrial membrane permeability in apoptosis), with additional developmental terms (brain and kidney development) and general protein oligomerization. While there are diverse functions, the overarching theme is cellular energy management and survival under stress, suggesting a label focused on metabolism and survival signaling. Sporulation appears as an outlier. ","confidence":"Medium","size":10,"edges":37,"triangles":84,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":4},{"id":"GO:1902109","count":4},{"id":"GO:0008203","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0030435","count":4}]},{"hash":"2256698649883036556","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by terms tied to protein synthesis and ribosome assembly: translation, ribosomal large subunit biogenesis, ribosome biogenesis, and maturation of SSU rRNA. The presence of primary miRNA processing and RISC complex assembly adds a layer of RNA-processing activity common to gene expression control, but the strongest signal is assembly and function of the ribosome and translation machinery. This suggests a cohesive group of proteins involved in ribosome biogenesis and protein synthesis, with some shared RNA regulatory roles.","confidence":"High","size":10,"edges":28,"triangles":32,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042273","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0009047","count":2}]},{"hash":"1647122487832001776","title":"Chloroplast Quinone Biosynthesis and Central Metabolism","description":"The cluster centers on phylloquinone (K1) and menaquinone biosynthesis, alongside core chloroplast metabolic processes such as glycolysis, pentose phosphate pathway, fatty acid \u03b2-oxidation, triglyceride mobilization, and chloroplast organization. This combination points to a cohesive chloroplast-linked energy metabolism module with vitamin K biosynthesis functions in plants.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":8},{"id":"GO:0010124","count":8},{"id":"GO:0006635","count":8},{"id":"GO:0006574","count":8},{"id":"GO:0017000","count":8}]},{"hash":"1978906305315212847","title":"Unknown","description":"The top terms are highly heterogeneous, including retina development, immune signaling, protein complex assembly, various biosynthetic and transport processes, and lymphocyte proliferation, with no dominant shared function. The lack of edges and a unifying GO term suggests there is no coherent theme tying the proteins together, so a generic Unknown label is most appropriate.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0019343","count":1},{"id":"GO:0015706","count":1}]},{"hash":"446617290862633218","title":"Neuronal development and vesicle trafficking","description":"The terms include brain development and neurogenesis alongside vesicle trafficking (ER-Golgi and endosome-Golgi transport), autophagy, and vacuolar acidification; together these point to processes governing intracellular transport and organelle turnover during development, including neural lineages.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007035","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0030097","count":1},{"id":"GO:0022008","count":1},{"id":"GO:0042475","count":1}]},{"hash":"1765858687842316517","title":"Translational Regulation","description":"This cluster\u2019s strongest signals are translation-related, including positive regulation of eIF4F complex assembly and factors involved in mRNA cap binding and polysome-associated translation, pointing to control of protein synthesis at the initiation stage. A few development-related terms (hair follicle maturation, germ-line cyst formation) appear but are likely secondary associations or annotation noise; overall, the cluster reflects regulation of translation rather than a single developmental pathway. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048820","count":2},{"id":"GO:1905696","count":2},{"id":"GO:1905612","count":2},{"id":"GO:2000507","count":2},{"id":"GO:0010801","count":2}]},{"hash":"1438588361318783512","title":"Zinc Homeostasis and Inflammation","description":"The top GO terms cluster around zinc ion handling (zinc import, intracellular zinc homeostasis, zinc starvation) and inflammatory response, pointing to a set of proteins involved in metal ion regulation with immune signaling aspects. A few glycosylation terms and cadmium transport are present but less central. Overall, zinc homeostasis with inflammation is the most coherent shared theme.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0035269","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0015693","count":1}]},{"hash":"1906719524888945246","title":"Inflammation signaling and muscle differentiation","description":"The cluster shows strong signals for inflammatory processes (positive regulation of chemokine production, production of inflammatory mediators) and signaling pathways (cell surface receptor serine/threonine kinase signaling, Rho signaling) together with myoblast differentiation linked to muscle regeneration. There are also metabolic terms (glycogen and carbohydrate metabolism) that fit energy needs during inflammation/remodeling. A single chitin catabolic process term appears less related and may reflect noise. Overall, the proteins seem tied to inflammatory signaling and muscle remodeling with associated metabolic shifts.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0090197","count":7},{"id":"GO:0002532","count":7},{"id":"GO:0006032","count":7},{"id":"GO:0005975","count":7},{"id":"GO:0007266","count":3}]},{"hash":"1488386623364439848","title":"Axon guidance and neural development","description":"The top GO terms cluster around neural development processes: axonal fasciculation, neuron projection guidance, neural crest migration, synapse assembly, and myelination, with semaphorin-plexin signaling as a key axon guidance pathway. While there is a minor outlier for innate immune response, the dominant theme is nervous system development and connectivity.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":7},{"id":"GO:0007157","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0032474","count":6},{"id":"GO:0045087","count":6}]},{"hash":"1611833997586466581","title":"ER-Golgi trafficking and membrane localization","description":"This cluster is dominated by GO terms related to the secretory pathway, including ER lumen protein retention, ER-to-Golgi and Golgi-to-ER vesicle transport, and regulation of protein localization to the plasma membrane. While a few outlier terms appear, the core pattern centers on vesicular trafficking between the ER and Golgi and targeting proteins to membranes, justifying a label focused on ER-Golgi transport and membrane localization.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":2},{"id":"GO:0071340","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0090004","count":2}]},{"hash":"436277571194181756","title":"Unknown","description":"Top terms are diverse, spanning lipid catabolism, B cell signaling, podosome/cytoskeletal dynamics, ectodomain proteolysis regulation, cell polarity and shape, GTPase signaling, cellular fusion during development, osteoblast fate, and adipose tissue development. This breadth suggests no single cohesive function tying the proteins together, so there is no reliable representative label beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0051044","count":2},{"id":"GO:2000769","count":2}]},{"hash":"1426243362108189091","title":"Brain and craniofacial development","description":"The top GO terms are dominated by brain and craniofacial development (pituitary gland, midbrain, cerebral cortex, and roof of the mouth), with multicellular organism development also supporting a developmental theme. Additional terms reflect transcriptional and epigenetic regulation, which often coordinate complex morphogenesis. A couple of terms related to xenobiotic or immune-style responses appear less central to the core theme, but do not override the developmental signal. Overall, this cluster centers on CNS and head structure formation with regulatory control.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0060021","count":4}]},{"hash":"131029502109687713","title":"RNA Processing and Methylation Machinery","description":"This cluster is best explained by a core theme of RNA processing and various methylation events: mRNA splicing via spliceosome, RNA (guanine-N7) methylation, rRNA methylation, and methylation of peptides (arginine and lysine). The presence of translation preinitiation complex formation supports a link to gene expression, while Arp2/3-mediated actin nucleation, spermidine biosynthesis, and nodulation appear as auxiliary processes rather than central drivers. Overall, the dominant signal points to RNA processing and methylation with ties to translation readiness.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0036265","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0008295","count":2}]},{"hash":"1608309066542921187","title":"CNS development and neural differentiation","description":"This cluster's top GO terms cluster around brain and nerve development: CNS projection neuron axonogenesis, corpus callosum development, astrocyte differentiation, retina/photoreceptor differentiation, Hedgehog (Smoothened) signaling, and vascular-associated neural differentiation (pericytes). The shared theme is neural development and wiring, spanning multiple neural cell types and CNS structures.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":7},{"id":"GO:0001655","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0048710","count":7},{"id":"GO:1904238","count":7}]},{"hash":"2065154238161347846","title":"RNA Processing and Transcription Regulation","description":"Because the cluster is enriched for RNA processing (pre-miRNA processing, miRNA catabolic process) and RNA stability (CRD-mediated mRNA stabilization) along with transcription-related terms (DNA-templated transcription, transcription antitermination, termination regulation), the dominant theme is gene expression regulation at RNA and transcription levels. Translation appears but is not the primary signal, and a few minor terms (stress response, kidney development) likely reflect incidental associations.","confidence":"Medium","size":9,"edges":11,"triangles":6,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0010738","count":2},{"id":"GO:0031054","count":1},{"id":"GO:1901724","count":1},{"id":"GO:0010587","count":1}]},{"hash":"1741017632656834346","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0050830","count":3}]},{"hash":"620449014351445944","title":"Axon-Dendrite Development and Synaptic Signaling","description":"The cluster is driven by neuronal development terms: dendrite morphogenesis, axon extension (positive regulation), axonogenesis regulation (negative), and excitatory postsynaptic potential, indicating a focus on neuronal growth and synaptic activity. Some terms like mitotic cell cycle, DNA replication, and T cell receptor signaling appear as less representative outliers, but the dominant theme is neuronal development and synaptic signaling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0060079","count":7},{"id":"GO:0048813","count":7},{"id":"GO:0045773","count":7},{"id":"GO:0050852","count":7}]},{"hash":"1377752541501738603","title":"Immune development and Rho GTPase signaling","description":"I labeled this cluster \"Immune development and Rho GTPase signaling\" because the top GO terms strongly point to leukocyte development and cytokine biology (hemopoiesis, NK T cell differentiation, interleukin-4 production, interleukin-7 response) while multiple terms highlight small GTPase pathways (Rho and Rac) that regulate cytoskeletal dynamics and signal transduction in immune cells. Additional terms referencing cellular responses to fungal origin and microglial migration fit innate immune activation and cell movement, supporting a cohesive theme of immune development intertwined with cytoskeletal signaling.","confidence":"High","size":9,"edges":21,"triangles":20,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":8},{"id":"GO:0035023","count":7},{"id":"GO:0030097","count":7},{"id":"GO:0032633","count":7},{"id":"GO:0001865","count":7}]},{"hash":"14451285441755731","title":"Redox Homeostasis and Hydrogen Peroxide Response","description":"The dominant GO terms point to cellular management of oxidation-reduction processes, detoxification of oxidants, redox balance, and responses to hydrogen peroxide, with supporting links to cytochrome complex assembly (electron transport) and redox-sensitive NF-kB signaling (I-kappaB phosphorylation and non-canonical NF-kB regulation). This suggests the proteins function together in protecting the cell from oxidative stress and coordinating redox signaling.","confidence":"High","size":9,"edges":27,"triangles":39,"max_degree":8,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0017004","count":8},{"id":"GO:0045454","count":8},{"id":"GO:0042158","count":7}]},{"hash":"756286104751130152","title":"Neuronal signaling and trafficking","description":"The terms cluster around neural communication (G protein-coupled receptor signaling; regulation of excitatory postsynaptic potential) and intracellular transport (regulation of retrograde transport from endosome to Golgi) as well as nerve morphogenesis, suggesting a theme of neuronal signaling coupled with cellular trafficking. Some entries (antibiotic response, kidney size, mitotic spindle assembly) are less directly related and may reflect broader or pleiotropic roles. Confidence: Medium","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0071287","count":2},{"id":"GO:0090307","count":2},{"id":"GO:2000172","count":2},{"id":"GO:0035564","count":2}]},{"hash":"2012120855364561231","title":"Muscle contraction and cardiovascular regulation","description":"The top GO terms cluster around regulation of muscle performance (fiber type transitions, filament sliding speed, relaxation) and cardiovascular functioning (heart rate regulation, vascular branching/morphogenesis). A visual perception term appears, but the dominant signal ties to muscle and cardiovascular regulation, suggesting a coherent cluster of related tissue regulation. ","confidence":"Medium","size":9,"edges":23,"triangles":22,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010515","count":8},{"id":"GO:0032972","count":8},{"id":"GO:0042994","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0014883","count":8}]},{"hash":"1336127854734875174","title":"Cell cycle and translation regulators","description":"This cluster centers on cell cycle control (negative regulation of CDK activity and general cell cycle processes) and post-transcriptional gene expression (regulation of mRNA stability and translational initiation). While some developmental terms appear, the dominant signals point to coordinating cell division with mRNA translation and stability, suggesting a core role in cell-cycle\u2013coupled gene expression regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0014003","count":1},{"id":"GO:1905696","count":1}]},{"hash":"504642077419809098","title":"Unknown","description":"The top terms include neural signaling (excitatory postsynaptic potential, neurotransmitter secretion, long-term potentiation) but also broad housekeeping processes (ribosome biogenesis, DNA replication, calcium transport, heart development). There isn\u2019t a single cohesive function linking all terms, so the cluster cannot be confidently labeled with a specific function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0070588","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1559466747219264978","title":"T cell activation and adhesion","description":"The top GO terms are dominated by T cell\u2013related processes: T cell costimulation and T cell activation, along with cell adhesion, pointing to immune signaling and T cell\u2013mediated interactions. A symbiont entry term also suggests host-microbe interactions, which can co-occur with immune engagement. Several other terms are peripheral (lipid metabolism, plant-related processes) and may reflect annotation noise rather than core functions. Overall, the immune activation/adhesion theme is the strongest signal, giving a moderate confidence in the label.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0042110","count":1},{"id":"GO:0042158","count":1}]},{"hash":"194664469066283293","title":"Nutrient and ion transmembrane transport","description":"This cluster is dominated by GO terms for transmembrane transport of diverse substrates (nitrate, sodium, galactose, phosphate) and related cellular responses (osmotic stress, fructose stimulus). While a metabolic process (L-ascorbic acid) appears, the unifying theme is transport of nutrients and ions across membranes, suggesting these proteins function primarily as transporters or transport-associated factors. Confidence: Medium","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":9},{"id":"GO:0005989","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0071332","count":9},{"id":"GO:0006970","count":9}]},{"hash":"351112136893510422","title":"ER stress\u2013linked transcription regulation","description":"Most frequent terms point to DNA-templated transcription and transcriptional regulation, together with ER stress response and protein folding in the endoplasmic reticulum, plus cellular response to oxidative stress. This suggests the proteins function at the intersection of ER-associated protein homeostasis and transcriptional control, i.e., ER stress\u2013linked transcription regulation.","confidence":"Medium","size":9,"edges":8,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:1903206","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0034976","count":2}]},{"hash":"1454192917997291701","title":"Integrin-mediated adhesion and immune signaling","description":"The cluster centers on cell adhesion (integrin-mediated and heterophilic adhesion) and immune-related processes (neutrophil chemotaxis, T cell activation) with MAPK/ERK signaling involved, suggesting a cohesive module of adhesion-linked immune signaling; other terms like angiogenesis and renal filtration may reflect broader signaling contexts but don't override the core theme.","confidence":"High","size":9,"edges":21,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0010634","count":2},{"id":"GO:0070371","count":2}]},{"hash":"1922767137202098430","title":"Diverse transmembrane solute transport","description":"This cluster is dominated by GO terms for transport across membranes of various solutes (nitrate, sodium, galactose, phosphate, 4-hydroxyphenylacetate) and related cellular responses such as osmotic stress and sugar-related stimuli, pointing to a common theme of membrane transport and nutrient/osmolyte handling. Some metabolic terms appear, but the prevailing pattern supports a transport-centric cluster.","confidence":"High","size":9,"edges":14,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":9},{"id":"GO:0005989","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0071332","count":9},{"id":"GO:0006970","count":9}]},{"hash":"399834331788158054","title":"RNAi and miRNA Processing","description":"The top terms center on RNA interference and small RNA pathways, including RISC assembly, ta-siRNA and miRNA processing, and regulatory ncRNA-mediated post-transcriptional silencing. Although a couple terms are unrelated (pole cell formation, dosage compensation), the dominant theme is components and steps of the RNAi/miRNA machinery, suggesting these proteins function together in RNA silencing pathways.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033168","count":2},{"id":"GO:0007279","count":2},{"id":"GO:0009047","count":2},{"id":"GO:2000636","count":2},{"id":"GO:0010267","count":2}]},{"hash":"627637119585192943","title":"ER\u2013Golgi Transport and Secretion","description":"The top GO terms cluster around ER retention, ER-to-Golgi transport, COPI vesicle budding, and Golgi ribbon formation, all central to the secretory pathway and protein trafficking. Wnt secretion regulation ties into this secretory flux, while developmental terms like maternal axis specification and placenta development suggest these proteins participate in secreted signaling during early development. Overall, a cohesive theme of ER\u2013Golgi trafficking and secretion is evident.","confidence":"Medium","size":9,"edges":14,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":2},{"id":"GO:0061357","count":2},{"id":"GO:0007311","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0090161","count":2}]},{"hash":"1198571748436005421","title":"MAPK-Driven Immune Signaling","description":"This cluster is enriched for GO terms related to MAPK signaling cascades (p38 and ERK1/2) and immune-related responses (T cell homeostasis, PMA- and GM-CSF-induced stimuli), suggesting a common function in signaling pathways that regulate immune cell behavior. The presence of RNA processing and translation initiation terms may reflect broad transcriptional/post-transcriptional regulation linked to signaling inputs rather than a separate pathway. Overall, the core theme appears to be MAPK-mediated signaling in immune contexts.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0038066","count":2},{"id":"GO:0070371","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0000244","count":2}]},{"hash":"1944310679816916684","title":"Mitochondrial energy metabolism and transport","description":"This cluster centers on mitochondrial function: ADP transport, the malate-aspartate shuttle, iron import into the mitochondrion, and adaptive thermogenesis point to energy production and substrate handling within mitochondria. The other terms (insulin response, locomotory and sensory behavior, response to amyloid-beta) could reflect broader cellular states or organismal phenotypes influenced by mitochondrial activity, rather than core functions of a single cluster. Overall, the set appears tied to mitochondrial energy metabolism and transport.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0007605","count":2},{"id":"GO:1904645","count":2},{"id":"GO:0035349","count":1}]},{"hash":"1663975083417723327","title":"Endosomal Sorting and Membrane Remodeling","description":"The top GO terms cluster around endosomal maturation (early to late endosome transport), multivesicular body assembly/sorting, and related membrane remodeling, with additional hints from nuclear membrane reassembly and host-mediated viral release control. While apoptosis and cell division are also present, the strongest common theme is vesicle trafficking and membrane remodeling, consistent with ESCRT- and endosome-associated functions. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031468","count":3},{"id":"GO:0006915","count":3},{"id":"GO:2000641","count":3},{"id":"GO:1902187","count":3},{"id":"GO:0071985","count":3}]},{"hash":"746710242453419295","title":"Sensory Nervous System Development and Function","description":"The top GO terms cluster around sensory perception and neural signaling\u2014auditory detection (mechanical stimulus in hearing), vestibulocochlear nerve development, optic nerve morphogenesis, action potential, and circadian regulation\u2014indicating a group of proteins involved in sensory nervous system development and neuronal activity. Some terms about cartilage growth or muscle development appear but do not define the core theme.","confidence":"High","size":9,"edges":17,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":5},{"id":"GO:0021562","count":4},{"id":"GO:0003428","count":4},{"id":"GO:1905920","count":4},{"id":"GO:0035725","count":4}]},{"hash":"1201100985452433086","title":"Tissue Development and Neuronal Differentiation","description":"The top GO terms point to development and differentiation in multiple tissues: neuronal differentiation (dopaminergic neuron differentiation; forebrain neuronal commitment), visual perception, cartilage and skeletal muscle development, and endocrine pancreas development. While other terms like behavior or endocytic recycling are less informative, the set as a whole reflects broad developmental programs rather than a single pathway. Therefore, label as Tissue Development and Neuronal Differentiation.","confidence":"Medium","size":8,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":4},{"id":"GO:0032458","count":4},{"id":"GO:0090334","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0071542","count":4}]},{"hash":"798220843552136436","title":"Heterochromatin Formation and Chromatin Regulation","description":"Most of the top GO terms point to chromatin organization and heterochromatin formation (subtelomeric, rDNA, silent mating-type cassette) and related regulation of chromosome condensation, indicating a cluster of proteins involved in establishing and maintaining heterochromatin. A few terms are unrelated outliers (immune response, development, plasminogen activation), but the dominant signal supports a chromatin/heterochromatin theme.","confidence":"Medium","size":8,"edges":14,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":2},{"id":"GO:0019731","count":1},{"id":"GO:0031509","count":1},{"id":"GO:0003344","count":1},{"id":"GO:0043457","count":1}]},{"hash":"1463110942092882385","title":"Flavonoid glycoside biosynthesis","description":"The top GO terms center on biosynthesis and glycosylation of flavonoid compounds, specifically kaempferol and quercetin O-glucosides, along with related glucuronidation processes and lignin metabolism, which together point to plant secondary metabolism focused on flavonoid glycosylation. Some cell cycle terms appear but are less explanatory for this cluster\u2019s main signal. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009808","count":5},{"id":"GO:0030259","count":5},{"id":"GO:0052697","count":5},{"id":"GO:0033330","count":5}]},{"hash":"1585509750057007511","title":"Embryonic organogenesis and patterning","description":"The cluster centers on developmental processes and tissue formation, including pancreas and endocrine development, left/right patterning, EMT in heart tissue formation, cartilage morphogenesis, and placental differentiation. While some housekeeping processes appear, the dominant theme ties to embryonic organogenesis and axis/pattern formation.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0032298","count":2}]},{"hash":"1134344482452387952","title":"Unknown","description":"The GO terms show a scattered mix including ribosome biogenesis, several ubiquitination and protein quality-control processes, and diverse stress/developmental pathways, with no single coherent function linking the eight proteins. The lack of clear functional cohesion and the presence of unrelated terms (e.g., plant hormone ABA, chitin response, heart morphogenesis) suggest there is no shared theme in this cluster.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0030433","count":1},{"id":"GO:0090035","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0000209","count":1}]},{"hash":"1422987808985916769","title":"Unknown","description":"This set combines highly diverse GO terms across metabolism, DNA damage response, immune/homeostasis, development/angiogenesis, cytokinesis localization, lipid biosynthesis, morphine response, and mitochondrial repair, with no clear unifying function. It likely reflects heterogeneous functions or annotation noise rather than a single coherent biological theme.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0005981","count":8},{"id":"GO:0072462","count":8},{"id":"GO:0043278","count":8},{"id":"GO:2000002","count":8},{"id":"GO:0043029","count":8}]},{"hash":"1764794987010455966","title":"Behavioral Response to Starvation","description":"This cluster is dominated by the GO term behavioral response to starvation (3), suggesting the proteins share roles in behavioral adjustments under nutrient scarcity. The eight-protein group likely represents a module involved in feeding-related behavior or activity changes during starvation, with other members potentially contributing to related stress responses.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042595","count":3}]},{"hash":"223314711482926665","title":"Neural development and synapse assembly","description":"The proteins are enriched for neural development terms (forebrain development, neural tube closure) and synapse formation (positive regulation of synapse assembly), indicating a primary role in neuronal development and connectivity. Some outliers (skeletal development, immune response) are present but do not dominate the set.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1646251684137098630","title":"ER stress and unfolded protein response","description":"The cluster centers on endoplasmic reticulum (ER) stress and the unfolded protein response, with multiple GO terms pointing to protein folding in the ER, regulation of translation initiation in response to ER stress, and movement of misfolded proteins. Additional terms reflect heat response and protein complex assembly, consistent with cellular quality control under stress. Overall, these proteins likely function in maintaining ER proteostasis during stress.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0036494","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0006626","count":2}]},{"hash":"1458053122963205435","title":"Nuclear RNA Processing and Chromatin Regulation","description":"This cluster centers on RNA maturation and processing steps (tRNA processing, snRNP/spliceosome assembly, rRNA maturation, histone mRNA metabolism, mRNA decapping/deadenylation) and associated nuclear processes (nuclear import, P-body involvement, and chromatin organization such as heterochromatin formation). The convergence of multiple RNA-processing GO terms plus chromatin-related terms supports a cohesive theme around RNA metabolism in the nucleus and its link to chromatin state.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":4},{"id":"GO:0070317","count":3},{"id":"GO:0051170","count":3},{"id":"GO:0008334","count":3},{"id":"GO:0033962","count":3}]},{"hash":"2095615051323044987","title":"MAPK Signaling and Growth Factor Response","description":"The Top Terms point to core MAPK signaling pathways (p38 and ERK cascades) and a cellular response to epidermal growth factor, suggesting the cluster centers on MAPK-driven signal transduction in response to growth factors, with additional developmental and immune-related processes present in the set.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":1},{"id":"GO:0038066","count":1},{"id":"GO:0002635","count":1},{"id":"GO:0045657","count":1},{"id":"GO:0048382","count":1}]},{"hash":"681161528556102942","title":"Transmembrane solute transporters and osmotic stress","description":"The top GO terms are dominated by transmembrane transport of various solutes (nitrate, sodium, galactose, lactose, phosphate, etc.) and cellular responses to osmotic stress and related stimuli, indicating a cluster of membrane transporter proteins with osmotic adaptation features. While there are a few metabolism/biosynthesis terms (L-ascorbic acid metabolism, lactose biosynthesis), the shared theme is transport across membranes. This supports naming the group as solute transporters with osmotic stress involvement.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":3},{"id":"GO:0005989","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0071332","count":3},{"id":"GO:0006970","count":3}]},{"hash":"1076385548870274976","title":"Neural Plasticity and Cardio-Muscular Regulation","description":"The top GO terms point to neural functions (regulation of heart rate, short-term memory, long-term synaptic potentiation, visual perception) alongside muscle/vascular processes (angiogenesis, regulation of muscle filament sliding speed, satellite cell activation). This suggests a shared theme of nervous-system-driven regulation across cardiac, muscular, and visual functions, with an emphasis on neural plasticity as a coordinating factor.","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002027","count":5},{"id":"GO:0007614","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0010515","count":3}]},{"hash":"951643353315434298","title":"Unknown","description":"The GO terms are highly diverse: B cell differentiation and signaling, neuronal development and synaptic plasticity, myelination, tight junctions and endothelial barrier, eisosome assembly, transcytosis, and apoptotic signaling. There isn\u2019t a single coherent function that ties these terms together for this cluster, so a concise functional label isn\u2019t supported.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002337","count":1},{"id":"GO:0070941","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0045056","count":1}]},{"hash":"597136258601471683","title":"Solute Transport and Osmotic Stress Response","description":"The top GO terms are dominated by transmembrane transport of various solutes (nitrate, sodium, galactose, phosphate, 4-hydroxyphenylacetate) and by responses to osmotic stress and fructose stimulus, indicating a cluster of transporter proteins and osmoregulatory functions. While lactose biosynthesis and L-ascorbic acid metabolism are metabolic in scope, the prevailing theme centers on solute transport across membranes. Confidence reflects this coherent transport/osmoregulation pattern but acknowledges a few outlier metabolism terms.","confidence":"Medium","size":8,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":7},{"id":"GO:0005989","count":7},{"id":"GO:1900754","count":7},{"id":"GO:0071332","count":7},{"id":"GO:0006970","count":7}]},{"hash":"277252617877762303","title":"Membrane raft signaling and adhesion remodeling","description":"The protein set shows enrichment in membrane-related signaling (SREBP pathway, PKC signaling, TLR3 signaling) and localization to membrane rafts, together with processes of cadherin-mediated cell adhesion and ECM disassembly. Inner mitochondrial membrane organization and excretion expand the membrane/organellar membrane context. Taken together, the common theme is membrane-associated signaling and remodeling of cell\u2013matrix interfaces, justifying a label focused on membrane signaling and remodeling.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":8},{"id":"GO:1903044","count":8},{"id":"GO:0034141","count":8},{"id":"GO:0007007","count":8},{"id":"GO:0045861","count":8}]},{"hash":"2177101060859105044","title":"Cytoskeleton Remodeling and Vesicle Trafficking","description":"Endocytic recycling, Cdc42 signaling, and dendritic spine development point to cytoskeletal remodeling and vesicle trafficking as the core theme of this cluster. Some terms related to phagocytosis signaling and mitochondrial membrane permeabilization suggest broader signaling and stress responses, but these are less central to the cluster\u2019s main function.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032456","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0021762","count":3}]},{"hash":"1867774259087705798","title":"Retina Photoreceptor Maintenance and Signaling","description":"All top GO terms cluster around retina and photoreceptor biology: photoreceptor cell maintenance, regulation of opsin signaling, retina development, and visual perception. Some terms related to GPCR signaling and chromophore linkage support phototransduction, while a few others (insulin secretion, IL-6 regulation) are peripheral. This combination points to a coherent theme of retinal photoreceptor function and signaling.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045494","count":2},{"id":"GO:0022400","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0071879","count":2},{"id":"GO:0060041","count":2}]},{"hash":"604370594226268445","title":"Membrane dynamics and signaling across development and immunity","description":"The GO terms cluster around membrane-related processes (eisosome assembly, bicellular tight junction assembly, establishment of endothelial barrier, transcytosis) and signaling in immune and neural contexts (B cell differentiation and B cell receptor signaling, myelination, regulation of neuronal synaptic plasticity). Although diverse, these terms point to membrane organization and trafficking as a common thread shaping intercellular signaling across tissues and during development.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007552","count":2},{"id":"GO:0002337","count":1},{"id":"GO:0070941","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0070830","count":1}]},{"hash":"1270216434035183005","title":"Wnt signaling and extracellular matrix/basement membrane development","description":"These proteins show enrichment for Wnt signaling terms (canonical Wnt regulation, SMO pathway connections) alongside extracellular matrix and basement membrane processes (integrin-mediated adhesion, elastic fiber assembly, glomerular basement membrane development, bone trabecula formation). The common thread appears to be developmental signaling intertwined with ECM/basement membrane formation and remodeling, with possible links to synaptic organization via Wnt signaling. ","confidence":"Medium","size":8,"edges":15,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0044332","count":1},{"id":"GO:0036363","count":1},{"id":"GO:0034394","count":1},{"id":"GO:0045880","count":1},{"id":"GO:0033627","count":1}]},{"hash":"1166633350293273259","title":"Unknown","description":"The top GO terms span GPCR signaling, NOD2 signaling, chemokine production, pain response, cardiac/right atrium morphogenesis, endothelial cell delamination, prostate gland development, and telomere maintenance, a highly diverse set with little overlap. There are no reported edges to connect these proteins into a single pathway, so there isn't a coherent functional theme to name the cluster beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:1904357","count":4},{"id":"GO:0070431","count":3},{"id":"GO:0071651","count":3},{"id":"GO:0090501","count":3}]},{"hash":"1039987197207635598","title":"Unknown","description":"The top GO terms span very different biological areas (growth hormone response, intracellular cholesterol transport, pinocytosis regulation, nucleotide biosynthesis, leukocyte differentiation, protein complex oligomerization, oxidative stress response, phosphorylation, nervous system development), and there is no clear shared function or pathway tying these eight proteins together, with no edges connecting them. This makes a cohesive, specific label inappropriate.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060416","count":2},{"id":"GO:0032367","count":2},{"id":"GO:0048550","count":1},{"id":"GO:0006183","count":1},{"id":"GO:0002762","count":1}]},{"hash":"137530203759489220","title":"Drosophila egg chamber development and protein turnover","description":"The set of GO terms centers on Drosophila oogenesis (germarium-derived egg chamber formation; follicle cell stalk formation) and regulation of protein degradation and trafficking (ubiquitin/proteasome pathway, endosomal/ MVB sorting), suggesting a cohesive role in egg chamber development coupled with controlled protein turnover.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":1},{"id":"GO:2000045","count":1},{"id":"GO:0019884","count":1},{"id":"GO:0061136","count":1},{"id":"GO:0010796","count":1}]},{"hash":"1089870645745540386","title":"RNA and protein methylation enzymes","description":"The cluster is dominated by GO terms tied to methylation: rRNA methylation, rRNA modification, tRNA wobble uridine modification, RNA guanine-N7 methylation, 7-methylguanosine mRNA capping, and peptidyl-lysine monomethylation. This points to a cohesive theme of methyltransferases acting on RNA and proteins, suggesting a methylation-centric functional group. Some terms like nodulation and light-independent chlorophyll biosynthesis appear peripheral and may reflect broader plant-associated annotations, but the core signal is methylation-related activity.","confidence":"Medium","size":7,"edges":16,"triangles":15,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":5},{"id":"GO:0018026","count":4},{"id":"GO:0002098","count":4},{"id":"GO:0046690","count":4},{"id":"GO:0006370","count":4}]},{"hash":"1109376186919589649","title":"RNA and protein methylation","description":"The top GO terms are dominated by various methylation processes, including peptidyl-lysine methylation (mono- and di-), N-terminal peptidyl-glycine methylation, peptidyl-glutamine methylation, and rRNA methylation (including guanine-N7). This points to a shared function of methyltransferase activities targeting both RNAs and proteins, despite a few outliers such as nodulation or cellular senescence. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0009877","count":2},{"id":"GO:0018013","count":2}]},{"hash":"732242412128164347","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016575","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0048568","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1883946351623769711","title":"Adaptive immune cell differentiation","description":"The cluster shows terms related to differentiation and regulation of adaptive immune cells, including pro-T cell differentiation, dendritic cell differentiation, germinal center formation, and modulation of B cell isotype switching and mast cell cytokine production. Although a couple of non-immune terms appear, the dominant theme is immune cell development and regulation, justifying this label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045497","count":1},{"id":"GO:2000176","count":1},{"id":"GO:0072156","count":1},{"id":"GO:0048294","count":1},{"id":"GO:0032764","count":1}]},{"hash":"2188785772625366863","title":"Germinal center formation and immune cell differentiation","description":"The top GO terms are largely immune-related, including germinal center formation, pro-T cell differentiation, dendritic cell differentiation, and regulation of IgE isotype switching and mast cell cytokine production, with supporting ubiquitin-dependent protein turnover terms. This points to a theme of immune cell development and adaptive immune regulation, despite some non-immune annotations likely due to noise. Therefore, the label reflects the strongest cohesive function across the cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045497","count":4},{"id":"GO:2000176","count":4},{"id":"GO:0072156","count":4},{"id":"GO:0048294","count":4},{"id":"GO:0032764","count":4}]},{"hash":"1309967556362491856","title":"Organogenesis and neural differentiation","description":"The proteins cluster around developmental differentiation across multiple tissues (kidney morphogenesis, spinal cord interneuron specification, atrial heart and pancreatic D cell development, plus dopaminergic neuron differentiation) and include regulatory signaling, implying a general theme of organ and neural specification rather than a single pathway.","confidence":"Medium","size":7,"edges":11,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0072284","count":4},{"id":"GO:0021521","count":4},{"id":"GO:0055011","count":4},{"id":"GO:2000324","count":4},{"id":"GO:1904948","count":4}]},{"hash":"1558408899284186876","title":"Broad-spectrum transmembrane transporters","description":"The GO terms show multiple transmembrane transport activities across a range of substrates (nitrate, nitrite, sugars like galactose and fucose, various ions, xenobiotics) and assimilation. This pattern strongly points to membrane transporter proteins that move diverse substrates across cell membranes, rather than a single substrate or process. The presence of these transport terms across several proteins supports a common transporter function within the cluster.","confidence":"Medium","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015706","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1408118440370323025","title":"Heat stress response and telomere regulation","description":"This cluster combines stress-related terms such as positive regulation of inflammatory response, response to heat, and protein folding/refolding (chaperone-mediated and general), with telomere maintenance and localization processes (telomerase maintenance, telomerase RNA localization to Cajal bodies, and localization to telomeres) and a note on cell division, suggesting a theme of stress-induced protein handling alongside telomere-related regulation.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":2},{"id":"GO:0009408","count":1},{"id":"GO:0032212","count":1},{"id":"GO:1903427","count":1},{"id":"GO:0014823","count":1}]},{"hash":"1891194102042365656","title":"Peptide Hormone Processing and Proteolysis Regulation","description":"This cluster is enriched for bradykinin catabolic process and insulin processing, indicating a shared theme around peptide hormone maturation and degradation. The presence of terms related to proteolytic regulation (plasminogen activation, fibrinolysis) and protein post-translational modification (deglutamylation) supports a broader view of peptide/protein processing and activity control. Peripheral terms related to glucose response, liver regeneration, and neural differentiation may reflect broader metabolic and developmental contexts tied to these processing pathways.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":3},{"id":"GO:0030070","count":3},{"id":"GO:0035610","count":2},{"id":"GO:0010757","count":2},{"id":"GO:0009408","count":2}]},{"hash":"1224478536138657152","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0000184","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0000462","count":2}]},{"hash":"1341310031226695752","title":"Cellular stress signaling and apoptosis regulation","description":"The top GO terms converge on signaling processes that regulate kinase activity, vesicle trafficking and protein transport (Golgi reassembly, nuclear export), stress/hormonal responses (insulin stimulus, glucocorticoid metabolism), and mitochondrial involvement in apoptosis (cytochrome c release). This suggests a cluster of proteins involved in coordinating cellular stress signaling, trafficking, and cell fate decisions, rather than a single tight pathway. ","confidence":"Medium","size":7,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0090168","count":3},{"id":"GO:0034766","count":3},{"id":"GO:0071901","count":3},{"id":"GO:0001836","count":3}]},{"hash":"1508334002038527138","title":"Viral Life Cycle and Synaptic Modulation","description":"This cluster combines clear viral-process GO terms (viral release from host cell, virion assembly, viral budding via host ESCRT) with neural-function terms (glutamatergic synaptic transmission, excitatory postsynaptic potential, receptor clustering, visual learning). The juxtaposition suggests proteins involved in virus\u2013host interactions that can influence synaptic signaling or a mixed set of viral components that co-opt neural pathways. The linkage is plausible but not tightly cohesive, hence a moderate level of confidence.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0006508","count":2}]},{"hash":"763175870125722914","title":"Neuronal morphogenesis and synaptic signaling","description":"The cluster\u2019s top GO terms are dominated by neuronal development and synaptic function\u2014dendrite morphogenesis, excitatory postsynaptic potential, axon extension regulation, and axonogenesis\u2014indicating a focus on neuronal connectivity and signal transmission. A few immune-related terms (T cell receptor signaling, beta selection) appear, which may reflect multifunctional proteins or annotation noise rather than a cohesive immune-dominant function. Overall, the pattern is best captured as neuronal morphogenesis and synaptic signaling.","confidence":"Medium","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0048813","count":5},{"id":"GO:0045773","count":5},{"id":"GO:0050852","count":5}]},{"hash":"1219612173210250963","title":"Eye photoreceptor differentiation and visual perception","description":"The top GO terms are strongly focused on the visual system, including camera-type eye photoreceptor cell differentiation and visual perception, indicating the proteins cluster around photoreceptor development and eye function. Other terms like receptor internalization and lysosome localization may reflect general cellular trafficking in retinal cells but do not override the primary theme of photoreceptor/eye biology.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061462","count":2},{"id":"GO:0007601","count":2},{"id":"GO:2001046","count":2},{"id":"GO:0060219","count":2},{"id":"GO:0031623","count":2}]},{"hash":"1239257881779606886","title":"Proteasome-Driven Antigen Presentation","description":"The terms point to a module where ubiquitin-proteasome\u2013mediated proteolysis and endopeptidase activity feed into antigen processing and presentation (MHC I) and related immune signaling (T cell receptor pathways). Despite some plant stress terms and obsolete annotations, the core pattern centers on proteasome function linked to immune processing and activation.","confidence":"Medium","size":7,"edges":16,"triangles":20,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051437","count":3},{"id":"GO:0010363","count":3},{"id":"GO:0010043","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0050852","count":3}]},{"hash":"897103743959978919","title":"Neural and Muscular Development Signaling","description":"The top terms cluster around nervous system and muscle development and signaling, including peripheral nervous system development, myelination, myoblast differentiation, and smoothened signaling, plus calcium handling and cardiac action potential regulation. There are additional terms related to bone ossification and immune signaling that are less tightly connected, suggesting broader developmental signaling roles, but the core theme appears to be neural/muscular development pathways.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0042552","count":2},{"id":"GO:0007224","count":2}]},{"hash":"1669790492719908085","title":"RNA processing and translation initiation","description":"GO terms cluster around RNA maturation (splicing, export, polyadenylation) and translation initiation (preinitiation complex, eIF4F assembly, IRES). This suggests the proteins coordinate RNA processing with translation initiation, justifying the label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0031047","count":3}]},{"hash":"47437092728504552","title":"Cytokine signaling and neutrophil homeostasis","description":"The cluster is driven by terms related to cytokine production and immune signaling (IL-2, IL-5, type II interferon) and responses to GM-CSF, combined with neutrophil homeostasis. While a few terms touch on cardiac muscle regulation, the strongest and most coherent signal is cytokine-mediated immune activity and neutrophil maintenance, suggesting a theme around inflammatory signaling and innate immune regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":2},{"id":"GO:0032754","count":2},{"id":"GO:1901898","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0010754","count":2}]},{"hash":"871994431883589730","title":"Ubiquitin-Mediated Histone Modification and Signaling","description":"The cluster\u2019s top GO terms center on ubiquitin-dependent protein degradation and multiple histone modifications (histone ubiquitination, H4-K16 acetylation, H4-K20 methylation), with a note on NF-kappaB signaling and dosage compensation. This points to a cohesive theme where ubiquitination regulates chromatin state and signaling pathways.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0070512","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0070535","count":4},{"id":"GO:0036205","count":4}]},{"hash":"1378956821053159845","title":"Neural signaling and memory","description":"Several terms point to nervous system functions, including long-term memory, visual perception, calcium ion transport (critical for neuronal signaling), and response to amphetamine (dopaminergic/drug response). Negative regulation of protein kinase activity and DNA binding regulation likewise touch on signaling control. Although there are a few outliers (e.g., glycogen catabolism and muscle-related regulation terms), the overall theme centers on neural signaling, perception, and memory, suggesting these proteins function in neural activity and information processing.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0005980","count":4},{"id":"GO:0007616","count":4},{"id":"GO:0006816","count":4},{"id":"GO:0001975","count":4},{"id":"GO:0006469","count":3}]},{"hash":"435073988056873233","title":"Lipid biosynthesis and metabolism","description":"The top GO terms cluster around lipid-related biosynthetic and metabolic processes, including cholesterol biosynthesis via lathosterol, fatty acid biosynthesis, ergosterol biosynthesis, ether lipid metabolism, and sphingolipid (mannosyl-inositol phosphorylceramide) metabolism. While a few terms are unrelated annotations, the dominant pattern is lipid production and processing, suggesting the proteins participate in lipid biosynthesis pathways. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":1},{"id":"GO:0046685","count":1},{"id":"GO:0052046","count":1},{"id":"GO:0033490","count":1},{"id":"GO:0006633","count":1}]},{"hash":"1379605119165081778","title":"Synaptic vesicle exocytosis and SNARE assembly","description":"The cluster shows strong enrichment for terms related to neurotransmitter release, including vesicle priming, exocytic insertion into the postsynaptic membrane, vesicle fusion via SNARE complexes, and spontaneous secretion, indicating a core role in synaptic vesicle exocytosis. A single outlier term (cornified envelope assembly) is noted but does not dominate the theme.","confidence":"High","size":7,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903422","count":3},{"id":"GO:2000010","count":3},{"id":"GO:0098967","count":3},{"id":"GO:0010807","count":3},{"id":"GO:0061669","count":3}]},{"hash":"554975787748564052","title":"Xenobiotic and vitamin transporter proteins","description":"The strongest signals are transmembrane transport functions for xenobiotics and vitamins (e.g., xenobiotic transmembrane transport and vitamin transmembrane transport), with additional related export activities. This points to a cluster of membrane transporter proteins specialized in moving xenobiotics and vitamins, with some peripheral notes to bacteriocin immunity and mitochondrial peptide export that can accompany membrane-associated processes. ","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":7},{"id":"GO:0035461","count":7},{"id":"GO:0042891","count":5},{"id":"GO:0030153","count":4},{"id":"GO:0090374","count":4}]},{"hash":"223598134767874892","title":"Multisystem Development and Differentiation","description":"The proteins appear linked to broad embryonic development and lineage specification across multiple organs (kidney/urogenital system, heart valves, spinal cord, forebrain, and immune lineages), rather than a single pathway, making this a concise, representative label.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000664","count":6},{"id":"GO:0035799","count":6},{"id":"GO:0021514","count":6},{"id":"GO:0001655","count":6},{"id":"GO:0002572","count":6}]},{"hash":"128271575968558964","title":"Unknown","description":"The terms are highly heterogeneous (peroxisomal import, mitochondrial inner membrane insertion/assembly, endosomal microautophagy, SOS response, heat acclimation, translesion synthesis, and even bacteriochlorophyll biosynthesis), with several obsolete entries, giving no single cohesive function to label the cluster.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001319","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0061738","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0034551","count":1}]},{"hash":"1165974185683336039","title":"Plant glyoxylate cycle metabolism","description":"Based on the prominent GO terms, the cluster centers on the glyoxylate cycle and related C2/C4 metabolic steps (glyoxylate cycle, malate and oxaloacetate metabolism) with links to photorespiration regulation. These indicate a cohesive plant-associated energy metabolism theme, despite some broader nutrient/hypoxia signaling terms. Therefore, a label focusing on glyoxylate cycle and related metabolism best represents the cluster.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0007584","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0006097","count":3},{"id":"GO:0006108","count":3}]},{"hash":"651044629705694382","title":"Diverse organic compound catabolism","description":"The top terms are dominated by catabolic processes for a variety of organic substrates (triglycerides, aromatic compounds, alkaloids, phenylpropionate, xenobiotics), suggesting a function in broad organic matter breakdown. A few terms (endocannabinoid signaling regulation, secondary shoot formation, demethylation) are less clearly connected and may reflect annotation noise, but the core signal points to diverse catabolic metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":2},{"id":"GO:2000124","count":2},{"id":"GO:0019439","count":1},{"id":"GO:0019740","count":1},{"id":"GO:0010223","count":1}]},{"hash":"1372466218361384105","title":"Unknown","description":"The terms span metabolism, immune/stress responses, and epigenetic regulation, with several obsolete GO terms, indicating no single coherent function dominates this cluster. A precise, representative label cannot be confidently assigned based on the current terms.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046653","count":5},{"id":"GO:0051573","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0034720","count":5},{"id":"GO:0042493","count":5}]},{"hash":"1512565772708280517","title":"Flavonoid and lignin biosynthesis","description":"Top GO terms indicate anthocyanin, kaempferol, and quercetin biosynthesis along with lignin metabolism, pointing to a cluster involved in plant phenylpropanoid pathways and secondary metabolite production; some obsolete terms appear as noise, but the core signal centers on flavonoid and lignin biosynthesis. ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":6},{"id":"GO:0009808","count":5},{"id":"GO:0030259","count":5},{"id":"GO:0052697","count":5},{"id":"GO:0033330","count":5}]},{"hash":"546987947348681195","title":"Heat-Responsive Chaperones and Telomere Maintenance","description":"Top GO terms show protein stabilization, refolding, and heat response, indicating chaperone-like activity under stress. Concurrent signals for telomerase-related telomere maintenance, RNA localization to Cajal bodies, and telomere protein localization suggest a link between stress-induced protein quality control and telomere biology during cell division. This cohesive theme justifies a combined label of heat-responsive chaperones with telomere maintenance.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050821","count":4},{"id":"GO:0009408","count":3},{"id":"GO:0032212","count":3},{"id":"GO:1903427","count":3},{"id":"GO:0014823","count":3}]},{"hash":"390035707152440862","title":"Proteostasis and Trafficking Regulators","description":"The cluster centers on processes that manage protein quality and intracellular trafficking, including translation-related components, deubiquitination, deglycosylation, aggresome assembly, and regulation of endocytosis/GPCR internalization. These together suggest a cohesive theme around protein homeostasis and membrane trafficking control.","confidence":"Medium","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:1901340","count":4},{"id":"GO:0010637","count":4},{"id":"GO:0016579","count":4},{"id":"GO:0006517","count":4}]},{"hash":"2138987424354111770","title":"Cell division and RNA processing","description":"The top GO terms include mitotic processes (cell division, mitotic spindle assembly, Okazaki fragment processing in mitotic DNA replication) alongside mRNA splicing via spliceosome, suggesting roles in both RNA processing and cell-cycle progression. Additional terms on COPII vesicle budding and actin filament depolymerization hint at broader cytoskeleton/trafficking involvement during division. Overall, a cell-cycle/RNA-processing cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0040020","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1355341064935838568","title":"Embryogenesis and tissue morphogenesis","description":"The top GO terms span diverse developmental and morphogenetic processes across multiple tissues (pancreas, endocrine system, left-right patterning, placenta/EMT in heart, cartilage, pericardium, cerebellum). The inclusion of regulation of Rho signaling suggests cytoskeletal changes typical of morphogenesis. Together, they indicate a cluster tied to embryonic development and tissue formation rather than a single pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0003323","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060806","count":1}]},{"hash":"561147108793190651","title":"Sphingolipid and Fatty Acid Biosynthesis","description":"Most GO terms in this cluster point to lipid metabolism, notably sphingosine and sphinganine biosynthesis along with unsaturated and monounsaturated fatty acid biosynthetic processes. Although a couple of terms are obsolete or less clearly connected (e.g., mitochondrial complex IV assembly), the dominant signal is lipid biosynthesis, particularly sphingolipid pathways and fatty acid synthesis, which justifies the label. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044130","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0010873","count":1},{"id":"GO:0033561","count":1},{"id":"GO:0046512","count":1}]},{"hash":"576065360982255703","title":"Neural development and ion homeostasis","description":"The top GO terms primarily point to neural development (substantia nigra development, vestibulocochlear nerve formation) and ion homeostasis/transport (calcium to ER, Na+/K+ homeostasis, PKA signaling, and gene expression regulation). An outlier term is lipopolysaccharide biosynthesis, which is not consistent with the neural/theme; overall the cluster seems centered on neuronal development and ionic signaling, suggesting a cohesive functional theme. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010628","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0000001","count":3},{"id":"GO:1903515","count":3}]},{"hash":"967055169946807093","title":"Cell Cycle Control and Chromosome Segregation","description":"The prominent GO terms cluster around cell division processes: G1/S transition, mitotic spindle pole separation, and meiosis-related chromosome pairing, plus general cell division and mitotic/embryonic cell cycles. Although there are a few tissue-development terms, the dominant signal ties to cell-cycle regulation and chromosome segregation machinery, justifying a label centered on that theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0033327","count":4},{"id":"GO:0060153","count":4},{"id":"GO:0060749","count":4},{"id":"GO:0007129","count":4}]},{"hash":"1748722815231950292","title":"Mitochondrial translation and Complex IV assembly","description":"The cluster shows GO terms centered on mitochondria, notably positive regulation of mitochondrial translation and assembly of the mitochondrial respiratory chain complex IV, suggesting a mitochondrial gene expression/assembly function. Other concurrent terms appear unrelated or incidental, so the strongest coherent theme is mitochondrial protein synthesis and Complex IV assembly.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0019236","count":1},{"id":"GO:0007608","count":1},{"id":"GO:0006810","count":1}]},{"hash":"1332869882709604647","title":"Neuronal signaling and axon development","description":"These terms cluster around neuronal signaling and axon-related processes (axon guidance, regulation of postsynaptic potential, GPCR signaling) with additional relevance to mitochondrial calcium regulation, which supports neural activity. A few developmental terms appear but are less central to the cluster\u2019s theme. Overall, the label reflects the main focus on neuronal signaling and axon development.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051560","count":1},{"id":"GO:0036444","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0048681","count":1},{"id":"GO:0042346","count":1}]},{"hash":"103843591543867573","title":"Brain development and glutamatergic synaptic signaling","description":"The top GO terms cluster around neuronal development and synaptic signaling (brain development, glutamatergic transmission, and reelin-mediated signaling), with IP3 biosynthesis reinforcing intracellular signaling relevant to neurons. Less connected terms (ergosterol regulation, egg activation) may reflect broader metabolic annotations or cross-species noise, but the dominant theme is brain development and synaptic communication.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032443","count":2},{"id":"GO:0007343","count":1},{"id":"GO:0032959","count":1},{"id":"GO:0090153","count":1},{"id":"GO:0030948","count":1}]},{"hash":"102097660006292506","title":"Wnt-Hippo signaling and epidermal differentiation","description":"The cluster centers on regulation of Wnt signaling, Hippo pathway, and keratinocyte differentiation, with related links to apoptosis and angiogenesis, pointing to growth control and epithelial remodeling in skin. Immune and metabolic terms are present but less core, making the connection plausible but not perfectly cohesive.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060044","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0030216","count":5},{"id":"GO:0035329","count":5},{"id":"GO:0006915","count":5}]},{"hash":"1271047164002070820","title":"Unknown","description":"The GO terms span peroxisome autophagy, cold/ freezing response, general transport, regulation of hepatic stellate cell activation, hydrogen peroxide catabolism, nitric oxide transport, erythrocyte maturation, blood coagulation, and slow-twitch muscle contraction. These cover diverse biological processes without a single cohesive function or pathway, making a specific, representative label inappropriate.","confidence":"","size":6,"edges":9,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030242","count":1},{"id":"GO:0050826","count":1},{"id":"GO:0006810","count":1},{"id":"GO:2000490","count":1},{"id":"GO:0010942","count":1}]},{"hash":"1848268011383028058","title":"Meiosis-related DNA repair and chromosome dynamics","description":"Top GO terms cluster around meiotic homologous recombination and chromosome pairing (DNA strand invasion, regulation of DSB repair via HR, interstrand cross-link repair, synaptonemal complex assembly) with supporting cell-cycle regulation (spindle assembly checkpoint, protein phosphorylation) and protein interactions. These collectively point to meiosis-associated DNA repair and chromosome dynamics as the cluster\u2019s core function, though some xenobiotic/stress response terms appear peripherally. ","confidence":"High","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042148","count":5},{"id":"GO:0090267","count":5},{"id":"GO:0010569","count":5},{"id":"GO:0007130","count":5},{"id":"GO:1904631","count":5}]},{"hash":"64258069640412316","title":"T cell activation and signaling","description":"The cluster is driven by immune-related GO terms, especially T cell costimulation, regulation of activated T cell proliferation, and negative regulation of CD4+ T cell proliferation, plus positive regulation of STAT tyrosine phosphorylation, pointing to T cell activation and JAK-STAT signaling. Additional terms such as cellular response to virus support an antiviral immune context, though other terms reflect broader cellular stress responses. Overall, the dominant theme appears to be T cell signaling and activation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0098586","count":2},{"id":"GO:0042517","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0031295","count":1}]},{"hash":"1214164571524565275","title":"LPS-TLR9-NF-\u03baB immune signaling in B cells and DCs","description":"This cluster centers on innate immune sensing of lipopolysaccharide and TLR9 signaling, with downstream NF-\u03baB pathways and regulation of dendritic cell cytokine production and B cell proliferation. The inclusion of germinal center formation and xenobiotic response suggests adaptive immune modulation alongside stress-related signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002467","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0030889","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0097192","count":2}]},{"hash":"1140159888962798764","title":"Mitotic spindle assembly and cytokinesis","description":"These proteins cluster around microtubule-based control of cell division: mitotic cytokinesis, division-site positioning, cell cycle progression, microtubule nucleation, and cytoplasmic microtubule organization, including spindle pole body duplication. Some terms like neuron differentiation and interleukin-4 response may reflect broader cytoskeletal roles or dataset noise rather than a core function of the cluster.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":6},{"id":"GO:1902408","count":5},{"id":"GO:0051258","count":5},{"id":"GO:0030182","count":5},{"id":"GO:0043093","count":5}]},{"hash":"2288478219101817256","title":"Eukaryotic translation initiation machinery","description":"The dominant GO terms describe translation initiation and preinitiation complex assembly (including eIF4F complex formation and IRES-dependent initiation), suggesting these proteins function together in initiating mRNA translation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0002188","count":2},{"id":"GO:1902625","count":2},{"id":"GO:1905663","count":2}]},{"hash":"1117042836647556054","title":"Immune signaling and developmental regulation","description":"These proteins show a concentration of immune-related GO terms (cellular response to fungal origin, type I interferon signaling, and Th1 cell lineage commitment) indicating innate/adaptive immune functions. The presence of terms related to MAP kinase and Rho signaling suggests regulation of signaling pathways, which often intersects immune responses. While there are developmental terms (pattern specification, cartilage condensation, parathyroid gland development), the strongest signal centers on immune signaling, supporting a label focused on immune communication with some developmental context.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":6},{"id":"GO:0001502","count":5},{"id":"GO:0010572","count":4},{"id":"GO:0043407","count":3},{"id":"GO:0009952","count":3}]},{"hash":"584656207087743959","title":"Lipid biosynthesis and membrane lipid metabolism","description":"The cluster\u2019s top GO terms cluster around lipid metabolism and membrane lipid synthesis/remodeling, including cardiolipin remodeling, CDP-diacylglycerol and phosphatidylcholine biosynthesis, triglyceride and ether lipid biosynthesis, and platelet activating factor biosynthesis. While a couple terms touch on tissue development, the predominant signal is lipid metabolism and membrane lipid formation, justifying a label focused on lipid biosynthesis. ","confidence":"High","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070236","count":6},{"id":"GO:0035965","count":6},{"id":"GO:0016024","count":6},{"id":"GO:0019432","count":6},{"id":"GO:2001246","count":6}]},{"hash":"2165393176645225242","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006295","count":3},{"id":"GO:0006361","count":2},{"id":"GO:0006296","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0006293","count":2}]},{"hash":"1221094872636436587","title":"Glycosaminoglycan and Sulfate Metabolism","description":"This cluster\u2019s terms are dominated by carbohydrate/glycosaminoglycan-related metabolism (keratan sulfate, dermatan sulfate, N-acetylglucosamine) and sulfate/sugar processing, with additional steroid catabolic processes; translation terms are present but less represented. The strongest cohesion is a metabolic theme rather than a single pathway, so the label reflects a broad metabolic cluster.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070126","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0009812","count":1},{"id":"GO:0018146","count":1},{"id":"GO:0030205","count":1}]},{"hash":"1784693691344728468","title":"Unknown","description":"The top GO terms cover a mix of small-molecule biosynthesis (mycothiol, ectoine, melatonin, N-acetylglucosamine), a catabolic process (putrescine), and protein modification, plus chromatin-related and plant development terms, with some obsolete annotations. This broad, discordant collection shows no single cohesive function or pathway linking the proteins, so a clear, interpretable cluster label cannot be assigned.","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0061606","count":4},{"id":"GO:0017198","count":4},{"id":"GO:0006044","count":4}]},{"hash":"1092768862205749543","title":"Unknown","description":"The terms span insect cuticle development, immune signaling, pain response, and various developmental processes across different tissues, with none forming a single coherent functional theme for the cluster (and some terms are obsolete). Therefore, no clear shared function can be inferred.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0071651","count":1},{"id":"GO:0090501","count":1},{"id":"GO:0048265","count":1}]},{"hash":"596020355377458740","title":"Unknown","description":"The Top Terms are a\u6df7 mixture of obsolete or unrelated GO terms (oxidation-reduction process; L-lysine biosynthetic via aminoadipic acid) plus a spread of unrelated processes (glycogen regulation, meiotic checkpoint signaling, morphine response, DNA damage checkpoint regulation, T cell homeostasis, muscle fiber transition, lipid A biosynthesis, cytokinesis localization). There is no clear shared function or pathway linking these proteins, and no network structure to support a specific label. Therefore this cluster is best described as Unknown. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0005981","count":1},{"id":"GO:0072462","count":1},{"id":"GO:0043278","count":1}]},{"hash":"259767389873749637","title":"Transcription Regulation by Ubiquitin and SUMO","description":"This cluster centers on transcriptional control and post-translational modification, with GO terms for negative regulation of RNA polymerase II transcription, miRNA transcription, sumoylation, and ubiquitination (including K11-linked), as well as proteasomal degradation and cell cycle processes. The common theme is regulation of gene expression through ubiquitin/SUMO pathways and protein turnover, rather than a single structural or metabolic function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0032436","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0010229","count":1},{"id":"GO:0061614","count":1}]},{"hash":"1698701022936873317","title":"Vesicle trafficking and cell division","description":"This cluster is dominated by GO terms tied to intracellular transport and vesicle trafficking (protein transport; retrograde Golgi-to-ER transport; ER-to-Golgi regulation; ribosomal subunit export from the nucleus) alongside cell division processes (mitotic G2 DNA damage checkpoint signaling; cleavage furrow ingression; male meiosis cytokinesis). Although there are a couple differentiation-related terms, they are represented by single entries and do not define the set. Thus the core theme appears to be fundamental transport logistics coupled with division events.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019827","count":1},{"id":"GO:0051151","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0061101","count":1},{"id":"GO:0060628","count":1}]},{"hash":"1274462235574898254","title":"DNA replication and genome maintenance","description":"The cluster is dominated by GO terms for DNA replication, mitotic cell cycle, DNA repair, and centromere/chromatin assembly (e.g., CENP-A containing chromatin assembly), pointing to a core role in genome duplication and chromatin dynamics during cell division. Some terms (peroxisome import, endosomal microautophagy) are less directly linked to nuclear genome maintenance and may reflect broader or ancillary processes. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0006281","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0070414","count":4}]},{"hash":"1209985308251357477","title":"Unknown","description":"Top terms show both animal neural signaling (acetylcholine secretion, neuronal signal transduction, brain development) and plant-specific processes (sieve element differentiation, auxin polar transport), plus general cellular trafficking (protein targeting to ER, endosome-to-vacuole transport). This mix lacks a single cohesive function across all proteins, suggesting no clear shared biological role for the cluster. ","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006465","count":1},{"id":"GO:0045047","count":1},{"id":"GO:0061526","count":1},{"id":"GO:0090603","count":1},{"id":"GO:0008292","count":1}]},{"hash":"1842734848164450903","title":"Inflammation-driven ECM remodeling and angiogenesis","description":"This cluster combines immune-related GO terms (complement activation, leukocyte migration, neutrophil killing, response to LPS) with proteolytic and ECM remodeling processes (plasminogen activation, elastin catabolic) and development/angiogenesis signals (Wnt pathway, biomineral tissue development, positive regulation of angiogenesis).","confidence":"","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0006958","count":2},{"id":"GO:0070946","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0031639","count":2}]},{"hash":"415927541111594172","title":"Histone modification and chromatin regulation","description":"The top GO terms center on histone modifications (methylation and acetylation) and chromatin-related processes like heterochromatin formation and regulation of gene expression, which together indicate epigenetic control of chromatin state and transcription.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036124","count":2},{"id":"GO:0034773","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0000183","count":1},{"id":"GO:0051726","count":1}]},{"hash":"142324225204103356","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0000472","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0000393","count":2},{"id":"GO:0009432","count":2}]},{"hash":"1127912698376265358","title":"Chromatin remodeling and DNA replication factors","description":"The top GO terms cluster around nucleosome mobilization, histone exchange, and DNA unwinding during replication, suggesting proteins involved in chromatin remodeling linked to DNA synthesis. Although several terms are marked obsolete, the consistent theme points to chromatin dynamics accompanying DNA replication and related processes, with additional signals like SOS response and methylation providing peripheral context rather than core function.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":4},{"id":"GO:0032508","count":3},{"id":"GO:0043486","count":3},{"id":"GO:0006306","count":3},{"id":"GO:0009432","count":3}]},{"hash":"128490864632753301","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006537","count":1},{"id":"GO:0006541","count":1},{"id":"GO:0019551","count":1},{"id":"GO:0019552","count":1},{"id":"GO:0072350","count":1}]},{"hash":"345530023723488868","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000472","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0000393","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0001178","count":3}]},{"hash":"271557520878594827","title":"Unknown","description":"This cluster shows a highly diverse set of GO terms spanning chlorophyll biosynthesis regulation, morphine response, histone modification/dephosphorylation, mitotic cell cycle transition, tyrosine sulfation, gluconeogenesis regulation, protein heterooligomerization, gibberellin signaling, and photoreceptor localization, with no clear unifying biological theme. Consequently, there isn't a coherent functional label that accurately represents the cluster.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902325","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0016570","count":2},{"id":"GO:0007091","count":2},{"id":"GO:0006478","count":2}]},{"hash":"592306278695187798","title":"Aminoacyl-tRNA Synthetases","description":"The two strongest terms are methionyl-tRNA aminoacylation and leucyl-tRNA aminoacylation, pointing to enzymes that charge tRNAs with amino acids during protein synthesis. Other terms present appear scattered (including historical histone modification terms), suggesting noise, but the core shared function across these proteins is translation-related aminoacylation. ","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006431","count":2},{"id":"GO:0006429","count":2},{"id":"GO:0002457","count":1},{"id":"GO:0036123","count":1},{"id":"GO:0033169","count":1}]},{"hash":"2284621298491718804","title":"Ribosome biogenesis and ribosomal assembly","description":"This cluster is dominated by GO terms on ribosome biogenesis and assembly, including maturation of LSU rRNA and cytosolic/large subunit ribosome assembly, indicating a cohesive function in ribosome production and maturation. Some unrelated terms may reflect broader annotation, but the ribosome-related terms are the strongest signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0043547","count":2}]},{"hash":"919480860414441551","title":"Microtubule dynamics in mitosis and neuron maintenance","description":"The top GO terms cluster around microtubule-driven processes: mitotic chromosome alignment and centrosome separation reflect mitotic spindle dynamics, while neuron projection maintenance and anterograde dendritic transport point to microtubule-based neuronal structure and transport. This suggests a shared theme of microtubule dynamics supporting both cell division and neuronal morphology/maintenance.","confidence":"High","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007080","count":4},{"id":"GO:0007100","count":4},{"id":"GO:0010938","count":3},{"id":"GO:1990535","count":3},{"id":"GO:0048364","count":3}]},{"hash":"1035677792106365493","title":"Unknown","description":"The terms span insect development (larval cuticle), RNA processing (pre-miRNA processing, splicing, miRNA catabolic), and multiple virus\u2013host interactions (viral release/budding, virion assembly, proviral latency) as well as host-symbiont entry. This broad mix lacks a single cohesive function, so a definite label isn\u2019t identifiable.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":2},{"id":"GO:0031054","count":1},{"id":"GO:1901724","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0000398","count":1}]},{"hash":"170496547083834276","title":"Bacterial symbiosis and host interaction","description":"The top GO terms cluster around symbiosis and host association: symbiont entry into host cell, nodulation, antibiotic biosynthetic process, and cell adhesion, which together point to bacteria engaging with a host and establishing a symbiotic relationship. The neural development terms (axon extension, paranode localization) appear only as minor links and do not define the core theme, so the cluster best matches microbial symbiosis and host interaction. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0048846","count":2},{"id":"GO:0002175","count":2}]},{"hash":"1986296695170907309","title":"RNA methylation and processing","description":"This cluster is driven by several methylation-related terms (guanine-N7 methylation on rRNA and tRNA wobble uridine methylation, N-terminal peptidyl-alanine trimethylation, histone H4-R3 methylation) and an ITS1 RNA processing event, pointing to enzymes involved in RNA maturation and methylation. While a few terms (nodulation, biotin/polyamine biosynthesis) are less related, the dominant theme centers on RNA modification and processing activities. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009877","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0043985","count":1}]},{"hash":"2293382399044292139","title":"Cell Cycle and Multivesicular Body Trafficking","description":"The cluster consistently emphasizes cell division and cell cycle progression (including exit from mitosis) alongside multivesicular body assembly and sorting, which points to ESCRT-mediated vesicle trafficking and autophagy regulation as a core shared function. Peripheral terms such as Hedgehog signaling and mitochondrial permeabilization are less central, but do not override the dominant theme of cell-cycle\u2013coupled MVB/autophagy processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0036258","count":4},{"id":"GO:1902902","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0071985","count":4}]},{"hash":"13774636022746517","title":"Sensory signaling and memory","description":"The proteins are linked to intracellular signal transduction and ion transport, with GO terms for sensory perception (umami taste) and memory (short- and long-term) plus locomotion and lateral line development, suggesting a shared role in neuronal signaling and sensory processing. Some outlier terms (e.g., propylene metabolic process) likely reflect annotation noise, but the dominant theme is neural signaling and sensory function.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":3},{"id":"GO:0018964","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0050917","count":2},{"id":"GO:0000187","count":2}]},{"hash":"1705726751694418090","title":"DNA Damage Repair and Translesion Synthesis","description":"The cluster is dominated by GO terms tied to genome maintenance: DNA-templated DNA replication, nucleotide-excision repair (gap filling), UV-C response, and both error-prone and error-free translesion synthesis. These indicate a cohesive theme of DNA damage recognition, repair, and tolerance, with a few metabolic terms likely incidental. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":2},{"id":"GO:0019491","count":1},{"id":"GO:1902181","count":1},{"id":"GO:0001561","count":1},{"id":"GO:0042400","count":1}]},{"hash":"121130818209431570","title":"Biogenic amine biosynthesis","description":"The top GO terms include norepinephrine biosynthetic process and octopamine biosynthetic process, pointing to biogenic amine production; while other terms touch on metabolism and immunity, the core signal is amine biosynthesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042421","count":2},{"id":"GO:0042309","count":2},{"id":"GO:2001236","count":2},{"id":"GO:0048265","count":2}]},{"hash":"7368639973445834","title":"Mitochondrial redox and iron homeostasis","description":"These proteins cluster around mitochondrial maintenance under oxidative stress: iron ion homeostasis, redox balance, and stress responses, with involved mitochondrial intermembrane space import and autophagy regulation, suggesting a mitochondria-centered redox/iron homeostasis module.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006879","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0016242","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0034599","count":1}]},{"hash":"1827259045115787500","title":"Synaptic signaling and postsynaptic regulation","description":"This cluster is most strongly characterized by terms related to neuronal communication, especially GPCR signaling, regulation of excitatory postsynaptic potential, and neurotransmitter receptor transport to the postsynaptic membrane, suggesting a core theme of synaptic signaling and postsynaptic regulation. Other terms about cell junctions and morphogenesis appear but are less central to the dominant neuronal signaling theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061383","count":4},{"id":"GO:0042176","count":4},{"id":"GO:0090394","count":4},{"id":"GO:0090334","count":4},{"id":"GO:0007186","count":4}]},{"hash":"1138471181085202739","title":"Developmental signaling and cell fate regulation","description":"The proteins cluster around signaling pathways (serine/threonine kinase signaling, tyrosine phosphorylation, PI3K signaling) that control cell fate decisions, with evidence of muscular differentiation, neural development, and hematopoiesis, plus apoptosis regulation. This suggests a theme of developmental signaling guiding differentiation across tissues, with apoptotic control as part of fate decisions, and a metabolic term likely supporting differentiation processes.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045819","count":5},{"id":"GO:0046826","count":5},{"id":"GO:0014835","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0007178","count":5}]},{"hash":"717693600873375377","title":"Unknown","description":"The terms span heart development, glucocorticoid signaling, hypoxia response, pronuclear migration, and plant hormone pathways, with no single unifying function across species. Because of this heterogeneity, there isn't a coherent theme to name the cluster beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061371","count":1},{"id":"GO:0042921","count":1},{"id":"GO:1900037","count":1},{"id":"GO:0035046","count":1},{"id":"GO:2000012","count":1}]},{"hash":"1376414274693553352","title":"Rho signaling in muscle differentiation and heart development","description":"The top GO terms cluster around Rho protein signal transduction and both positive/negative regulation of muscle cell differentiation, plus developmental processes for cardiac ventricle and related tissues. This suggests proteins in a pathway where Rho signaling governs muscle lineage specification and heart-related development, with some broader or outdated terms present as noise.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":2},{"id":"GO:2001015","count":1},{"id":"GO:1904753","count":1},{"id":"GO:0043954","count":1},{"id":"GO:0010735","count":1}]},{"hash":"1251398426271167892","title":"ER Stress, Protein Folding, and Translation Initiation","description":"The cluster centers on endoplasmic reticulum\u2013related stress responses, including protein folding in the ER and regulation/assembly of translation initiation under stress (e.g., IRES-dependent initiation), suggesting a cohesive theme around ER stress and translational control. Some terms are less directly related (hemopoiesis, nuclear export), but the dominant signal points to ER stress response and translation regulation.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046825","count":2},{"id":"GO:0030097","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0036494","count":1},{"id":"GO:0009408","count":1}]},{"hash":"1266961201125776637","title":"NAD/NADP and nucleotide metabolism","description":"This cluster shows enrichment for NADP biosynthesis, NAD+ metabolism, GTP biosynthesis, polyphosphate metabolism, and phosphorylation, pointing to a core theme of cellular energy cofactor and nucleotide metabolism. The other terms (interleukin-4 response, retina development, lymphocyte proliferation) appear less connected and may reflect incidental associations in a small protein set. Overall, the set likely comprises enzymes or regulators involved in cofactor/nucleotide biosynthesis and energy metabolism. ","confidence":"Medium","size":5,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045717","count":2},{"id":"GO:0006741","count":2},{"id":"GO:0006797","count":2},{"id":"GO:0019674","count":2},{"id":"GO:0016310","count":2}]},{"hash":"267288920831137896","title":"Mitochondrial transport and energy metabolism","description":"The top GO terms are centered on mitochondria, including transmembrane transport of coenzyme A and ADP, the malate\u2013aspartate shuttle, iron import into mitochondria, and regulation of mitochondrial membrane permeability, plus apoptotic changes and thermogenesis. This collection points to a cohesive module focused on mitochondrial metabolite transport and energy homeostasis, with supporting signals related to insulin and amino acid starvation responses.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035349","count":3},{"id":"GO:0043490","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0015866","count":3},{"id":"GO:1990845","count":3}]},{"hash":"1085158129091432249","title":"Vesicle trafficking and exocytosis","description":"This cluster's GO terms cluster around vesicle movement, docking, and secretion\u2014Golgi-to-ER transport, intra-Golgi transport, autophagosome docking, and exocytic insertion/degranulation\u2014suggesting a cohesive role in regulated vesicle trafficking and exocytosis. Some terms extend to insulin signaling and lipid transport, reflecting related secretory pathways. Overall, vesicle trafficking/exocytosis is the best representative theme.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043320","count":1},{"id":"GO:0016240","count":1},{"id":"GO:0032869","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0006890","count":1}]},{"hash":"2047344453464911608","title":"Fungal ergosterol and sphingolipid metabolism","description":"Based on GO terms, the strongest signals are lipid-related and specific to fungi: regulation of ergosterol biosynthetic process and metabolism of mannosyl-inositol phosphorylceramide (a fungal sphingolipid), along with unsaturated fatty acid biosynthesis. Other terms appear more peripheral (stress responses, housekeeping), so the core theme is fungal lipid/sterol metabolism rather than general cellular processes.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030091","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0010477","count":1},{"id":"GO:0032443","count":1},{"id":"GO:0001949","count":1}]},{"hash":"444819837849587174","title":"NOD2 signaling and chemokine production","description":"GO terms point to innate immune signaling via NOD2 and regulation of chemokine production (CXCL5, CXCL1), with an inflammatory signaling underpinning (response to pain). Some terms appear peripheral or obsolete, suggesting noise, but the core pattern is immune- and chemokine-related. Confidence: Medium","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":4},{"id":"GO:0071651","count":4},{"id":"GO:0090501","count":4},{"id":"GO:0048265","count":4},{"id":"GO:0003213","count":4}]},{"hash":"2199726963578996647","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904263","count":2},{"id":"GO:0034198","count":1},{"id":"GO:0007293","count":1},{"id":"GO:0030716","count":1},{"id":"GO:0009994","count":1}]},{"hash":"1907025899759882679","title":"Chaperone-mediated proteostasis and microtubule assembly","description":"The cluster\u2019s top GO terms cluster around protein folding, chaperone-mediated complex assembly, cytoplasmic protein quality control, and tubulin/microtubule organization, suggesting a core theme of proteostasis linked to cytoskeletal assembly; a few nuclear processes (splicing, transcription elongation) appear less representative.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":1},{"id":"GO:0043622","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0032968","count":1}]},{"hash":"2223828130922017165","title":"Plant chloroplast gene expression and metal homeostasis","description":"The set includes chloroplast mRNA processing and related metabolic processes (chloroplast mRNA processing, ubiquinone biosynthetic process) alongside several terms tied to metal ion handling (zinc/cadmium transport and homeostasis) and plant development signals (meristem development). The strongest signal is chloroplast-related gene expression/metabolism combined with zinc/cadmium response, suggesting a cluster of plant proteins coordinating chloroplast RNA processing with metal ion regulation. Confidence: Medium","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043086","count":1},{"id":"GO:0006744","count":1},{"id":"GO:0048507","count":1},{"id":"GO:0010239","count":1},{"id":"GO:0080163","count":1}]},{"hash":"852122308189423976","title":"Glycerophospholipid Biosynthesis","description":"The top terms are dominated by glycerophospholipid synthesis: phosphatidylethanolamine, phosphatidylglycerol, and phosphatidylserine biosynthesis, plus related lipid biosynthetic and signaling processes (including platelet activating factor). A couple of minor terms about caste/mating behavior and pigmentation are present but far less represented, so the core theme is lipid (phospholipid) biosynthesis and lipid signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":3},{"id":"GO:0006646","count":3},{"id":"GO:1905711","count":3},{"id":"GO:0006655","count":3},{"id":"GO:0006659","count":3}]},{"hash":"936233672960993692","title":"Hormone-Regulated Development","description":"This cluster shows GO terms pointing to developmental differentiation across tissues (e.g., Leydig cell differentiation, heart cell fate, mammary gland branching) and hormone-related regulation (thyroid hormone receptor signaling, vitamin D metabolism, bile acid biosynthesis, pupariation). The terms span species and organs but share a theme of development shaped by hormonal and metabolic cues, suggesting a cohesive but broad category of hormone-regulated development. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033327","count":2},{"id":"GO:0010980","count":2},{"id":"GO:0035053","count":2},{"id":"GO:0045713","count":2},{"id":"GO:0070859","count":2}]},{"hash":"11731214857455403","title":"Neural development and neuron differentiation","description":"Top GO terms converge on nervous system formation\u2014axon extension, neuron migration, and dopaminergic neuron differentiation\u2014indicating a neural development role. Additional embryonic development terms (organ induction, heart development) suggest broader developmental context, but the strongest signal is neural differentiation.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048675","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0048701","count":2}]},{"hash":"312016332851327459","title":"Neuronal RNA Metabolism and Synaptic Regulation","description":"The top GO terms cluster around mRNA catabolism and deadenylation, mRNA splicing regulation, and translation control at the postsynapse, which together point to post-transcriptional gene regulation in neurons. Additional terms related to dendritic spine development and calcium channel regulation support a neuronal/synaptic functional theme, though some terms reflect broader developmental processes. Overall, the strongest cohesive signal is RNA processing and synaptic regulation in neurons.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0006402","count":1},{"id":"GO:1901386","count":1},{"id":"GO:0099578","count":1},{"id":"GO:2000627","count":1}]},{"hash":"905825900042478083","title":"Unknown","description":"The top GO terms cover translation initiation, ubiquitin-dependent protein turnover, and various immune development processes (T cell, dendritic cell, mast cell, IgE regulation) with no clear single shared function, so a coherent label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0045497","count":2},{"id":"GO:2000176","count":2},{"id":"GO:0072156","count":2}]},{"hash":"1346417092885057229","title":"DDR and Oxidative Stress Response","description":"The cluster shows enrichment for sumoylation, deubiquitination, response to hydrogen peroxide, and DNA damage checkpoint signaling, suggesting a shared role in managing oxidative stress and genome integrity; a few terms are broader regulatory processes but still align with stress response modulation. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0000077","count":2},{"id":"GO:0097536","count":1},{"id":"GO:0002509","count":1}]},{"hash":"157026873714184168","title":"Lipid Homeostasis","description":"Two top GO terms point to triglyceride and cholesterol homeostasis, each with two proteins, suggesting a lipid-regulation theme. Other terms reference ubiquitin-dependent protein catabolic process and various differentiation/development roles, which may reflect annotation noise or pleiotropy. Overall, the strongest coherent signal is lipid metabolism/homeostasis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070328","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0045676","count":1},{"id":"GO:0006511","count":1},{"id":"GO:1903215","count":1}]},{"hash":"77720169755294779","title":"Neural and Retinal Development with Hedgehog Signaling","description":"This cluster centers on neural development and eye formation, with strong signals for CNS axonogenesis and corpus callosum development, plus retinal photoreceptor differentiation. The presence of Smoothened/Hedgehog signaling terms implies a developmental signaling module guiding brain and retina, making the overall theme development of neural and ocular structures.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":2},{"id":"GO:0001655","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0048710","count":2},{"id":"GO:1904238","count":2}]},{"hash":"2189909927794214663","title":"Immune signaling and ER stress response","description":"The set includes immune-related terms (T cell cytokine production, innate immune response-activating signaling, T cell apoptotic process) alongside ER-related protein handling and stress responses (protein retention in ER lumen, protein transport, unfolded protein response regulation via IRE1 and PERK). This suggests a cluster of proteins involved in immune signaling that is closely linked to ER protein processing and stress responses, rather than a single isolated pathway. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002369","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0010204","count":1},{"id":"GO:0070231","count":1}]},{"hash":"1567867483156267783","title":"Flavonoid Biosynthesis and Lignin Metabolism","description":"The top GO terms are dominated by plant secondary metabolism related to flavonoids (anthocyanin, kaempferol, quercetin) and lignin, including glycosylation steps that modify flavonoids. While some terms like cell division appear, the clear grouping around flavonoid biosynthesis and lignin metabolism supports a single functional theme of phenylpropanoid pathway activity and modifications. Confidence: High.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":3},{"id":"GO:0009808","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0052697","count":2},{"id":"GO:0033330","count":2}]},{"hash":"1543160185831082606","title":"Actin Cytoskeleton Dynamics and Endocytosis","description":"The cluster is dominated by GO terms tied to actin-related processes: actin filament organization and assembly (mitotic actomyosin contractile ring, actin cortical patch), regulation of endocytosis and phagocytosis, and calcium-responsive signaling\u2014all of which point to coordinated actin-driven membrane remodeling and trafficking. Some terms about tissue-specific contexts (retina, skeletal muscle) can be downstream effects of actin dynamics, reinforcing the overarching theme of cytoskeletal remodeling and endomembrane activity.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903475","count":4},{"id":"GO:0030100","count":4},{"id":"GO:0000011","count":4},{"id":"GO:0042766","count":4},{"id":"GO:0006348","count":4}]},{"hash":"216251738736409471","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":2},{"id":"GO:0070911","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006296","count":1},{"id":"GO:0070936","count":1}]},{"hash":"2131617518399610663","title":"Unknown","description":"The top GO terms span spermatogenesis, lipoprotein transport, histone methylation, immune response, neural precursor proliferation, hematopoietic differentiation, and mitochondrial electron transport, showing no cohesive functional theme or common pathway connecting the four proteins. With edges and interactions absent, there isn\u2019t a clear singular biological process unifying the cluster, so a specific, representative label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0051573","count":1},{"id":"GO:0032496","count":1},{"id":"GO:2000179","count":1}]},{"hash":"106887417847899121","title":"Ubiquitin-Dependent Protein Catabolism","description":"This cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent protein degradation (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, K63-linked ubiquitination). The inclusion of related processes like cell cycle and peptidyl-prolyl isomerization suggests a broader proteostasis/regulation theme tied to ubiquitin-mediated turnover, rather than a single isolated function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0070534","count":2}]},{"hash":"1415851347454333553","title":"Developmental patterning and signaling regulation","description":"GO terms point to embryonic development across hindbrain, neural crest, cartilage, and heart/eye morphogenesis, with several entries about negative regulation of BMP/TGF-beta signaling. Together they indicate a theme of developmental patterning and organ morphogenesis regulated by signaling pathways, which justifies the name Developmental patterning and signaling regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902879","count":1},{"id":"GO:0030902","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0003183","count":1},{"id":"GO:0071407","count":1}]},{"hash":"1142666647786185774","title":"Unknown","description":"The Top Terms are not provided, so there is no shared functional signal to tie the four proteins together. Without GO enrichment or a clear common theme, the cluster cannot be confidently named beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"414190345540444457","title":"Transmembrane transporters for ions and nutrients","description":"The top GO terms show membrane transport activity across a range of substrates (nitrate/nitrite, sodium/potassium ions, galactose, fucose, xenobiotics, etc.), indicating a cohesive theme of diverse transmembrane transport. The proteins appear related by this shared transporter function, despite no inferred edges in the cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0015757","count":4},{"id":"GO:0015707","count":4}]},{"hash":"1889842580819509748","title":"Neural development and synapse organization","description":"The top terms cluster around neuronal development and synapse formation (neurogenesis, synapse organization, paranode axon localization) with supportive signaling pathways (Hedgehog via smoothened, PI3K/AKT) and behavior. While there are some outliers (urogenital development, NK cell differentiation, pericyte differentiation), the dominant signal points to neural development and synaptic organization.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0044708","count":2},{"id":"GO:0001655","count":2},{"id":"GO:0007224","count":2}]},{"hash":"152534344346536840","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006296","count":1},{"id":"GO:0045007","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0071276","count":1},{"id":"GO:0045008","count":1}]},{"hash":"2169494096348599530","title":"Nuclear RNA Processing & Chromatin Regulation","description":"Top GO terms cluster around nuclear RNA processing (tRNA processing; maturation of SSU-rRNA; deadenylation-dependent decapping; spliceosomal snRNP assembly) and chromatin-related processes (histone mRNA metabolism; pericentric heterochromatin formation; import into nucleus). A secondary signal for P-body assembly and ABA response is less central and may reflect broader RNA turnover or cross-talk, but the dominant theme is RNA maturation linked to chromatin regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":3},{"id":"GO:0051170","count":3},{"id":"GO:0008334","count":3},{"id":"GO:0033962","count":3},{"id":"GO:0000387","count":3}]},{"hash":"2285125362339095469","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0060733","count":2}]},{"hash":"433281468853536321","title":"Viral assembly and chaperone-assisted folding","description":"The top GO terms include viral capsid assembly, virion assembly, and viral release, pointing to a viral life-cycle theme. Additionally, terms related to chaperone-mediated protein folding and response to unfolded protein suggest involvement of chaperone machinery and stress responses during viral protein maturation. The combination of viral assembly processes with chaperone-assisted folding best captures the cluster\u2019s likely shared function, though the mix with general cellular processes moderates certainty.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051085","count":1},{"id":"GO:0019069","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0007049","count":1}]},{"hash":"185341521516800411","title":"Nucleotide metabolism and salvage","description":"The GO terms point strongly to nucleotide biosynthesis and interconversion: ADP biosynthetic process, AMP salvage, nucleoside monophosphate phosphorylation, CDP biosynthetic process, purine ribonucleotide interconversion, and ITP metabolic process. These together define a cohesive theme of nucleotide metabolism and salvage pathways. A few terms related to liver or brain development appear present but are likely incidental or broad annotations and do not outweigh the central nucleotide-focused signals. ","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0046041","count":3}]},{"hash":"849141065848624650","title":"Telomere Localization and Heat Stress Response","description":"The cluster shows a mix of telomere-related terms (telomerase regulation and localization to telomeres) alongside heat response and protein folding terms, suggesting a module where telomere maintenance/localization is linked with stress-induced protein folding and ATP-responsive activities. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":4},{"id":"GO:0032212","count":4},{"id":"GO:1903427","count":4},{"id":"GO:0014823","count":4},{"id":"GO:0051086","count":4}]},{"hash":"1770819994162696579","title":"Facial morphogenesis proteins","description":"The top GO term is face morphogenesis, suggesting these four proteins are involved in the development of facial features. Given the limited hits (one term) and small cluster, the label is tentative but captures the main functional theme.","confidence":"Low","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1}]},{"hash":"640669363558109559","title":"Oxidative Stress Response and Protein Homeostasis","description":"The terms point to a theme centered on cellular responses to oxidative stress (e.g., cellular response to hyperoxia) and mechanisms that maintain protein quality and turnover, including peroxisomal protein import and regulation of ubiquitination. Although several terms are obsolete, the remaining entries collectively suggest a functional cluster tied to managing oxidative stress and proteome integrity, with some links to transcriptional regulation under stress and DNA damage tolerance.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010620","count":4},{"id":"GO:1901487","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0090089","count":4},{"id":"GO:0071455","count":4}]},{"hash":"307217990919158474","title":"Proteasome-Dependent Antigen Processing","description":"The set of terms centers on the ubiquitin-proteasome system (proteasome assembly and degradation) and antigen processing/presentation via MHC I, which together point to a proteostasis-immune module feeding into T cell signaling. Some stress-related terms appear broader, but the core signal is proteasome-driven antigen processing.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051437","count":2},{"id":"GO:0010363","count":2},{"id":"GO:0010043","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1901487210657276818","title":"Calcium ion transport and homeostasis","description":"GO terms heavily emphasize intracellular calcium ion homeostasis and calcium transport (e.g., GO:6874, GO:1903515), with additional signals of broader monoatomic cation transmembrane transport. While a few outliers exist, the dominant pattern indicates calcium handling and ion transport.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":1},{"id":"GO:0006883","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0021650","count":1},{"id":"GO:0030007","count":1}]},{"hash":"762766058377609566","title":"Embryonic Morphogenesis and Patterning","description":"The proteins are annotated with multiple development-centric GO terms across diverse tissues, including mouth roof development, cartilage morphogenesis, CNS and mesoderm development, left-right patterning, and trophoblast differentiation, indicating a shared role in embryonic morphogenesis and tissue patterning.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0035186","count":2}]},{"hash":"256211284263226734","title":"Translation machinery and ribosome biogenesis","description":"Most terms point to translation and ribosome function: mitochondrial translation, ribosomal large subunit assembly, and translational termination. The lone outlier (larval chitin-based cuticle development) may be noise, but the core theme is clearly protein synthesis machinery. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000027","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0006415","count":1},{"id":"GO:0008363","count":1}]},{"hash":"40080201187432764","title":"ER stress response and protein folding","description":"The top GO terms cluster around unfolded protein response, ER stress, and chaperone-dependent protein refolding, with additional signals about regulation of translation initiation under stress. This points to a cohesive module focused on managing misfolded proteins in the ER and coordinating protein synthesis during stress.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0036494","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0006469","count":2},{"id":"GO:2000531","count":2}]},{"hash":"2047910787262525098","title":"Metabolite Transport Across Membranes","description":"The GO terms cluster around transport across membranes for various small molecules (biotin, myo-inositol, glucose, pantothenate) and sodium export, with an additional acetylcholine biosynthetic term. This pattern points to a shared function in membrane-associated transport of metabolites rather than a single substrate, supporting a metabolite transport theme for the group.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902455","count":1},{"id":"GO:0015878","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0015798","count":1}]},{"hash":"1719846133430289970","title":"Axon guidance and neuronal signaling","description":"The GO terms cluster around axon extension, fasciculation, polarity, and neuronal signaling (including GPCR signaling), with additional entries for immune signaling pathways (TLR and cytokine signaling). The strongest common theme is proteins involved in neural development and associated signaling networks rather than a single cohesive function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048681","count":1},{"id":"GO:0042346","count":1},{"id":"GO:0016336","count":1},{"id":"GO:0090394","count":1},{"id":"GO:0048846","count":1}]},{"hash":"759567568419646672","title":"DNA Repair and UV Damage Response","description":"The top GO terms are focused on repair of UV-induced DNA damage (UV-B response, UV-damage excision repair, nucleotide-excision repair, mismatch repair) and DNA damage signaling, indicating a coherent theme of DNA repair pathways activated by UV stress; a few terms mention protein quality control (ERAD, deglycosylation) but do not override the primary repair focus.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010224","count":1},{"id":"GO:0070914","count":1},{"id":"GO:0097466","count":1},{"id":"GO:0031573","count":1},{"id":"GO:0006517","count":1}]},{"hash":"813737265847343488","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":1},{"id":"GO:0048705","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0060733","count":1}]},{"hash":"971421482347907786","title":"Lipopolysaccharide and envelope polysaccharide biosynthesis","description":"The GO terms show several biosynthetic processes tied to lipopolysaccharide (LPS), lipid A, UDP-N-acetylglucosamine, and core region assembly, pointing to a bacterial cell envelope polysaccharide biosynthesis cluster. A few terms like lactose or starch biosynthesis appear; these may be annotation noise, but the core theme is LPS-related envelope biosynthesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005989","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0006535","count":1},{"id":"GO:0019252","count":1},{"id":"GO:0009089","count":1}]},{"hash":"118398469353192608","title":"Unknown","description":"The four proteins are linked to a highly diverse set of GO terms (mitotic cell cycle, nervous system development, endocytic recycling, adherens junction maintenance, and various signaling/regulatory processes), with no clear, single functional theme connecting them. Because the terms span disparate biological areas and the top terms do not converge on one pathway, there is no cohesive function to capture in a label. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0070445","count":1},{"id":"GO:1990126","count":1},{"id":"GO:0034334","count":1}]},{"hash":"549007401769368835","title":"Developmental Regulation and Stress Response","description":"The top GO terms indicate involvement in embryonic/neural development (skeletal system development, forebrain development, neural tube closure) and transcriptional control (DNA-templated transcription) with cell cycle aspects, plus stress/defense signals (ER stress\u2013related apoptosis, cadmium response, defense against Gram-positive bacteria). This suggests a cluster of proteins coordinating developmental gene expression with cellular stress responses, rather than a single narrow function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0001843","count":4}]},{"hash":"1352150877868040750","title":"Nerve development and neuronal excitability","description":"The top GO terms cluster around nervous system development (vestibulocochlear nerve development, optic nerve morphogenesis) and neural activity (action potential, circadian regulation of sleep/wake cycles). A few terms like sodium ion transport and cellular responses to zinc can relate to neuronal signaling but are less central. Overall, the cluster appears to reflect neural development and neuronal signaling rather than a non-neural function.","confidence":"Medium","size":4,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021562","count":3},{"id":"GO:0003428","count":3},{"id":"GO:1905920","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0071294","count":3}]},{"hash":"2128587165555156291","title":"Plant hormone signaling and vegetative development","description":"Based on the GO terms, the proteins cluster around plant hormone responses (abscisic acid, jasmonic acid) and growth/development processes (leaf formation, seed and vegetative growth, secondary cell wall biogenesis) as well as osmotic stress response, suggesting a plant hormone\u2013driven growth/regulation module rather than a single enzymatic activity.","confidence":"High","size":4,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":1},{"id":"GO:0000183","count":1},{"id":"GO:0009737","count":1},{"id":"GO:1903086","count":1},{"id":"GO:0009753","count":1}]},{"hash":"1295174605978669168","title":"Cardiovascular and muscle development pathways","description":"The GO terms show a clear emphasis on heart and vascular morphogenesis (cardiac right ventricle formation, pulmonary artery morphogenesis, cardioblast migration) and skeletal muscle differentiation, with Hedgehog/Smoothened signaling and body morphogenesis terms supporting developmental patterning. Other terms like SREBP signaling and endocrine pancreas development are more peripheral but may reflect broader developmental regulation. Overall, the cluster seems representative of cardiovascular and skeletal muscle differentiation and morphogenesis, yielding a moderate level of confidence.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032933","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0060766","count":3},{"id":"GO:0016360","count":3},{"id":"GO:0007224","count":3}]},{"hash":"512185091594257727","title":"Organ morphogenesis and tissue development","description":"The proteins are linked to organogenesis across multiple tissues (heart, muscle, pancreas, ear, lung, etc.), as shown by several morphogenesis and development terms. Though a couple of signaling terms appear, the prevailing theme is tissue morphogenesis and organ development.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0060766","count":3},{"id":"GO:0003219","count":3},{"id":"GO:0072049","count":3}]},{"hash":"575712874135408144","title":"Metabolic and redox signaling proteins","description":"Based on the top GO terms, the cluster centers on metabolic signaling and redox-related responses (response to glucose, insulin secretion, redox state). There are also proteostasis-related terms (protein refolding, amyloid fibril formation) that suggest broader stress responses, while a couple of terms (\\u200bheart morphogenesis, axon regeneration) seem tangential. Overall, the recurring theme appears to be metabolic signaling coupled with redox-related stress responses.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0003007","count":1},{"id":"GO:0006463","count":1},{"id":"GO:0030073","count":1},{"id":"GO:0035584","count":1}]},{"hash":"1094022166551418550","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K48-linked ubiquitination, and general protein ubiquitination) and autoubiquitination, indicating a common function in tagging proteins for degradation. A few other terms (peroxisome import, growth regulation, X-chromosome inactivation) are present but represent secondary associations; the core theme is ubiquitin-mediated proteolysis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0070936","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0016567","count":2}]},{"hash":"2025099355547448058","title":"Unknown","description":"The GO terms are scattered across signaling, neuronal structure, RNA localization, spindle/checkpoint, and nucleolar localization, with several obsolete entries. There is no single cohesive function that ties the proteins together, so a confident, representative label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007175","count":1},{"id":"GO:0021693","count":1},{"id":"GO:0051237","count":1},{"id":"GO:0090419","count":1},{"id":"GO:0009190","count":1}]},{"hash":"1272215148179691181","title":"Meiotic Chromosome Cohesion and Axis Assembly","description":"The top GO terms are dominated by meiosis-focused processes: meiotic sister chromatid cohesion (centromeric), homologous chromosome pairing at meiosis, and orientation in metaphase I, plus linear element assembly, all pointing to meiotic chromosome cohesion and axis formation. A couple of translation-related terms appear secondary and likely non-representative. Overall, the cluster centers on meiosis-specific chromosome architecture and cohesion rather than general cellular processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031619","count":1},{"id":"GO:0010789","count":1},{"id":"GO:0051754","count":1},{"id":"GO:0061781","count":1},{"id":"GO:0030999","count":1}]},{"hash":"1220236609681721495","title":"Actin Cytoskeleton Remodeling and Endocytosis","description":"The terms cluster around actin-based processes: mitotic actomyosin contractile ring assembly, actin cortical patch assembly, regulation of endocytosis, phagocytosis, vacuole inheritance, and calcium-responsive actin dynamics. This points to a core theme of actin cytoskeleton remodeling linked to vesicle trafficking and endomembrane processes, with some unrelated terms likely incidental given the small cluster size.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903475","count":2},{"id":"GO:0030100","count":2},{"id":"GO:0000011","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0006348","count":2}]},{"hash":"1572094030355678106","title":"Unknown","description":"The top GO terms are highly diverse and include several obsolete terms (e.g., ubiquitin-dependent ERAD, trehalose metabolism, N-linked glycosylation) alongside nuclear processes (CENP-A chromatin assembly, sister chromatid cohesion) and organelle/trafficking activities (peroxisome import, endosomal microautophagy), giving no single coherent theme to label the cluster. Therefore I cannot assign a concise, representative name with confidence.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":2},{"id":"GO:0030433","count":1},{"id":"GO:0070414","count":1},{"id":"GO:0001319","count":1},{"id":"GO:0007062","count":1}]},{"hash":"301930665686084564","title":"Diverse Biosynthetic Pathways","description":"The Top Terms show diverse biosynthetic processes\u2014from steroid and fatty acid elongation to sphingolipid, melanin, retinal/retinoic acid, PHB, and sporulation biosynthesis\u2014no single shared pathway emerges, just a broad theme of biosynthesis across different metabolite classes. This suggests labeling as Diverse Biosynthetic Pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":2},{"id":"GO:0030497","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0006666","count":2}]},{"hash":"364495168824616413","title":"RNA splicing and post-transcriptional regulation","description":"The top GO terms cluster around alternative mRNA splicing regulation via spliceosome, mRNA stability and decay, regulation of translation at synapses, and mitochondrial mRNA polyadenylation. This points to a cohesive theme of post-transcriptional control of gene expression, including RNA processing, turnover, and translational regulation, with some links to neural development. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0010610","count":3},{"id":"GO:0006402","count":2},{"id":"GO:1901386","count":2},{"id":"GO:0099578","count":2}]},{"hash":"1640091009612805771","title":"Proteasome-Dependent Regulation of Neuronal Excitability","description":"The GO terms point to ubiquitin-proteasome\u2013mediated protein turnover (ERAD and proteasomal catabolic process) alongside negative regulation of neural activity (action potential and potassium channels), with supporting hints from axonogenesis and stress responses, indicating a proteostasis-influenced modulation of neuronal signaling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0043433","count":3},{"id":"GO:0034140","count":3},{"id":"GO:0048936","count":3},{"id":"GO:0014889","count":3}]},{"hash":"705062388447700442","title":"Sterol and lipid metabolism","description":"The GO terms are dominated by lipid- and sterol-related processes: bile acid biosynthesis, cholesterol catabolic, oxylipin biosynthetic, and lipid hydroxylation, plus testosterone biosynthesis. These point toward a cohesive theme of sterol and lipid metabolism, with a few peripheral terms (adhesion, stress responses) that are less central to the core function of this cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0031408","count":2},{"id":"GO:0010193","count":2}]},{"hash":"1785053314480824642","title":"Peroxisomal protein import and oxidative stress response","description":"This cluster centers on peroxisomal matrix protein import (GO:0016558) and cellular response to hyperoxia (GO:0071455), suggesting a theme around peroxisome-associated handling of oxidative stress. Other terms touch on proteostasis and DNA damage responses, which can be related under stress conditions, but several entries are obsolete or weakly connected, indicating a mixed signal. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010620","count":3},{"id":"GO:1901487","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0090089","count":3},{"id":"GO:0071455","count":3}]},{"hash":"313456006479509607","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000480","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0032212","count":1},{"id":"GO:0042308","count":1},{"id":"GO:0000122","count":1}]},{"hash":"161485199466658867","title":"Translation Initiation Machinery","description":"This cluster is defined by GO terms centered on the initiation of translation, including IRES-dependent initiation, eIF4F complex assembly, and formation of the translation preinitiation complex, along with translation reinitiation. These collectively indicate proteins involved in assembling and regulating the translation initiation machinery. Some unrelated or obsolete terms related to splicing or regulatory noise appear but do not alter the main theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0002188","count":1},{"id":"GO:1902625","count":1},{"id":"GO:1905663","count":1}]},{"hash":"1379095390882166582","title":"Nuclear import and mitosis regulation","description":"These proteins are linked by GO terms focusing on nuclear import and mitotic processes, including NLS-mediated protein import into the nucleus, mitotic nuclear envelope disassembly, centriole/centrosome-related regulation, nucleus size control, and chromosome alignment during mitosis. This suggests a role in coordinating nuclear transport with spindle/mitotic machinery, rather than a cytoplasmic function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0007077","count":1},{"id":"GO:0043407","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0010930","count":1}]},{"hash":"1872497332900811272","title":"Unknown","description":"The GO terms span disparate processes (cell cycle/division, kinase regulation, muscle development, immune signaling, and even visual perception) with no single dominant function. With no clear shared pathway among the proteins, a cohesive label is not supported. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0050853","count":2},{"id":"GO:1904355","count":2}]},{"hash":"1362019182832534308","title":"Bone Remodeling and Collagen Catabolism","description":"This cluster is defined by GO terms tied to bone biology, notably intramembranous ossification, bone resorption, and collagen catabolic processes, suggesting a cohesive role in bone remodeling and extracellular matrix breakdown. Some terms appear obsolete or non-specific, but the dominant theme points to skeletal metabolism.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":1},{"id":"GO:0010815","count":1},{"id":"GO:0035593","count":1},{"id":"GO:0030574","count":1},{"id":"GO:0051603","count":1}]},{"hash":"1566392590796775013","title":"Lipid and pigment biosynthesis","description":"Proteins in this cluster are linked to a variety of biosynthetic processes, with a noticeable emphasis on lipid-related pathways (fatty acid elongation, sphingolipid biosynthesis, 3-keto-sphinganine metabolism) and pigment/retinoid biosynthesis (melanin, retinal, retinoic acid). This suggests a general role in synthesizing complex lipid or pigment metabolites, despite some peripheral terms like sporulation or oxidation-reduction. Confidence reflects the moderate coherence across multiple biosynthetic themes rather than a single, tight pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":1},{"id":"GO:0030497","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0006666","count":1}]},{"hash":"499520873749526334","title":"Sugar Catabolism and Quorum Sensing","description":"Top terms cluster around diverse sugar catabolic pathways (glycerol, xylose, arabinose, rhamnose, glucuronate) and a quorum sensing term, suggesting a focus on carbohydrate metabolism with potential signaling; an IL-13 response term is less central.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046167","count":3},{"id":"GO:0042355","count":3},{"id":"GO:0019563","count":3},{"id":"GO:0019640","count":3},{"id":"GO:0035963","count":3}]},{"hash":"1622675727792590668","title":"DNA transposition and proviral integration","description":"The top GO terms cluster around genome mobility and integration, notably DNA transposition, DNA integration, and establishment of integrated proviral latency, with supporting cell cycle terms; this points to proteins involved in genome rearrangements and proviral integration rather than other processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007059","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2}]},{"hash":"1982582168821603623","title":"Cell Cycle and Translation Control","description":"The top GO terms cluster around core processes of cell growth: cell division and translation, including initiation of translation under ER stress and centrosome maintenance. While a few terms touch on peripheral signaling or stress responses (UV-A, hormone receptor assembly), the dominant signals point to coordinating cell-cycle progression with protein synthesis. Confidence is moderate because of the mix of terms, but the central theme is clear.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0036494","count":1},{"id":"GO:2000531","count":1},{"id":"GO:0051661","count":1}]},{"hash":"577742383621904684","title":"Unknown","description":"The terms touch immune (plasma cell differentiation, immunoglobulin production), vascular (angiogenesis and endothelial morphogenesis), neuronal development, apoptosis, and respiration, with no clear shared function tying all proteins. Therefore there isn't a confident, representative label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010977","count":1},{"id":"GO:0001937","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0002317","count":1},{"id":"GO:0035990","count":1}]},{"hash":"344709741832061273","title":"Unknown","description":"Top Terms are empty and there are no edges or GO term signals to tie these proteins together. With three proteins and no shared functional annotations, there is no clear common biological role to assign; thus the cluster is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"154950781618560942","title":"Developmental Morphogenesis","description":"The top GO terms point to tissue and organ development and morphogenesis (face development, skeletal system morphogenesis, smooth muscle tissue development, fibroblast migration), suggesting a cohesive theme of developmental processes. While a few terms refer to general cellular machinery (e.g., SRP targeting, ubiquitination) they do not outweigh the developmental signals, so a morphogenesis label is most representative. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071243","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0003016","count":1},{"id":"GO:0060324","count":1}]},{"hash":"504549667519494079","title":"Testis lipid and androgen metabolism","description":"The top GO terms cluster around lipid handling (intracellular cholesterol transport, lipid hydroperoxide transport, fatty-acyl-CoA metabolism) and androgen metabolic processes, with supporting reproductive-tissue terms (Sertoli cell development, germ-line stem-cell niche homeostasis). This points to a theme of lipid/steroid metabolism in testicular/reproductive biology, making this a concise, representative label. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032385","count":1},{"id":"GO:0060009","count":1},{"id":"GO:1901373","count":1},{"id":"GO:0008209","count":1},{"id":"GO:0032150","count":1}]},{"hash":"934251750558168836","title":"Unknown","description":"The Top Terms span mitosis (sister chromatid cohesion), nuclear import (obsolete terms), organelle trafficking (mitochondrion localization via microtubules), and various stress responses (apoptosis, macroautophagy, Golgi regulation), which do not point to a single cohesive function for the cluster. Therefore, a specific, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":1},{"id":"GO:0034087","count":1},{"id":"GO:0044376","count":1},{"id":"GO:1990022","count":1},{"id":"GO:1903526","count":1}]},{"hash":"2166265135074240426","title":"Unknown","description":"The terms cover developmental processes (skeletal system, forebrain, neural tube closure), transcriptional regulation (DNA-templated transcription), cell cycle (mitotic), stress responses (ER stress-induced apoptosis, cadmium ion response), and immune defense, with no single pathway linking the proteins; several terms are broad or obsolete, suggesting no cohesive theme for this small cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0001843","count":3}]},{"hash":"956477629073682944","title":"Unknown","description":"There are 3 proteins but no GO terms provided to reveal a shared function, so a specific label cannot be inferred.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"957676441723087818","title":"T cell Activation and Immune Signaling","description":"This cluster centers on immune modulation, especially T cell differentiation/proliferation (gamma-delta and alpha-beta T cells), inflammatory mediator production (leukotrienes), and responses to innate immune cues like lipopolysaccharide, plus related signaling regulation (MAP kinase). While a few terms are less directly immune-related, the dominant theme is T cell\u2013driven immune signaling and inflammation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045588","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0032959","count":3},{"id":"GO:0043407","count":3},{"id":"GO:0019370","count":3}]}]