[{"hash":"1454473077061874897","title":"Adenylyl Cyclase\u2013Activating GPCR Signaling","description":"The top GO terms are dominated by GPCR pathways that activate adenylyl cyclase (GO:0007190 and GO:0010579) and related cAMP signaling, with downstream associations to prostaglandin responses, blood pressure regulation, and modulation of dopamine signaling and immune cell chemotaxis. While an electron transport chain term appears, the prevailing signal points to GPCR-cAMP\u2013mediated signaling and its vascular, neural, and inflammatory outputs, justifying a label focused on this core pathway.","confidence":"High","size":29,"edges":23,"triangles":0,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":27},{"id":"GO:0045777","count":27},{"id":"GO:0010579","count":27},{"id":"GO:0022900","count":27},{"id":"GO:0071799","count":24}]},{"hash":"131696206684988444","title":"Redox Homeostasis and Glutathione Metabolism","description":"The top GO terms are dominated by cellular oxidant detoxification, redox homeostasis, and glutathione metabolic process, along with toxin/ toxic substance response and aromatic amino acid metabolism. This points to a core theme of managing oxidative stress and detoxification, with some ancillary links to calcium-associated muscle signaling reflected in a few terms. Overall, the cluster appears centered on redox balance and detox pathways.","confidence":"High","size":29,"edges":396,"triangles":3415,"max_degree":28,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0098869","count":18},{"id":"GO:0045454","count":11},{"id":"GO:0055114","count":8},{"id":"GO:0040008","count":8},{"id":"GO:0014810","count":8}]},{"hash":"2109058378105007224","title":"Cerebellar development and glial differentiation","description":"This cluster is strongly enriched for terms tied to cerebellar biology, notably cerebellar cortex formation and Bergmann glial cell differentiation, suggesting a core role in cerebellar neurodevelopment. Additional signaling-related terms (insulin receptor signaling, T cell receptor signaling, ERK cascade regulation) and cell-cycle regulation (negative regulation of cyclin-dependent kinase activity, negative regulation of cell proliferation) indicate broader control of neural/glial differentiation coupled with growth signaling. While there are a few other terms (e.g., protein localization to kinetochore), the cerebellar development theme is the most coherent across the top terms. ","confidence":"Medium","size":29,"edges":400,"triangles":3497,"max_degree":28,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":25},{"id":"GO:0045736","count":25},{"id":"GO:0021697","count":21},{"id":"GO:0048679","count":21},{"id":"GO:2001275","count":21}]},{"hash":"416169216507333981","title":"DNA Damage Response and Repair","description":"The cluster shows strong ties to genome maintenance: base-excision repair, DNA catabolic processes, DNA recombination, and endonucleolytic activities, together with apoptotic signaling and cell-cycle regulation (G1/S transition). Additional enrichment for responses to hydrogen peroxide and xenobiotics indicates a broader DNA damage and stress-response module. This combination points to a coherent theme of preserving genomic integrity under stress.","confidence":"High","size":29,"edges":13,"triangles":2,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0090502","count":5},{"id":"GO:0006310","count":5},{"id":"GO:1900087","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0070301","count":5}]},{"hash":"1134926030158403211","title":"RNA splicing and translational regulation","description":"The top GO terms center on spliceosome-mediated mRNA processing and alternative splicing regulation, combined with miRNA/ncRNA-mediated gene silencing and elements of translation control (eIF4F complex assembly, translation reinitiation, and mRNA stability under stress). This suggests a coherent theme of RNA maturation coupled to translational control, rather than a single pathway, so the label highlights both splicing and translation regulation.","confidence":"High","size":29,"edges":28,"triangles":2,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0035278","count":11},{"id":"GO:0060211","count":11},{"id":"GO:0097010","count":11}]},{"hash":"850863649819714554","title":"Neural development and ubiquitin-mediated regulation","description":"This cluster is dominated by brain-development terms (thalamus and striatum development) and ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination), suggesting a theme of neural development governed by ubiquitin-mediated regulation of protein turnover. Immune-related terms (innate immune response, defense against virus, B cell signaling) appear but are less central to the main signal, indicating some functional overlap but not defining the primary theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021794","count":6},{"id":"GO:0042787","count":5},{"id":"GO:0021756","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1720172183720995094","title":"Fatty acid and steroid biosynthesis","description":"The top GO terms are dominated by lipid and steroid biosynthetic processes, including fatty acid elongation and very long-chain fatty acid biosynthesis, plus testosterone biosynthetic process. This suggests the cluster centers on synthesis of fatty acids and steroid pathways. Some terms relate to cofactor and polymer biosynthesis or stress responses that are less central, but the lipid/steroid biosynthesis signal is the strongest shared theme.","confidence":"Medium","size":29,"edges":32,"triangles":26,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0042619","count":12},{"id":"GO:0045150","count":11},{"id":"GO:0042761","count":11},{"id":"GO:0030497","count":11}]},{"hash":"2114113689040811388","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0042273","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0000465","count":2}]},{"hash":"1374781331494680108","title":"Vascular development and signaling","description":"The top GO terms cluster around endothelial/vascular biology and cell signaling: regulation of Rho signaling and lamellipodium assembly point to cytoskeleton dynamics and cell migration; VEGF response, vasoconstriction, and heart development indicate vascular/cardiovascular development; GPCR signaling and sodium transport regulation fit with endothelial and smooth muscle signaling. A couple of hematopoietic terms (B cell maturation, hemopoiesis) may reflect broader hematopoietic signaling or pleiotropy, but the dominant theme supports vascular development and signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":16},{"id":"GO:0045907","count":15},{"id":"GO:0035924","count":14},{"id":"GO:0002344","count":14},{"id":"GO:0007507","count":13}]},{"hash":"1620925381369373285","title":"Actin Cytoskeleton Remodeling and Cell Signaling","description":"The cluster is driven by strong signals related to actin cytoskeleton dynamics (reorganization, filament polymerization, filopodium assembly) and cell spreading/polarity, with many signaling pathways (small GTPases, T cell receptor, Ephrin, Wnt, PI3K) that regulate these processes, suggesting a cohesive role in actin-driven cell shape changes and adhesion signaling.","confidence":"High","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031532","count":14},{"id":"GO:0071963","count":13},{"id":"GO:1900026","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0050852","count":12}]},{"hash":"2001634643893810454","title":"Proliferation and ubiquitin-proteasome regulation","description":"Top terms cluster around cell growth and division (mitotic cell cycle, cell population proliferation) and ubiquitin-proteasome\u2013related processes (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, K11-linked ubiquitination). Additional signals include insulin signaling, hematopoiesis, and stress/immune-related responses such as ER-stress\u2013triggered apoptosis and GM-CSF signaling, suggesting a broader proliferation and stress-responsive regulatory network. Overall, the cluster appears to reflect proliferation with regulation by ubiquitin-mediated protein turnover.","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:0008283","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0030097","count":3}]},{"hash":"315363887341596860","title":"Neural development signaling via Ephrin and MAPK","description":"This cluster centers on neural development signaling, highlighted by ephrin signaling and Wnt/MAPK pathways, with transcriptional regulation implied by GO terms; phospholipid homeostasis hints at membrane signaling roles.","confidence":"Medium","size":29,"edges":10,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":6},{"id":"GO:0055091","count":6},{"id":"GO:0090051","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0043552","count":6}]},{"hash":"853741397177203495","title":"Neurodevelopment and organ morphogenesis cluster","description":"The top GO terms point to neural development (cranial ganglion development, midbrain dopaminergic neuron differentiation, CNS vasculogenesis) and broad morphogenetic processes (embryonic limb joint morphogenesis, EMT-related regulation, cell migration), plus cardiac electrophysiology regulation. The combination suggests a set of proteins involved in developmental patterning and differentiation across neural, cardiac, and skeletal tissues, with transcriptional regulation and cell-cycle control supporting these processes. ","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":18},{"id":"GO:0061550","count":15},{"id":"GO:0048096","count":15},{"id":"GO:0032471","count":15},{"id":"GO:0022009","count":15}]},{"hash":"1929285901248567034","title":"Development and cell cycle regulation","description":"The top GO terms cluster around mitotic spindle assembly and ubiquitin-proteasome\u2013dependent protein catabolism, protein complex formation, and broad developmental processes (neural tube and brain development, multicellular organism development, TGF-beta signaling). While there is an immune defense term present, the dominant signals point to proteins coordinating cell division with development and signaling, suggesting a cluster of development-, cell-cycle-, and regulation-related components.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0031146","count":8},{"id":"GO:0051260","count":8},{"id":"GO:0070208","count":8}]},{"hash":"308961913193877932","title":"Sphingolipid metabolism and inflammatory signaling","description":"The cluster\u2019s top GO terms cluster around sphingolipid biology\u2014phytosphingosine and sphingosine metabolic/biosynthetic processes and sphingoid catabolism\u2014along with inflammatory and calcium-mediated signaling (inflammatory response; regulation of IL-1 beta production; calcium signaling). While brain development and cortisol biosynthesis appear, the strongest, recurring theme is sphingolipid metabolism coupled with inflammatory signaling, suggesting a functional group focused on lipid signaling and immune modulation.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0046835","count":5},{"id":"GO:2000064","count":5},{"id":"GO:0006671","count":5},{"id":"GO:0046512","count":5}]},{"hash":"952689788207173973","title":"Neural and Pituitary Development","description":"The top GO terms are dominated by pituitary gland development, hypothalamus differentiation, and broad nervous system development (motor neuron axon guidance, peripheral nervous system neuron development), plus inner ear development and locomotory behavior, suggesting a shared developmental program for neural and endocrine tissues. The inclusion of transcription regulation terms indicates gene-expression control during these differentiation processes. Confidence: High","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":14},{"id":"GO:0000122","count":14},{"id":"GO:0007275","count":12},{"id":"GO:0021979","count":12},{"id":"GO:0048839","count":12}]},{"hash":"1760692016868201689","title":"Vertebrate embryogenesis and craniofacial development","description":"The top GO terms focus on embryonic development across multiple tissues (midbrain, pituitary, neural crest migration, palate, primitive streak, semicircular canal) with additional transcription regulation. This suggests a cluster of proteins involved in vertebrate development and gene expression control, rather than a single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0090009","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0048565","count":7},{"id":"GO:0090190","count":7}]},{"hash":"2006362283045023751","title":"Axon guidance and neuronal migration","description":"Most terms point to neural development and pathfinding: axonogenesis, axon guidance, motor neuron migration, and cell-matrix adhesion/receptor clustering, suggesting this cluster centers on neuronal wiring. A few terms (gonad development, platelet aggregation) seem less connected and may reflect broader developmental roles or annotation noise.","confidence":"High","size":29,"edges":73,"triangles":58,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":12},{"id":"GO:0008585","count":11},{"id":"GO:0070527","count":11},{"id":"GO:0097477","count":11},{"id":"GO:0043113","count":11}]},{"hash":"1989340641159396734","title":"Neural Sensory Perception and Behavioral Signaling","description":"This cluster centers on sensory modalities and neural-driven behavioral responses, with GO terms for pain perception, temperature stimulus response, visual perception/learning, prostaglandin signaling, and cocaine-related behavioral effects, complemented by signaling pathways (ERK, Rho) that modulate these processes. The combination suggests a cohesive theme of neural sensory processing and consequent behavioral regulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0071380","count":8},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0070374","count":6}]},{"hash":"678950693522636480","title":"Translation Initiation and RNA Splicing Regulation","description":"The top GO terms are dominated by translation initiation and preinitiation complex formation, including translation reinitiation and IRES-dependent viral translation, with concurrent signals for RNA processing and splicing regulation (splice site recognition, spliceosome-related splicing regulation) and miRNA-mediated translational silencing. This points to a cluster centered on controlling translation initiation together with RNA processing mechanisms. Confidence: High","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002188","count":15},{"id":"GO:0001731","count":15},{"id":"GO:0006376","count":13},{"id":"GO:0075525","count":12},{"id":"GO:0075522","count":12}]},{"hash":"99966754373980619","title":"Cytoskeleton dynamics and intracellular trafficking regulators","description":"The top GO terms emphasize actin cytoskeleton regulation (stress fiber assembly, cytoskeleton reorganization), while also involving Golgi organization and vacuole targeting pathways, suggesting these proteins collectively regulate cell structure, movement, and intracellular transport rather than a single specific pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051496","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0043525","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090263","count":3}]},{"hash":"121247693048434816","title":"Cytoskeleton dynamics and cell polarity","description":"The group is dominated by terms for cytoskeleton dynamics and polarity control (mitotic spindle assembly; actin reorganization; cell shape and polarity maintenance; Rho signaling; actin crosslinking). Some terms reflect fungal reproductive processes (karyogamy, ascospore formation) that also depend on cytoskeletal remodeling, supporting a unifying theme of cytoskeletal regulation and cell polarity.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:0031532","count":7},{"id":"GO:0071963","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0051764","count":6}]},{"hash":"1367042149961834541","title":"Lipid Biosynthesis and Remodeling","description":"The top terms cluster around lipid metabolic pathways, including CDP-diacylglycerol, phosphatidylcholine biosynthesis/remodeling, and ether lipids, as well as related lipid mediators (e.g., platelet activating factor, cutin). Immune-related terms (IL-2 production, T cell death regulation) appear but seem secondary to the lipid-focused processes, suggesting the core theme is lipid biosynthesis and membrane remodeling.","confidence":"High","size":29,"edges":53,"triangles":23,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0010143","count":16},{"id":"GO:0016024","count":16},{"id":"GO:0006663","count":16},{"id":"GO:0008611","count":16},{"id":"GO:0002071","count":16}]},{"hash":"653625632768044679","title":"Developmental Vesicle Trafficking and Cell Adhesion","description":"Based on GO terms, the proteins cluster around membrane trafficking (endosome-to-vacuole transport, general protein transport, lipid tube assembly in organelle fusion) and cell-interaction processes (cell-cell signaling, homophilic adhesion), with strong ties to development (nervous system and lens fiber development) and abscission. This suggests a cohesive theme of vesicle trafficking intertwined with cell adhesion during development, rather than isolated viral-related functions. The label emphasizes the vesicle transport/development axis as representative of the cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0070307","count":2},{"id":"GO:0060989","count":2},{"id":"GO:0007267","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1054128740861849195","title":"Axon adhesion and synapse assembly","description":"This cluster is dominated by GO terms related to neural development and axon organization: positive regulation of synapse assembly, axonal fasciculation, and both homophilic and heterophilic cell-cell adhesion, plus paranodal junction assembly and juxtaparanode region protein localization. While innate immune response and complement activation are also present, the strongest signal centers on neural adhesion and synaptic/axonal junction formation. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":13},{"id":"GO:0007413","count":12},{"id":"GO:0045087","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0006958","count":10}]},{"hash":"71200453595301969","title":"RNA processing and translation regulation","description":"The proteins are enriched for GO terms related to mRNA capping, regulation of translational initiation, eIF4F complex assembly, mRNA splicing, and nonsense-mediated decay, indicating a shared role in post-transcriptional gene expression control. Some terms reflect broader regulatory contexts (e.g., flowering, presynapse assembly) but do not override the central theme of RNA processing and translation regulation. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006370","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0035024","count":3},{"id":"GO:1905537","count":3},{"id":"GO:0008315","count":3}]},{"hash":"437630190180198726","title":"Neural signaling and dopaminergic modulation","description":"The top GO terms point to neuronal signal transduction and GPCR-related regulation, including ERK cascade modulation, GTPase activity, morphine response, prostaglandin signaling, and dopamine receptor signaling with prepulse inhibition. While a few terms are immune or viral-related, the prevailing theme is neural signaling and neuromodulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":14},{"id":"GO:0043278","count":14},{"id":"GO:0033861","count":14},{"id":"GO:0043547","count":14},{"id":"GO:0071799","count":13}]},{"hash":"537444507439278561","title":"Nuclear deubiquitinases and transcription regulation","description":"The cluster is enriched for DNA-templated transcription and mRNA processing, paired with diverse lysine-linked deubiquitination activities (K6, K11, K29, K48, K63). This points to a group of ubiquitin-specific proteases operating in the nucleus to regulate transcription and RNA processing, with some indication of protein quality control pathways, aligning these proteins into a cohesive transcription-focused DUB cohort.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0044313","count":6},{"id":"GO:1904378","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0035523","count":6}]},{"hash":"352779704131295947","title":"Cell cycle and ribosome biogenesis","description":"This cluster\u2019s top GO terms center on cell division, mitotic cell cycle, and ribosome biogenesis/export, with supporting signals from DNA-templated transcription, GTPase regulation, and development/morphogenesis. Together these point to a cohesive module of cellular growth and proliferation machinery, where protein synthesis capacity (ribosome biogenesis) and cell-cycle control co-ordinate growth and division in multicellular contexts.","confidence":"High","size":28,"edges":346,"triangles":2620,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0042254","count":4}]},{"hash":"1991246781297030390","title":"Unknown","description":"The GO terms cover a wide and disparate range of biology (GTPase regulation, dopamine metabolism, DNA replication, GM-CSF response, mitotic chromatid separation, nuclear import, cell migration, phototransduction, and development), with no single dominant function linking them and no edges connecting proteins. This suggests a heterogeneous set rather than a cohesive functional cluster, so a specific label isn\u2019t justifiable.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0042053","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0051306","count":5}]},{"hash":"202594664207085662","title":"Cell Cycle and Development Signals","description":"The top GO terms are dominated by cell division, mitotic cell cycle, and general cell cycle, suggesting a core proliferative program. Ribosome biogenesis and protein homooligomerization support active protein synthesis and complex assembly typical of dividing cells. Developmental (neuron projection, heart development) and immune signaling (B/T cell receptor pathways) terms imply a broader proliferation/differentiation theme across tissues. Overall, the cluster centers on proliferative and developmental signaling rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0051260","count":4}]},{"hash":"1022179683831541524","title":"Axon Node Adhesion and Synapse Assembly","description":"The enrichment of terms like positive regulation of synapse assembly, paranodal junction assembly, and protein localization to juxtaparanode regions of axons, along with homophilic/heterophilic cell\u2013cell adhesion, points to neuronal adhesion and axon\u2013myelin junction organization and synapse formation. While skeletal system development and sarcomere organization appear, the core theme centers on neuronal junctions and synaptic assembly.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":15},{"id":"GO:0001501","count":15},{"id":"GO:0006910","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0048661","count":14}]},{"hash":"831115388250485496","title":"Androgen receptor signaling in prostate development","description":"The cluster is dominated by terms linking steroid hormone receptor complex assembly, prostate gland development, and male sex differentiation, which together point to androgen receptor\u2013driven signaling involved in prostate development and associated cell proliferation (cell cycle, cell division). Some other terms (innate immune response, mitochondrial distribution) may reflect broader cellular functions but do not override the core theme. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0006463","count":4},{"id":"GO:0030850","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0046661","count":4}]},{"hash":"2281261619116555379","title":"Synaptic Receptor Trafficking and Recycling","description":"This cluster centers on neurotransmitter receptor transport from endosomes to the postsynaptic membrane, clathrin coat assembly, and positive regulation of receptor recycling and endocytosis, reflecting a synaptic trafficking theme.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098887","count":2},{"id":"GO:0048268","count":2},{"id":"GO:0007212","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0045807","count":2}]},{"hash":"5960002341700583","title":"Growth Regulation and Signaling Regulators","description":"These proteins appear collectively involved in growth control (cell and organ growth, growth hormone signaling) and in diverse signaling regulation (cAMP response, STAT tyrosine phosphorylation, Rho signaling, ubiquitination), plus a vascular function (endothelial barrier establishment). The cluster thus reflects a regulatory module coordinating growth and signal transduction across multiple pathways, rather than a single cohesive pathway.","confidence":"Medium","size":28,"edges":7,"triangles":0,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001558","count":6},{"id":"GO:0046621","count":6},{"id":"GO:0042518","count":6},{"id":"GO:0060396","count":6},{"id":"GO:0071320","count":5}]},{"hash":"981138648724812419","title":"Neural crest-driven craniofacial development","description":"The cluster shows enrichment for developmental processes tied to neural crest derivatives and craniofacial structures: brain and midbrain development, inner ear formation, palate/roof of mouth formation, cartilage development, and neural crest cell migration. These terms together suggest a role in neural crest\u2013mediated patterning and morphogenesis of craniofacial and sensory structures, with some signals for branching morphogenesis. Overall, the proteins likely participate in transcriptional regulation and execution of neural crest\u2013driven craniofacial development.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0007420","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0048839","count":8},{"id":"GO:0060021","count":7}]},{"hash":"1386166596373694560","title":"Rho GTPase Signaling and Regulation","description":"This cluster centers on small GTPase signaling, especially Rho: regulation and activation of GTPase activity, and small GTPase-mediated transduction. Additional terms point to mechanotransduction and cytoskeletal regulation (cellular response to mechanical stimulus) and signaling modulation (thrombin-activated receptor signaling, negative regulation of kinase activity), with ubiquitination as a regulatory layer. Together, they reflect a cohesive theme of Rho GTPase\u2013driven signal transduction and its regulation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0070493","count":3}]},{"hash":"736212566001790756","title":"Ubiquitin-Mediated Degradation and Signaling","description":"The cluster centers on ubiquitination machinery and its roles in proteolysis (ubiquitin-dependent degradation, ERAD, autoubiquitination) and signaling pathways (NF-kappaB, TNF, necroptosis/apoptosis regulation), reflecting a cohesive theme of ubiquitin-driven protein turnover and stress-response signaling.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:1903378","count":10},{"id":"GO:1903265","count":9},{"id":"GO:0070534","count":9},{"id":"GO:0051865","count":9}]},{"hash":"1116786996674645074","title":"Signaling networks for cell growth and differentiation","description":"This cluster centers on multiple major signaling pathways (Wnt, Ephrin, Hippo, T cell receptor) that regulate cell growth, differentiation, and apoptosis, plus cell cycle and cytoskeletal dynamics. The GO terms suggest a network coordinating proliferation, fate decisions, and structural remodeling across contexts, matching a cell growth and differentiation signaling theme.","confidence":"Medium","size":28,"edges":6,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":22},{"id":"GO:0006915","count":19},{"id":"GO:0043552","count":19},{"id":"GO:0048013","count":19},{"id":"GO:0050852","count":19}]},{"hash":"620203020182992860","title":"Actin Cytoskeleton Dynamics and Rho Signaling","description":"Top terms cluster around actin filament polymerization/organization, regulation of Rho signaling, and centrosome localization, with developmental contexts (heart/uterus development) and a touch of immune response. This suggests proteins involved in cytoskeletal remodeling and related signaling during development.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0009952","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0051660","count":3}]},{"hash":"774413658916031583","title":"Circadian Splicing and Apoptosis Regulation","description":"Top GO terms cluster around circadian rhythm and RNA processing (RNA splicing, spliceosome-mediated regulation, mRNA stabilization) along with apoptotic signaling. This points to a module where circadian control of gene expression is linked to post-transcriptional regulation and apoptosis, possibly through stress-responsive splicing factors. The observed combination suggests a cohesive functional theme rather than random associations.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0007623","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0042753","count":3}]},{"hash":"606838306415929774","title":"Unknown","description":"Top GO terms span neural development (corpus callosum development, positive regulation of synapse assembly) and neurotransmitter signaling (cellular response to dopamine) alongside immune-related processes (innate immune response, defense response to Gram-positive bacteria, lipopolysaccharide-mediated signaling) plus DNA repair and skeletal development. The diversity of functions does not reveal a single coherent biological theme, so a concise, representative label cannot be assigned beyond Unknown.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0061368","count":20},{"id":"GO:0051965","count":20},{"id":"GO:0050830","count":20},{"id":"GO:0022038","count":20},{"id":"GO:0045087","count":20}]},{"hash":"1448790082722141463","title":"MAPK signaling and growth factor responses","description":"This cluster centers on MAPK-related signaling cascades (ERK1/ERK2, p38MAPK) and responses to growth factors and cytokines (FGF, GM-CSF, insulin signaling), suggesting a theme of growth factor\u2013mediated MAPK signaling. A few RNA-processing GO terms appear as minor annotations, but the dominant pattern is signaling pathways.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0034247","count":4},{"id":"GO:0098789","count":4},{"id":"GO:1904628","count":4},{"id":"GO:0070371","count":4},{"id":"GO:0097011","count":4}]},{"hash":"1981283093264080563","title":"Rho GTPase\u2013driven cytoskeletal remodeling","description":"The proteins cluster around Rho-family GTPase signaling and actin-based structures, with terms for regulation of Rho signaling and lamellipodium/filopodium assembly. This points to a module of cytoskeletal remodeling and cell migration coordinated by Rho GTPases, with occasional links to developmental processes such as heart development and hematopoiesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0048009","count":8},{"id":"GO:0043552","count":7},{"id":"GO:0030032","count":7},{"id":"GO:2001275","count":7}]},{"hash":"732688873632119174","title":"Insulin/IGF Signaling and Differentiation","description":"GO terms highlight regulation of insulin receptor signaling and insulin-like growth factor receptor signaling, pointing to growth-factor\u2013driven signaling. Additional terms cover ubiquitin-dependent protein catabolic process, cell division, and Golgi maintenance, implying coordinated protein turnover and trafficking that support signaling and proliferation. Differentiation terms for B cells and vascular smooth muscle, along with remodeling processes, suggest involvement in developmental and lineage-specific differentiation. The broad mix indicates a general theme of growth-factor signaling connected to differentiation and proliferation rather than a single pathway; thus the label is a reasonable best-fit with Medium confidence.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070893","count":2},{"id":"GO:0035886","count":2}]},{"hash":"582020130920232453","title":"Embryogenesis and Tissue Morphogenesis","description":"The proteins are enriched for diverse developmental GO terms spanning embryonic development, placental/trophoblast differentiation, left-right patterning, cartilage and tissue morphogenesis, EMT during heart development, endocrine system development, and neuromuscular junction formation, indicating a broad role in embryonic development and tissue organization rather than a single specific pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003198","count":3}]},{"hash":"483942095430618352","title":"Synaptic signaling and spine remodeling","description":"The top GO terms cluster around neuronal synapses: regulation of Rho/GTPase signaling and actin cytoskeleton dynamics drive dendritic spine morphogenesis; exocytosis relates to neurotransmitter release; and terms like synapse structural plasticity and excitatory postsynaptic potential point to plastic changes at excitatory synapses. Together, these indicate a coherent theme of synaptic signaling coupled with spine remodeling and plasticity.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0060997","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0035176","count":3}]},{"hash":"2188279210816768504","title":"Ubiquitin-dependent turnover and transcription regulation","description":"Proteins in this cluster prominently feature ubiquitin-dependent protein catabolic processes and regulation of DNA-templated transcription (including ERAD-related terms), suggesting a core theme around protein quality control coupled to gene expression control. Additional terms point to cell division, protein oligomerization, and various stress-related responses (interferon signaling, metal ion responses) and cilium assembly, which may reflect contextual roles or co-regulated processes rather than a single, tight pathway. Given this mix, the clearest common thread is a connection between ubiquitin-mediated turnover and transcriptional regulation, with some noncanonical or secondary associations. This makes the proposed label a concise representation, though acknowledging some terms may reflect broader cellular stress or cellular architecture roles. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0035457","count":2}]},{"hash":"1805063417238361055","title":"ECM Remodeling and VEGF-Integrin Signaling","description":"The terms cluster around extracellular matrix remodeling (collagen fibril organization, collagen biosynthetic process), cell-ECM adhesion (integrin-mediated signaling, cell-cell adhesion mediated by integrin), and vascular signaling (VEGF pathway regulation and HGF receptor signaling). The ovarian ovulation term also ties to ECM remodeling and vascular changes. Together these indicate a cohesive theme of ECM remodeling linked to VEGF/integrin\u2013mediated signaling controlling angiogenesis and tissue restructuring.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900748","count":15},{"id":"GO:0032331","count":15},{"id":"GO:0030199","count":11},{"id":"GO:0033631","count":11},{"id":"GO:1902203","count":10}]},{"hash":"137907841454686890","title":"Small GTPase\u2013mediated cytoskeleton remodeling","description":"The top terms emphasize Rac/Rho and Rap signaling, and actin cytoskeleton organization, indicating a cohesive role for small GTPases in cytoskeletal dynamics. Related terms like Golgi localization and morphogenesis (endothelial tube lumen extension, cochlea development) further support a theme where cytoskeletal signaling drives trafficking and development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":4},{"id":"GO:0045671","count":4},{"id":"GO:0051683","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0019933","count":4}]},{"hash":"189529434046792579","title":"Neuronal signaling and sensory processing","description":"The cluster is enriched with terms tied to auditory/mechanical stimulus detection, ion channel\u2013mediated transport (K+ and Na+), excitatory postsynaptic potentials, and GABA signaling, along with behavior-related terms like locomotion and conditioned taste aversion. This combination points to proteins involved in neuronal excitability and synaptic communication, i.e., sensory processing and neural signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0035725","count":12},{"id":"GO:0060079","count":12},{"id":"GO:0001661","count":12}]},{"hash":"1798326418843058150","title":"Neuronal signaling with complement and coagulation","description":"This cluster is dominated by neural-related terms such as neuropeptide signaling and clustering of voltage-gated sodium channels, with additional immune/hemostasis terms like complement activation and blood coagulation, plus cell adhesion and some developmental terms. The proteins may participate in both neural signaling and extracellular/immune interactions, suggesting a multi-function theme rather than a single clean process. However, the mix is not tightly cohesive, so the label reflects multiple related functions rather than one specific pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007218","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0045162","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0014068","count":4}]},{"hash":"706114767096526249","title":"Endosome trafficking and small GTPase signaling","description":"The top GO terms point to endosome organization and lipid transport between ER and Golgi, plus signaling pathways driven by small GTPases (Ras and Rho) and TORC2. This suggests a cohesive function in endomembrane trafficking coupled with cytoskeletal signaling, rather than disparate processes. Some terms (like heart development) are broader or less central, but the core cluster appears to revolve around vesicle trafficking and Ras/Rac/Rho\u2013TORC2\u2013related signaling networks.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007032","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0038203","count":3},{"id":"GO:0035621","count":3},{"id":"GO:0045725","count":3}]},{"hash":"1642960825938208803","title":"Neural signaling and drug responses","description":"This cluster centers on neural processes: dopaminergic synaptic transmission, visual perception/learning, and behavioral responses to drugs (morphine, cocaine), plus ERK signaling in the brain and related sensory experiences. While a few terms touch broader physiology (e.g., brain RAS), the dominant theme is neural signaling and associated drug- and reward-related behaviors.","confidence":"High","size":27,"edges":177,"triangles":469,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":24},{"id":"GO:0002035","count":24},{"id":"GO:0008542","count":24},{"id":"GO:0043278","count":24},{"id":"GO:0019233","count":24}]},{"hash":"424389261243937958","title":"GPCR-cAMP-ERK Signaling and Prostaglandin Response","description":"This cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling, activation of adenylate cyclase, and ERK1/2 cascade regulation, plus cellular responses to prostaglandin E stimulus, pointing to a coherent GPCR-cAMP-ERK signaling axis with prostaglandin involvement. Some terms on pain perception and blood pressure reflect related physiological effects of this signaling, though a few items (e.g., electron transport) are less directly connected. Overall, the core theme is GPCR-mediated signaling affecting ERK and prostaglandin pathways.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":15},{"id":"GO:0070374","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14}]},{"hash":"1616331937342049807","title":"Ubiquitin-Mediated Degradation and Deubiquitination","description":"This cluster is dominated by terms tied to ubiquitin biology: ubiquitin-dependent protein catabolic processes and deubiquitination across different linkages (K48, K63, K6), and regulation of ubiquitin ligase activity, pointing to proteostasis and protein turnover. The inclusion of histone-specific deubiquitination and related chromatin marks (e.g., H3-K4 methylation) suggests chromatin remodeling roles that interface with transcription. Together, these terms indicate a cohesive theme around ubiquitin cycling, proteostasis, and chromatin-associated regulation by deubiquitinases.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071108","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0070537","count":4},{"id":"GO:1904667","count":4}]},{"hash":"268956513649429912","title":"Lymphocyte development and immune signaling","description":"The top GO terms cluster around lymphocyte formation and function (B cell affinity maturation, hemopoiesis, NK T cell differentiation, IL-7 response, IL-4 production) and include key signaling pathways (Rho and Rac cytoskeletal signaling, IGF receptor signaling), with additional immune-regulatory processes such as microglial migration. This points to a group of proteins involved in immune cell development and signal transduction, rather than a single metabolic or structural function. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":22},{"id":"GO:0002344","count":21},{"id":"GO:0048009","count":20},{"id":"GO:1904140","count":20},{"id":"GO:0030097","count":20}]},{"hash":"1476504861772742493","title":"Fatty acid metabolism and transport cluster","description":"The top GO terms are dominated by fatty acid metabolic processes (medium-, long-, very long-chain) and fatty acid import, indicating a lipid metabolism-focused cluster; a few peripheral terms (siderophore/phenylpropanoid metabolism, neuron migration, seed germination, platelet aggregation) do not override the main signal.","confidence":"High","size":27,"edges":293,"triangles":1735,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036112","count":11},{"id":"GO:0097477","count":10},{"id":"GO:0070527","count":10},{"id":"GO:0019290","count":10},{"id":"GO:0010030","count":10}]},{"hash":"487066628362966635","title":"Ubiquitin-dependent endocytosis and protein turnover","description":"The terms point to ubiquitin-mediated control of membrane trafficking and degradation (monoubiquitination, ubiquitin-dependent endocytosis, MVB sorting) and regulatory effects on signaling pathways (TGF-beta/SMAD) and surface protein localization. Additional terms touching mating-growth signaling and lipid biosynthesis regulation support a broader context of ubiquitin-regulated trafficking and protein turnover. ","confidence":"High","size":27,"edges":315,"triangles":2157,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030512","count":15},{"id":"GO:0045723","count":10},{"id":"GO:0006513","count":10},{"id":"GO:0030579","count":10},{"id":"GO:0043162","count":10}]},{"hash":"1485271815719523265","title":"Embryonic Development and Organ Morphogenesis","description":"This cluster\u2019s terms are heavily centered on developmental processes across multiple organs and tissues (midbrain, pituitary, gonads, pancreas, inner ear structures, neural crest migration, ureteric bud branching, etc.), indicating a shared theme of embryonic development and morphogenesis rather than a single tissue-specific function. The negative regulation of transcription by RNA polymerase II also aligns with regulatory programs active during development. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":10},{"id":"GO:0021983","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0090190","count":6}]},{"hash":"2076633417974713638","title":"Neuronal signaling and brain development","description":"The cluster shows strong enrichment for neural-related processes: synaptic vesicle exocytosis, ERK signaling, axon guidance (Roundabout), Wnt signaling, and nervous system/brain development terms. This cohesive set points to neuronal signaling and brain development as the core theme of the cluster, despite a few outlier terms. ","confidence":"High","size":27,"edges":98,"triangles":57,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":12},{"id":"GO:2000300","count":12},{"id":"GO:0010796","count":12},{"id":"GO:0070374","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1417560164724419746","title":"Diverse Catabolic and Detoxification Pathways","description":"The top GO terms are dominated by catabolic processes across a range of substrates (cellulose, chlorophyll, formaldehyde, diacylglycerol, beta-ketoadipate) and include detoxification and stress-related responses (oxidant detoxification, glucocorticoid response). Although some terms are biosynthetic or other processes, the prevailing pattern is metabolism via diverse catabolic pathways and associated detoxification, suggesting a cluster centered on broad substrate degradation and defense against reactive compounds.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0046340","count":4},{"id":"GO:0042136","count":4},{"id":"GO:0051301","count":3}]},{"hash":"1586046389786435106","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"The cluster is dominated by ubiquitination-related terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination) together with innate immune/defense terms (innate immune response, defense response to virus) and NF-\u03baB signaling terms. This points to a cohesive theme of ubiquitin-mediated regulation of antiviral innate immunity and NF-\u03baB pathways, with vitamin D response as a modulatory context.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0033280","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0051607","count":9}]},{"hash":"1449900715634373777","title":"Developmental signaling and chromatin regulation","description":"This cluster shows enrichment for apoptotic signaling, Notch pathway regulation, bone development, and receptor clustering, plus chromatin-related terms (histone methylation marks). The combination suggests proteins involved in coordinating developmental signaling with epigenetic regulation, spanning cell division, germ cell differentiation, and tissue development. Some terms are flagged obsolete, but the core theme remains developmental signaling intertwined with chromatin state.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097190","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0043113","count":5},{"id":"GO:0061188","count":4},{"id":"GO:0045746","count":4}]},{"hash":"1659636937497561201","title":"Metabolic signaling enzymes","description":"The top GO terms mix signaling regulation (positive regulation of GTPase activity; phosphorylation/dephosphorylation) with metabolism and cofactor biosynthesis (transsulfuration, phenylalanine catabolic process, molybdenum cofactor biosynthetic process) and redox homeostasis. This suggests enzymes involved in both signaling regulation and metabolic pathways rather than a single cohesive function, so a broad label like \"Metabolic signaling enzymes\" is appropriate. Some development and cell cycle terms may be incidental.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006559","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0045454","count":2}]},{"hash":"195072854869249060","title":"Neural development and synaptic plasticity","description":"This cluster centers on neural functions: memory, visual perception, substantia nigra development, and regulation of synaptic plasticity, plus ryanodine-sensitive calcium-channel activity and kinase regulation. The recurring GO terms suggest proteins involved in neuronal signaling, brain development, and synaptic regulation. Some outliers (ascospore formation, vascular branching) likely reflect annotation noise rather than a true functional theme. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060316","count":5},{"id":"GO:2001015","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0007613","count":5}]},{"hash":"666751443351339902","title":"Developmental Transcription and Membrane Transport","description":"The top GO terms point to developmental processes (brain development, multicellular organism development, skeletal morphogenesis) and transcription (DNA-templated transcription), indicating the proteins participate in developmental programs and gene expression. The membrane transport terms (potassium ion transmembrane transport, xenobiotic and vitamin transport) suggest transporters or channels involved in shaping the cellular environment during development or signaling. The inclusion of cytokine production in inflammatory response and mitotic spindle assembly adds aspects of tissue remodeling and cell division common in development. Overall, the cluster seems to combine developmental regulation with transport/signaling functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0048705","count":4},{"id":"GO:0071805","count":4}]},{"hash":"127767121570687838","title":"Translation Initiation and Cell Cycle Regulation","description":"The top GO terms show a strong emphasis on translation initiation, with multiple terms for translation reinitiation and preinitiation complex formation. In addition, there are several mitosis-related terms (spindle orientation, mitotic cell cycle) that suggest a link between translation control and cell cycle progression. While other terms (vesicle transport, transcription) appear, the most cohesive theme centers on translation initiation and its connection to cell-cycle regulation.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002188","count":11},{"id":"GO:0051016","count":11},{"id":"GO:0001731","count":11},{"id":"GO:0043547","count":10},{"id":"GO:0007568","count":9}]},{"hash":"126754148590353702","title":"Developmental morphogenesis and neurodifferentiation","description":"The cluster\u2019s GO terms cluster around development and morphogenesis across species, including neuronal differentiation (midbrain dopaminergic neuron differentiation, ventral spinal cord interneuron specification), germline/morphogenesis processes (pole plasm oskar mRNA localization, eclosion), plant ovule morphogenesis, cell-matrix adhesion, and actin cytoskeleton regulation. Together they point to proteins involved in developmental programs and tissue morphogenesis with cytoskeletal remodeling.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010735","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0048482","count":6},{"id":"GO:0030835","count":6},{"id":"GO:0030579","count":6}]},{"hash":"1242614121242416654","title":"Fatty Acid Biosynthesis and Lipid Metabolism","description":"The strongest signals are fatty acid metabolism: very long-chain fatty acid biosynthesis and fatty acid elongation, with poly-hydroxybutyrate biosynthesis also present, pointing to lipid biosynthesis as the core theme. Some outlier terms (acetoin catabolic process, hormone biosynthesis, lung development, antibiotic/methotrexate responses) suggest broader metabolic or stress-related roles but do not define the cluster. Therefore, Fatty Acid Biosynthesis and Lipid Metabolism is a suitable label.","confidence":"Medium","size":27,"edges":179,"triangles":514,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045150","count":27},{"id":"GO:0042761","count":27},{"id":"GO:0055114","count":27},{"id":"GO:0030497","count":27},{"id":"GO:0061370","count":27}]},{"hash":"2017816573397063222","title":"Neural development and axon guidance","description":"This cluster is enriched for neural development and connectivity terms, notably axon guidance (GO:0007411), myelination (GO:0042552), and positive regulation of synapse assembly (GO:0051965), with supporting ERK signaling (GO:0070374) and Rho-mediated cytoskeletal regulation (GO:0035023). These together suggest a theme of neural development and neuronal connectivity, including associated signaling pathways. While immune-related terms (chemokine production, IL-1 signaling) and other developmental processes appear, the dominant pattern points to neural development and axon guidance.","confidence":"Medium","size":27,"edges":34,"triangles":1,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0035023","count":6},{"id":"GO:0007411","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0002551","count":6}]},{"hash":"1858780903710974702","title":"Rho GTPase signaling with cytoskeleton and endosomal trafficking","description":"The cluster combines terms for Rho/small GTPase\u2013mediated signaling, actin cytoskeleton dynamics, and endosome-to-lysosome transport, with supporting roles for ubiquitination and gene expression regulation. This points to a cohesive module coordinating cytoskeletal remodeling with vesicular trafficking, particularly endosomal transport, during cell cycle and membrane homeostasis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0010628","count":3},{"id":"GO:0016567","count":3}]},{"hash":"403166461894782688","title":"mRNA processing and translation regulation","description":"The cluster shows strong enrichment for splicing-related terms (spliceosome, regulation of mRNA splicing, alternative splicing), mRNA stability and polyadenylation regulation, and translation initiation/reinitiation (eIF4F complex assembly, translation initiation). This points to a cohesive post-transcriptional gene expression module coordinating RNA processing with translation control, especially under stress.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":26},{"id":"GO:0006378","count":14},{"id":"GO:0045292","count":14},{"id":"GO:0035278","count":13},{"id":"GO:0048026","count":13}]},{"hash":"962033697488418148","title":"Fatty acid oxidation and lipid metabolism","description":"The majority of top GO terms center on fatty-acyl-CoA biosynthesis and fatty acid catabolism (long-chain and medium-chain) as well as beta-oxidation, indicating a lipid-energy metabolism theme. Peripheral terms like heart development and response to cold can reflect metabolic regulation in energy-demanding contexts, but do not outweigh the lipid metabolism signal. Some terms are obsolete or less connected (ascaroside biosynthesis, aromatic compound catabolic process). Overall, this cluster seems to group proteins involved in fatty acid breakdown and related lipid metabolism.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0007507","count":4},{"id":"GO:1904070","count":3},{"id":"GO:0046949","count":3},{"id":"GO:0042758","count":3}]},{"hash":"594392722823934805","title":"Sensory and neural development","description":"Based on the top GO terms, the cluster is dominated by developmental processes related to sensory organs and neural tissue (sensory perception of sound, lens fiber morphogenesis, optic nerve morphogenesis, sympathetic nervous system development), with additional cellular processes like spindle assembly and protein tetramerization. While there are some outliers (heart development), the central theme is sensory/neural tissue development.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0048485","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0051262","count":3}]},{"hash":"34111563493128223","title":"Neuronal Ubiquitin-Proteostasis and RNA Processing","description":"The top terms point to ubiquitin- and sumoylation-related protein modification and turnover (protein sumoylation, ubiquitin-dependent ERAD, deubiquitination), along with regulation of proteolysis and RNA processing/localization (miRNA processing, RNA maintenance). The inclusion of plus-end-directed vesicle transport and cerebellar Purkinje cell layer structure suggests a neuronal context with coordinated protein quality control and RNA metabolism, including trafficking in Purkinje neurons. Overall, this cluster likely represents neuronal ubiquitin-proteostasis coupled to RNA processing pathways.","confidence":"High","size":26,"edges":284,"triangles":1780,"max_degree":25,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:0010950","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0034727","count":4},{"id":"GO:0016579","count":4}]},{"hash":"2000842585216805153","title":"Neuronal signaling and sensory perception","description":"This cluster shows enrichment for membrane excitability and signaling (potassium transport, resting membrane potential regulation, membrane repolarization) alongside signaling cascades (ERK1/2). It also includes sensory-related terms (visual perception and visual learning, pain perception) and immune-modulatory responses (response to dsRNA, prostaglandin stimulus) that can influence neuronal signaling. Taken together, these terms point to proteins involved in neuronal signal transduction and sensory processing, with inflammatory signals potentially modulating them.","confidence":"Medium","size":26,"edges":240,"triangles":1113,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071333","count":17},{"id":"GO:0043330","count":17},{"id":"GO:0006813","count":12},{"id":"GO:0098914","count":12},{"id":"GO:0060075","count":12}]},{"hash":"2175733560697609500","title":"Post-transcriptional RNA processing and translation control","description":"This cluster's top GO terms cluster around mRNA maturation (polyadenylation, splicing), regulation of mRNA stability under stress, and silencing pathways (miRNA-mediated) together with translation initiation and reinitiation, pointing to proteins coordinating post-transcriptional gene regulation at RNA processing and translation steps.","confidence":"High","size":26,"edges":299,"triangles":2022,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":18},{"id":"GO:0048026","count":18},{"id":"GO:0031047","count":18},{"id":"GO:0045292","count":16},{"id":"GO:0010610","count":15}]},{"hash":"1885805405751299835","title":"Vascular Angiogenesis and Coagulation","description":"The cluster's top GO terms cluster around blood vessel formation and maintenance (angiogenesis), extracellular matrix involvement (collagen fibril organization), and hemostasis (blood coagulation, fibrinolysis, platelet aggregation regulation). Together these suggest proteins coordinating vascular remodeling, vessel integrity, and coagulation/hemostasis, with additional roles in endothelial cell survival and protein turnover that support vascular function. High","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0030199","count":4},{"id":"GO:2000352","count":4},{"id":"GO:0042730","count":3},{"id":"GO:0090331","count":3}]},{"hash":"1043454432626239559","title":"B cell receptor signaling and Fc receptor signaling","description":"This cluster centers on adaptive immune signaling, with strong representation for B cell receptor signaling, Fc\u03b5 receptor signaling, and downstream ERK/PI3K pathways. It also includes adhesion and cytoskeletal remodeling processes (integrin signaling, Rho regulation, substrate adhesion-dependent spreading) and cytokine production (IL-2), consistent with B cell activation and immune response amplification. The combination points to proteins involved in receptor-triggered signaling leading to B cell activation and function.","confidence":"High","size":26,"edges":9,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":14},{"id":"GO:0070374","count":13},{"id":"GO:0043552","count":12},{"id":"GO:0038095","count":12},{"id":"GO:0034446","count":12}]},{"hash":"881148824661831461","title":"Neural development and motor neuron differentiation","description":"The cluster is enriched for neural developmental processes, especially motor neuron fate specification, axon guidance, and spinal cord/midbrain patterning, with regulatory transcriptional control (negative regulation of transcription by RNA polymerase II) supporting developmental regulation.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":10},{"id":"GO:0035852","count":8},{"id":"GO:0035847","count":8},{"id":"GO:0072283","count":8}]},{"hash":"942828438869422746","title":"Ubiquitin-Dependent Inflammatory Signaling (TNF/NF-\u03baB/JNK)","description":"The cluster highly enriched for ubiquitin-related processes (ubiquitin-dependent proteolysis, autoubiquitination, K6-linked ubiquitination) and for inflammatory signaling pathways (TNF-mediated signaling, NF-\u03baB activation, JNK regulation). This suggests a cohesive module where ubiquitination modulates protein turnover and tunes key inflammatory signaling cascades. A histone catabolic term is present but does not define the dominant function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":14},{"id":"GO:0085020","count":13},{"id":"GO:1903265","count":13},{"id":"GO:0090073","count":13}]},{"hash":"542997188594717862","title":"Transcription Regulation and Neural-Vascular Development","description":"The top terms point to transcriptional control and RNA processing, plus CNS morphogenesis and vascular development (vasculogenesis/angiogenesis). This suggests a cohesive theme of gene expression regulation during neural and vascular development, with supporting epigenetic context and signaling pathways.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2}]},{"hash":"938560028893870426","title":"Mitotic cell cycle and DNA replication regulators","description":"This cluster is dominated by GO terms related to cell division and DNA metabolism (mitotic cell cycle, DNA replication, DNA-templated transcription, chromatid cohesion), indicating a core role in coordinating DNA replication and chromosome segregation. Additional terms on cell migration, focal adhesion regulation, and Wnt signaling reflect broader remodeling and signaling changes that accompany division and cell movement, while viral process involvement may reflect shared replication-related machinery. Overall, the strongest theme is regulation of the cell cycle with DNA replication/mitosis processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":7},{"id":"GO:0016032","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0051754","count":5}]},{"hash":"2178611463918002896","title":"Developmental Signaling Regulators (Rho/Wnt/PI3K)","description":"This cluster includes proteins linked to regulation of Rho GTPase signaling, Wnt pathway activity, PI3K regulation, and development processes such as nervous system and heart development, suggesting a set of regulatory proteins that tune major signaling pathways during multicellular development.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0010765","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1568059187680905264","title":"Amino acid biosynthesis and metabolism","description":"Most top terms relate to biosynthesis of essential amino acids (lysine, histidine, tyrosine) and amino acid catabolism (alanine, kynurenine). Additional terms point to related central metabolism (oxaloacetate) and porphyrin precursor synthesis, supporting a metabolic clustering around amino acid pathways; the Notch signaling term appears as an outlier rather than a defining function. ","confidence":"Medium","size":26,"edges":312,"triangles":2315,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":11},{"id":"GO:0097053","count":10},{"id":"GO:0007219","count":10},{"id":"GO:0042853","count":10},{"id":"GO:0033512","count":7}]},{"hash":"386759654564439548","title":"Neuro-immune signaling and synaptic development","description":"The cluster is enriched for neural development and synaptic terms (axonogenesis, positive regulation of synapse assembly, dopamine response) alongside innate immune and autophagy-related terms (LPS signaling, defense against Gram-positive bacteria, dsRNA response, xenophagy, NF-kappaB regulation), suggesting proteins that participate in neuro-immune crosstalk affecting synaptic formation and neuronal responses to immune cues. The presence of both neural and immune processes supports a cohesive, though broad, functional theme rather than a single pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0061368","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0043124","count":2}]},{"hash":"1827864777533020398","title":"Nuclear transport and cell cycle regulation","description":"The GO terms cluster around nuclear import processes (ribosomal protein import into nucleus, NLS-bearing protein import into nucleus) and nuclear pore complex assembly, coupled with mitotic/meiotic processes (mitotic nuclear membrane reassembly, meiotic spindle elongation) and signaling regulation (positive regulation of kinase activity, positive regulation of GTPase activity). Together these suggest a cohesive theme of nuclear transport coordinated with cell division control, with a few peripheral stress-related terms (lipopolysaccharide and mechanical stimulus responses) that are less central to the main theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0071222","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0007084","count":4},{"id":"GO:0051232","count":4}]},{"hash":"1376232585502580511","title":"Amino acid biosynthesis and catabolism","description":"The dominant terms are amino acid biosynthesis/catabolism (L-alanine, L-histidine, L-tyrosine, L-lysine) and related central carbon processes (pyruvate, kynurenine pathway), suggesting a metabolic cluster; the presence of Notch signaling and morphine response likely reflects secondary associations rather than core function.","confidence":"Medium","size":26,"edges":309,"triangles":2242,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":10},{"id":"GO:0007219","count":10},{"id":"GO:0042853","count":10},{"id":"GO:0019878","count":7},{"id":"GO:0042866","count":6}]},{"hash":"742254533336037966","title":"Oxidative Stress and ER Protein Folding","description":"This cluster centers on redox balance and detoxification (cellular oxidant detoxification, cell redox homeostasis, cellular response to oxidative stress) and ER protein folding (protein folding in endoplasmic reticulum). The additional terms suggest regulation of transcription and kinase signaling in stress responses, with the viral process term likely incidental. Overall, it reflects oxidative damage defense coupled with ER quality control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0034975","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1174185406965705767","title":"Innate and Adaptive Immune Activation","description":"This cluster is enriched for GO terms related to innate immune response, complement activation, phagocytosis, defense against bacteria, and B cell receptor signaling, suggesting a combined innate and adaptive immune function. While a couple of terms relate to mechanosensation and heart rate regulation, the dominant signal is immune-related, supporting a representative immune-activation theme.","confidence":"High","size":26,"edges":7,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0050910","count":10},{"id":"GO:0006958","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0014068","count":9}]},{"hash":"1124452166121525678","title":"RNA processing and translation initiation during cell division","description":"This cluster is enriched for mRNA splicing (spliceosome), translation initiation/reinitiation, and preinitiation complex formation, along with rRNA maturation and mitotic DNA replication-related processes (Okazaki fragment processing, sister chromatid cohesion). Together, these terms suggest a module that links RNA processing and protein synthesis with cell-cycle progression, rather than a single metabolic pathway. The brain development term appears incidental to the core RNA/translation and mitotic focus.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006378","count":6},{"id":"GO:0000466","count":5}]},{"hash":"176745807407339228","title":"Megakaryocyte-Platelet Development and Function","description":"The top GO terms point strongly to megakaryocyte development and platelet formation, with related SNARE complex regulation (vesicle fusion) and Rho signaling affecting cytoskeletal dynamics and cell migration\u2014key aspects of megakaryopoiesis and platelet production; metabolic terms may reflect platelet/metabolic needs.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035855","count":3},{"id":"GO:0015758","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0035544","count":2}]},{"hash":"1275123040479378464","title":"Transcription Regulation and Chromatin Modification","description":"This cluster centers on gene expression control: multiple terms relate to DNA-templated transcription and its negative regulation, and histone acetylation points to chromatin state modulation. The presence of transcription-coupled nucleotide-excision repair reinforces the link to transcription processes. A few peripheral terms (pigmentation, ER-Golgi transport, viral latency) are less central but do not override the dominant theme of transcription regulation and chromatin modification.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045892","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0043966","count":3}]},{"hash":"1462046091355658680","title":"Chromatin modification and transcription regulation","description":"This cluster is dominated by GO terms tied to histone acetylation (H3, H4-K5, H4-K8) and broader regulation of gene expression, including imprinting regulation, suggesting an epigenetic/regulatory nuclear function. There are additional, less cohesive terms like ribosome biogenesis and nutrient response, and several items labeled obsolete, which lowers confidence a bit due to possible annotation noise. Overall, the recurring theme centers on chromatin modification and transcriptional control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0072520","count":5},{"id":"GO:0043981","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0043982","count":4}]},{"hash":"1072445671305608549","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0035264","count":10},{"id":"GO:0050830","count":10},{"id":"GO:0000480","count":10},{"id":"GO:0000472","count":10}]},{"hash":"1765109135513992331","title":"Endosomal-Lysosomal Trafficking","description":"This cluster is dominated by GO terms for endosome-related transport and intracellular protein movement (late endosome to Golgi, endosome to lysosome, intracellular transport, and vacuole fusion regulation), pointing to vesicle trafficking as the core function. Some RNA decay and cell cycle/apoptosis terms appear, but they are secondary to trafficking. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0097190","count":2}]},{"hash":"461462824596723068","title":"Rho GTPase signaling and podosome-mediated migration","description":"The cluster\u2019s top GO terms emphasize small GTPase signaling (Rho family), regulation of GTPase activity, cell adhesion, and cell migration, with a specific emphasis on podosome assembly. This points to a cohesive role in cytoskeletal remodeling and adhesion-dependent movement governed by Rho GTPases, possibly integrating metabolic signals with motility. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0007264","count":3}]},{"hash":"2153348071571506759","title":"Neural and sensory organ development","description":"The proteins cluster shows strong enrichment for brain and sensory-related development terms (brain/forebrain, neural tube, cochlea morphogenesis, visual perception), pointing to coordinated development of neural and sensory structures; some reproductive development terms may reflect broader developmental regulation or annotation noise but do not change the main theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0009992","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1263038565658596787","title":"Alternative mRNA splicing regulation via spliceosome","description":"This cluster is dominated by GO terms related to alternative mRNA splicing and its regulation through the spliceosome, suggesting the proteins primarily function in splicing control. Other terms (actin cytoskeleton organization, tight junction assembly, and Wnt signaling regulation) may reflect additional regulatory or organizational roles in related pathways, but the strongest signal centers on spliceosome-mediated RNA processing.","confidence":"High","size":25,"edges":88,"triangles":75,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0070830","count":3}]},{"hash":"627772051065014557","title":"Cellular remodeling and protein turnover","description":"The GO terms point to cellular processes like macroautophagy (cellular cleanup) and protein regulation via sumoylation, alongside extracellular remodeling activities such as bone resorption and basement membrane disassembly. This combination suggests a cluster centered on remodeling of cellular structures and tissues, coupled with regulation of protein function. Some terms are obsolete or related to immune/neuropeptide processes, which are less central but may reflect broader annotation contexts.","confidence":"Medium","size":25,"edges":128,"triangles":187,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0016236","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0014070","count":3},{"id":"GO:0001913","count":3},{"id":"GO:0010813","count":3}]},{"hash":"217743702918696431","title":"Mitochondrial Ion Transport and Membrane Dynamics","description":"The top GO terms point to mitochondrial-specific processes: metal ion transport (Mg, Mn, Fe), regulation of mitochondrial membrane potential, mitochondrial membrane fission, transport of pyridoxal phosphate, and a oxidative stress/response angle. Together these suggest a cohesive theme of mitochondrial ion homeostasis and membrane dynamics driving metabolic and stress responses.","confidence":"High","size":25,"edges":54,"triangles":6,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:1990616","count":11},{"id":"GO:0051881","count":11},{"id":"GO:0031921","count":11},{"id":"GO:0048250","count":11},{"id":"GO:0060546","count":11}]},{"hash":"455264483006035063","title":"Signaling Modulators in Development and Immunity","description":"The cluster's top GO terms include regulation of Wnt signaling (both positive and negative), T cell receptor signaling, ubiquitin-related processes, apoptosis, integrin-mediated adhesion, dendritic spine morphogenesis, axial mesoderm formation, and sensory perception. Together these point to proteins that broadly modulate signaling networks across development, immune responses, and cell\u2013cell interactions, rather than a single canonical pathway, warranting a label focused on signaling modulation in development and immunity.","confidence":"Medium","size":25,"edges":57,"triangles":17,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0016579","count":4},{"id":"GO:0051436","count":4}]},{"hash":"583414639866584742","title":"RNA processing and translation regulation","description":"The cluster centers on RNA metabolism and control of gene expression: splicing via the spliceosome, mRNA polyadenylation and tail shortening, as well as translation initiation and reinitiation, plus miRNA- and ncRNA-mediated silencing. This combination suggests proteins coordinating RNA processing with translation control and silencing mechanisms.","confidence":"High","size":25,"edges":282,"triangles":1935,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9}]},{"hash":"1944699345639816747","title":"Transcription, ribosome biogenesis, and DNA replication","description":"The top terms are dominated by transcription by RNA polymerases I\u2013III, ribosome biogenesis, and DNA replication, pointing to core cellular machinery for gene expression and genome maintenance; other terms like apoptotic processes or development signals are secondary, so the central theme is transcriptional and translational machinery plus DNA replication.","confidence":"High","size":25,"edges":237,"triangles":1329,"max_degree":23,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0001172","count":4},{"id":"GO:0042797","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0007399","count":4}]},{"hash":"393966824751830000","title":"Wnt and Hippo signaling in skin and vascular development","description":"This cluster is dominated by GO terms for Wnt signaling, Hippo signaling, and keratinocyte differentiation, with strong ties to vascular development (labyrinthine layer blood vessel development) and related responses (VEGF, GM-CSF) along with apoptosis. The common thread is developmental signaling guiding skin and vascular differentiation, making this a coherent summary label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":15},{"id":"GO:0035329","count":15},{"id":"GO:0030216","count":15},{"id":"GO:0006915","count":15},{"id":"GO:0060044","count":15}]},{"hash":"1672725007402237621","title":"Developmental Signaling in Neural and Immune Lineages","description":"The cluster is enriched for neural development and axon guidance pathways (nervous system development, SHH, ROBO), along with mesoderm and organ formation signals (axial mesoderm, kidney development). Immune signaling terms (T cell receptor signaling, NK cell differentiation) and common signaling-cascade terms (PI3K-AKT, Rho regulation) suggest a broad theme of developmental signaling coordinating differentiation across neural, mesodermal, and immune contexts.","confidence":"Medium","size":25,"edges":272,"triangles":1774,"max_degree":24,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":12},{"id":"GO:0007224","count":11},{"id":"GO:0035385","count":11},{"id":"GO:0001822","count":11},{"id":"GO:0050852","count":11}]},{"hash":"534070240461116553","title":"Leukocyte adhesion and extravasation","description":"Based on the prominent GO terms, including integrin-mediated signaling, heterotypic cell-cell adhesion, receptor clustering, substrate-dependent cell migration, and cellular extravasation, the cluster is driven by adhesion and migration events typical of leukocytes interacting with the endothelium. The presence of immune-related processes such as T cell activation and coagulation further supports a context of immune cell trafficking and vascular responses. Thus, this label captures the core function represented in the cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0070208","count":11},{"id":"GO:0035987","count":10},{"id":"GO:0006929","count":10},{"id":"GO:0006511","count":9},{"id":"GO:0007229","count":9}]},{"hash":"1108768135724449629","title":"Developmental Signaling and Organogenesis","description":"GO terms point to broad developmental roles (nervous system, heart, kidney) and multiple signaling pathways (Shh via smoothened, ROBO guidance, ERK cascade, PI signaling) as well as angiogenesis and multicellular development, with a note of T cell receptor signaling indicating signaling breadth. Overall, the cluster appears to reflect development-related signaling networks across organs. ","confidence":"High","size":25,"edges":257,"triangles":1502,"max_degree":24,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0001525","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0007275","count":7}]},{"hash":"4453467585146046","title":"Axon guidance and neural development signaling","description":"The top GO terms cluster around nervous system development, axon guidance, and Robo signaling, including hippocampus development and neuron apoptotic regulation, suggesting roles in neural pathfinding and maturation. MAPK pathways (ERK/JNK) and related signaling indicate regulation of neuronal growth and differentiation, while the cellular response to mechanical stimulus aligns with neuronal mechanotransduction during development. Despite one ossification-related term, the dominant pattern points to neural development and axon guidance functions. ","confidence":"High","size":25,"edges":17,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0043552","count":7},{"id":"GO:0007411","count":7},{"id":"GO:0007399","count":7}]},{"hash":"912555092481328034","title":"Mitochondrial ion transport and dynamics","description":"The top GO terms point to mitochondrial-focused processes: transport of Mg, Mn, and Fe into or out of mitochondria, regulation of membrane potential, mitochondrial fission, and oxidative stress response, with supporting metabolite transport (pyridoxal phosphate) and metabolic signaling (insulin response). This suggests a cohesive module centered on mitochondrial ion homeostasis and dynamic morphology, rather than unrelated pathways.","confidence":"High","size":25,"edges":57,"triangles":20,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1990616","count":19},{"id":"GO:0051881","count":19},{"id":"GO:0031921","count":19},{"id":"GO:0048250","count":19},{"id":"GO:0060546","count":19}]},{"hash":"2025779197296281846","title":"Ubiquitination-Driven Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination and proteolysis (ubiquitin-dependent protein catabolic process, K48-linked ubiquitination, polyubiquitination, ubiquitination, ERAD). This points to proteins involved in tagging substrates for degradation via the proteasome. The presence of regulation of circadian rhythm aligns with clock protein turnover regulated by ubiquitin pathways, supporting a cohesive theme around protein turnover. Minor terms do not contradict this core function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0070936","count":8},{"id":"GO:0042752","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0051865","count":7}]},{"hash":"1700441623689569507","title":"NF-kappaB signaling and cell cycle regulation","description":"The cluster's enriched GO terms point to inflammatory signaling (NF-kappaB), regulation of GTPase activity, and cell-cycle processes (mitosis and cytokinesis), with accompanying stress responses (hypoxia) and lipid remodeling. This suggests a module where signaling control intersects with cell division and stress response, justifying a label that emphasizes NF-kappaB signaling together with cell-cycle regulation.","confidence":"Medium","size":25,"edges":13,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0006470","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0032465","count":5}]},{"hash":"1396491174178483420","title":"RNA Pol II Transcription Regulation","description":"Top terms are dominated by positive and negative regulation of transcription by RNA polymerase II, indicating the cluster centers on transcriptional regulators. The other GO terms (developmental processes, immune defense, and coagulation) may reflect pleiotropic roles of these factors rather than distinct, separate functions of the cluster.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0003323","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0031639","count":5}]},{"hash":"1889802227628133039","title":"Ubiquitination-Driven Growth and Survival","description":"This cluster is predominantly associated with protein ubiquitination (GO:0016567), suggesting a theme of ubiquitin-mediated regulation of protein function that influences cell growth and survival. Other frequent terms\u2014negative regulation of apoptotic processes, cell growth, and immune signaling (NOD2 pathway)\u2014support a broader role in stress response and cell fate decisions. A few terms related to telomere localization are present but appear less central to the core theme. Overall, the shared thread is ubiquitin-dependent regulation of signaling and survival pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0098907","count":7},{"id":"GO:0045444","count":7},{"id":"GO:0000083","count":7},{"id":"GO:0050966","count":7}]},{"hash":"466781884988131569","title":"Mitotic progression and translation initiation with vesicle trafficking","description":"This cluster is enriched for translation initiation terms (translation reinitiation and formation of translation preinitiation complex), together with mitotic processes (mitotic spindle assembly, cell division, mitotic cell cycle) and growth-related terms (multicellular organism growth). It also includes vesicle trafficking activities (retrograde Golgi to ER and COPII-coated vesicle budding), plus growth signaling (response to TGF-beta). Taken together, the proteins likely coordinate protein synthesis, cell division, and secretory pathway dynamics during growth, justifying a combined label focused on mitotic progression, translation initiation, and trafficking.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0090307","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6}]},{"hash":"2257165918249929779","title":"Developmental signaling and growth regulation","description":"The terms are dominated by developmental processes (spinal cord development; multicellular organism growth and development) and signaling regulation (Notch signaling, Ras signal transduction, GTPase activity, IGF stimulus response) with a component of cytoskeletal dynamics (microtubule-based movement). Together they suggest a cluster of proteins that coordinate growth and development through signaling and cytoskeletal control rather than a single, specific pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008637","count":5},{"id":"GO:0021510","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007018","count":4}]},{"hash":"2169682437794269805","title":"Cell adhesion and cytoskeletal signaling","description":"This cluster centers on cell adhesion and actin-based cytoskeletal dynamics, including microspike assembly, Rho signaling regulation, and receptor-mediated processes like pinocytosis and thrombin receptor signaling. While a couple terms touch on metabolism or development, the dominant GO terms indicate adhesion-linked signaling and cytoskeletal remodeling as the core theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0045987","count":3},{"id":"GO:0005975","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1877482330124556522","title":"Mitochondrial respiration and cofactor biosynthesis","description":"The top GO terms point to ubiquinone biosynthesis, mitochondrial electron transport (ubiquinol to cytochrome c), and Complex III assembly, all core to mitochondrial energy production and assembly of the respiratory chain. Additional biosynthetic terms (tRNA methylation, biotin, phosphatidylcholine) fit with mitochondrial and cellular metabolism interconnections. Some terms like midbrain development or polycistronic mRNA processing are less directly related and may reflect annotation breadth, but the dominant signal is mitochondrial respiration and cofactor biosynthesis.","confidence":"High","size":25,"edges":280,"triangles":1889,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0006656","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0009060","count":2}]},{"hash":"2238162295470628708","title":"Neural development and cell adhesion","description":"The cluster is dominated by terms tied to nervous system development and axon guidance (lateral motor column neuron migration, PNS axonogenesis, motor neuron axon guidance) and to cell-surface organization (cell-matrix adhesion, receptor clustering). While there are also terms for gonad development and platelet aggregation, these are less central to the overall pattern, making neural development with adhesion signaling the best unifying theme for the cluster.","confidence":"Medium","size":25,"edges":158,"triangles":373,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008585","count":11},{"id":"GO:0070527","count":11},{"id":"GO:0097477","count":11},{"id":"GO:0007160","count":10},{"id":"GO:0048936","count":10}]},{"hash":"1621785979147354903","title":"Actin cytoskeleton remodeling and cell migration","description":"This cluster is dominated by GO terms related to actin dynamics and motility (filopodium and lamellipodium assembly, Rho/GTPase signaling, neutrophil chemotaxis, adhesion-dependent cell spreading), indicating a cohesive theme of cytoskeleton remodeling driving cell movement and morphogenesis; midbrain morphogenesis appears as a developmental context but aligns with cellular motility processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":6},{"id":"GO:0060313","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0090630","count":5},{"id":"GO:0007266","count":5}]},{"hash":"1511448942716539630","title":"DNA Damage Response and Stress Signaling","description":"This cluster centers on genome maintenance and cellular stress responses, with several GO terms tied to DNA replication, UV-damage excision repair, and oxidative stress response. There are also regulatory signals related to inflammatory pathways (TNF/NF-kappaB) and RNA processing, suggesting broader transcriptional/post-transcriptional control during stress, plus a few terms related to trafficking and development that appear as ancillary connections.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:1904468","count":4},{"id":"GO:0006888","count":3},{"id":"GO:1903799","count":3},{"id":"GO:0070914","count":3}]},{"hash":"1480288229633055218","title":"Cardiac Development and Conduction","description":"The strongest signals are cardiac: AV node action potential, regulation of heart rate by cardiac conduction, and right atrium morphogenesis, along with related developmental and conduction-related terms. A few non-cardiac terms (pain, embryo implantation) appear incidental, but they do not overwhelm the cardiac theme. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0048265","count":3},{"id":"GO:0007566","count":3},{"id":"GO:0007565","count":3},{"id":"GO:0043031","count":3}]},{"hash":"128312942287828950","title":"Neurodevelopmental Proliferation and Angiogenesis","description":"The top terms point to neural development (nervous system development, sensory perception of touch) alongside cell proliferation and mitotic processes (mitotic cell cycle, cell division, mitotic spindle assembly). Additionally, sprouting angiogenesis and collateral sprouting suggest growth of neural-vascular networks. An outlier term (viral release from host cell) may reflect broader host\u2013virus interaction contexts or dataset noise, but does not override the dominant neurodevelopmental/proliferative theme. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0002040","count":3},{"id":"GO:0008283","count":3}]},{"hash":"1309282135392700323","title":"Craniofacial Skeletal and Neural Development","description":"The dominant GO terms center on craniofacial and skeletal formation (roof of the mouth/palate, cranial skeleton, skeletal system) and neural/sensory organ development (inner ear, CNS, pituitary), indicating an embryonic program for craniofacial and neural tissue formation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0048839","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0048701","count":5},{"id":"GO:0021983","count":5}]},{"hash":"63965456966857456","title":"Auditory perception and vocalization behavior","description":"This cluster is dominated by GO terms related to sound perception and vocalization (sensory perception of sound, vocalization behavior), plus related neural processes (learning, social behavior, postsynaptic density assembly), suggesting a cohesive theme of auditory processing and communication in neural circuits. Some terms are ancillary (lens morphogenesis, protein tetramerization), but the core signal points to hearing and vocalization functions.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0035176","count":5},{"id":"GO:0007612","count":5},{"id":"GO:0071625","count":5}]},{"hash":"2158790022839091692","title":"Vascular Angiogenesis and Coagulation Regulation","description":"This cluster is driven by GO terms centered on blood vessel biology and coagulation\u2014endothelial cell chemotaxis, endothelial proliferation in sprouting angiogenesis, cell-matrix adhesion, and regulation of fibrinolysis/plasminogen activation\u2014together with signaling and migration aspects (ERK cascade, smooth muscle migration). The common theme is vascular development and coagulation control, suggesting these proteins coordinately regulate angiogenesis and clot remodeling. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0070374","count":4},{"id":"GO:0035767","count":4},{"id":"GO:0051918","count":4},{"id":"GO:0043536","count":4}]},{"hash":"1628123174327498036","title":"Auditory mechanosensory signaling and myelination","description":"The cluster centers on auditory mechanosensation (sense of sound) and neural conduction, with terms for detecting mechanical stimuli, nerve impulse transmission, paranodal junctions, and myelination, suggesting genes involved in auditory nerve signaling and myelin formation; auxiliary terms reflect signaling and adhesion but do not override the primary theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":9},{"id":"GO:0030913","count":9},{"id":"GO:0035023","count":7},{"id":"GO:0019226","count":7},{"id":"GO:0042552","count":7}]},{"hash":"299414692338369345","title":"Embryonic Patterning and Morphogenesis","description":"The GO terms are dominated by embryonic development and patterning (left-right pattern formation, endocardial cushion EMT) and tissue/organ morphogenesis (cartilage, pancreatic cell development, endocrine system development), with supporting roles in gene regulation and RNA processing. This points to a cohesive theme of developmental biology and organ formation, despite a lack of network connectivity in this cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032298","count":25},{"id":"GO:0000055","count":25},{"id":"GO:0003198","count":25},{"id":"GO:0060972","count":25},{"id":"GO:0060536","count":25}]},{"hash":"260979444662967782","title":"Neuropeptide GPCR signaling and smooth muscle regulation","description":"These terms collectively point to neuropeptide GPCR signaling pathways that regulate smooth muscle contraction, gut motility, and vascular tone, with ERK/Rho downstream effects and GPCR trafficking.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0007218","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0035025","count":6}]},{"hash":"867200599730672857","title":"Ubiquitin-Dependent Protein Quality Control","description":"The cluster is dominated by ubiquitination processes (deubiquitination, ubiquitin-dependent ERAD, autoubiquitination) and ER stress regulation, pointing to protein quality control and turnover. Ribosome biogenesis and translation terms appear as supporting context, suggesting a link between ubiquitin-mediated regulation and protein synthesis machinery.","confidence":"Medium","size":24,"edges":274,"triangles":1981,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":13},{"id":"GO:0030433","count":10},{"id":"GO:0016925","count":9},{"id":"GO:0017085","count":8},{"id":"GO:1902236","count":8}]},{"hash":"1423261787286823890","title":"Brain Development and Cell Proliferation","description":"The cluster centers on cell division and mitosis (cell cycle, mitotic spindle assembly, proliferation) and includes strong neurodevelopment signals (brain development, nervous system development). The presence of ER-Golgi vesicle transport terms (COPII budding) aligns with high secretory demands in proliferating neural cells. Together, these terms point to proteins coordinating neural progenitor proliferation and brain growth.","confidence":"Medium","size":24,"edges":191,"triangles":757,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":18},{"id":"GO:0000278","count":18},{"id":"GO:0090307","count":17},{"id":"GO:0035264","count":17},{"id":"GO:0006890","count":17}]},{"hash":"7572101094213242","title":"Complement-Driven Neural Development and Synaptic Signaling","description":"These proteins link immune signaling (complement activation, adaptive immune response) with neural development and synaptic processes (synapse maturation, glutamatergic transmission, Purkinje cell layer development). The presence of receptor tyrosine kinase activation and PKC signaling points to shared signaling pathways, while collagen fibril organization and morphogenesis terms reflect ECM remodeling common in development. Overall, the cluster suggests immune components modulating neural development and synaptic connectivity.","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001867","count":14},{"id":"GO:0007171","count":11},{"id":"GO:0002250","count":11},{"id":"GO:0030199","count":10},{"id":"GO:0051968","count":10}]},{"hash":"1369673493518798538","title":"Innate Immune Signaling and Morphogenesis","description":"This cluster is enriched for innate immune signaling terms: complement activation via the lectin pathway, C-type lectin receptor signaling, response to fungal origin, and modulation of NK cell chemotaxis and platelet activation. While there are a couple of developmental terms for metanephric tubule and lymphatic vessel morphogenesis, the dominant signal is immune-related functions, suggesting these proteins largely participate in innate immunity and inflammatory signaling, with potential multifunctionality in organ morphogenesis.","confidence":"Medium","size":24,"edges":25,"triangles":3,"max_degree":6,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0072287","count":7},{"id":"GO:0072237","count":7},{"id":"GO:0036303","count":7},{"id":"GO:0002223","count":7},{"id":"GO:0090403","count":6}]},{"hash":"1782018656140351268","title":"Innate Immune and Inflammatory Signaling","description":"The cluster is dominated by GO terms tied to innate immune responses and inflammation: cellular response to fungal origin, lectin pathway complement activation, NK cell chemotaxis regulation, arachidonate/platelet-related signaling, and inflammatory processes. A few terms related to cartilage or renal development appear but do not override the clear immune/inflammatory theme. Confidence: Medium","confidence":"","size":24,"edges":267,"triangles":1837,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":24},{"id":"GO:0010572","count":20},{"id":"GO:0001502","count":20},{"id":"GO:0090403","count":19},{"id":"GO:0090238","count":19}]},{"hash":"2117321212705263976","title":"Neural development and synaptogenesis","description":"This cluster is enriched for nervous system development, CNS development, dendritic spine morphogenesis, and synapse assembly/formation, pointing to neural development and synaptogenesis as the unifying theme; while terms like angiogenesis and axial mesoderm formation appear, they do not override the dominant neural connectivity signal.","confidence":"High","size":24,"edges":174,"triangles":583,"max_degree":22,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043277","count":11},{"id":"GO:0042517","count":11},{"id":"GO:0001525","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0048320","count":10}]},{"hash":"1766342204608638792","title":"Hormone biosynthesis and reproductive development","description":"The top GO terms highlight several hormone- and vitamin-related biosynthetic processes (9-cis-retinoic acid biosynthesis, testosterone biosynthesis, vitamin D catabolic process) and development of reproductive tissues (female gonad development, uterus development), suggesting a central theme of hormone metabolism and reproductive development. Some other terms point to broader secondary metabolite pathways (kaurene/plant diterpenoid and vancomycin/alkaloid metabolism), but the dominant signal centers on hormone biosynthesis and reproductive development. ","confidence":"Medium","size":24,"edges":77,"triangles":11,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035865","count":8},{"id":"GO:0010241","count":7},{"id":"GO:0033072","count":7},{"id":"GO:0090350","count":7},{"id":"GO:0042904","count":7}]},{"hash":"1550495791799147197","title":"Neural development and brain patterning regulators","description":"This cluster centers on transcription-related GO terms (RNA polymerase II transcription, DNA-templated transcription) and neural patterning/development terms (brain segmentation, rhombomere 5 development, habenula development, forebrain-midbrain boundary formation, pituitary gland development), suggesting a set of transcriptional regulators driving brain regionalization. Some broader developmental terms appear (muscle organ development, ureteric bud morphogenesis), but the neural patterning signals predominate, supporting a cohesive neural development theme.","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0021983","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0035284","count":9},{"id":"GO:0021571","count":9}]},{"hash":"30686668552559752","title":"Transmembrane Transporters (ions and sugars)","description":"The cluster shows strong representation of transmembrane transport functions across multiple substrates\u2014potassium and sodium ions, various sugars, sialic acid, galactose, arabinose, fucose, and xenobiotics\u2014as well as a related role in osmotic stress response and neurotransmitter loading into vesicles. This pattern points to a group of membrane transport proteins acting on diverse substrates rather than a single pathway.","confidence":"High","size":24,"edges":67,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0042128","count":3}]},{"hash":"1086437772448176402","title":"Unknown","description":"The top GO terms span very different biological areas (mechanical stimulus response, coagulation, B cell differentiation, axis specification, neuronal junctions, endoderm development, growth regulation, pregnancy, and fibrinolysis), with no clear unifying function or pathway linking them. Because there isn\u2019t a coherent theme tying all terms together, a single intuitive label is not justifiable.","confidence":"","size":24,"edges":8,"triangles":0,"max_degree":6,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0007596","count":7},{"id":"GO:0002315","count":6},{"id":"GO:0070986","count":6},{"id":"GO:0071205","count":6}]},{"hash":"1093663230039371628","title":"Tissue Development and Differentiation","description":"This cluster centers on differentiation across multiple tissues (fat, heart, Leydig, mammary, vagina) and related transcriptional regulation; it suggests a broad developmental program rather than a single tissue-specific function, with supporting signals like retinoic acid response and transcriptional control contributing to these differentiation processes.","confidence":"Medium","size":24,"edges":23,"triangles":9,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":7},{"id":"GO:0007507","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0071222","count":6}]},{"hash":"2103556264132650586","title":"Embryonic Development and Neural Crest Morphogenesis","description":"The cluster links transcriptional regulation (RNA polymerase II activity and its negative regulation) with diverse embryonic processes (neural crest migration, brain segmentation, pancreas and craniofacial development, and digestive tract morphogenesis), suggesting a set of factors that coordinate gene expression during embryogenesis across tissues, with a notable emphasis on neural crest\u2013related morphogenesis.","confidence":"Medium","size":24,"edges":162,"triangles":407,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0000122","count":11},{"id":"GO:0031018","count":9},{"id":"GO:0048935","count":8},{"id":"GO:0090009","count":8}]},{"hash":"1703174187084672959","title":"Ubiquitin-Mediated Immune Signaling","description":"This cluster is enriched for ubiquitination-related processes and immune signaling pathways, indicating a theme of ubiquitin-driven regulation of immune cell activity. Dominant GO terms include ubiquitin-dependent protein catabolic process, protein ubiquitination, B cell receptor signaling, and regulation of T cell differentiation, supporting a cohesive label. A few non-immune terms appear among the top terms, likely annotation noise but not changing the main theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0050853","count":8},{"id":"GO:0016567","count":7},{"id":"GO:0045496","count":7},{"id":"GO:0009958","count":7}]},{"hash":"351507612348517903","title":"Innate Immune Signaling and Ubiquitination","description":"The top terms are dominated by innate immune response, Toll signaling, defense against virus, and TNF-mediated signaling, with additional emphasis on ubiquitin-dependent protein catabolic processes and autoubiquitination. This points to a cohesive module centered on immune signal transduction and protein turnover, with some cytoskeletal annotations that may be secondary. Overall, the immune- and ubiquitin-regulated theme is strong and representative of the cluster\u2019s function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0045087","count":11},{"id":"GO:0045214","count":9},{"id":"GO:0007026","count":9},{"id":"GO:0051607","count":9}]},{"hash":"1400640252760880435","title":"Vertebrate embryogenesis and organogenesis","description":"Top GO terms show a broad vertebrate developmental theme, including primitive streak formation, hindlimb and organ morphogenesis (heart outflow tract, palate, tooth dentin formation), neural crest migration, gonad and pituitary development, and ureteric bud branching. The combination of diverse morphogenetic processes and transcriptional regulation strongly points to a cluster of proteins involved in vertebrate embryonic development and tissue patterning. Confidence: High","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0090190","count":11},{"id":"GO:0001755","count":11},{"id":"GO:0008584","count":11},{"id":"GO:0021983","count":11}]},{"hash":"1806098318159641266","title":"Proteostasis and cellular stress response","description":"This cluster is most strongly tied to protein quality control and stress signaling, with clear enrichment for unfolded protein response, ER-associated degradation, and ubiquitin-dependent proteolysis. While terms like innate immune response and phagocytosis appear, the dominant theme appears to be maintaining proteome integrity under stress, with translation and replication terms reflecting general cellular housekeeping that accompanies these processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0006909","count":3}]},{"hash":"977967430613085152","title":"Auditory mechanosensation and neuronal excitability","description":"The top GO terms point to sensing sound and mechanical stimuli, with neuronal signaling elements like membrane depolarization and excitatory postsynaptic potentials, plus Na+/K+ ion transport that underlies action potentials. Paranodal junction assembly and cell\u2013cell adhesion reinforce a neural wiring context for rapid synaptic transmission in auditory pathways. Overall, these features tie together hearing-related mechanosensory signaling and neuronal excitability.","confidence":"High","size":24,"edges":17,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":10},{"id":"GO:0030913","count":9},{"id":"GO:0071805","count":8},{"id":"GO:0035725","count":8},{"id":"GO:0060079","count":8}]},{"hash":"929731937584050955","title":"TLR/NF-kB driven immune activation","description":"Top GO terms indicate innate immune sensing and signaling (lipopolysaccharide response, TLR2/3 signaling, IL-1 signaling) with downstream NF-kB activation and activation of immune cells (B cells, macrophages). This suggests a cohesive program of immune activation driven by Toll-like receptor signaling. A few terms about protein stabilization or cell division are incidental. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0050871","count":3},{"id":"GO:0070498","count":3}]},{"hash":"688689932643432194","title":"Neural development and synapse assembly","description":"The top GO terms center on nervous system development, synapse assembly, cell adhesion, and myelination, indicating a cluster of proteins involved in neural differentiation and formation of synaptic connections. Adhesion terms (heterophilic/homophilic) reinforce a role in establishing neural contacts, while myelination supports later neural maturation. A few terms related to immune signaling (complement activation, NF-kappaB) may be incidental or reflect multifunctional proteins in neural contexts, but the dominant theme is neural development and synaptic connectivity.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":10},{"id":"GO:0007157","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0042552","count":7},{"id":"GO:0007156","count":7}]},{"hash":"660328920521325100","title":"Neural development and innate immune response","description":"The top terms point to neural morphogenesis (branching of nerves, axonal fasciculation) alongside innate immune and inflammatory responses (response to LPS, defense against virus, innate immune response), suggesting a module where neural development is linked with immune signaling. Some cell-cycle/apoptosis terms appear but are less central to the theme. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2000172","count":2},{"id":"GO:0045842","count":2}]},{"hash":"1443969671409847944","title":"Cerebellar granule cell differentiation","description":"The top GO term is cerebellar granule cell differentiation (13), which dominates the term enrichment. Other terms touch on calcium signaling, mechanical stimulus response, and some immune signaling pathways, suggesting some functional cross-talk or annotation noise. Overall, the cluster appears centered on neural development in the cerebellum, with additional, less cohesive signaling associations reflected by the other terms. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0021707","count":13},{"id":"GO:0010745","count":12},{"id":"GO:1904743","count":11},{"id":"GO:0070431","count":11},{"id":"GO:0071260","count":11}]},{"hash":"221900913214563231","title":"Growth and Migration Signaling Pathways","description":"The top GO terms point to multiple interconnected signaling cascades that regulate growth, metabolism, and movement, including Rho signaling, ERK1/2 cascades, insulin/IGF receptor signaling, and integrin-mediated pathways, as well as processes like fibroblast migration and angiogenesis. The cluster seems to reflect a network of pathways coordinating cell growth and cell movement rather than a single function, hence the label Growth and Migration Signaling Pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0046628","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0016525","count":2}]},{"hash":"1669870344663987794","title":"Neuronal signaling and synapse formation","description":"Based on the GO terms, the cluster is driven by neuronal-related processes such as sensory perception of sound, axonal fasciculation, and synapse assembly, together with regulation and activation of Rho GTPase signaling and GPCR pathways. These point to cytoskeletal dynamics and signaling events essential for axon guidance, dendritic spine regulation, and synapse formation, making a coherent theme of neuronal connectivity despite a few outlier terms. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0090630","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0043547","count":3}]},{"hash":"900876246363775473","title":"Neural sensory perception and dopaminergic signaling","description":"Top GO terms point to brain- and nervous-system functions, including sensory perception (pain, vision), visual learning, and dopaminergic synaptic transmission, along with behavioral and molecular responses to drugs (morphine, cocaine) and ERK signaling. Although there are outliers like heart development and brain renin-angiotensin system, the overall pattern centers on neural processing and reward-related signaling, justifying a label focused on brain sensory processing and dopaminergic pathways.","confidence":"High","size":23,"edges":154,"triangles":377,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007601","count":17},{"id":"GO:0070374","count":16},{"id":"GO:0002035","count":16},{"id":"GO:0008542","count":16}]},{"hash":"708033150657886845","title":"Neural sensory perception and signaling","description":"GO terms point to sensory perception (pain, vision) and related behavioral responses, supported by signaling activities (ERK cascade, cAMP/adenylate cyclase, protein phosphorylation). The cluster likely represents neural sensory processing and neurobehavioral signaling pathways.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0070374","count":13},{"id":"GO:0008542","count":13}]},{"hash":"1851817835439599998","title":"Neural Development and Wnt Signaling","description":"This cluster centers on neural development and signaling, highlighted by neuron development and pain-related behavioral terms and Wnt signaling. The presence of cell-cycle and stress-response terms (CDK inhibition, proteasome regulation, ER stress\u2013related apoptosis) suggests a developmental program that couples growth control and survival. While some terms (kinetochore localization, filamentous growth) seem less connected, the dominant theme points to neural development with growth and stress regulation.","confidence":"Medium","size":23,"edges":46,"triangles":16,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048666","count":22},{"id":"GO:0034501","count":22},{"id":"GO:0045736","count":22},{"id":"GO:0032435","count":22},{"id":"GO:0032298","count":21}]},{"hash":"1991627355064058011","title":"Neural signaling and circadian regulation","description":"A cluster of proteins with GO terms centered on neural signaling, dopaminergic regulation, and circadian control, with additional signaling through ERK cascades and prostaglandin responsiveness. This points to a module involved in neural communication and neuroendocrine regulation, including appetite and behavioral modulation, rather than strictly immune or viral processes. Some terms like eosinophil chemotaxis or reproductive processes may reflect broader signaling roles or annotation overlap, but the dominant theme is neuronal signaling and circadian/hormonal regulation.","confidence":"Medium","size":23,"edges":225,"triangles":1267,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":23},{"id":"GO:0019076","count":23},{"id":"GO:0060134","count":23},{"id":"GO:1901652","count":23},{"id":"GO:0048245","count":23}]},{"hash":"1927691716864001823","title":"Developmental Differentiation and Morphogenesis","description":"This cluster centers on differentiation across tissues (oligodendrocyte and fat cell differentiation) and various morphogenetic processes (dendritic spine morphogenesis, cochlea morphogenesis, outflow tract morphogenesis, axis elongation), with accompanying intracellular signaling and Wnt pathway regulation. The shared theme is developmental differentiation and morphogenesis, suggesting a label focused on developmental differentiation and morphogenesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0061408","count":2},{"id":"GO:0006470","count":2}]},{"hash":"224790911704611240","title":"Ubiquitin-Dependent Proteolysis and NF-kappaB Signaling","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis, ERAD, autoubiquitination, K48/K63 linkages, linear polyubiquitination) and inflammatory signaling (positive regulation of TNF signaling, canonical NF-kappaB signaling), with some links to necroptosis regulation. This suggests a cohesive theme of ubiquitin-mediated protein turnover coupled with NF-kB\u2013mediated signaling, rather than a more divergent set of unrelated functions.","confidence":"High","size":23,"edges":8,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":8},{"id":"GO:1903265","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0060546","count":6}]},{"hash":"590727008678432309","title":"Calcium-regulated muscle contraction (cardiac & skeletal)","description":"This cluster is dominated by GO terms linking calcium signaling to muscle function: calcium ion detection, regulation of calcium release influencing cardiac muscle contraction and heart rate, and positive regulation of the force of heart contraction, complemented by skeletal muscle fiber development. While there are a few outliers (memory, ascospore formation, methylation), the strongest theme is calcium-dependent regulation of muscle contraction in both cardiac and skeletal tissues.","confidence":"High","size":23,"edges":76,"triangles":102,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":14},{"id":"GO:0048741","count":13},{"id":"GO:0005513","count":13},{"id":"GO:0010881","count":13},{"id":"GO:0098735","count":13}]},{"hash":"127787741462178752","title":"Plasma Membrane Transporters for Xenobiotics and Nutrients","description":"The proteins in this cluster are dominated by transmembrane transport functions, including xenobiotic, vitamin, ion, and sugar/nutrient transport across the plasma membrane, suggesting a common role as diverse substrate transporters.","confidence":"High","size":23,"edges":41,"triangles":83,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":10},{"id":"GO:0035461","count":10},{"id":"GO:0071805","count":9},{"id":"GO:0042908","count":9},{"id":"GO:0042891","count":9}]},{"hash":"1907667775022171480","title":"Mitotic chromosome condensation and nuclear reassembly","description":"This cluster\u2019s top GO terms center on cell division and chromosome management\u2014mitotic chromosome condensation, mitotic nuclear membrane reassembly, and synaptonemal complex assembly\u2014indicating a focus on chromosome dynamics during division (mitosis/meiosis) and nuclear organization. While a few terms are peripheral (transcription, ubiquitination, transport, signaling), the dominant theme is chromosome condensation and nuclear envelope dynamics in cell division.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007076","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0051016","count":2}]},{"hash":"1632605835773876336","title":"Organogenesis and Developmental Signaling","description":"This cluster centers on developmental and organogenesis-related terms across multiple tissues (nervous system, heart, olfactory bulb) with Hedgehog (Smoothened) signaling and Rho-mediated signaling, plus sarcomere organization suggesting muscle development. The mix indicates multisystem developmental regulation rather than a single pathway. Some terms are obsolete or broad, likely reflecting annotation noise, but the core theme is developmental signaling across organs.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":4},{"id":"GO:0007224","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0035023","count":3}]},{"hash":"516631812059863273","title":"Renal and neural development with angiogenesis","description":"The top GO terms point to kidney development, angiogenesis, nervous system development, slit diaphragm assembly, and dendritic spine morphogenesis, suggesting a developmental cluster centered on renal and neural organogenesis with vascularization. Additional hints from axon morphogenesis and axial mesoderm formation support a cohesive organogenesis theme, reinforced by signaling terms like STAT phosphorylation and proliferation. Overall, this cluster appears to coordinate kidney filtration structure formation with neural development and vascular growth.","confidence":"Medium","size":23,"edges":210,"triangles":1031,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0048692","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0007156","count":5}]},{"hash":"575271031057846509","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000480","count":6},{"id":"GO:0000472","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0042273","count":4},{"id":"GO:0000463","count":4}]},{"hash":"2133046805258026827","title":"Rho-driven actin dynamics and cell migration","description":"The cluster is dominated by GO terms tied to actin cytoskeleton remodeling and movement\u2014regulation of Rho signaling, lamellipodium and microspike assembly, and cell polarity\u2014suggesting coordinated actin-driven motility, with other signals (innate immunity/insulin signaling) being secondary. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0045087","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0071732","count":4}]},{"hash":"454242020519668871","title":"Antibiotic and fatty acid biosynthesis","description":"The cluster shows strong representation of GO terms for antibiotic biosynthesis and responses to antibiotics, plus fatty acid elongation and very long-chain fatty acid biosynthesis, suggesting proteins in this cluster participate in biosynthetic pathways for antibiotics and lipids. While a few terms (e.g., testosterone biosynthetic process, tetrahydrobiopterin biosynthesis) are less cohesive, the dominant theme is biosynthesis of small molecules and lipids.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0019878","count":3},{"id":"GO:0045150","count":3}]},{"hash":"1853896883227713701","title":"Developmental transcriptional regulation","description":"The set is enriched for transcription-related GO terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) and broad developmental processes (midbrain, pituitary, cartilage, male gonad, multicellular development). This points to proteins that regulate gene expression during development and organogenesis, with one outlier term (defense response) likely reflecting annotation noise or pleiotropy.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0050830","count":6},{"id":"GO:0035264","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0007338","count":5}]},{"hash":"1130640633344948361","title":"Amino acid and osmolyte membrane transporters","description":"This cluster is dominated by GO terms for transport of diverse amino acids (lysine, methionine, ornithine, D-serine, D-alanine), GABA, polyamines, and related osmolytes like carnitine across the plasma membrane, plus processes related to cell volume regulation and hypotonic salinity response. The common theme is membrane transport of amino acids and osmolytes to maintain cellular osmotic balance, suggesting these proteins function as transporters at the plasma membrane.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015812","count":2},{"id":"GO:0006884","count":2},{"id":"GO:0097639","count":2},{"id":"GO:0044690","count":2},{"id":"GO:0097640","count":2}]},{"hash":"1699192972485836949","title":"Cardiac Development and Pacemaker Signaling","description":"This cluster centers on heart-related development and function, with terms like cardiac right atrium morphogenesis, SA node action potential regulation, and Notch/Wnt signaling in heart-field contexts, plus venous endothelial differentiation. While some generic terms appear (cell cycle, GTPase activity), the core theme points to cardiac development and pacemaker/conduction signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007049","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0003213","count":7},{"id":"GO:0033280","count":7}]},{"hash":"910413613427475488","title":"Vesicle trafficking and signaling regulation","description":"The terms point to membrane trafficking (ER-to-Golgi transport, endocytosis) coupled with multiple signaling pathways (GTPase/Rho regulation, Wnt signaling, T cell receptor signaling, and synaptic plasticity). This suggests a theme where vesicle trafficking and signal transduction processes coordinate cellular communication and fate, justifying a label focused on both trafficking and signaling regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006897","count":4},{"id":"GO:0090263","count":4}]},{"hash":"795208823078869543","title":"Chromatin modification and mitosis","description":"The cluster centers on histone modifications (deacetylation, acetylation, various histone methylations) and genes involved in mitosis (spindle orientation, mitotic cell cycle, sister chromatid cohesion) as well as transcription. This suggests a cohesive role in epigenetic regulation of gene expression during cell division. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0016575","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051568","count":3}]},{"hash":"1106840458398812157","title":"Calcium signaling in vertebrate development and sensation","description":"Many top terms point to sensory perception (pain, touch, temperature) and calcium-related signaling, while others relate to vertebrate development (outflow tract morphogenesis, ossification) and ion homeostasis. Together, they suggest a core theme of calcium-dependent signaling influencing development and sensory/cardiac functions in vertebrates.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0007275","count":8},{"id":"GO:0010961","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0002024","count":6}]},{"hash":"1740871210176803472","title":"Neurodevelopment with epithelial polarity and synaptic regulation","description":"Based on the top GO terms, this cluster centers on neural development (neuron development, regulation of neuronal synaptic plasticity) and aspects of epithelial/neuroepithelial biology (tight junction assembly, establishment of epithelial cell polarity), with retinoic acid signaling supporting neural differentiation. While some stress-response terms are present, the strongest signal is neural development with related polarity and synaptic regulation, suggesting a neurodevelopmental role in an epithelial context.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":3},{"id":"GO:1902043","count":3},{"id":"GO:1903912","count":2},{"id":"GO:0033138","count":2},{"id":"GO:1903898","count":2}]},{"hash":"1170592203048523540","title":"Nucleobase and Purine Transport","description":"This cluster is dominated by GO terms for transport of purines and other nucleobases across membranes (adenine, guanine, uracil, hypoxanthine, xanthine, urate, etc.), indicating a cohesive function in nucleobase/purine transmembrane transport, with a minor inclusion of unrelated processes like translation or sporulation that do not define the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098702","count":3},{"id":"GO:0070904","count":3},{"id":"GO:0098721","count":3},{"id":"GO:0015747","count":3},{"id":"GO:1903825","count":3}]},{"hash":"2133210242296420103","title":"ECM remodeling and inflammatory signaling","description":"The cluster\u2019s GO terms cluster around extracellular matrix organization and remodeling (collagen fibril organization), regulation of fibrinolysis/plasminogen activation, angiogenesis, and inflammatory responses (IL-8, TNF production, acute-phase response, LPS signaling), plus a mechanosensing signal (cellular response to mechanical stimulus) and pregnancy-associated ECM changes. This pattern points to a cohesive role in ECM dynamics, coagulation/fibrinolysis control, and inflammation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0007565","count":4},{"id":"GO:0051918","count":4},{"id":"GO:0010757","count":4}]},{"hash":"592320682068753752","title":"Neural development and synapse formation","description":"The top GO terms are dominated by nervous system development, dendrite morphogenesis, axonal fasciculation, and synapse assembly, supported by signaling pathways like ERK1/2 and PI3K that drive neuronal differentiation and connectivity. There are a few non-neural terms (spermatid development, ossification, mast cell chemotaxis), but the neural development/synaptogenesis signals are the most prominent, making this the best shared theme for the cluster.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0031532","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1069021301230340820","title":"Unknown","description":"The GO terms are highly diverse (bone resorption regulation, zinc response, cell surface localization, retinol metabolism, mitochondrial complex IV assembly, pH response, oligodendrocyte progenitor regulation, CO2 transport, epithelium morphogenesis, dipeptide transport), with no clear shared pathway or function linking the proteins, and there are no edges connecting them. This cluster lacks a cohesive theme.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045780","count":2},{"id":"GO:0010043","count":2},{"id":"GO:0034394","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0033617","count":2}]},{"hash":"280825701222328638","title":"Unknown","description":"The GO terms cover neural signaling (dopamine regulation, prepulse inhibition, appetite), circadian rhythm, immune responses (prostaglandin response, eosinophil chemotaxis), and reproduction, with no single cohesive function linking them all. There's no clear theme to label the cluster confidently.","confidence":"","size":22,"edges":223,"triangles":1392,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":18},{"id":"GO:0019076","count":18},{"id":"GO:0060134","count":18},{"id":"GO:1901652","count":18},{"id":"GO:0048245","count":18}]},{"hash":"1180191705087429222","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes: translation, ribosome biogenesis, rRNA maturation and pseudouridine synthesis, and ribosomal subunit assembly, indicating a cohesive module of ribosome production and protein synthesis.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":16},{"id":"GO:0042254","count":8},{"id":"GO:0000462","count":5},{"id":"GO:0031118","count":4},{"id":"GO:0031120","count":4}]},{"hash":"760463580292074545","title":"Developmental signaling and stress response pathways","description":"Core GO terms point to signaling networks that regulate development (positive regulation of Wnt signaling; placenta development; outer ear morphogenesis) and stress- or apoptosis-related pathways (JNK cascade; ER stress\u2013induced apoptotic signaling; FGFR apoptotic signaling). There is also a hint of growth/proliferation through DNA replication initiation. A pain/stress\u2013related behavioral term aligns with stress signaling involvement, reinforcing the theme of development structured by signaling and stress responses.","confidence":"High","size":22,"edges":190,"triangles":910,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":22},{"id":"GO:0060258","count":22},{"id":"GO:0061368","count":22},{"id":"GO:0090263","count":22},{"id":"GO:0043552","count":22}]},{"hash":"1886979721685418050","title":"Actin-driven development and synaptic remodeling","description":"The top GO terms point to actin cytoskeleton dynamics (actin nucleation, mitotic contractile ring contraction, dendritic spine morphogenesis, neuromuscular junction assembly) and development-associated processes, with neuronal/synaptic remodeling themes suggested by spine morphogenesis and cocaine-related behavioral response. This suggests a cluster centered on actin-dependent morphogenesis and synaptic plasticity during development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0044397","count":2},{"id":"GO:0060997","count":2},{"id":"GO:1902404","count":2},{"id":"GO:0051289","count":2}]},{"hash":"2283392203192431526","title":"Mitochondrial ion transport and membrane dynamics","description":"The cluster centers on mitochondrial processes, including regulation of membrane potential, mitochondrial membrane fission, and transport of metal ions (magnesium, manganese, iron); it also covers oxidative stress response and metabolic transport (pyridoxal phosphate). This combination strongly suggests a theme of mitochondrial ion homeostasis and membrane remodeling rather than other cellular compartments.","confidence":"High","size":22,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":11},{"id":"GO:1990616","count":8},{"id":"GO:0051881","count":8},{"id":"GO:0031921","count":8},{"id":"GO:0048250","count":8}]},{"hash":"1145121186016239678","title":"Neural and vascular signaling regulation","description":"This cluster shows a notable enrichment for GO terms about negative regulation of signaling pathways in vascular contexts (blood vessel remodeling, VEGF receptor signaling, Ras, Rho) and neural development/plasticity (brain development, synapse assembly, long-term synaptic potentiation). Although a few terms touch on other processes like immune differentiation, the common theme appears to be suppression or fine-tuning of signaling in neural and vascular systems, suggesting proteins that modulate signaling cascades in these contexts.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060313","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0030948","count":5},{"id":"GO:0043314","count":5},{"id":"GO:0046580","count":5}]},{"hash":"996189876600364671","title":"Plant transcription and secondary cell wall biosynthesis","description":"The GO terms cluster around transcription by RNA polymerase II (initiation and preinitiation complex assembly) and DNA-templated transcription, with additional plant-specific cell wall biosynthesis terms (glucuronoxylan and homogalacturonan) and secondary cell wall biogenesis. This indicates proteins that regulate transcription of cell wall biosynthesis genes in plants. Some peripheral terms (e.g., dexamethasone response, calcium signaling) may be ancillary annotations. Confidence: Medium.","confidence":"","size":22,"edges":18,"triangles":6,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045944","count":5},{"id":"GO:0051123","count":4},{"id":"GO:0010417","count":4},{"id":"GO:0009834","count":4},{"id":"GO:0097202","count":3}]},{"hash":"1785747043372152542","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"The terms cluster around ubiquitin-dependent protein degradation and key mitotic processes (SCF- and APC/C-mediated proteolysis, K11-linked ubiquitination, G2/M transition, and cell division), with supporting roles from neddylation and embryonic development contexts. This suggests a coordinated ubiquitin\u2013proteasome module governing mitotic progression.","confidence":"High","size":22,"edges":116,"triangles":405,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":11},{"id":"GO:0070979","count":11},{"id":"GO:0000278","count":10},{"id":"GO:0051301","count":9},{"id":"GO:0000086","count":8}]},{"hash":"1276603909411350148","title":"Axon guidance and neural development","description":"The cluster is dominated by GO terms related to axon extension, axonogenesis, sympathetic neuron projection guidance, semaphorin-plexin signaling in axon guidance, and nerve organization, indicating a cohesive group of proteins involved in neural development and axon pathfinding. Retina layer formation and synapse-related terms further support a broader neural wiring/development theme. Overall, the terms cohere around neural projection guidance and wiring during development.","confidence":"High","size":22,"edges":18,"triangles":1,"max_degree":8,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048846","count":13},{"id":"GO:0010842","count":10},{"id":"GO:1900242","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0007409","count":9}]},{"hash":"1109713941188506323","title":"Unknown","description":"The GO terms span metabolic biosynthesis (antibiotic, menaquinone, biotin), triglyceride catabolism, cytoplasmic translation, and varied signaling/regulatory responses (FGF, glucocorticoid, endocannabinoid), with no clear single function binding the cluster. This heterogeneity makes a cohesive, specific label unlikely, so Unknown with no confidence.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0044344","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0019433","count":4},{"id":"GO:2000124","count":4}]},{"hash":"401414006412517311","title":"Embryonic Development and Tissue Morphogenesis","description":"The cluster\u2019s GO terms span embryonic and tissue formation processes\u2014labyrinthine layer morphogenesis, neural tube closure, vasculogenesis, ossification, embryo implantation, and growth regulation\u2014along with cellular responses to nerve growth factor and mechanical stimuli. This points to a cohesive theme of developmental morphogenesis and organ/tissue formation rather than a single metabolic or signaling pathway, justifying a label centered on developmental morphology.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060670","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0001570","count":2},{"id":"GO:0007566","count":2}]},{"hash":"1400429228108989914","title":"Embryonic Eye and Neural Morphogenesis","description":"This cluster is strongly enriched for embryonic development and eye-specific terms (embryonic eye morphogenesis, camera-type eye development, in utero embryonic development, eye development) plus neural development (midbrain development, motor neuron axon guidance). While there are hints of broader morphogenesis (pituitary gland, heart/lung), the dominant signal is eye and neural morphogenesis in vertebrates.","confidence":"High","size":22,"edges":16,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0006366","count":6},{"id":"GO:0001701","count":6}]},{"hash":"1878424245156990616","title":"Developmental Transcription Regulators","description":"This cluster is enriched for transcription-related terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) alongside several development-related terms (inner ear development; midbrain development; pituitary gland development; multicellular organism growth). This pattern suggests proteins that regulate gene expression during development, possibly influencing neural and sensory structure formation. Some immune/coagulation terms appear but do not dominate the signal. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0048839","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0001867","count":5}]},{"hash":"1749223400650524632","title":"Mitochondrial translation and respiration in neurons","description":"This cluster is dominated by GO terms related to mitochondrial gene expression and energy production: mitochondrial translation, regulation of translation, maturation of SSU-rRNA, ribosome biogenesis, and proton motive force-driven ATP synthesis, plus assembly of the mitochondrial respiratory chain (complex II). The presence of hypoxia response and apoptosis terms suggests mitochondrial stress signaling, while substantia nigra development and glucose-response regulation hint at brain-specific metabolic contexts. Collectively, the terms point to mitochondrial protein synthesis and respiration as the core theme in neural cells.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006417","count":3},{"id":"GO:0015986","count":2},{"id":"GO:0034553","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1736507088754622604","title":"Lysosome-Endosome Trafficking and Autophagy Regulation","description":"The top terms cluster around intracellular vesicle trafficking and organelle dynamics\u2014lysosome localization, endosome-to-lysosome transport, multivesicular body sorting, and Golgi localization\u2014along with autophagy-related regulation (autophagosome assembly). This suggests a cohesive theme of vesicular trafficking and autophagy control, with related cytoskeletal and cell-cycle context terms likely reflecting broader cellular remodeling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032418","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0046676","count":3},{"id":"GO:0010458","count":2},{"id":"GO:1902902","count":2}]},{"hash":"2000787171267253367","title":"Innate immune signaling and cytoskeleton regulation","description":"Explanation: The terms indicate innate immune signaling (innate immune response; Fc-epsilon receptor signaling) with cytoskeletal remodeling and endocytosis (Rho GTPase regulation; actin cytoskeleton reorganization; endocytosis). These collectively describe immune cell signaling coupled to cytoskeletal dynamics, despite some developmental terms that are less central to the cluster\u2019s core theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0035023","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0038095","count":4},{"id":"GO:0045087","count":4}]},{"hash":"2079105864488696097","title":"Neural adhesion and synapse development","description":"These proteins cluster around neural connectivity: high representation of homophilic/heterophilic cell-cell adhesion, and genes involved in synapse assembly and nervous system development, plus myelination. The presence of innate immune response and type II interferon terms suggests neuroimmune roles, and the cardiac conduction terms hint at shared excitability in heart tissue, but the dominant signal is neural adhesion and synaptic maturation.","confidence":"Medium","size":22,"edges":25,"triangles":3,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":18},{"id":"GO:0007157","count":17},{"id":"GO:0051965","count":16},{"id":"GO:0007399","count":16},{"id":"GO:0043931","count":15}]},{"hash":"218535155959312504","title":"Wnt/Hippo signaling in development","description":"The enriched terms point to signaling pathways (Wnt, Hippo) and transcriptional control (DNA-templated transcription) governing cell fate decisions across tissues, with associated differentiation processes (keratinocyte differentiation, dendrite morphogenesis) and hematopoiesis; apoptosis also features, suggesting regulation of cell survival during development. Together these terms form a coherent developmental signaling/differentiation cluster; the GM-CSF stimulus reflects immune-lineage context as well. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":18},{"id":"GO:0090263","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0060044","count":17},{"id":"GO:0035329","count":17}]},{"hash":"730496089659144133","title":"RNA processing and translation regulation under stress","description":"The cluster is dominated by post-transcriptional RNA metabolism terms: splicing (spliceosome, splice site recognition, alternative splicing regulation), mRNA stability and poly(A) tail regulation, and translation control (EIF4F complex assembly, translation reinitiation), plus miRNA-mediated silencing. This points to a cohesive group of proteins coordinating mRNA processing and controlled translation in response to stress, with development-related terms being less central. ","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":22},{"id":"GO:0035278","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0060211","count":16},{"id":"GO:0097010","count":16}]},{"hash":"586135241879497901","title":"Signaling and Development","description":"The proteins appear linked to regulation and execution of multiple signaling pathways (Ras, Rho, PI3K-related, TGF-beta) and processes tied to development and differentiation (heart development, B cell differentiation, synaptic plasticity, phosphorylation signaling). This suggests a cohesive theme of signal transduction controlling developmental and functional outcomes across tissues.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0002316","count":3},{"id":"GO:0009395","count":3}]},{"hash":"237045393089350164","title":"Protein folding, trafficking, and quality control","description":"This cluster centers on mechanisms that manage protein life cycle and stress: chaperone-assisted refolding, regulation of protein activity, and targeting/export/localization of proteins, as well as redox homeostasis and stress responses. While there are a few developmental and endocrine terms present, the dominant theme ties to maintaining protein structure, function, and proper localization under cellular stress.","confidence":"Medium","size":21,"edges":195,"triangles":1072,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":8},{"id":"GO:1900035","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0006452","count":7},{"id":"GO:0001707","count":7}]},{"hash":"945569577101142320","title":"Post-transcriptional regulation & RNA processing","description":"Most of the top GO terms point to RNA-level control: splicing regulation (via the spliceosome and alternative splicing), mRNA stability regulation in response to stress, and poly(A) tail shortening, along with aspects of translation initiation and reinitiation (eIF4F complex assembly, translation reinitiation). A spermatid development term appears but is not central to the cluster\u2019s main theme. Together these indicate a cohesive function in post-transcriptional gene expression regulation and RNA processing.","confidence":"Medium","size":21,"edges":156,"triangles":595,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0060211","count":2}]},{"hash":"2251326910646935198","title":"Solute Transporters Across Membranes","description":"Based on the top GO terms, this cluster is dominated by transmembrane transport of diverse solutes, including sugars (D-xylose, D-glucose), ions (Na+, K+), urate, selenite, and nitrate, with additional signals related to neurotransmitter loading into vesicles and vitamin C metabolism. This pattern points to membrane transporter proteins responsible for moving a variety of solutes across cellular membranes. ","confidence":"High","size":21,"edges":105,"triangles":205,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0015753","count":5},{"id":"GO:1904659","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0015747","count":5},{"id":"GO:0035725","count":5}]},{"hash":"739218028226608146","title":"Translation initiation and mRNA transport","description":"The cluster shows a strong enrichment for translation-related processes: formation of the translation preinitiation complex, translation reinitiation, and mRNA transport, indicating a core role in initiating protein synthesis and handling RNA. TORC1 signaling also ties into growth and translation regulation, reinforcing this theme. Some terms like synaptonemal complex assembly and general cell division appear, but the predominant signal centers on translation initiation machinery and RNA trafficking, supporting the chosen label.","confidence":"Medium","size":21,"edges":34,"triangles":9,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0007130","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1667201463837938378","title":"Membrane Ion Transport and Metabolic Pathways","description":"The top GO terms reveal several transmembrane ion transport activities\u2014copper, zinc, calcium, and proton\u2014pointing to membrane transport proteins. Epoxygenase P450 pathway also reflects membrane-associated enzymatic activity. The remaining terms cover various biosynthetic and catabolic processes, indicating a cluster centered on membrane-related metabolism rather than a single canonical pathway. Therefore, a concise label that reflects both transport and membrane-associated metabolism is appropriate.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006825","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0009103","count":5},{"id":"GO:0097755","count":5}]},{"hash":"584741468962857898","title":"Signaling and mechanotransduction in skin and bone remodeling","description":"This cluster centers on signal transduction pathways (ERK cascade, peptidyl-serine phosphorylation, Wnt signaling) and membrane trafficking (Golgi to plasma membrane), aligned with cellular responses to mechanical stimuli. The presence of hair follicle morphogenesis and bone resorption suggests roles in tissue remodeling in skin/hair and bone, likely coordinated by mechanosensitive signaling. Taken together, these proteins likely participate in signaling-driven remodeling processes with emphasis on mechanotransduction at membranes.","confidence":"Medium","size":21,"edges":109,"triangles":220,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0006893","count":4},{"id":"GO:0090324","count":3},{"id":"GO:0090263","count":3}]},{"hash":"469347247370473470","title":"Wnt-Driven Morphogenesis and Cell Adhesion Signaling","description":"This cluster centers on developmental signaling and tissue organization, with strong representation of Wnt signalosome assembly, branching morphogenesis, and adherens junction organization, suggesting a coordinated role in morphogenesis and cell\u2013cell adhesion. Additional terms on endosomal transport and AMPK signaling hint at supporting regulatory context during development, while others (mechanical response, multicellular growth, Th1) reflect broader multifunctionality in signaling and immune-related aspects. Overall, the dominant theme is Wnt-associated morphogenesis and junctional signaling.","confidence":"Medium","size":21,"edges":75,"triangles":66,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904887","count":5},{"id":"GO:1905279","count":5},{"id":"GO:1903125","count":5},{"id":"GO:0035751","count":5},{"id":"GO:0071260","count":5}]},{"hash":"438649799616922386","title":"Embryonic development and organogenesis","description":"These proteins show a strong signal for developmental differentiation and organ formation, with GO terms spanning placental and endocrine development, left-right patterning, EMT in heart development, cartilage morphogenesis, and pancreatic endocrine development. While there are some immune regulation and splicing terms present, the dominant theme is embryonic development and organogenesis, making this label appropriate though somewhat heterogeneous.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":7},{"id":"GO:0039536","count":6},{"id":"GO:0060806","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060972","count":5}]},{"hash":"1579728962933341121","title":"Eye morphogenesis and retina development","description":"The top GO terms are dominated by eye-related processes (embryonic eye morphogenesis, camera-type eye development, retina development in camera-type eye), indicating a coherent set of proteins involved in eye formation and retinal differentiation, with other developmental processes appearing as secondary connections.","confidence":"High","size":21,"edges":174,"triangles":767,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0048048","count":9},{"id":"GO:0043010","count":9},{"id":"GO:0060441","count":9},{"id":"GO:0060021","count":8}]},{"hash":"1092268754406190878","title":"Stress- and immune-signaling in development","description":"The proteins cluster around stress responses (amino acid starvation), innate immune signaling, and developmental processes (axonogenesis, hemopoiesis), with links to metabolism (insulin signaling) and cell-cycle regulation (G2/M) as well as apoptosis. This suggests a coordinated program where stress and immune cues influence development and cell fate.","confidence":"Medium","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034198","count":9},{"id":"GO:0045087","count":7},{"id":"GO:0060291","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0007409","count":6}]},{"hash":"1446761355668390500","title":"mRNA processing and translation regulation","description":"This cluster centers on RNA processing and translation control, with strong signals for spliceosome-mediated splicing (cis and alternative), poly(A) tail regulation, and mRNA stability, plus initiation complex assembly and translation reinitiation, and miRNA-mediated silencing. The co-occurrence of splicing regulators and translation factors suggests a coordinated module linking mRNA maturation to translation.","confidence":"High","size":21,"edges":158,"triangles":568,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":16},{"id":"GO:0010610","count":14},{"id":"GO:0045292","count":14},{"id":"GO:0000381","count":13},{"id":"GO:0048025","count":13}]},{"hash":"2222653251701929427","title":"Neural development and synaptic signaling","description":"These proteins are linked to neural connectivity and function, with GO terms pointing to synapse assembly, axonal fasciculation, and corpus callosum development, as well as learning, pain perception, and behavioral responses. Calcium release and responses to mechanical stimuli further support activity-dependent neural signaling. Overall, a cohesive theme of neural development, synaptic organization, and sensory/behavioral processing emerges.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0051281","count":6},{"id":"GO:0019233","count":6}]},{"hash":"643537443836676485","title":"Fatty acid oxidation and lipid metabolism","description":"This cluster is driven by multiple GO terms tied to fatty acid catabolism and lipid processing, including long-chain and medium-chain fatty acid catabolic processes, fatty-acyl-CoA biosynthesis, and fatty acid beta-oxidation. These themes point to fatty acid metabolism as the core function, with related terms (e.g., leucine catabolism and lipid-derived signaling like ascaroside biosynthesis) providing broader metabolic context. The presence of a cold-response term may reflect metabolic adaptation rather than a distinct non-lipid pathway, supporting a lipid-metabolism-centric interpretation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009409","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0006552","count":3},{"id":"GO:1904070","count":2},{"id":"GO:0046949","count":2}]},{"hash":"469949195838553852","title":"C. elegans vulval development and mating signaling","description":"The top GO terms point to mating-related processes (regulation of female receptivity post-mating, response to hermaphrodite contact, male pronucleus assembly) and vulval localization, plus calcineurin-NFAT signaling, which together suggest reproductive signaling and vulval development in C. elegans. A subset of terms about translation and tRNA aminoacylation appears, likely reflecting housekeeping proteins present in the cluster, but the dominant theme remains worm reproductive signaling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046008","count":2},{"id":"GO:0035039","count":2},{"id":"GO:0034606","count":2},{"id":"GO:0070884","count":2},{"id":"GO:0034608","count":2}]},{"hash":"1578539263472932683","title":"Ribosome Biogenesis and Translation","description":"Enriched GO terms center on ribosome function and protein synthesis: translation (cytoplasmic and mitochondrial), translational termination, ribosome biogenesis, and large subunit assembly/export from the nucleus, indicating a ribosome/translation module; a few terms like response to antibiotic and nerve growth factor stimulus are peripheral.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0046677","count":5},{"id":"GO:0002181","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0006407","count":3}]},{"hash":"1412783626450738929","title":"Transmembrane Transporters","description":"The top GO terms are dominated by transmembrane transport activities across a range of substrates (potassium, sodium, nitrate, galactose, sialic acid, vitamin) plus nitrate assimilation, indicating the proteins function primarily as membrane transporters for diverse solutes. Some terms like hippocampus development and negative regulation of inflammatory response are not aligned with transport and appear as outliers, but the overarching signal is transporter activity. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0015739","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"192435459445001349","title":"Embryonic Organogenesis and Tissue Differentiation","description":"The set of terms centers on development and differentiation of various organs and tissues during embryogenesis, including pancreatic cell development, trophoblast differentiation, gonad development, placental processes, left-right patterning, heart EMT, endocrine system development, cartilage morphogenesis, and ureteric bud branching. A common thread is transcriptional regulation during these developmental programs, suggesting the proteins are broadly involved in embryonic organogenesis and tissue differentiation rather than a single tissue-specific pathway.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0000122","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0008584","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1396064252763255400","title":"Motor neuron development and axon guidance","description":"The top GO terms converge on motor neuron development and axon pathfinding, including lateral motor column neuron migration, peripheral nervous system axonogenesis, motor neuron axon guidance, and dopaminergic neuron differentiation, with cell-matrix adhesion supporting neurite interactions. A platelet aggregation term appears as a less relevant outlier, but the dominant theme is neuronal development and axon guidance.","confidence":"High","size":21,"edges":200,"triangles":1151,"max_degree":20,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070527","count":11},{"id":"GO:0097477","count":11},{"id":"GO:0007160","count":10},{"id":"GO:0048936","count":10},{"id":"GO:0008045","count":10}]},{"hash":"2115056339960940816","title":"Diverse Metabolite Biosynthesis","description":"The top GO terms are a mix of biosynthetic processes for various compounds (antibiotics, fatty acids, very long-chain fatty acids, anthocyanins, acetoin, PHB, testosterone, tetrahydrobiopterin, etc.), with no single pathway dominating. This points to a cluster of proteins involved in diverse biosynthetic activities rather than one specific function, justifying a label that emphasizes broad metabolite biosynthesis.","confidence":"Medium","size":21,"edges":11,"triangles":2,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0055114","count":6},{"id":"GO:0042619","count":6},{"id":"GO:0009718","count":6},{"id":"GO:0045150","count":5}]},{"hash":"243798377225230120","title":"Unknown","description":"The GO terms span reproductive development, translation initiation, neural development, and signaling with no single cohesive theme; there are no edges to suggest a shared function, so a specific, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072520","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1671637416938773007","title":"Cell migration and cytoskeletal signaling","description":"The top term is cell migration, with strong representation for Rho signaling, cytoskeletal regulation, and remodeling, plus growth and development cues (IGF signaling, spinal cord development). While there are immune and apoptosis-related terms, the dominant theme ties to signaling pathways that govern cell movement and structural changes during development and tissue remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0097194","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0060313","count":4}]},{"hash":"2119185606956643838","title":"Developmental cell adhesion and morphogenesis","description":"Multiple terms point to cell adhesion (heterophilic cell-cell adhesion) and synapse assembly, alongside morphogenetic processes (ossification, lung branching, endocardial cushion formation), indicating a cohesive theme of developmental tissue remodeling governed by adhesion and synapse-related mechanisms.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0006508","count":5},{"id":"GO:0007416","count":5},{"id":"GO:0051965","count":5}]},{"hash":"1775141057365671022","title":"Mechanotransduction and innate immune signaling","description":"This cluster\u2019s top terms span mechanosensitive signaling (cellular response to mechanical stimulus, calcium ion import, pain-associated mechanosensation) and innate immune pathways (NOD1/2 signaling, Wnt signaling), suggesting proteins that participate in signaling networks triggered by mechanical cues and linked immune/calcium responses rather than a single metabolic function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010745","count":7},{"id":"GO:0016055","count":7},{"id":"GO:1904743","count":6},{"id":"GO:0070431","count":6},{"id":"GO:0071260","count":6}]},{"hash":"519173574070301527","title":"Developmental Cell Adhesion and Immune Signaling","description":"These proteins show strong connectivity to cell adhesion (both homophilic and heterophilic), neural development and synapse assembly, and ossification, suggesting roles in tissue organization and nervous system formation. The immune-related GO terms (complement activation, phagocytosis recognition, negative regulation of macrophage activation) imply immune modulation within developing tissues, while terms related to heart rate regulation and smooth muscle proliferation point to cardiovascular development. Overall, the cluster seems to integrate cell adhesion with developmental signaling and immune interactions rather than a single narrow function.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0006910","count":8}]},{"hash":"2176404781219909074","title":"Developmental signaling and cytoskeletal regulation","description":"Coherent theme across GO terms: regulation of GTPase activity and Rho signaling; assembly of lamellipodia/microspikes; activation of ERK, Wnt, and TGF-beta pathways; and involvement in bone and nervous system development. This suggests a cluster of proteins that coordinate cytoskeletal remodeling and signaling during developmental cell migration and tissue morphogenesis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0060348","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1143820634108555499","title":"Actin-driven cytoskeleton remodeling and cell migration","description":"The cluster centers on actin cytoskeleton reorganization with filopodium and lamellipodium assembly, supporting cell migration and mechanotransduction. It is enriched for Rho-family GTPase regulation and responses to mechanical cues, with Wnt signaling and morphogenesis context (e.g., heart development) that link cytoskeletal dynamics to tissue remodeling. Overall, it reflects proteins coordinating actin dynamics to drive movement and signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0016477","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1574774418068117193","title":"Neurodevelopment and axon guidance","description":"The top GO terms are dominated by neural development and connectivity tasks\u2014positive regulation of synapse assembly, axonal fasciculation, axon guidance in photoreceptors, and cell\u2013cell adhesion, along with clustering of voltage-gated potassium channels, all pointing to neuronal development and network formation. Some terms also touch on broader development processes like ossification and angiogenesis, but the central signal is neural development. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0045163","count":2},{"id":"GO:0072499","count":2},{"id":"GO:0007413","count":2}]},{"hash":"701924707441309668","title":"Dendritic spine morphogenesis and synaptic plasticity","description":"The cluster\u2019s top GO terms cluster around neuronal morphogenesis and actin-based remodeling (dendritic spine morphogenesis, positive regulation of synapse structural plasticity, dendrite development, filopodium assembly, and regulation of Rho signaling), indicating a theme of spine formation and synaptic plasticity. Some terms such as mitotic cell cycle may be incidental; overall, the dominant signal reflects neuronal cytoskeleton remodeling driving spine and synapse maturation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0016358","count":3}]},{"hash":"767144483429089089","title":"Rho GTPase signaling and cytoskeletal organization","description":"This cluster is dominated by terms related to Rho GTPase signaling, regulation of GTPase activity, and cytoskeletal organization (including sarcomere organization) with accompanying cell adhesion and broad signaling pathway terms (Wnt, thrombin receptor signaling). The mix points to a theme of cytoskeletal dynamics coordinated by small GTPases and signaling networks governing cell shape and adhesion, despite a few outliers (e.g., ascospore formation). Overall, the functions cohere around cytoskeletal regulation and signaling, justifying the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0030437","count":2}]},{"hash":"831305546840576295","title":"Developmental differentiation and vesicle trafficking","description":"This cluster features GO terms across multiple developmental contexts (oogenesis, spermatogenesis, lens morphogenesis, angiogenesis, erythrocyte differentiation, muscle stretch response) plus vesicle trafficking processes (ER-Golgi transport, retrograde vesicle transport, clathrin-dependent endocytosis). The common theme appears to be proteins involved in tissue development/differentiation with roles in intracellular transport, rather than a single pathway. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035994","count":2},{"id":"GO:0007129","count":2},{"id":"GO:0048477","count":2},{"id":"GO:0007283","count":2},{"id":"GO:2000370","count":2}]},{"hash":"1188071552499528599","title":"Brain Visual Perception and Pain Signaling","description":"This cluster is dominated by neural and sensory functions related to vision and pain, including visual perception and learning, pain sensation, and opioid/morphine response, with supporting signaling pathways (ERK cascade, GTPase activity) and brain-specific systems (brain renin-angiotensin). The convergence suggests proteins involved in brain circuits for vision and pain modulation.","confidence":"High","size":20,"edges":185,"triangles":1056,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":20},{"id":"GO:0070374","count":19},{"id":"GO:0002035","count":19},{"id":"GO:0008542","count":19},{"id":"GO:0043278","count":19}]},{"hash":"1098465094863078409","title":"Synapse Plasticity and Spine Morphogenesis","description":"The cluster is dominated by terms tied to neuronal synapse function, including positive regulation of synapse structural plasticity, NMDA receptor clustering, and dendritic spine morphogenesis, as well as sensory perception terms like sound and equilibrioception, suggesting a focus on synapse formation and remodeling in neural circuits. Supporting terms about cell adhesion and integrin regulation fit synaptic adhesion and spine stabilization, while occasional annotations such as brush border assembly or axial mesoderm formation may reflect broader developmental annotations; however, the core signal points to neural synapse organization and plasticity.","confidence":"High","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051835","count":4},{"id":"GO:0050957","count":4},{"id":"GO:0051497","count":4},{"id":"GO:0007605","count":4},{"id":"GO:1904970","count":4}]},{"hash":"1974197665793168414","title":"Rac-regulated dendritic spine morphogenesis","description":"The cluster revolves around neuronal development and actin-driven spine formation, highlighted by terms for dendritic spine development/morphogenesis, lamellipodium/ruffle assembly, and Rac signaling. The Golgi-to-plasma membrane transport term also suggests membrane trafficking linked to spine formation, making Rac-dependent dendritic spine remodeling the coherent theme across the proteins.","confidence":"High","size":20,"edges":123,"triangles":326,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043001","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0001822","count":10},{"id":"GO:0021766","count":9},{"id":"GO:0045792","count":9}]},{"hash":"1837945523721593480","title":"RNA processing and translation machinery","description":"The cluster is dominated by translation-related terms (translation; tRNA modification; glutamyl-tRNA aminoacylation) with supporting signals from transcription and chromatin organization, suggesting a group of proteins involved in RNA metabolism and protein synthesis, potentially linked to gene expression regulation and metabolic signaling (insulin response).","confidence":"Medium","size":20,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0006424","count":2},{"id":"GO:0006015","count":2}]},{"hash":"1705241268946929101","title":"Redox-regulated transcription and phosphorylation signaling","description":"The terms cluster around transcription regulation (DNA-templated transcription), regulation of kinase and phosphatase activities, and redox biology (hydrogen peroxide and superoxide production), with an additional cellular response to xenobiotic stimulus. This supports a coherent theme where redox signals modulate transcription and phosphorylation pathways, potentially linking stress response to developmental regulation, though some development terms may reflect downstream effects or broader functional context.","confidence":"Medium","size":20,"edges":24,"triangles":0,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0071902","count":5},{"id":"GO:0032516","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0050665","count":4}]},{"hash":"1089087682713788189","title":"Cell Cycle Regulation & RNA Processing","description":"This cluster combines terms for TORC1 signaling, GTPase regulation, cell division (CENP-A chromatin assembly), transcription, mRNA transport, translation reinitiation, and vesicle transport, suggesting a regulatory module coordinating growth, division, and gene expression.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0051301","count":7},{"id":"GO:0070262","count":7},{"id":"GO:0038202","count":7},{"id":"GO:0051028","count":7}]},{"hash":"2218196234322599492","title":"Developmental transcriptional regulation","description":"These GO terms point to a core role in controlling gene expression (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) together with diverse tissue differentiation programs (endocardial, chondrocyte, lens epithelial, dendritic cell differentiation; somatic stem cell maintenance; vascular morphogenesis). The cluster likely comprises regulators that modulate transcription to steer multiple developmental pathways across lineages.","confidence":"Medium","size":20,"edges":76,"triangles":50,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0006351","count":8},{"id":"GO:1902262","count":8},{"id":"GO:0035019","count":8},{"id":"GO:0060033","count":7}]},{"hash":"919201772988424358","title":"Embryonic organogenesis and neural development","description":"The terms cluster around vertebrate embryo development across brain, ear, muscle, and heart, with transcriptional regulation driving patterning; the proteins likely participate in organogenesis and neural differentiation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0035284","count":5},{"id":"GO:0003198","count":5}]},{"hash":"471984562462575419","title":"Ubiquitin-Proteasome Regulation & Apoptosis","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes (including autoubiquitination and ERAD), and regulatory pathways for apoptosis and immune signaling (JNK cascade, I\u03baB phosphorylation, TNF signaling). This points to a set of proteins primarily involved in ubiquitin-mediated protein turnover that modulates cell survival and inflammatory signaling, with a few broader terms (V(D)J recombination, dosage compensation) that may reflect ancillary roles. Confidence reflects the strong theme around ubiquitin-dependent degradation and apoptotic regulation, despite some outliers.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":12},{"id":"GO:1903265","count":11},{"id":"GO:0030433","count":11},{"id":"GO:0042981","count":11}]},{"hash":"199234308937515132","title":"Immune signaling and transcription regulation","description":"The top GO terms point to regulation of host defense against viruses, NF-kappaB signaling, and ERK/MAPK pathways, along with controls on cytokine production and protein ubiquitination, all aligning with immune signaling and transcriptional regulation. A muscle development term appears less connected, but the dominant pattern is signaling and transcriptional control in immune contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002230","count":3},{"id":"GO:0048741","count":3},{"id":"GO:1903799","count":3},{"id":"GO:0070374","count":2},{"id":"GO:0032725","count":2}]},{"hash":"1898292880865439430","title":"Cofactor biosynthesis and tRNA modification cluster","description":"The top GO terms are dominated by biosynthetic processes for essential cofactors (molybdopterin, thiamine, protoporphyrinogen IX, menaquinone) and by tRNA-related modifications (lipoylation, tRNA methylation, queuosine biosynthesis), with translation included as a broader context. This points to a cohesive theme: a metabolic module dedicated to assembling cofactors and modifying tRNA, which together support enzyme function and protein synthesis. Unknown or single-pathway connections are less evident, so the label reflects the shared functional direction rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006777","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0009249","count":2},{"id":"GO:0018339","count":2},{"id":"GO:0030488","count":2}]},{"hash":"328765617095602888","title":"Transcriptional Regulation in Development and Regeneration","description":"This cluster is enriched for transcription by RNA polymerase II, with several development- and regeneration-related terms (liver regeneration, salivary gland development, segment identity). Additional terms point to regulatory and stress signaling contexts (nutrient-responsive transcriptional control, ER-stress\u2013induced apoptosis, IL-4\u2013related signaling), suggesting proteins that regulate gene expression during development and tissue regeneration, with supporting regulatory pathways.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0071353","count":11},{"id":"GO:0035470","count":11},{"id":"GO:0007381","count":10},{"id":"GO:0070059","count":10}]},{"hash":"1146876941204624508","title":"RNA splicing and translational initiation regulation","description":"This cluster is dominated by GO terms related to RNA processing (spliceosome-mediated splicing) and multiple facets of initiating or reinitiating translation (preinitiation complex formation, translational initiation regulation, IRES-dependent initiation, and viral reinitiation), with an additional connection to ncRNA-mediated gene silencing. The shared theme is post-transcriptional control of gene expression at both the RNA maturation and translation start steps.","confidence":"High","size":20,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0006378","count":8}]},{"hash":"1692937169054161156","title":"Rho signaling and cytoskeletal remodeling","description":"The cluster is enriched for GO terms related to regulation of Rho protein signal transduction and microspike assembly, pointing to cytoskeletal dynamics governed by Rho GTPases and associated changes in cell shape and polarity. Additional terms touch neural contexts (long-term synaptic depression) and immune signaling (innate immune response, IL-2 production), suggesting cross-talk between cytoskeletal regulation, cell signaling, and both neural and immune functions. The common thread is a set of regulators of cytoskeleton and signaling with broader implications for cell polarity, shape, and synaptic or immune activity, making the label a reasonable high-level summary despite the mixed functions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0030035","count":3},{"id":"GO:2000009","count":3}]},{"hash":"398673755303262278","title":"Cytoskeletal remodeling in development and synaptic plasticity","description":"This cluster is dominated by actin-related processes (actin crosslink formation, stress fiber assembly, regulation of cell shape) and is enriched for neuronal plasticity terms (long-term potentiation/depression), suggesting proteins that reorganize the cytoskeleton to support both synaptic remodeling and developmental morphogenesis (including heart and bone development). The common theme is actin/cytoskeletal dynamics underlying development and neural function.","confidence":"High","size":20,"edges":9,"triangles":0,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060291","count":8},{"id":"GO:0051764","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0060348","count":6}]},{"hash":"1153182763126343502","title":"Developmental transcriptional regulation and morphogenesis","description":"Based on the top GO terms, the cluster centers on embryonic development and tissue morphogenesis (neural crest migration, pancreas development, ureteric bud branching, primitive streak formation, blood vessel morphogenesis) and includes transcriptional regulation (negative regulation of transcription by RNA polymerase II, chromatin organization). This combination suggests a cohesive role in controlling developmental programs, hence the name. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:1902262","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0048935","count":4}]},{"hash":"452914124860694701","title":"Neural sensory perception and signaling","description":"The proteins show enrichment for sensory perception (pain, vision/visual learning) and responses to stimuli (temperature, prostaglandin, cocaine) along with a linked signaling pathway (ERK cascade), suggesting a cluster centered on neural sensory processing and downstream signal transduction.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0007275","count":6}]},{"hash":"1522145539911167424","title":"Cofactor biosynthesis and redox homeostasis","description":"This cluster is dominated by GO terms for biosynthesis of essential cofactors (molybdopterin, ubiquinone, menaquinone, biotin) and related redox-related processes, along with supporting activities like tRNA methylation. While a few terms (mitotic M phase, spinal cord development) seem tangential, the core theme centers on producing cofactors and maintaining cellular redox balance.","confidence":"Medium","size":20,"edges":113,"triangles":233,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0006777","count":2},{"id":"GO:0006744","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0009234","count":2}]},{"hash":"40527219006177827","title":"DNA replication and replication initiation control","description":"This cluster is dominated by DNA replication terms (DNA replication and initiation regulation), suggesting the core theme is genome duplication and cell-cycle-related processes. The other GO terms (Wnt signaling, JNK cascade, apoptosis signaling, morphogenesis) appear ancillary and do not define a single cohesive function for the group, so replication-related functions best represent the cluster.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":19},{"id":"GO:0032298","count":18},{"id":"GO:0060258","count":18},{"id":"GO:0061368","count":18},{"id":"GO:0090263","count":18}]},{"hash":"2252576368964011418","title":"Cytoskeletal remodeling and cell adhesion","description":"This cluster highlights actin filament regulation and cell-matrix adhesion, with supporting signals from mechanosensing and developmental processes (neuron differentiation, mRNA localization, and morphogenesis). The convergence on cytoskeletal dynamics linked to adhesion and development suggests a cohesive theme of cytoskeleton-guided cell behavior during development.","confidence":"Medium","size":20,"edges":49,"triangles":42,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0010735","count":12},{"id":"GO:0007160","count":12},{"id":"GO:0048482","count":12},{"id":"GO:0030835","count":12},{"id":"GO:0030579","count":12}]},{"hash":"1982207595193034912","title":"Immune and developmental signaling network","description":"These proteins are enriched for immune signaling terms (Th2 cytokine production, IL-27 signaling, NK cell differentiation, STAT phosphorylation, PI3K-AKT pathway) and developmental processes (myoblast fusion, axial mesoderm formation, dendritic spine morphogenesis, slit diaphragm assembly). The common thread is regulation of intracellular signaling pathways that drive differentiation and morphogenesis across immune, muscle, neural, and embryonic contexts, justifying a label centered on signaling across immune and developmental processes.","confidence":"Medium","size":20,"edges":184,"triangles":1039,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":13},{"id":"GO:0007520","count":13},{"id":"GO:0035745","count":12},{"id":"GO:0070106","count":12},{"id":"GO:0042517","count":12}]},{"hash":"1334682671396070625","title":"Developmental differentiation and transcriptional regulation","description":"This cluster centers on tissue- and lineage-specific differentiation (Leydig cells, mammary alveolus, fat cells, vagina) and associated transcriptional control, with retinoic acid signaling and modulation of macrophage activation. The shared theme is broad developmental differentiation guided by transcriptional programs, rather than a single, cohesive pathway, supporting a high-level label of developmental differentiation with regulatory transcriptional control.","confidence":"Medium","size":20,"edges":24,"triangles":9,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0033327","count":12},{"id":"GO:0060749","count":12},{"id":"GO:0090188","count":9},{"id":"GO:0071300","count":9}]},{"hash":"774609302962482137","title":"NF-\u03baB/NOD2 Immune Signaling Cluster","description":"The GO terms point to NF-kappaB pathway regulation (including canonical NF-kappaB signaling), NOD2-mediated signaling, and cross-talk with calcineurin-NFAT pathways, indicating a core theme of innate immune signal transduction and transcriptional control. Additional terms touch xenobiotic response and cytoskeletal/morphogenesis aspects, suggesting broader stress and cellular dynamics, but the central theme is immune signaling via NF-\u03baB/NOD2.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0001569","count":2},{"id":"GO:0035562","count":2}]},{"hash":"2289763410560791876","title":"Embryonic organogenesis and cardiovascular development","description":"The top GO terms cluster around developmental processes across multiple organs, with a strong emphasis on cardiovascular differentiation (vasculogenesis, cardiac muscle differentiation) and supporting organogenesis activities (forebrain, neural crest migration, lung, uterus development). This suggests proteins involved in broad embryonic development rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001570","count":5},{"id":"GO:0003257","count":5},{"id":"GO:0001755","count":4},{"id":"GO:0010735","count":4},{"id":"GO:0010667","count":4}]},{"hash":"2103346826127808805","title":"Actin-driven neurite outgrowth and dendrite development","description":"The cluster is dominated by actin cytoskeleton remodeling terms (barbed-end actin filament capping, filopodium and lamellipodium assembly, Arp2/3-mediated nucleation) and neuronal projection formation (neuron projection development, dendrite development), pointing to actin-driven neurite extension as the core function. Inflammatory signaling terms (lipopolysaccharide response, NF-kappaB regulation) appear but are less central to the main theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":6},{"id":"GO:0031175","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0030032","count":5},{"id":"GO:2000601","count":4}]},{"hash":"1871430220397528240","title":"Nuclear Transport and Genome Maintenance","description":"The cluster centers on nuclear processes: import of ribosomal proteins and other cargo into the nucleus, assembly of the nuclear pore, and chromatin/telomere maintenance, including subtelomeric heterochromatin formation and protection of telomeres. It also includes rRNA maturation and DNA structure aspects like G-quadruplex formation, all pointing to nucleus-centric protein handling and genome integrity. A minor outlier is the extrinsic apoptotic signaling term, but the dominant theme remains nuclear transport, ribosome biogenesis, and chromatin stability.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051292","count":3},{"id":"GO:0000463","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0031848","count":2},{"id":"GO:0071919","count":2}]},{"hash":"688658031806680511","title":"Mitochondrial stress response and apoptosis","description":"The top terms cluster around mitochondrial dynamics and stress responses: mitochondrial fission and fragmentation, cytochrome c release linked to apoptosis, regulation of macroautophagy, hypoxia response, and ROS metabolism. Together, these point to a coherent theme of mitochondria-driven cellular stress signaling leading to apoptosis or autophagy, with a few developmental terms likely representing broader roles or annotation noise. Thus, the label reflects the central function of the group as mitochondrial stress response and cell death regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0090200","count":5},{"id":"GO:0043653","count":4},{"id":"GO:0071456","count":4},{"id":"GO:2000378","count":4}]},{"hash":"1322194123211642793","title":"Cross-system stimulus-response signaling","description":"These proteins are linked to GO terms describing responses to a variety of stimuli across systems\u2014immune signaling (T cell receptor signaling, neutrophil chemotaxis), xenobiotic response, epinephrine signaling, vascular permeability regulation, phototransduction, retinal development, and cardiac muscle relaxation\u2014pointing to a general theme of signal transduction in response to diverse cues across tissues.","confidence":"Medium","size":20,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":11},{"id":"GO:0035690","count":10},{"id":"GO:0019933","count":9},{"id":"GO:0010738","count":9},{"id":"GO:0030593","count":9}]},{"hash":"174628207164187723","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010087","count":2},{"id":"GO:0030422","count":2},{"id":"GO:0000389","count":2},{"id":"GO:0000395","count":2},{"id":"GO:0000380","count":2}]},{"hash":"770950070761583167","title":"Gene Regulation and Development","description":"Many top GO terms point to transcriptional control and RNA processing (DNA-templated transcription, mRNA processing), and several terms relate to developmental/differentiation processes (male gonad development, fat cell differentiation). Additionally, there are entries on cell cycle regulation and telomere maintenance, linking genome stability and aging. Together, these suggest a cluster centered on gene expression regulation during development and differentiation, with some aging-related context. However, the terms are quite diverse, so the label is moderately confident.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007568","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0006351","count":4}]},{"hash":"2299754238443284397","title":"Dendritic spine morphogenesis and synaptic plasticity","description":"The cluster is dominated by neural synapse-related terms: dendritic spine morphogenesis, NMDA receptor clustering, regulation of excitatory postsynaptic potential, and synapse structural plasticity, with ephrin signaling also linking to synaptic development. A few terms relate to broader development or chromatin modification, but the strongest theme is synapse formation and plasticity in neurons.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0097114","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0030707","count":2}]},{"hash":"1133901676557947941","title":"Embryonic Development and Morphogenesis","description":"The terms concentrate on developmental and morphogenetic processes across multiple tissues (mesoderm, cartilage, hair follicles, palate) and patterning (left-right). The fold in EMT for endocardial cushion formation also fits embryonic morphogenesis, with a regulatory GO term (negative regulation of transcription by RNA Pol II) indicating transcriptional control during development. This supports a coherent theme of embryonic development and organ morphogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0060806","count":3},{"id":"GO:0007498","count":3},{"id":"GO:0060972","count":3}]},{"hash":"2174546060051778704","title":"Neural signaling and circadian regulation","description":"The cluster centers on neural and neuroendocrine processes, including dopamine receptor signaling regulation, prepulse inhibition, ERK cascade modulation, and appetite control, alongside circadian rhythm regulation and prostaglandin responses. Immune-related terms (eosinophil chemotaxis) and viral release hint at cross-talk between neural and immune/host-pathogen pathways, suggesting a broader neuroendocrine-immune integration. Overall, a cohesive theme of neural signaling with circadian and hormone-related regulation (with possible immune cross-talk).","confidence":"Medium","size":19,"edges":143,"triangles":575,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":17},{"id":"GO:0019076","count":17},{"id":"GO:0060134","count":17},{"id":"GO:1901652","count":17},{"id":"GO:0048245","count":17}]},{"hash":"1356982010770722377","title":"Vertebrate Developmental Signaling and Morphogenesis","description":"This cluster is enriched for developmental processes (placenta development, outer ear morphogenesis) and signaling pathways (Wnt, JNK cascade, FGFR apoptotic signaling, ER stress\u2013related apoptosis, PI3K activity). The convergence on developmental signaling and cellular stress responses suggests a cohesive module governing vertebrate development and associated cellular decision-making, despite some general terms like DNA replication initiation appearing among it.","confidence":"Medium","size":19,"edges":168,"triangles":920,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":19},{"id":"GO:0060258","count":19},{"id":"GO:0061368","count":19},{"id":"GO:0090263","count":19},{"id":"GO:0043552","count":19}]},{"hash":"1423793212861830724","title":"Rho GTPase\u2013Mediated Actin Remodeling","description":"The top GO terms cluster around Rho-family GTPase signaling and actin cytoskeleton dynamics (actin organization, lamellipodium assembly, small GTPase signaling, and cell spreading), suggesting a shared role in cytoskeletal remodeling. Some terms touch broader contexts (heart development, myelin maintenance, sensory perception, insulin signaling) but do not detract from the central theme of actin dynamics regulated by Rho GTPases.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0032287","count":5},{"id":"GO:0007605","count":5},{"id":"GO:0090630","count":5}]},{"hash":"246382717703009267","title":"Visual perception and neural signaling cluster","description":"The top GO terms cluster around visual perception and visual signaling (visual perception, regulation of opsin-mediated signaling, visual learning) and extend into neural signaling pathways (protein phosphorylation, ERK1/2 cascade) and neurological responses (response to morphine). This suggests a theme of sensory processing in the brain with emphasis on vision and associated signaling cascades, rather than non-sensory processes. Some terms like heart development or thermogenesis appear peripheral, likely reflecting broader multi-function proteins rather than a core theme of this cluster.","confidence":"Medium","size":19,"edges":58,"triangles":26,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":17},{"id":"GO:0019233","count":16},{"id":"GO:0006468","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0070374","count":15}]},{"hash":"647280627545485169","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":5},{"id":"GO:0070389","count":5},{"id":"GO:0006452","count":5},{"id":"GO:0001707","count":5},{"id":"GO:0046825","count":5}]},{"hash":"116828048923225368","title":"Unknown","description":"The GO terms span many distinct metabolic biosynthesis processes (retinol, fructose, L-serine, lipopolysaccharide) and metal ion transport (copper and zinc), with no clear single pathway or function tying them together. The diversity suggests either functionally diverse proteins or context-dependent roles, so a unique, cohesive label is not evident.","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0042572","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0046370","count":7},{"id":"GO:0006564","count":6},{"id":"GO:0046272","count":6}]},{"hash":"1591760821794998911","title":"Ubiquitin-Proteasome-Mediated Proteolysis in Cell Cycle","description":"The top GO terms are strongly centered on ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent ubiquitin-protein ligase activity, which points to proteasome-mediated protein degradation. Additional terms about microtubule polymerization and spindle assembly in meiosis suggest involvement in cell-cycle\u2013related protein turnover and mitotic/spindle functions. While there are secondary hints (e.g., circadian rhythm regulation), the dominant theme is ubiquitin-proteasome\u2013driven proteolysis linked to cell-cycle regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0042752","count":8},{"id":"GO:0000083","count":6},{"id":"GO:0046785","count":6},{"id":"GO:0007057","count":6}]},{"hash":"1774480324900862900","title":"Adipogenesis and cell cycle control","description":"The top GO terms show fat cell differentiation (adipogenesis), negative regulation of CDK activity (cell cycle control), cell growth, and intracellular signaling, plus cell migration. These combined terms suggest a cluster centered on adipocyte differentiation and its coordinated regulation of proliferation/growth and signaling. Some terms like telomere maintenance and mRNA processing appear, but are less representative of the central theme. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":7},{"id":"GO:0016477","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0035994","count":6},{"id":"GO:2001275","count":6}]},{"hash":"1691990497185804005","title":"Neuronal Synapse Regulation and Signaling","description":"The top terms cluster around synapse assembly and transmission (glutamatergic), neurotransmitter secretion, and acetylcholine receptor clustering, supported by Wnt signaling and learning-related processes. Immune-related terms (complement activation, inflammatory response) suggest neural-immune interactions, while negative regulation of transcription points to broader gene regulation in neurons. Taken together, this set points to proteins involved in neuronal synapse formation and function with some immune context.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0051968","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0001867","count":4}]},{"hash":"649739145973497058","title":"Proteostasis and cell remodeling","description":"Proteostasis-related processes (proteasome assembly, ubiquitination) appear alongside functions in cell movement, polarity, and differentiation (migration, fat cell differentiation, response to muscle stretch, epithelial polarity). Together, these terms suggest a coherent theme of protein homeostasis underpinning cellular remodeling and differentiation. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070682","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1815060133557350729","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":169,"triangles":935,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":18},{"id":"GO:0010501","count":16},{"id":"GO:0000390","count":16},{"id":"GO:0000462","count":16},{"id":"GO:0000466","count":16}]},{"hash":"805027520706961854","title":"Cardiac and pancreatic development with tissue morphogenesis","description":"The top GO terms point to development and morphogenesis across multiple tissues\u2014heart (embryonic heart tube formation, left ventricle formation), pancreas (endocrine pancreatic development, pancreatic cell development), and muscle morphogenesis\u2014with transcriptional regulation (RNA polymerase II) accompanying these processes. This suggests a cohesive theme of tissue-specific developmental programs and differentiation. ","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0048712","count":18},{"id":"GO:2001038","count":18},{"id":"GO:0009410","count":17},{"id":"GO:0090403","count":17}]},{"hash":"2215218163886820888","title":"Ubiquitin-Proteasome\u2013Mediated Proteolysis","description":"The top GO terms cluster around ubiquitin-dependent protein catabolism, polyubiquitination, and SCF-mediated degradation, indicating a proteostasis-centered function. Other terms (circadian regulation, synapse assembly) may reflect broader roles of protein turnover but do not outweigh the central ubiquitin-proteasome theme.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":11},{"id":"GO:0030433","count":9},{"id":"GO:0051260","count":8},{"id":"GO:0000083","count":7}]},{"hash":"1143703190007344434","title":"Ubiquitin-Proteasome System in Immune Cells","description":"The top GO terms cluster tightly around ubiquitin-dependent protein degradation (ubiquitination, SCF-proteasome\u2013mediated processes, ERAD). There are strong links to immune cell biology (T cell proliferation, B cell homeostasis, germinal center regulation) and TNF signaling, suggesting a collective role in ubiquitin-mediated regulation of immune cell homeostasis; circadian regulation hints at broader clock-related ubiquitin involvement. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0042752","count":6},{"id":"GO:0042098","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0000209","count":6}]},{"hash":"747423641012450226","title":"Heart development and mesodermal differentiation","description":"The cluster shows strong enrichment for heart-specific processes (cardiac ventricle formation, secondary heart field specification) and related mesoderm-derived tissue development (lung/bronchial cartilage, skeletal muscle differentiation, osteoblast differentiation), plus TGF-beta signaling responses, indicating a cohesive role in cardiovascular and skeletal organogenesis rather than a single narrow function.","confidence":"High","size":19,"edges":120,"triangles":381,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060532","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0071864","count":12},{"id":"GO:0061145","count":12},{"id":"GO:0060534","count":12}]},{"hash":"248641155841289508","title":"Ubiquitin-Dependent Proteolysis and TNF Signaling","description":"The terms center on ubiquitin-dependent proteolysis (ubiquitin-dependent protein catabolic process, autoubiquitination, K6-linked ubiquitination) and TNF-related signaling and innate immunity, with histone catabolic processes suggesting chromatin turnover. This points to a cohesive role in regulated protein degradation and TNF-mediated immune responses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051865","count":7},{"id":"GO:0085020","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0036205","count":7}]},{"hash":"1007446002468753890","title":"Ubiquitin-dependent protein degradation","description":"Top terms are dominated by ubiquitination-related processes, including ubiquitin-dependent protein catabolic process, polyubiquitination, autoubiquitination, and K6-linked ubiquitination. While circadian rhythm regulation and stress signaling terms appear, the unifying theme is ubiquitin-driven proteostasis and protein degradation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0042752","count":10},{"id":"GO:1903378","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0051865","count":7}]},{"hash":"1667349626918064004","title":"Rho-GTPase-regulated development and synaptic signaling","description":"A cohesive theme links regulation of Rho and GTPase activity, actin crosslinking, and cell adhesion with synapse assembly and glutamatergic transmission, while also touching on heart, bone, and barrier development. This suggests proteins coordinating cytoskeletal remodeling and signaling during development and synaptic connectivity.","confidence":"Medium","size":19,"edges":5,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0060291","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0007416","count":5}]},{"hash":"1242216534686576168","title":"Heart, pancreas, and kidney organogenesis","description":"This cluster is dominated by embryonic organ development terms: heart morphogenesis (embryonic heart tube formation, left ventricle formation), pancreas development (endocrine pancreas development, pancreatic cell development), and nephron morphogenesis (metanephric nephron tubule morphogenesis), plus muscle morphogenesis. The presence of transcription by RNA polymerase II supports coordinated gene expression during development. A secondary signal for xenobiotic stress/oxidative stress is present but does not override the central developmental theme. Confidence: High","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0009410","count":13},{"id":"GO:0090403","count":13},{"id":"GO:0031018","count":13},{"id":"GO:0003218","count":13}]},{"hash":"2060026847532001627","title":"Synaptic signaling and brain development","description":"The cluster is dominated by terms related to neuronal communication and plasticity (synapse assembly, long-term potentiation), phosphoinositide signaling (IP3 biosynthesis, PI-mediated signaling), and brain development, with supporting Rho/Ras signaling regulation that ties to cytoskeletal changes in neurons. Although a couple terms touch on immune processes, the strongest signal is for neuronal signaling and synaptic development, hence this label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0046580","count":9},{"id":"GO:0007416","count":8},{"id":"GO:0002316","count":8},{"id":"GO:0009395","count":8}]},{"hash":"108401887307655109","title":"RNA-based gene silencing and mRNA processing","description":"This cluster shows strong enrichment for post-transcriptional regulatory processes: ncRNA- and miRNA-mediated gene silencing, regulation of mRNA splicing by the spliceosome, translation initiation and reinitiation, and mRNA stability regulation in response to stress. Together these terms point to coordinated control of gene expression at the RNA level, including splicing, silencing, and translation, rather than transcriptional regulation alone.","confidence":"High","size":19,"edges":66,"triangles":63,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":9},{"id":"GO:1901407","count":9},{"id":"GO:0035278","count":8},{"id":"GO:0060211","count":8}]},{"hash":"1667057292302690798","title":"Thermoregulation and nociception signaling","description":"The top GO terms center on temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and pain perception, with accompanying neuronal excitability (membrane potential regulation and hyperpolarization). Additional terms involve inflammatory signaling (prostaglandin D stimulus), immune cell chemotaxis, and neural processing (prepulse inhibition, peptide signaling). Together, they suggest a module linking temperature/pain sensing to neuronal signaling and immune/inflammatory context, with broader neurophysiological modulation.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0042391","count":6},{"id":"GO:0060081","count":5}]},{"hash":"1593551456791776601","title":"Pleiotropic Signaling Regulators","description":"The cluster shows enrichment across diverse signaling-related processes: B cell receptor signaling and B cell proliferation, glutamatergic synaptic transmission and long-term synaptic depression, SHH pathway regulation, Rho signaling regulation, and endocrine-responsive processes, suggesting a broad role in multiple signaling pathways rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0060292","count":3},{"id":"GO:2000353","count":3},{"id":"GO:0051968","count":3}]},{"hash":"492626569842558545","title":"Wnt/Hedgehog pathway regulators in development","description":"This cluster shows strong enrichment for signaling pathway regulation, notably the Wnt signaling pathway and the positive/negative regulation of Smoothened (Hedgehog) signaling, indicating these proteins commonly act as regulators of developmental signaling. Additional terms related to morphogenesis (mesonephric duct morphogenesis, sensory organ boundary specification) and extracellular matrix remodeling (collagen fibril organization) support a developmental/tissue-patterning context, with some peripheral metabolic and mechanical response associations. Overall, the dominant theme is regulatory involvement in developmental signaling pathways.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0045879","count":4},{"id":"GO:0045880","count":4},{"id":"GO:0046326","count":4},{"id":"GO:0071260","count":3}]},{"hash":"1804380082568562080","title":"Developmental signaling and vesicle trafficking","description":"The proteins are enriched for diverse developmental signals (GTPase-mediated signaling, Hedgehog/smoothened pathway) and tissue development (nervous system, kidney, bone), together with vesicle trafficking and exocytosis (ER-Golgi transport, calcium-dependent exocytosis) and mitochondrial fission, suggesting a cohesive theme of signaling coordinating development with intracellular transport.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007264","count":8},{"id":"GO:0007224","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0006888","count":7},{"id":"GO:0000266","count":7}]},{"hash":"1580311540970565551","title":"Epigenetic Regulation and Transcription Control","description":"The cluster\u2019s GO terms cluster around control of gene expression via chromatin and transcriptional regulation (histone acetylation, regulation of RNA Pol II transcription, and related chromatin remodeling), with additional notes on ubiquitination and development/immune contexts that may reflect regulatory pathways in these processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031398","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0043972","count":1},{"id":"GO:0002458","count":1},{"id":"GO:0032602","count":1}]},{"hash":"1735846294186005211","title":"GPCR Signaling and Prostaglandin Response","description":"The top GO terms point to a core theme of G protein-coupled receptor signaling, including adenylate cyclase-activating GPCR pathways, dopamine receptor signaling, and prostaglandin-driven responses, with Rho signaling as a downstream cytoskeletal link. Physiological outcomes like cell proliferation and blood pressure regulation align with GPCR-mediated signaling cascades. A few terms (electron transport chain, visual learning) are less central and likely reflect broader neuronal or metabolic contexts, but overall the cluster centers on GPCR-driven signaling and prostaglandin/biogenic amine responses.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0040015","count":9},{"id":"GO:0008542","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0071380","count":9},{"id":"GO:0008283","count":9}]},{"hash":"432526124810741450","title":"Cell-surface signaling and endocytic trafficking","description":"The cluster centers on processes at the plasma membrane involving receptor signaling (cell surface receptor signaling, Notch pathway regulation, integrin signaling) and interactions with pathogens (receptor-mediated virion attachment). Supporting terms point to endocytic/lysosomal trafficking (protein localization to lysosome, protein catabolic processes in vacuoles) and broader membrane-associated responses. Although some terms reflect specialized contexts like paranodal junctions or mechanosensation, the shared theme is membrane-initiated signaling linked to endocytic/lysosomal trafficking. ","confidence":"Medium","size":19,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":7},{"id":"GO:0050910","count":5},{"id":"GO:0045747","count":5},{"id":"GO:0061462","count":5},{"id":"GO:1904352","count":5}]},{"hash":"1392561130944673624","title":"Neural Development and Transcription Regulation","description":"The top GO terms show strong emphasis on neural development (forebrain, brain, retina, spinal cord) and broader multicellular development, together with DNA-templated transcription. This points to a cluster of proteins involved in transcriptional regulation during neurodevelopment, with some broader developmental roles. Confidence: High","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0007338","count":4},{"id":"GO:0008584","count":4}]},{"hash":"1183278923365545023","title":"Hypoxia-Driven Stress Signaling and Apoptosis","description":"The GO terms point to a coordinated response to low oxygen and nutrient stress, involving hypoxia signaling, TORC1/nutrient sensing, GTPase regulation, mRNA transport and nuclear import, and apoptosis (mitochondrial and extrinsic). There's also an indication of endothelial proliferation, suggesting a link to angiogenic responses under stress. This combination supports a cohesive theme of stress signaling connecting metabolism, gene expression, and cell fate decisions.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0008637","count":3},{"id":"GO:0006607","count":3}]},{"hash":"1188640177439506670","title":"Vertebrate organ development and transcription regulation","description":"The top GO terms point to development of multiple vertebrate organs (midbrain, cochlea, placenta, palate, eye, spleen, gonad) and to transcriptional regulation (negative regulation of RNA polymerase II transcription; regulation of DNA-templated transcription), suggesting a cohesive theme around developmental processes with transcriptional control. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0090103","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0030111","count":2}]},{"hash":"831003562538955404","title":"Developmental and Immune Signaling Pathways","description":"Many top GO terms center on signaling pathways (TGF-beta receptor signaling, SMAD assembly, NF-kappaB activation, FGF response, glucocorticoid signaling) and development (mesendoderm development, neuronal stem cell maintenance, T follicular helper cell differentiation). This suggests a cohesive theme around signal transduction that governs development and immune cell differentiation, rather than a single pathway. Therefore the label Developmental and Immune Signaling Pathways aptly captures the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007179","count":2},{"id":"GO:0007183","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0043123","count":2}]},{"hash":"1888894920527560863","title":"Developmental signaling and cytoskeletal remodeling","description":"The top GO terms point to diverse developmental processes across tissues (nervous system and substantia nigra development, spermatid development, hair follicle morphogenesis) combined with cytoskeletal dynamics and signaling (stress fiber assembly, actin cytoskeleton reorganization, substrate adhesion-dependent spreading, Wnt signaling, ERK cascade). This suggests a coherent theme of development coupled with cytoskeletal regulation, rather than a single tissue-specific function, justifying a label that reflects both aspects.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0051496","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0021762","count":5}]},{"hash":"1317145848565977981","title":"GTPase-regulated signaling and vesicle trafficking","description":"The majority of top GO terms point to regulation of small GTPases (Rho, Ras) and general GTPase activity, indicating a shared theme of GTPase-controlled signaling. Additional terms like synaptic vesicle priming and acrosome reaction suggest involvement in vesicle trafficking processes that rely on GTPases. While other terms (angiogenesis, neutrophil degranulation, thrombin signaling) are more context-specific, they can be downstream consequences of GTPase-regulated signaling, supporting a cohesive label centered on GTPase-regulated signaling and vesicle trafficking.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0060313","count":9},{"id":"GO:0043314","count":8},{"id":"GO:0007340","count":8},{"id":"GO:0016082","count":8}]},{"hash":"482541965955330861","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster is characterized by terms tied to actin cytoskeleton organization, adhesion-dependent cell spreading, cell migration, and regulation of Rho GTPase signaling, all pointing to cytoskeletal dynamics driving cell movement and adhesion. While there are related terms related to nervous system development and signaling, the dominant theme is actin-driven motility and remodeling, making this an intuitive label for the cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034446","count":3},{"id":"GO:0007269","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1172721196480013161","title":"Developmental transcriptional regulation","description":"The cluster shows a strong representation of transcription regulation by RNA polymerase II (positive and negative regulation) along with multiple tissue- and organ-development terms (midbrain, cochlea, endocrine pancreas, ureteric bud morphogenesis, male gonad, visual perception). This pattern suggests proteins involved in regulating gene expression during diverse developmental programs, rather than a single tissue-specific function. Confidence reflects a coherent, but broad, developmental regulatory theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":6},{"id":"GO:1903142","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0045944","count":4}]},{"hash":"2127690964322334412","title":"Developmental and reproductive signaling regulation","description":"This cluster centers on regulation of signaling pathways (cAMP/PKA, PI3K/AKT, activin receptor signaling) and developmental/reproductive processes (sperm capacitation, female germ-line stem cell division, endothelial migration, lymphoid differentiation), indicating a broad regulatory role in development and reproduction rather than a single, cohesive pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007084","count":3},{"id":"GO:0019933","count":2},{"id":"GO:1902490","count":2},{"id":"GO:0010737","count":2},{"id":"GO:0032926","count":2}]},{"hash":"136763449769556817","title":"Skin Barrier Formation and Neural Regeneration","description":"This cluster is dominated by GO terms for skin development and keratinization (establishment of skin barrier, keratinization), along with neural-associated terms (Bergmann glial cell differentiation, peripheral nervous system axon regeneration, positive regulation of Schwann cell proliferation). While there are some unrelated terms (e.g., complement activation, cardiac development), the most consistently represented functions point to epidermal differentiation and nervous system repair processes, justifying this label.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0072201","count":4},{"id":"GO:0055015","count":4},{"id":"GO:0061436","count":4},{"id":"GO:0060020","count":4}]},{"hash":"2205913168259464198","title":"Embryonic heart, placenta, and endocrine development","description":"The top GO terms cluster around embryonic organogenesis, especially heart development and morphogenesis (including left/right patterning and EMT in the endocardial cushion), plus placental and pancreatic endocrine development. This suggests a cohesive theme of early developmental differentiation across cardiovascular, placental, and endocrine systems, with a minor outlier term that may reflect annotation noise. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0060806","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1039119933049296279","title":"Ribosome Biogenesis and Translation with Ubiquitin Regulation","description":"The top GO terms strongly point to ribosome biology: translation, ribosomal small subunit assembly, and maturation of SSU rRNA. That indicates a core function in ribosome biogenesis and protein synthesis. The presence of ubiquitination-related terms (deubiquitination and autoubiquitination) suggests concurrent regulation of protein stability in this context, possibly coordinating ribosome biosynthesis or turnover. Some vesicle trafficking and ER-stress related terms appear, but they seem ancillary to the main ribosome-focused theme. ","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016579","count":13},{"id":"GO:0017085","count":11},{"id":"GO:1902236","count":11},{"id":"GO:0006412","count":11},{"id":"GO:0000028","count":11}]},{"hash":"1685735146889027178","title":"ERAD and Proteostasis","description":"This cluster is dominated by proteostasis-related terms: protein stabilization, ubiquitin-dependent proteasomal degradation, deubiquitination, and ERAD-associated maintenance of unfolded proteins. Together these suggest a group of proteins coordinating protein quality control in the ER and cytosol. Some terms about microtubule organization, endocytosis regulation, and Wnt signaling may reflect broader cellular trafficking and signaling interactions that connect to proteostasis.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:0050821","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0016579","count":5},{"id":"GO:1904378","count":5},{"id":"GO:0031122","count":5}]},{"hash":"729160785467897304","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related processes: axonogenesis, long-term synaptic potentiation, visual perception, and excitatory postsynaptic potentials, plus Schwann cell development. These repeated neural terms indicate a core theme of neural development and synaptic function, with the other terms (cell cycle and heart development) likely reflecting broader developmental roles or pleiotropy rather than a conflicting primary function. Overall, the data point to a cohesive neural development/synaptic activity cluster.","confidence":"High","size":18,"edges":38,"triangles":10,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":14},{"id":"GO:0000278","count":13},{"id":"GO:0060291","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0043065","count":13}]},{"hash":"905516912708340030","title":"Cardiovascular GPCR\u2013cAMP signaling and prostaglandin response","description":"The cluster is dominated by GO terms for GPCR signaling that activate adenylate cyclase and cAMP pathways, including dopamine receptor signaling, along with positive regulation of blood pressure and prostaglandin-induced responses, pointing to a theme of GPCR-mediated cardiovascular signaling and prostaglandin responsiveness. Additional terms touch on proliferation and energy metabolism, but the core grouping centers on GPCR-cAMP signaling in vascular contexts. Some outliers like viral release are likely incidental. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":15},{"id":"GO:0035025","count":10}]},{"hash":"1540918300557862699","title":"Cerebellar cortex formation and Bergmann glia differentiation","description":"The cluster is dominated by cerebellum-related terms, notably cerebellar cortex formation and Bergmann glial cell differentiation, along with regulation of axon regeneration. MAPK/ERK pathway modulation also aligns with neural development, supporting a cerebellar maturation theme, despite a few unrelated terms present.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045736","count":15},{"id":"GO:0034501","count":15},{"id":"GO:0070373","count":14},{"id":"GO:0000200","count":14},{"id":"GO:0050860","count":14}]},{"hash":"1304582106594280604","title":"Embryonic development and transcriptional regulation","description":"These proteins show strong links to developmental processes (ureteric bud branching, neural crest cell migration, endocrine pancreas development, embryonic digestive tract morphogenesis) and core transcriptional control (negative regulation of RNA polymerase II transcription, chromatin remodeling, DNA-templated transcription). The theme combines morphogenesis with gene expression regulation during embryogenesis, suggesting a broad developmental transcriptional regulatory role. ","confidence":"Medium","size":18,"edges":63,"triangles":95,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0090190","count":12},{"id":"GO:0001755","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0048557","count":12}]},{"hash":"1427420218487621942","title":"Multisystem organogenesis with ER-Golgi trafficking","description":"The top GO terms point to organogenesis and tissue morphogenesis across several systems (gastrulation, respiratory tract, retina, cochlea, skeletal muscle), indicating a developmental role rather than a single tissue-specific function. In parallel, there are terms for ER-Golgi vesicle transport and related processes (dephosphorylation, centrosome localization, autophagosome regulation), suggesting involvement in intracellular trafficking and cell organization during development. Together, the cluster seems to represent proteins coordinating organ formation with secretory pathway activity.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0003381","count":2},{"id":"GO:0060541","count":2},{"id":"GO:0010842","count":2},{"id":"GO:0035914","count":2},{"id":"GO:1902953","count":2}]},{"hash":"1313230944255555517","title":"Neural development and GTPase signaling","description":"The top terms cluster around neural development and sensory functions (brain development, neurogenesis, taste perception), with a clear emphasis on signaling control via Ras/Rho and other GTPases. While insulin signaling and secretion appear, the strongest shared theme is neural development coupled with GTPase-mediated signaling.","confidence":"Medium","size":18,"edges":20,"triangles":0,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046580","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0032024","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0007420","count":5}]},{"hash":"520920409918884152","title":"Immune Cytokine Signaling and Lymphocyte Differentiation","description":"The top GO terms are dominated by interleukin-27-mediated signaling, T-helper 2 cytokine production, and NK cell differentiation, with additional regulation of STAT signaling, indicating a cohesive theme of cytokine-driven immune signaling and lymphocyte development. While there are a few other developmental terms, the immune-related functions are clearly the strongest signal for this cluster.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0070106","count":11},{"id":"GO:0035745","count":11},{"id":"GO:0042517","count":11},{"id":"GO:1902960","count":10},{"id":"GO:0060060","count":10}]},{"hash":"2026564175929260446","title":"Developmental signaling and epithelial morphogenesis","description":"This cluster centers on organ/tissue development and morphogenesis, highlighted by kidney development, angiogenesis, and epithelial morphogenesis, with ERK signaling and cell adhesion supporting a developmental regulatory theme. Some terms (adaptive immune response, CO2 transport, pH response) are less related, but the dominant signal fits tissue development and morphogenesis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:0001525","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1404821607630090959","title":"Stimulus-Driven Signaling Cascades","description":"These proteins cluster around diverse cellular responses to various stimuli (fungal origin, insulin, retinoic acid, TGF-beta, PDGF) and converge on signaling pathways such as ERK, calcium signaling, and STAT phosphorylation, with evidence for cell\u2013cell signaling. This supports labeling as a general stimulus-responsive signaling module rather than a single, specific pathway.","confidence":"High","size":18,"edges":81,"triangles":159,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0032869","count":15},{"id":"GO:0071300","count":15}]},{"hash":"1108024103747389642","title":"Epithelial polarity and microvilli assembly","description":"The GO terms point strongly to epithelial cell architecture: regulation of Rho signaling and cell shape (cytoskeletal regulation), microvillus and terminal web assembly, tight junction/superstructures, and apical/basal polarity establishment, all of which are central to epithelial polarity and microvilli organization. A few neuronal-related terms (dendrite morphogenesis) appear but are likely peripheral to the main epithelial-focused theme. Overall, the cluster appears to represent proteins involved in building and maintaining epithelial polarity and microvilli structures.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0030033","count":5},{"id":"GO:0008360","count":4},{"id":"GO:0050774","count":4},{"id":"GO:0051000","count":4}]},{"hash":"1604564643795417470","title":"Innate immune signaling and neuronal development","description":"This cluster shows strong representation of innate immune functions (defense response to Gram-positive bacteria, innate immune response) together with several neural development signaling pathways (canonical Wnt signaling, ERK1/2 cascade, ephrin receptor signaling, dendrite morphogenesis), suggesting proteins involved in cross-talk between immune signaling and neural development.","confidence":"Medium","size":18,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":14},{"id":"GO:0050830","count":13},{"id":"GO:0045087","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0043552","count":13}]},{"hash":"2105145933109666172","title":"Wnt-Hippo Signaling and Development","description":"This cluster is characterized by strong enrichment in Wnt and Hippo signaling terms along with differentiation-related processes (keratinocyte differentiation, paraxial mesoderm development), suggesting a core developmental signaling module that governs cell fate, proliferation, and tissue maturation. Additional terms related to apoptosis, neuron survival, synapse organization, fibroblast migration, and the cell cycle imply broader coordination of growth, remodeling, and survival during development and tissue maintenance.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0035329","count":16},{"id":"GO:0030216","count":16},{"id":"GO:0006915","count":16},{"id":"GO:0060044","count":16}]},{"hash":"832677516324844441","title":"CNS Neuron and Oligodendrocyte Differentiation","description":"The top terms show a clear emphasis on neural development and cell fate specification within the CNS, including cerebral cortex GABAergic interneuron differentiation, subpallium fate, spinal cord motor neuron specification, and oligodendrocyte differentiation. While there are a few non-neural development and general regulatory terms, the dominant pattern points to neural lineage commitment. ","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":17},{"id":"GO:0045668","count":17},{"id":"GO:0031018","count":16},{"id":"GO:0006366","count":16},{"id":"GO:0021892","count":16}]},{"hash":"1464616118071169340","title":"Translation machinery and antiviral RNAi response","description":"The GO terms show strong translation-related signals (translation, ribosome biogenesis, translational termination, tRNA modification) along with RNAi/innate antiviral signals (RISC complex assembly, response to virus, negative regulation of viral genome replication, innate immune response), suggesting a module that combines protein synthesis with antiviral defense mechanisms.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0009615","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0045071","count":5}]},{"hash":"2177031218992189442","title":"Neural development and RNA processing","description":"The set includes brain development and spinal cord development terms, pointing to a neural-development focus. Enrichment for mRNA splicing and translation reinitiation suggests the cluster also centers on gene expression regulation essential for developing neural tissue. Additional terms related to chromatin assembly and mitotic spindle suggest supporting cell cycle and chromatin processes common in proliferating neural precursors, but the dominant signal remains neural development with RNA processing.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0034316","count":9},{"id":"GO:0007420","count":8},{"id":"GO:0000398","count":8},{"id":"GO:1904263","count":8}]},{"hash":"1366496550524090988","title":"Embryonic transcriptional regulation in organ morphogenesis","description":"Based on the enrichment of transcription-related GO terms (RNA polymerase II transcription, DNA-templated transcription, transcriptional regulation) combined with diverse developmental processes (craniofacial skeleton morphogenesis, palate development, osteoblast development, uterus and pancreas development, brain segmentation, ureteric bud morphogenesis), the cluster appears to group proteins involved in coordinating transcription during embryonic organ formation rather than a single specific pathway.","confidence":"High","size":18,"edges":102,"triangles":234,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0048701","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0002076","count":6}]},{"hash":"950878359448808295","title":"Immune signaling and stress response","description":"Most terms point to immune activation (T cell receptor signaling, response to lipopolysaccharide, defense against Gram-positive bacteria, GM-CSF stimulus) and stress-related transcription/apoptotic signaling (ER stress\u2013mediated apoptosis, DNA-templated transcription). Some unrelated terms appear (mitotic cell cycle, visual perception), likely noise. The cluster appears to capture immune response and cellular stress signaling.","confidence":"Medium","size":18,"edges":24,"triangles":20,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0007601","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0071222","count":6}]},{"hash":"1516184889649802030","title":"Inflammatory lipid signaling and antibacterial defense","description":"The terms cluster around lipid-mediated signaling (arachidonate and prostaglandin secretion, lysophospholipid transport, phosphatidic acid biosynthesis, PI remodeling) and inflammatory responses (defense against Gram-positive bacteria, antibacterial humoral response, IL-8 production). ERK cascade regulation ties these signals to broader inflammatory signaling. Together, they define a theme of lipid-driven inflammation coupled with antibacterial defense.","confidence":"High","size":18,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0090370","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0090238","count":4},{"id":"GO:0051977","count":4}]},{"hash":"402615059177093322","title":"Cell Cycle and Ubiquitin Signaling","description":"The cluster shows strong enrichment for mitotic processes (mitotic spindle assembly, chromosome segregation, exit from mitosis) and ubiquitin-related regulation (K48-linked and monoubiquitination), with supporting transcriptional and signaling terms, suggesting a module of cell-cycle control tightly coupled to ubiquitin-mediated protein regulation and transcriptional output.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:1902524","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0060712","count":2}]},{"hash":"808143185383992233","title":"Meiotic DNA Repair and Recombination","description":"The dominant GO terms cluster around meiosis-specific chromosome dynamics and genome maintenance, including homologous chromosome pairing, synaptonemal complex assembly, DNA recombination, and DNA repair, with supporting DNA damage response signals (X-ray/xenobiotic). This points to a cohesive role in meiotic recombination and genome integrity maintenance.","confidence":"High","size":18,"edges":10,"triangles":0,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0007129","count":3},{"id":"GO:0010165","count":3},{"id":"GO:0042493","count":3}]},{"hash":"931000874931336137","title":"Neural adhesion and synapse assembly","description":"This cluster is dominated by GO terms for cell-cell adhesion and synapse assembly, including homophilic/heterophilic adhesion and positive regulation of synapse assembly, with sensory perception of sound supporting a neural development/synaptic organization theme. The presence of planar polarity and axon guidance\u2013related terms and morphogenesis terms (lung, bone, endocardial cushion) suggests adhesion molecules also contribute to broader developmental morphogenesis. Overall, these proteins likely coordinate neural connectivity and auditory pathway formation, with ancillary roles in tissue morphogenesis.","confidence":"High","size":18,"edges":78,"triangles":89,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0007605","count":6},{"id":"GO:0007416","count":6},{"id":"GO:0051965","count":6}]},{"hash":"188868968598913681","title":"Cardiac Development Signaling","description":"This cluster is enriched for heart-related development and signaling processes, including Wnt signaling, Hippo signaling, and ephrin receptor signaling, along with direct heart development terms. The presence of terms like regulation of cardiac muscle cell proliferation and apoptotic processes supports a view of a network coordinating heart growth and cell fate during development. Some unrelated terms appear, but the dominant theme centers on cardiac signaling pathways guiding heart formation and maturation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":11},{"id":"GO:0043552","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0048013","count":10},{"id":"GO:0060044","count":10}]},{"hash":"287874833865210419","title":"Vertebrate Eye Development and Lens Morphogenesis","description":"Reason: The cluster is strongly enriched for eye-related terms such as embryonic eye morphogenesis, camera-type eye development, and lens epithelial cell proliferation, indicating a focus on vertebrate eye formation and lens growth. Additional morphogenesis terms (lung branching, ureteric bud morphogenesis, neural crest migration) suggest broader developmental regulation, but the prevailing signal points to ocular development.","confidence":"High","size":18,"edges":28,"triangles":4,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0048048","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0060441","count":7}]},{"hash":"798143880943311741","title":"Embryonic Organ Morphogenesis and Transcription","description":"The cluster shows strong enrichment for transcription by RNA polymerase II and DNA-templated transcription, alongside diverse embryonic morphogenesis terms (eye, heart, viscerocranium, lung, osteoblast differentiation, vascular wound healing). This pattern suggests a set of transcriptional regulators guiding multiple organ development programs during embryogenesis.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0035470","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0045669","count":7}]},{"hash":"2026992670993632747","title":"ER-Golgi and endosome vesicle trafficking","description":"The cluster\u2019s top GO terms cluster around intracellular transport: ER-Golgi (anterograde/retrograde), endocytosis, endosome-to-Golgi/vacuolar targeting, and related vesicle trafficking processes, indicating a core function in protein sorting and vesicular transport. Some neuronal development terms appear but align with tissue-specific transport roles rather than changing the main theme.","confidence":"High","size":18,"edges":25,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":12},{"id":"GO:0006623","count":10},{"id":"GO:0007399","count":9},{"id":"GO:0007286","count":9},{"id":"GO:0006890","count":9}]},{"hash":"1783298298177049911","title":"Vision and Cardiac Signaling","description":"The cluster centers on sensory signaling and excitation-contraction pathways, with strong representation of visual perception and phototransduction alongside cardiac-related terms such as cardiac muscle contraction, heart-rate regulation by epinephrine, and adenylate cyclase activation. Additional terms like axonogenesis, sarcomere organization, and potassium transport reinforce signaling in excitable tissues. This combination points to shared themes of signal transduction in sensory and cardiac contexts rather than a single, narrow function.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0060048","count":7},{"id":"GO:0006469","count":6},{"id":"GO:0007602","count":6},{"id":"GO:0007190","count":5}]},{"hash":"128885093250627975","title":"Cardiac electrical activity and K+ transport","description":"The GO terms are strongly centered on cardiac electrophysiology and potassium handling: membrane repolarization during atrial cardiomyocyte action potential, regulation of heart rate by cardiac conduction, cardiac muscle action potential involved in contraction, potassium ion transmembrane transport, and potassium ion import. These indicate proteins involved in generating and modulating cardiac electrical signals and maintaining K+ homeostasis. A few terms (gastric acid secretion, gravitaxis, touch) are less central and may reflect broader transporter or signaling capabilities, but the dominant theme is cardiac electrical activity and potassium transport.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098914","count":18},{"id":"GO:0050976","count":17},{"id":"GO:0071805","count":17},{"id":"GO:0086091","count":15},{"id":"GO:0086002","count":15}]},{"hash":"290390805430027430","title":"Mechanotransduction and vesicle trafficking","description":"The cluster is enriched for terms tied to sensing and responding to mechanical cues (nervous system development, sensory touch, cellular response to mechanical stimulus), along with cytoskeletal remodeling (filopodium assembly) and vesicle trafficking (COPII-coated vesicle budding), plus signaling (positive regulation of ERK cascade, GTPase activity). This suggests a cohesive theme of mechanotransduction coordinating cytoskeletal changes, vesicle transport, and signaling. ","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0090114","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0050975","count":5}]},{"hash":"2001758131076414544","title":"Endothelial Angiogenesis and Notch Signaling","description":"The GO terms show a clear emphasis on endothelial development and vascular remodeling (positive regulation of angiogenesis, regulation of endothelial tube morphogenesis) and Notch signaling (Notch receptor processing), with supporting roles in cell-matrix adhesion and inflammatory context (TNF response, leukocyte migration). Though some terms are broader, the dominant theme points to endothelial angiogenesis and Notch-mediated vascular processes. ","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045766","count":4},{"id":"GO:0055114","count":4},{"id":"GO:1901509","count":4},{"id":"GO:0010042","count":4},{"id":"GO:0002523","count":4}]},{"hash":"252429597280994114","title":"Developmental Transcriptional Regulation","description":"Top terms cluster around transcriptional control by RNA polymerase II (negative/positive regulation) and DNA-templated transcription, plus development-related processes (midbrain development, pancreas morphogenesis, multicellular organism growth, placental differentiation). This suggests proteins involved in regulating gene expression during development, with some immune-related terms present but not central to the main theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0061113","count":4}]},{"hash":"1182253896176653510","title":"Immune cell adhesion and signaling","description":"The cluster shows strong enrichment for cell\u2013cell adhesion (both heterophilic and homophilic) and immune-related signaling terms, including complement activation (classical pathway), type II interferon production, Fc-epsilon receptor signaling, and positive regulation of B cell activation, suggesting a set of proteins involved in immune cell interactions and signaling. While terms like ossification, heart rate regulation, and gastrointestinal epithelium maintenance are present, they appear as less cohesive outliers, so the core theme centers on adhesion and immune signaling.","confidence":"Medium","size":18,"edges":44,"triangles":13,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007156","count":11},{"id":"GO:0043931","count":9},{"id":"GO:0086091","count":9},{"id":"GO:0006508","count":9}]},{"hash":"1026247484315388785","title":"Immune cell adhesion and activation","description":"The cluster is enriched for immune-related processes: heterophilic cell\u2013cell adhesion, T cell costimulation, NK cell cytotoxicity regulation, positive regulation of IL-2 production, and complement activation. These terms point to proteins involved in immune cell communication, activation, and tumor surveillance. Some terms like lens morphogenesis and heart conduction appear as outliers or cross-annotation, but the dominant signal centers on immune signaling and cell-contact functions.","confidence":"Medium","size":18,"edges":125,"triangles":472,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0006958","count":6},{"id":"GO:0002089","count":5},{"id":"GO:0002355","count":5},{"id":"GO:0086072","count":5}]},{"hash":"445857738252411005","title":"Unknown","description":"The top GO terms are a mix of inner ear development, single fertilization, male gonad development, cell adhesion, complement activation, transcription regulation, insulin secretion, and proliferation regulation. There isn\u2019t a single coherent biological theme tying these terms together, suggesting no clear, representative function for the entire cluster. The lack of edges/triangles also points to no inferred shared interaction, supporting an Unknown label. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048839","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0007155","count":3}]},{"hash":"794114185156144434","title":"Organ and neural crest development","description":"Most enriched GO terms describe development across multiple tissues (midbrain, inner ear, cartilage, neural crest migration, ureteric bud branching morphogenesis), suggesting a broader developmental/morphogenesis theme. A few terms (complement activation, blood coagulation, collagen catabolic process) appear peripheral and do not define the core function, so the cluster is best labeled as organ and neural crest development with medium confidence.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":7},{"id":"GO:0006958","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0048839","count":5}]},{"hash":"284235164082653647","title":"Mitochondrial Translation and Respiratory Assembly","description":"This cluster centers on mitochondrial function: electron transport, proton translocation, and assembly of respiratory complexes (notably complex II), plus protein import into the mitochondrial matrix. The presence of translation-related GO terms alongside import and respiratory assembly terms suggests coordination of mitochondrial gene expression with respiration.","confidence":"High","size":18,"edges":149,"triangles":754,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":3},{"id":"GO:1902600","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0034553","count":2}]},{"hash":"1223919525235926384","title":"Inflammatory leukocyte adhesion and signaling","description":"This cluster is enriched for terms related to immune/inflammatory responses, including leukocyte migration, monocyte activation, and cellular responses to TNF and IL-1, along with integrin-mediated signaling and adhesion. The combination of integrin adhesion, cytokine responses, and leukocyte movement suggests a cohesive theme of inflammation-driven leukocyte signaling and adhesion.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0016310","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0002523","count":3},{"id":"GO:0071356","count":3}]},{"hash":"1049674338929488388","title":"Thermo-sensory and nociception signaling cluster","description":"The top GO terms cluster around heat and pain processing: diet-induced thermogenesis, cellular response to temperature stimulus, and sensory perception of pain. Prostaglandin E/D stimuli and dopamine receptor signaling point to inflammatory and neuromodulatory modulation of sensory/motor responses, with locomotory behavior supporting a link to movement tied to sensory input. While a couple terms like photoreceptor maintenance and viral release are less aligned, the dominant theme fits thermo-sensory and nociceptive signaling with prostaglandin and dopaminergic involvement.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0071380","count":7},{"id":"GO:0008283","count":7}]},{"hash":"2124661016465531823","title":"Hypoxia-driven ECM remodeling and development","description":"This cluster centers on hypoxia response, collagen catabolic processes, proteolysis, and cell adhesion with several development-related terms (liver, midbrain, intramembranous ossification) and cell migration, suggesting a coherent theme of tissue remodeling under low oxygen that supports organ development. The mix of ECM degradation and migration alongside developmental processes supports a label focused on hypoxia-associated remodeling rather than a single isolated pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001666","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0001889","count":4},{"id":"GO:0030901","count":4}]},{"hash":"2049006353952955422","title":"Actin-driven neuronal spine remodeling and synaptic signaling","description":"This cluster combines actin-related processes (filopodium/podosome assembly and cell spreading) with neuronal functions (dendritic spine development and GABAergic synaptic transmission), pointing to proteins that coordinate cytoskeletal remodeling at synapses and associated signaling/trafficking roles.","confidence":"Medium","size":18,"edges":10,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0051489","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0045792","count":4}]},{"hash":"637125718055720600","title":"Actin Cytoskeleton Remodeling and Vesicle Trafficking","description":"Most terms point to actin cytoskeleton organization and filopodium assembly, plus vesicle trafficking and intracellular transport, with related cues from muscle differentiation and dendrite extension. The cluster thus seems focused on cytoskeletal dynamics coordinating membrane trafficking, supporting this label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007257","count":2},{"id":"GO:0051146","count":2},{"id":"GO:0030036","count":2},{"id":"GO:1903526","count":2},{"id":"GO:0010796","count":2}]},{"hash":"266628014733165458","title":"Neurodevelopment and Gene Regulation","description":"The cluster is enriched for neural development terms (brain development, forebrain development, neural tube closure, retina development) alongside transcription/splicing-related processes (DNA-templated transcription, mRNA splicing, translation initiation), suggesting proteins involved in neurodevelopment through regulation of gene expression. Some histone modification terms are marked obsolete, but the overall signal points to developmental regulation in neural tissues.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0001731","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0060041","count":3}]},{"hash":"1547735315562254037","title":"Regulation of cell proliferation and signaling","description":"The cluster shows strong signals for mitotic cell cycle, positive regulation of cell population proliferation, kinase activity and autophosphorylation, and regulation of GTPase activity, pointing to control of cell growth and signal transduction. Other terms like mRNA transport, pinocytosis, heterotrimerization, and skin development are also present but appear as broader regulatory contexts; the core theme ties to how cells regulate proliferation and signaling processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0071902","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0048549","count":4}]},{"hash":"331189572744258101","title":"RNA silencing and DNA damage response","description":"This cluster shows a convergence of RNA regulation processes (deadenylation-dependent decapping; miRNA-mediated post-transcriptional gene silencing) with DNA damage response and repair (response to ionizing radiation; mitotic G2 DNA damage checkpoint signaling; positive regulation of DNA repair). Some developmental terms appear but likely reflect broader regulatory roles or annotation noise. Overall, the common theme is RNA-based gene regulation linked to DNA damage stress responses.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045071","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0000290","count":2},{"id":"GO:0035195","count":2},{"id":"GO:0010212","count":1}]},{"hash":"1869003003311298959","title":"Ubiquitination-Regulated Growth and Cytokine Signaling","description":"This cluster is characterized by ubiquitin-dependent protein catabolic processes and ubiquitination, coupled with signals for growth regulation (regulation of cell growth, growth hormone receptor signaling) and cytokine-mediated signaling (cytokine signaling, STAT regulation). The convergence on protein turnover and growth/cytokine pathways suggests a theme where ubiquitin-mediated regulation modulates growth and survival signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0001558","count":4},{"id":"GO:0042518","count":4},{"id":"GO:0019221","count":4},{"id":"GO:0043066","count":4}]},{"hash":"478953129174704723","title":"Craniofacial and sensory organ development","description":"Based on enriched GO terms such as roof of mouth development, inner ear development, cartilage condensation, cerebellar granule cell differentiation, and visual perception, the cluster appears to be tied to morphogenesis of craniofacial and sensory tissues. Supporting terms like extracellular matrix signaling and cell adhesion further point to tissue organization during development, while a few terms related to immunity or ion channel clustering are likely ancillary. Overall, the dominant theme is developmental processes shaping craniofacial and sensory organs.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0021707","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0048839","count":3}]},{"hash":"484856443934711407","title":"Mechanosensory signaling","description":"This cluster is driven by GO terms centered on mechanical stimulus response and pain-associated mechanosensation, suggesting a core mechanosensory signaling theme. Supporting terms pointing to immune signaling (NOD1/2), calcium transport, and ubiquitination imply broader regulatory roles within signaling networks. Because there is no cohesive interaction pattern (no edges), the label remains a best-fit high-level description rather than a tightly defined pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0016567","count":4},{"id":"GO:1904743","count":3},{"id":"GO:0048709","count":3}]},{"hash":"561663986338714604","title":"Neuronal synaptic signaling and spine plasticity","description":"This cluster is driven by terms tied to synapse formation and plasticity, such as dendritic spine morphogenesis, NMDA receptor clustering, and positive regulation of synapse structural plasticity, with additional support from Wnt signaling terms that modulate synapse development. Although a few terms reference apoptosis or general signaling, the strongest signal is neuronal synaptic development and plasticity.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0050968","count":4}]},{"hash":"1774729016835078129","title":"Cross-Tissue Developmental Regulation","description":"The top GO terms point to development and differentiation across multiple tissues (muscle, neural, adrenal, liver, vasculature) and to transcription regulation/elongation, suggesting a broad, cross-tissue developmental regulatory theme rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014834","count":3},{"id":"GO:0048169","count":2},{"id":"GO:0030325","count":2},{"id":"GO:0051154","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1334007488828690784","title":"Synaptic Vesicle Exocytosis and Golgi Trafficking","description":"The cluster strongly centers on processes that couple neurotransmitter release with membrane receptor trafficking and Golgi/ER-Golgi transport, including synaptic vesicle exocytosis, SNARE complex assembly, exocytic insertion of receptors, and Golgi/ER-to-Golgi vesicle transport, suggesting a cohesive module for synaptic vesicle trafficking and receptor recycling that supports synaptic potentiation.","confidence":"High","size":17,"edges":55,"triangles":71,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0048280","count":6},{"id":"GO:0090161","count":5},{"id":"GO:0098967","count":5},{"id":"GO:0035493","count":5}]},{"hash":"1551451038196173014","title":"Neural GPCR signaling and circadian regulation","description":"This cluster is dominated by GO terms tied to neuroendocrine signaling and daily rhythm control, including adenylate cyclase-activating GPCR signaling, negative regulation of dopamine receptor signaling, prepulse inhibition, regulation of circadian rhythm, and prostaglandin-related responses. Together these point to neural signaling, autonomic/vascular regulation, and circadian control. Some terms (eosinophil chemotaxis, viral release, and electron transport) are less aligned and may reflect broader or incidental associations, but the core theme is neural GPCR signaling aligned with circadian/behavioral regulation.","confidence":"Medium","size":17,"edges":11,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0071799","count":12},{"id":"GO:0019076","count":12}]},{"hash":"1848863449162596767","title":"Neural development and synaptic function","description":"The top GO terms cluster around neural development and synaptic activity, including axonogenesis, visual perception, long-term potentiation, and excitatory postsynaptic potentials, pointing to neuronal differentiation and synaptic maturation. Additional terms for Schwann cell development and heart development suggest broader developmental roles, while mitotic cell-cycle terms reflect progenitor proliferation. Overall, this cluster appears to center on neural development and synaptic signaling, with some broader developmental context.","confidence":"Medium","size":17,"edges":94,"triangles":252,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":17},{"id":"GO:0009738","count":17},{"id":"GO:0060291","count":17},{"id":"GO:0007409","count":17},{"id":"GO:0007601","count":17}]},{"hash":"950162095187231928","title":"Energy metabolism and redox homeostasis","description":"The cluster includes GO terms for the TCA cycle, redox homeostasis, and nutrient/insulin/hypoxia responses, with quinone biosynthesis suggesting links to electron transport and energy production. This points to a cohesive theme of cellular energy metabolism and redox balance, possibly involving multi-subunit metabolic complexes.","confidence":"Medium","size":17,"edges":50,"triangles":61,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0009791","count":3},{"id":"GO:0009097","count":3},{"id":"GO:0032869","count":2}]},{"hash":"746326864060195346","title":"Developmental and mitotic regulators","description":"The top GO terms span both developmental processes (cerebellar cortex formation, heart development, visual perception, axon regeneration) and cell-cycle/mitosis (G2/M transition, kinetochore localization, regulation of CDK activity). This mixture suggests proteins involved in both development and cell-division control rather than a single pathway, hence the label.","confidence":"Medium","size":17,"edges":56,"triangles":77,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":15},{"id":"GO:0021697","count":15},{"id":"GO:0000086","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0045736","count":15}]},{"hash":"39287566376075473","title":"Male reproductive development and steroid signaling","description":"This cluster is driven by GO terms tied to male urogenital development (prostate gland development, male sex differentiation, ureter development) and steroid signaling (steroid hormone receptor complex assembly), with a nearby emphasis on GPCR signaling regulation, suggesting a coherent theme of male reproductive development and associated signaling pathways. Some terms related to general stress responses (UV-A, dsRNA) may reflect peripheral or broader roles of the included proteins.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0006463","count":5},{"id":"GO:0030850","count":5},{"id":"GO:0046661","count":5},{"id":"GO:0008277","count":5}]},{"hash":"322567811860898787","title":"Heart and Retina Signaling with Energy Metabolism","description":"This cluster mixes cardiovascular signaling (blood pressure regulation, heart development, GPCR pathways, ERK cascades, Rho/GTPase activity) with vision-related terms (visual perception, opsin signaling, visual learning), and includes the electron transport chain, suggesting shared energy metabolism in heart and retina. The GO terms together support a theme of signaling in heart and visual pathways, tied to mitochondrial energy processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0035025","count":6},{"id":"GO:0007601","count":6}]},{"hash":"1581769798897344925","title":"GPCR-cAMP-ERK Signaling with Metabolic Links","description":"Based on the dominant GO terms, the cluster centers on G protein-coupled receptor signaling with activation of adenylate cyclase and the ERK cascade, tied to regulation of blood pressure and prostaglandin responses. Although there are metabolic and sensory terms present (electron transport chain, thermogenesis, visual and pain perception), these can be downstream or parallel outcomes of broad GPCR signaling networks, suggesting a cohesive theme of GPCR-mediated signal transduction affecting multiple physiological axes.","confidence":"Medium","size":17,"edges":17,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0007190","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0022900","count":11}]},{"hash":"1477237478281663818","title":"Immune Activation and Cell Adhesion","description":"The top GO terms include positive regulation of type 2 immune response, activated T cell proliferation, macrophage cytokine production, and cell-matrix/cell-substrate adhesion, pointing to a cluster enriched in immune signaling and adhesion processes. Some developmental terms appear, but the dominant theme is immune activation coupled with adhesion dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002830","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0010811","count":2},{"id":"GO:0042104","count":2},{"id":"GO:0002906","count":2}]},{"hash":"290655590296899519","title":"Neuronal development and social behavior","description":"The cluster\u2019s GO terms cluster around nervous system function (peripheral nervous system myelination; regulation of excitatory postsynaptic potential; vocalization; social behavior; grooming behavior) alongside general gene-expression processes (mRNA processing; transcription). This combination suggests proteins involved in neural development and regulation of neuronal activity with behavioral outcomes, rather than a purely metabolic or structural role. Some terms are obsolete, but the core themes point to neuronal development and social/communication behaviors.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:2000463","count":3},{"id":"GO:0071625","count":3},{"id":"GO:2000821","count":3},{"id":"GO:0035176","count":3}]},{"hash":"1571260158964720109","title":"Ubiquitination and Deubiquitination Pathways","description":"The cluster\u2019s top GO terms are dominated by protein ubiquitination and deubiquitination (including K6- and K29-linked deubiquitination), with related references to ERAD and regulation of ubiquitin-dependent proteolysis, suggesting a core theme of ubiquitin-mediated proteostasis and protein turnover. Additional terms like mRNA processing and fat cell differentiation appear, but the most representative signal is ubiquitin modification/removal and proteostasis regulation, which justifies the proposed label focusing on ubiquitination/deubiquitination pathways.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0045444","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0007205","count":4}]},{"hash":"224513727429237408","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0032024","count":5},{"id":"GO:0050808","count":5},{"id":"GO:0035023","count":5}]},{"hash":"2002129352526849637","title":"Neural development and synapse morphogenesis","description":"The cluster is enriched for terms around CNS development, dendritic spine morphogenesis, and positive regulation of synapse assembly, indicating a functional group focused on neural development and synaptic formation. Some related terms reference broader developmental processes (retina morphogenesis, axial mesoderm formation), but the dominant theme ties to neural development and synaptic maturation.","confidence":"High","size":17,"edges":126,"triangles":560,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048320","count":14},{"id":"GO:0060997","count":14},{"id":"GO:0036060","count":14},{"id":"GO:0007417","count":14},{"id":"GO:1902960","count":14}]},{"hash":"445615602786063545","title":"Cardiac Electrophysiology Regulation","description":"This cluster shows multiple GO terms tied to cardiac electrical activity, including regulation of atrial cardiac muscle cell action potential, regulation of SA node cell action potential, and regulation of cardiac muscle contraction via calcium release, suggesting a shared theme around cardiac electrophysiology and calcium signaling. Other terms present (NF-kappaB signaling, lipid remodeling, development-related terms) appear less representative, indicating some heterogeneity but not overshadowing the cardiac signal.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0070236","count":4},{"id":"GO:0036151","count":4},{"id":"GO:2001246","count":4},{"id":"GO:0001824","count":3}]},{"hash":"119045363713680209","title":"Embryonic and Neural Development","description":"Top GO terms point to developmental processes across diverse tissues (neural structures such as cerebellum and Bergmann glia, axon formation; immune and thymic development; and vascular and signaling pathways like angiogenesis and Wnt signaling). This suggests the cluster captures general developmental differentiation programs rather than a single pathway, hence the label Embryonic and Neural Development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021697","count":9},{"id":"GO:2001275","count":9},{"id":"GO:0014850","count":9},{"id":"GO:0007409","count":9},{"id":"GO:0060020","count":9}]},{"hash":"1345140142174601996","title":"Transcription and Growth Signaling Regulation","description":"The GO terms point to broad regulatory roles affecting transcription, DNA replication initiation, growth processes, signaling pathways (including Wnt), protein targeting, and stress-induced apoptotic signaling, rather than a single enzymatic function. This suggests the cluster represents proteins involved in modulating multiple regulatory pathways, so a label emphasizing regulatory control over transcription and growth signaling is most representative.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007118","count":13},{"id":"GO:0045819","count":13},{"id":"GO:0032435","count":13},{"id":"GO:0006351","count":13},{"id":"GO:2000810","count":13}]},{"hash":"2171546886089742849","title":"Embryonic and skeletal muscle development with cell proliferation","description":"The cluster is dominated by terms for embryonic organ development and skeletal muscle fiber development, complemented by mitotic cell cycle and positive regulation of cell proliferation, pointing to a cohesive embryonic development/myogenesis program with transcriptional regulation. SOS response and nonsense-mediated decay terms are secondary, likely reflecting general stress/quality-control during development. ","confidence":"High","size":17,"edges":15,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048568","count":6},{"id":"GO:0000184","count":5},{"id":"GO:0006268","count":5},{"id":"GO:0009432","count":5},{"id":"GO:0032508","count":5}]},{"hash":"2245748163174762518","title":"Transmembrane Transport Proteins","description":"Most terms describe transport of substrates across membranes (ions like K+ and Na+, sugars such as arabinose, galactose, fucose, sialic acid), xenobiotics, and even neurotransmitter loading into synaptic vesicles, pointing to transporter proteins, channels, or carriers. The presence of additional substrate-specific transport terms alongside a vesicular transport step reinforces the membrane transport theme, suggesting a cohesive set of transport-related proteins. Overall, the dominant function represented is transmembrane transport.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3}]},{"hash":"432801436701935527","title":"Rho-Mediated Actin Dynamics and Cell Migration","description":"The top GO terms point to regulation of Rho signaling, lamellipodium and filopodium assembly, and GPCR/thrombin signaling pathways that drive actin remodeling and cellular movement, with additional context in immune cell degranulation and vascular development, supporting a cohesive theme of cytoskeleton-driven migration and morphogenesis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0016082","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0030032","count":7},{"id":"GO:0043314","count":6}]},{"hash":"796080675307637360","title":"Craniofacial and neural crest morphogenesis","description":"The top GO terms point to development of craniofacial structures (embryonic cranial skeleton, outer ear, retina) and neural components (synapse organization, axonal fasciculation, melanocyte adhesion), all of which reflect neural crest\u2013derived tissue formation and differentiation, with growth factor signaling (FGFR pathway, STAT phosphorylation) involved in these developmental processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048701","count":10},{"id":"GO:0050808","count":9},{"id":"GO:0043552","count":8},{"id":"GO:0060060","count":8},{"id":"GO:0042473","count":8}]},{"hash":"416210394592518699","title":"Embryogenesis and morphogenesis","description":"The top GO terms point to embryonic development and organ formation, including heart-related EMT, left-right patterning, cartilage morphogenesis, placental and trophoblast differentiation, pancreatic cell development, and endocrine system development. There are also minor signals of signaling regulation and ubiquitination, but the dominant pattern is developmental morphogenesis across tissues. This justifies the label as representing a cohesive embryogenesis/morphogenesis program.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0003323","count":7}]},{"hash":"280227660586442693","title":"Cell polarity and cytoskeleton signaling network","description":"The terms converge on epithelial cell polarity establishment/maintenance, tight junction assembly, actin filament polymerization/branching, and signaling pathways (Wnt, EGFR, ephrin) that regulate these processes, indicating a network coordinating polarity and cytoskeletal dynamics.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090263","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0051835","count":15},{"id":"GO:0070830","count":15},{"id":"GO:0048013","count":15}]},{"hash":"1842672891357585941","title":"Mitochondrial energy metabolism","description":"The top GO terms are dominated by mitochondrial electron transport (NADH to ubiquinone), proton transmembrane transport, respiratory chain complex IV assembly, and ATP synthesis coupled electron transport, all core components of oxidative phosphorylation. While translation and some development/behavior terms appear, the clear thread is mitochondrial energy production and transport, suggesting a cluster centered on mitochondrial metabolism with some ancillary functions.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042226","count":2},{"id":"GO:0001966","count":2},{"id":"GO:0061055","count":2},{"id":"GO:0010738","count":2}]},{"hash":"1460144521524426784","title":"Insulin signaling and energy metabolism","description":"This cluster centers on insulin signaling driving energy metabolism. Terms include insulin receptor signaling pathway, IGF receptor signaling pathway, regulation of glycogen biosynthesis, fatty acid oxidation, and glucose import in response to insulin, suggesting coordinated control of carbohydrate and lipid metabolism by insulin pathways. A few terms appear obsolete or less related, but the dominant theme is metabolic regulation via insulin signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0010748","count":4}]},{"hash":"1946260497116824662","title":"Collagen biosynthesis and vascular remodeling","description":"The terms are dominated by collagen biosynthesis and fibril organization, with coagulation and platelet regulation, plus vascular signaling (VEGF), mechanotransduction, and inflammatory cues, suggesting an ECM remodeling module linked to clotting and blood vessel dynamics.","confidence":"High","size":17,"edges":7,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032964","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0090331","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0051044","count":4}]},{"hash":"2116836965921029230","title":"Osteogenesis and Skeletal Development","description":"The strongest GO signals are about bone formation and skeletal development: bone mineralization, osteoblast differentiation, endochondral ossification, and overall skeletal system development. Calcium ion homeostasis also ties into bone biology. Peripheral terms like fat cell or endodermal differentiation are present but do not define the cluster\u2019s main theme.","confidence":"High","size":17,"edges":84,"triangles":175,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030501","count":3},{"id":"GO:0045669","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0001958","count":2}]},{"hash":"1697290458766642407","title":"Embryonic organogenesis across tissues","description":"The top GO terms point to development and morphogenesis across multiple organs (habenula, heart, placenta, eye, hindlimb, gonads, prostate), with an overarching theme of embryonic tissue formation and regulatory control over transcription, suggesting a cluster of developmental regulators coordinating organogenesis.","confidence":"High","size":17,"edges":31,"triangles":5,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0021986","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0001890","count":10},{"id":"GO:0048048","count":10}]},{"hash":"1023872428729031394","title":"Mitochondrial Metabolism and Iron-Sulfur Pathways","description":"Top GO terms point to mitochondrial-associated processes (ATP synthesis coupled electron transport, iron-sulfur cluster assembly, heme transport, oxygen homeostasis) with other terms being less frequent (development, chemotaxis). The dominant pattern suggests a focus on energy metabolism within mitochondria, despite some peripheral developmental terms. Therefore, the label reflects the core function of the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0015886","count":2},{"id":"GO:0032364","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0016226","count":1}]},{"hash":"364961721453454028","title":"Notch-regulated development and epithelial differentiation","description":"The cluster features developmental terms including positive regulation of Notch signaling, hypochord development, insect visual primordium formation, intestinal epithelial cell development, and maintenance of epithelial polarity, suggesting a common theme of Notch-influenced developmental and epithelial processes. Outliers include immune differentiation and meiotic division, which may reflect broader functional diversity or annotation noise.","confidence":"Medium","size":17,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0016267","count":5},{"id":"GO:0045747","count":5},{"id":"GO:0055016","count":5},{"id":"GO:0001744","count":5}]},{"hash":"428727845494658725","title":"Centromere assembly and mitosis","description":"The top terms show strong signals for centromere-associated chromatin assembly (CENP-A), mitotic cell cycle, and DNA repair, indicating a cluster focused on chromosome maintenance and division. Other terms like ribosome biogenesis and cytoskeletal/trafficking processes seem supportive of proliferative cell activity but do not redefine the core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0061641","count":3},{"id":"GO:0051016","count":3}]},{"hash":"1154317165768939634","title":"Endosomal and Vacuolar Trafficking","description":"This cluster is dominated by GO terms for transport and maturation within endosomal/lysosomal pathways (Golgi to endosome, early to late endosome, endosome localization, endosome-to-melanosome transport, and Cvt pathway to vacuole). The inclusion of neuronal plasticity and touch perception terms suggests trafficking-linked regulation of signaling in neurons, linking vesicular transport to function. Therefore, \u201cEndosomal and Vacuolar Trafficking\u201d best captures the shared function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032258","count":4},{"id":"GO:0006895","count":4},{"id":"GO:0050885","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0032486","count":4}]},{"hash":"692221584176505521","title":"Unknown","description":"The top terms are scattered across heart development (atrial septum morphogenesis), bone formation, immune isotype switching, neural synapse dynamics, xenobiotic response, apoptosis, and chromatin formation, with no clear single pathway linking them. Because there is no consistent function tying most proteins together, I cannot assign a specific, representative label.","confidence":"","size":17,"edges":27,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0003290","count":2},{"id":"GO:0003289","count":2},{"id":"GO:0048298","count":2},{"id":"GO:0097091","count":2},{"id":"GO:0090394","count":2}]},{"hash":"1651027293463517325","title":"Nuclear transcription and RNA processing","description":"The terms cluster around nuclear processes: transcription regulation by RNA polymerase II, mRNA splicing via the spliceosome, telomere maintenance, and protein ubiquitination/localization to chromosome regions. While a couple terms (social behavior, myotube differentiation) are less related, the core theme is nuclear gene expression regulation and RNA processing, with ubiquitination involved in protein turnover. The signal is present but not strongly cohesive, so confidence is Moderate.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":2},{"id":"GO:2001108","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0032212","count":2}]},{"hash":"523606031197575279","title":"Neuronal development and sensory function","description":"The cluster\u2019s top GO terms concentrate on nervous system development, forebrain development, sensory perception of sound, and neuronal signaling (nerve growth factor response, calcium ion regulation, locomotory behavior). This points to a neural development/sensory function theme for the proteins. A few terms (amyloid fibril formation, cuticle/ecdysis) are less aligned, introducing some noise but not overriding the main neural signal.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990090","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0000185","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0048669","count":1}]},{"hash":"2076992686276055865","title":"Immune and Cardiac Signaling","description":"These proteins show a mix of immune-related signaling (type II interferon production; B cell activation; Fc-epsilon receptor signaling; regulation of MyD88/TLR signaling; tumor cell detection) and cardiac conduction activity (AV node and atrial cardiomyocyte action potentials; cell adhesion in conduction pathways). While there are a couple unrelated tissue terms (lens morphogenesis, GI epithelium maintenance), the dominant pattern is signaling across immune and cardiac tissues, suggesting a multidomain signaling module rather than a single-tissue function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072643","count":4},{"id":"GO:0030277","count":4},{"id":"GO:0050871","count":4},{"id":"GO:0038095","count":4},{"id":"GO:0086016","count":4}]},{"hash":"403391227469823366","title":"Proteostasis and Protein Trafficking","description":"This set centers on protein folding regulation, export/import, and membrane/translocation targeting, with terms about chaperone-assisted refolding, prevention of inclusion body assembly, translation frameshifting, and post-translational targeting to membranes. A few developmental signaling terms appear, but the dominant signal is protein homeostasis and trafficking rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001707","count":4},{"id":"GO:1901621","count":4},{"id":"GO:0006260","count":4},{"id":"GO:1900035","count":3},{"id":"GO:0070389","count":3}]},{"hash":"1739467487226293898","title":"Neural and craniofacial development","description":"The top GO terms cluster around nervous system and craniofacial morphogenesis (midbrain development, trigeminal ganglion and dorsal spinal cord development, embryonic cranial skeleton morphogenesis) with visual perception also tied to neural tissues. This pattern points to proteins involved in embryonic tissue development across neural and craniofacial compartments, rather than a single biochemical pathway. Some terms (e.g., endocrine pancreas development) reflect broader developmental roles, but the dominant theme is neural and craniofacial morphogenesis. There are no known interactions among the proteins (no edges), reinforcing a shared developmental function over direct molecular coupling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0071230","count":3}]},{"hash":"1161743294931308309","title":"Embryonic Development and Organogenesis","description":"These terms cluster around developmental processes: left-right patterning, cartilage morphogenesis, endocardial cushion EMT, pancreas and endocrine system development, and placental-related differentiation, suggesting a unifying theme of embryonic development and organ formation. Supporting molecular processes like mRNA splicing and transcription regulation align with developmental gene expression programs.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":16},{"id":"GO:0000055","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0060536","count":16}]},{"hash":"1369903636862696775","title":"Glycosylation and N-glycan Processing","description":"The dominant GO terms cluster around glycosylation-related processes (protein glycosylation, N-glycan processing, mannose metabolism, and deglycosylation), indicating a cohesive theme of carbohydrate modification of proteins, despite a few outlier terms.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016063","count":5},{"id":"GO:0006486","count":5},{"id":"GO:0006013","count":5},{"id":"GO:0006517","count":5},{"id":"GO:0035010","count":5}]},{"hash":"22345340842171431","title":"Calcium signaling and cytoskeletal remodeling in vessels and neurons","description":"These terms cluster around calcium homeostasis (intracellular calcium), ER stress responses, and cytoskeletal dynamics (filopodium and stress fiber assembly), with associated signaling pathways like VEGF receptor signaling and platelet activation. The presence of vascular remodeling terms (positive/negative regulation) and neural-related terms (synapse maturation, sensory perception of sound) suggests a broad theme of signaling and structural remodeling in vascular and neural contexts, driven by calcium signaling and cytoskeletal organization. Given this mixture, the label captures the dominant shared features without overreaching into a single precise pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060304","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0006874","count":2},{"id":"GO:0030168","count":2},{"id":"GO:0060074","count":2}]},{"hash":"1355524973425666997","title":"Neuronal mitochondrial dynamics and axon growth","description":"The GO terms point to mitochondrial regulation (fission, membrane potential, localization), calcium signaling, and microtubule-driven axon extension in neurons, with a note of neurodegenerative context (neurofibrillary tangles). This suggests a theme where mitochondrial dynamics influence neuronal cytoskeleton and axon elongation, justifying a label centered on neuronal mitochondrial regulation and axon growth.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090258","count":4},{"id":"GO:1902988","count":4},{"id":"GO:1902856","count":4},{"id":"GO:1901216","count":4},{"id":"GO:0050848","count":4}]},{"hash":"1706756445082616470","title":"Immune cell motility and phagocytosis","description":"The cluster centers on immune-related and cytoskeletal processes: adaptive immune response, phagocytosis, cell migration, lamellipodium morphogenesis, actin cytoskeleton reorganization, and signaling pathways like Rho and PI3K, plus NF-kappaB regulation. This suggests a coherent theme of immune cell movement and engulfment rather than unrelated processes; the estrous cycle term is less central but does not override the motility/phagocytosis signal.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0044849","count":2},{"id":"GO:2000394","count":2},{"id":"GO:0046627","count":2}]},{"hash":"1115721586997183616","title":"Cardiac muscle and sensory perception functions","description":"This cluster is dominated by GO terms for sarcomere organization and cardiac muscle contraction, indicating a core connection to heart/muscle function. It also prominently includes sensory-related terms (visual perception, phototransduction) and nervous system development, suggesting additional neurosensory roles that broaden the cluster beyond muscle alone.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":6},{"id":"GO:0060048","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0071805","count":4}]},{"hash":"1978118653588859222","title":"Spindle Assembly and Cytokinesis","description":"This cluster is dominated by GO terms tied to microtubule organization and mitotic processes: spindle pole body duplication, spindle midzone assembly, nucleation, cytokinesis, division site positioning, and the broader cell cycle. The presence of neuron migration also aligns with cytoskeletal dynamics, while FtsZ-dependent cytokinesis points to a conserved division machinery theme across kingdoms. Taken together, these terms point to a cohesive theme of spindle-driven microtubule organization and cytokinesis during cell division.","confidence":"High","size":16,"edges":93,"triangles":317,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090529","count":12},{"id":"GO:0007049","count":12},{"id":"GO:1903087","count":12},{"id":"GO:0051256","count":12},{"id":"GO:2000767","count":12}]},{"hash":"1898020124341356738","title":"P53-Mediated DNA Damage Response","description":"The cluster is driven by GO terms centered on DNA-templated transcription, p53-mediated DNA damage signaling, and intrinsic apoptotic pathways in response to DNA damage, with accompanying references to cell cycle regulation. This suggests a cohesive theme of sensing genome damage, activating p53-dependent transcriptional programs, and coordinating cell fate decisions (repair, arrest, or apoptosis) alongside cell-cycle control under genotoxic stress.","confidence":"High","size":16,"edges":75,"triangles":205,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0030330","count":5},{"id":"GO:0048146","count":5},{"id":"GO:0008630","count":4},{"id":"GO:0071466","count":4}]},{"hash":"1726735964780935729","title":"Germline transcription, chromatin remodeling, and piRNA processing","description":"The top GO terms converge on transcriptional regulation (DNA-templated transcription; negative regulation of transcription by RNA Pol II), chromatin remodeling, and piRNA processing, with additional signals for germline-related processes like meiosis and gamete formation. Although neural development terms appear, the strongest, most coherent theme is germline transcriptional control and genome defense via piRNA pathways, including chromatin changes during gametogenesis and meiosis.","confidence":"Medium","size":16,"edges":17,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0034587","count":2},{"id":"GO:0007140","count":2},{"id":"GO:0043044","count":2}]},{"hash":"1241360935628827569","title":"RNA Splicing and Translation Regulation","description":"This cluster is rich in GO terms related to mRNA processing and splicing via the spliceosome, including multiple layers of splicing regulation, alongside terms tied to translation control (eIF4F complex assembly, translation reinitiation) and miRNA-mediated translational silencing. The combination suggests a cohesive theme around RNA processing and post-transcriptional gene expression regulation, spanning both splicing and translation. ","confidence":"High","size":16,"edges":113,"triangles":472,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0048025","count":11},{"id":"GO:0035278","count":10},{"id":"GO:0048026","count":10}]},{"hash":"2053033210718907211","title":"DNA Replication and Cell-Cycle Regulation","description":"The cluster centers on core nuclear processes: DNA-templated transcription, DNA replication, DNA repair, and the mitotic cell cycle, as shown by multiple Top Terms with 14 counts. This points to a cohesive theme of genome maintenance and cell-cycle control. Additional terms indicate regulatory layers on protein turnover (proteasomal degradation) and signaling (peptidyl-tyrosine phosphorylation), as well as stress-related responses (ER-stress\u2013induced apoptosis) and neuronal development, which may reflect broader regulatory roles but do not override the central replication/repair signature.","confidence":"High","size":16,"edges":32,"triangles":14,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032435","count":14},{"id":"GO:0018108","count":14},{"id":"GO:0006351","count":14},{"id":"GO:0000278","count":14},{"id":"GO:0006260","count":14}]},{"hash":"1389054841491823965","title":"Gonad development and hormone biosynthesis","description":"This cluster centers on reproductive biology and hormone signaling, highlighted by female gonad development, uterus development, and testosterone biosynthesis, plus prostaglandin, retinoic acid, and vitamin D metabolic processes. Some entries (vancomycin biosynthesis, alkaloid catabolic process) appear ancillary or cross-species annotation noise, but the dominant pattern ties to gonadal development and hormone biosynthesis.","confidence":"Medium","size":16,"edges":82,"triangles":200,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":10},{"id":"GO:0001516","count":10},{"id":"GO:0010241","count":9},{"id":"GO:0033072","count":9},{"id":"GO:0090350","count":9}]},{"hash":"1761358190787600832","title":"Transsulfuration and amino acid biosynthesis","description":"The cluster is enriched for transsulfuration and hydrogen sulfide biosynthesis, along with serine, cysteine, threonine, and tryptophan biosynthetic/catabolic processes. This pattern points to coordinated amino acid metabolism with a focus on sulfur-containing pathways, including both synthesis and degradation routes, so a label centered on transsulfuration and related amino acid metabolism is most representative.","confidence":"High","size":16,"edges":117,"triangles":520,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006565","count":7},{"id":"GO:0019343","count":6},{"id":"GO:0019346","count":6},{"id":"GO:0070814","count":6},{"id":"GO:0046360","count":5}]},{"hash":"1488518512273278108","title":"Wnt/JNK-driven development and stress signaling","description":"This cluster centers on canonical Wnt signaling (positive regulation), the JNK cascade, and ER-stress\u2013driven intrinsic apoptotic signaling, with accompanying terms for morphogenesis (outer ear morphogenesis, placenta development) and development-related processes. Together these terms suggest proteins involved in developmental signaling that is modulated by cellular stress, coordinating growth, apoptosis, and tissue formation. The broader inclusion of pain response and replication initiation hints at wider stress and proliferation-related roles but does not outweigh the core theme of development linked with Wnt/JNK signaling pathways.","confidence":"Medium","size":16,"edges":69,"triangles":113,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":16},{"id":"GO:0060258","count":16},{"id":"GO:0061368","count":16},{"id":"GO:0090263","count":16},{"id":"GO:0043552","count":16}]},{"hash":"2249628740120152828","title":"DNA Repair and Genome Integrity","description":"Top GO terms indicate strong emphasis on base-excision repair, double-strand break repair via homologous recombination, DNA replication, and recombination, along with cellular responses to DNA-damaging stresses (gamma radiation, xenobiotics, ethanol). This points to a cohesive function in preserving genome stability and coordinating repair with replication, justifying the label.","confidence":"High","size":16,"edges":60,"triangles":90,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006284","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0006260","count":3}]},{"hash":"469397341040065111","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":30,"triangles":22,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006695","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0006212","count":3},{"id":"GO:0009636","count":3}]},{"hash":"133948443048617733","title":"Sex Hormone Biosynthesis and Gonadal Development","description":"This cluster is driven by GO terms tied to hormone production and reproductive development, including testosterone biosynthetic process and female gonad/uterus development, suggesting a theme around sex hormone biosynthesis and gonadal development. Some terms related to plant secondary metabolism appear, but the strongest, cohesive signal centers on reproductive hormone production and gonadal development.","confidence":"Medium","size":16,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0043065","count":3},{"id":"GO:0010241","count":3},{"id":"GO:0033072","count":3},{"id":"GO:0090350","count":3}]},{"hash":"1140278100899365723","title":"Nuclear gene expression and RNA processing","description":"The dominant GO terms point to nuclear functions: DNA-templated transcription, DNA replication, chromatin organization, and mRNA splicing, along with miRNA catabolic process and RNA turnover. These indicate a cluster centered on regulation of gene expression at the DNA/RNA level. Some terms like collagen catabolic process and lateral root development are less directly connected or likely peripheral annotations, but the core signal is clearly nuclear gene expression and RNA processing. ","confidence":"High","size":16,"edges":20,"triangles":12,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0009744","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0010587","count":2}]},{"hash":"661356771224327413","title":"Embryonic organogenesis and neural crest migration","description":"The proteins are enriched for developmental processes across multiple tissues (neural crest migration, inner ear, palate, cartilage, digestive tract, pituitary, pancreas, midbrain), suggesting a broad role in embryonic organogenesis rather than a single tissue-specific function. The label captures this wide developmental theme, including neural crest\u2013related migration.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0001755","count":5},{"id":"GO:0048839","count":4},{"id":"GO:0051216","count":4},{"id":"GO:0060021","count":4}]},{"hash":"1229846998562108039","title":"B cell and Fc receptor adaptive signaling","description":"This cluster is driven by B cell receptor signaling, Fc-epsilon receptor signaling, and adaptive immune response, indicating proteins involved in B cell activation and IgE/Fc receptor\u2013mediated signaling, with supporting terms for IL-2 production and broader immune signaling.","confidence":"High","size":16,"edges":61,"triangles":85,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":14},{"id":"GO:0038095","count":14},{"id":"GO:0002250","count":14},{"id":"GO:1900042","count":14},{"id":"GO:0050853","count":14}]},{"hash":"2026886388244245208","title":"Sex differentiation and female reproductive development","description":"The top GO terms strongly cluster around female reproductive biology\u2014sex differentiation, mammary gland development, female gonad development, uterus development\u2014indicating a cohesive theme of female reproductive development. Some terms such as retinoic acid and vitamin D metabolism support hormonal signaling links, while a couple of plant/antibiotic biosynthesis terms appear unrelated and may reflect cross-species annotation noise. Overall, the reproductive-development theme dominates. ","confidence":"Medium","size":16,"edges":28,"triangles":39,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007548","count":7},{"id":"GO:0030879","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0010241","count":6},{"id":"GO:0033072","count":6}]},{"hash":"236787348561562086","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":17,"triangles":3,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":12},{"id":"GO:0048026","count":9},{"id":"GO:0000462","count":8},{"id":"GO:0000466","count":8},{"id":"GO:0042273","count":8}]},{"hash":"2105099721549268767","title":"Mitochondrial Membrane Permeability and Apoptosis","description":"The top GO terms are dominated by mitochondrial-related processes: regulation of mitochondrial membrane permeability, protein import into the mitochondrial matrix, and ATP export, along with the apoptotic process. While there are a couple of terms related to DNA replication and cell-cycle regulation, the strongest, most coherent signal centers on mitochondrial function and programmed cell death, with some possible cross-talk to cell-cycle control. This justifies a label focused on mitochondrial membrane integrity and apoptosis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010867","count":4},{"id":"GO:2000134","count":4},{"id":"GO:0046902","count":4},{"id":"GO:0070940","count":4},{"id":"GO:0030150","count":4}]},{"hash":"197845265229333974","title":"Ubiquitin-Dependent Immune Signaling","description":"The cluster is dominated by GO terms for ubiquitin pathways (ubiquitin-dependent protein catabolic process, ubiquitination, ERAD, autoubiquitination) and immune responses (innate and adaptive, defense against virus, RIG-I signaling regulation). This points to proteins involved in tagging and controlling immune signaling and antiviral defenses via ubiquitin-mediated turnover. A couple of terms (peroxisome import, synapse assembly) are less directly connected but may reflect broader roles of ubiquitination in cellular trafficking and neural processes. Overall, a label emphasizing ubiquitin-mediated immune signaling fits best.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0030433","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0051607","count":5}]},{"hash":"2211764949035277993","title":"RNA Processing and Chromatin Dynamics","description":"Most GO terms cluster around RNA metabolism and maturation (deadenylation-dependent decapping, spliceosomal snRNP assembly, maturation of SSU-rRNA, tRNA processing, P-body assembly, nuclear import) and chromatin maintenance (histone mRNA metabolic process, pericentric heterochromatin formation). A couple terms (response to abscisic acid, hair cycle) are less representative, but the core signal points to coordinated RNA processing and chromatin organization.","confidence":"High","size":16,"edges":63,"triangles":170,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":5},{"id":"GO:0000290","count":5},{"id":"GO:0042633","count":5},{"id":"GO:0000387","count":5},{"id":"GO:0008334","count":5}]},{"hash":"242379168333278549","title":"Cilium assembly and sensory trafficking","description":"The top GO terms center on cilium assembly, visual perception, receptor recycling, and presynaptic assembly regulation, all pointing to roles in ciliary-based sensory signaling and membrane trafficking in sensory neurons (e.g., photoreceptors). While some terms reflect general cellular maintenance, the majority theme is ciliary structure and sensory trafficking. ","confidence":"Medium","size":16,"edges":112,"triangles":462,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0002098","count":7},{"id":"GO:1905608","count":7},{"id":"GO:0001881","count":7}]},{"hash":"849747358200927003","title":"Rho/Rac-driven actin remodeling and cell migration","description":"This cluster centers on signaling that regulates the actin cytoskeleton and cell movement, with strong enrichment for Rho and Rac GTPase pathways and actin organization, plus associated processes like cell adhesion and migration. While insulin signaling and some immune-related terms appear, the dominant theme links cytoskeletal dynamics controlled by Rho/Rac to cellular motility and adhesion, which justifies a collective label around actin remodeling and migration.","confidence":"Medium","size":16,"edges":16,"triangles":0,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":15},{"id":"GO:0035023","count":14},{"id":"GO:0016477","count":14},{"id":"GO:0030036","count":14},{"id":"GO:0032287","count":14}]},{"hash":"2275501172501311229","title":"Neural plate and placode development","description":"The terms converge on neural plate development and placode formation (cranial ganglia, hair follicle placodes) with supporting processes like anisotropic cell growth, calcium-dependent cell\u2013cell adhesion, and cytoskeletal/adhesion organization, indicating a cohesive role in ectodermal morphogenesis and patterning.","confidence":"High","size":16,"edges":114,"triangles":479,"max_degree":15,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051211","count":11},{"id":"GO:0001840","count":11},{"id":"GO:0071255","count":11},{"id":"GO:0030997","count":11},{"id":"GO:0060789","count":11}]},{"hash":"1313837036294395180","title":"Cytoskeletal remodeling and signaling","description":"This cluster appears to group proteins involved in signaling pathways that regulate the cytoskeleton and cell architecture, including Wnt signaling, small GTPase\u2013mediated signaling, and actin cytoskeleton polarity. The presence of tight junction assembly and processes related to cell migration and wound healing suggests coordinated control of cell adhesion and morphogenesis. The inclusion of neuron apoptotic regulation hints at broader cellular homeostasis linked to cytoskeletal dynamics and signaling. Overall, the terms point to a cohesive theme of signaling-driven cytoskeletal remodeling and cell junction organization.","confidence":"High","size":16,"edges":37,"triangles":34,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0043525","count":4},{"id":"GO:0044319","count":4}]},{"hash":"1326839933756902097","title":"Post-transcriptional mRNA processing and translation control","description":"The top GO terms cluster around regulation of mRNA splicing via the spliceosome, mRNA stability and poly(A) tail dynamics, miRNA-mediated silencing, and the assembly/operation of the translation initiation machinery (eIF4F) and reinitiation. Together these indicate a group of proteins focused on post-transcriptional regulation of gene expression, including splicing, mRNA processing, and translation control, rather than transcription initiation or DNA repair. The presence of one development-related term is likely incidental. ","confidence":"High","size":16,"edges":118,"triangles":532,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0000381","count":10},{"id":"GO:1901407","count":10},{"id":"GO:0035278","count":9},{"id":"GO:0048026","count":9}]},{"hash":"1446797762348249695","title":"Developmental and stress-response genes","description":"The terms show a mix of developmental processes (forebrain, skeletal system, multicellular organism development) with stress and response pathways (ER stress-induced apoptosis, cadmium response, immune defense, transcription and cell cycle activities), suggesting a broad set of genes involved in development and cellular stress responses.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":14},{"id":"GO:0001403","count":14},{"id":"GO:0006349","count":14},{"id":"GO:0050830","count":14},{"id":"GO:0006351","count":14}]},{"hash":"1078013584512694256","title":"Post-transcriptional RNA processing and translation regulation","description":"Most enriched terms center on post-transcriptional control: mRNA stability, splicing via the spliceosome, ncRNA- and miRNA-mediated silencing, poly(A) tail regulation, translation initiation/reinitiation, implying a cohesive RNA processing/translation regulatory module, especially under stress.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0006378","count":10},{"id":"GO:0035278","count":8}]},{"hash":"1494512077006801530","title":"Actin remodeling at cell junctions and polarity","description":"The cluster is dominated by GO terms related to actin dynamics (filopodium assembly, actin polymerization, branching) and cell\u2013cell junctions (tight junction assembly) as well as epithelial polarity (polarity establishment and substrate-dependent spreading). This suggests a cohesive theme of cytoskeletal reorganization driving cell adhesion and epithelial organization, with supportive signaling links (ephrin/Wnt). ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":4},{"id":"GO:0090263","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0030838","count":3}]},{"hash":"385225278622279070","title":"Neurodevelopment and sensory organ morphogenesis","description":"This cluster centers on development of neural and sensory organs, with multiple terms for brain segmentation, retina and eye morphogenesis, inner ear morphogenesis, habenula and rhombomere development, and pituitary gland development, suggesting coordinated neural/sensory organ morphogenesis. Transcription-related terms are present but likely reflect general gene regulation during these developmental processes.","confidence":"High","size":16,"edges":116,"triangles":506,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0035284","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0042472","count":8},{"id":"GO:0021983","count":8}]},{"hash":"1316708813963944474","title":"Sex Hormone Signaling and Male Development","description":"The cluster is dominated by terms tied to steroid hormone receptor assembly and male development (steroid hormone receptor complex assembly, prostate gland development, male sex differentiation), indicating a primary theme of sex hormone signaling and male development. Other terms like cellular response to type I interferon, axon guidance, and metabolism appear but are less represented, suggesting some functional diversity around the core theme.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006463","count":2},{"id":"GO:1903646","count":2},{"id":"GO:0090526","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0030850","count":2}]},{"hash":"20641359191345101","title":"Developmental signaling and axon guidance","description":"The top GO terms point to developmental signaling (Hedgehog/smoothened pathway), axon guidance and regulation of neurite growth, plus related development processes (ossification, spermatid development) and cellular trafficking/mechanotransduction, suggesting a theme of developmental signaling guiding cell fate and pathfinding.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0002551","count":5},{"id":"GO:0007224","count":5}]},{"hash":"365552625056643148","title":"Gs-coupled Neuronal GPCR Signaling","description":"The top GO terms point to GPCR signaling pathways that activate adenylyl cyclase and phospholipase C, together with processes related to neuronal development such as axonal fasciculation and synapse assembly. This suggests a coherent theme of GPCR-driven signaling in neurons contributing to connectivity, with a few vascular-related terms likely representing broader signaling cross-talk rather than core function. Overall, the cluster seems driven by neuronal GPCR signaling and synaptic organization.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016525","count":6},{"id":"GO:0051965","count":6},{"id":"GO:1900747","count":5},{"id":"GO:0007189","count":5},{"id":"GO:0007413","count":5}]},{"hash":"1058055290114074417","title":"Immune receptor signaling with cytoskeletal remodeling","description":"GO terms include T cell receptor signaling, B cell receptor signaling, and innate immune response, suggesting these proteins function in immune signaling. Additional terms for regulation of Rho signaling, actin cortex localization, and cell polarity imply coordinated cytoskeletal remodeling that supports receptor internalization and immune synapse formation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0050852","count":2},{"id":"GO:0045879","count":2}]},{"hash":"1565892956234588795","title":"Rho GTPase\u2013Mediated Actin Remodeling","description":"The cluster\u2019s top GO terms cluster around Rho-regulated actin cytoskeleton dynamics\u2014Rho signaling, GTPase activity, and assembly of actin structures like microspikes and lamellipodia, along with related processes such as tight junction and mitotic spindle assembly. While some terms touch developmental processes (heart development, myelination) and immune signaling, the core theme is cytoskeletal remodeling driven by Rho GTPases. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0030035","count":7},{"id":"GO:0007507","count":6},{"id":"GO:1900042","count":6},{"id":"GO:0043547","count":6}]},{"hash":"659051102975471467","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"This cluster is strongly driven by GO terms related to actin filament organization and actin cytoskeleton organization, plus Rho signaling and epithelial polarity, with supporting signals from membrane dynamics and synaptic plasticity. Although there are development terms (heart, thymus), the unifying theme appears to be regulation of actin-driven structure and polarity across contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0007015","count":3},{"id":"GO:0048538","count":3}]},{"hash":"1165173540391407732","title":"Neural-endocrine signaling and ion transport","description":"The terms cluster around neural development and regulation (sympathetic nervous system development, neuron apoptosis regulation), thyroid hormone and IGF signaling-related metabolism, and ion transport. Taken together, they suggest a theme of neural-endocrine communication coupled with ion transport processes, despite sparse connectivity in the network data. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006805","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0043569","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0030206","count":2}]},{"hash":"1304224334940624534","title":"Rho-regulated developmental and synaptic signaling","description":"Top terms indicate a core focus on Rho GTPase\u2013mediated signal transduction, dendritic spine morphogenesis, and long-term synaptic potentiation, pointing to cytoskeletal signaling that drives neural development and plasticity. Additional terms such as heart and thymus development, insulin receptor signaling, and T cell receptor signaling suggest broader developmental signaling roles across tissues, with nitric oxide responses aligning with cellular signaling dynamics. Together, the cluster appears to comprise proteins involved in signaling programs governing development and neuronal remodeling, with some cross-touch into other tissues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0060997","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0048538","count":6}]},{"hash":"965667162290842478","title":"Reproductive development and hormone signaling","description":"Based on the predominant terms, the proteins cluster around reproductive development (uterus morphogenesis, uterine gland development) and hormone-related signaling pathways (insulin receptor signaling, androgen receptor signaling). A few epigenetic/chromatin regulation terms appear but are less central. This suggests a cohesive theme of reproductive development intertwined with endocrine signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0043970","count":4},{"id":"GO:0061038","count":3},{"id":"GO:1903758","count":3}]},{"hash":"1458645141229007721","title":"Telomere maintenance and spindle assembly regulation","description":"Several high-importance terms center on telomeres (regulation of telomere maintenance, telomere lengthening, telomere capping, localization to telomeric regions) and spindle assembly, indicating a core theme around chromosome end protection and mitotic chromosome segregation. While there are also broader signaling terms (Wnt, ephrin), the dominant signal is the combination of telomere regulation and spindle dynamics, justifying a label focused on these interconnected processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":3},{"id":"GO:1904743","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0070198","count":2},{"id":"GO:0070213","count":2}]},{"hash":"1716452084423297485","title":"Glycan and proteoglycan biosynthesis","description":"The top GO terms cluster around biosynthesis of proteoglycans (chondroitin sulfate, heparan sulfate, heparin proteoglycans) and various glycan-related processes (arabinogalactan proteins, poly-N-acetyllactosamine, Lewis a epitope), suggesting a shared function in assembling glycans and glycoproteins. Some terms pertain to plant cell wall/glycan components (root hair development, seed coat mucilage), while others reflect broader glycosylation processes, indicating a general theme of glycan biosynthesis across contexts. Overall, the cluster appears to represent glycoprotein/glycan biosynthesis and related extracellular glycan assembly. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050650","count":2},{"id":"GO:0015012","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0048354","count":2}]},{"hash":"1888130779301060911","title":"Chemosensory and phototransduction GPCR signaling","description":"This cluster is dominated by GO terms related to sensory perception and detection of stimuli, including chemical stimuli (detection of chemical stimulus involved in sensory perception), olfactory behavior, thermotaxis, aerotaxis, and phototransduction. There is also a GO term tying GPCR signaling to the cGMP second messenger, and a note on potassium ion transport, aligning with ion-channel/GPCR-mediated sensory transduction. Together these suggest a cohesive theme of sensory perception across olfactory and photoreceptor pathways, via GPCR signaling and related transduction mechanisms.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0050907","count":5},{"id":"GO:0003065","count":3},{"id":"GO:0060298","count":3},{"id":"GO:0007602","count":3}]},{"hash":"1941295264326112918","title":"Unknown","description":"This cluster shows GO terms spanning enamel formation, fungicide response, mitochondrial fission, inner ear development, GM-CSF and TGF-beta signaling, DNA repair, chromatin remodeling, cAMP signaling, and defense against Gram-positive bacteria. The components therefore appear to participate in highly diverse, unrelated processes with no clear single functional theme tying them together, so a cohesive label cannot be determined.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097186","count":2},{"id":"GO:0060992","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0060716","count":2},{"id":"GO:0097011","count":2}]},{"hash":"390225881334864045","title":"Embryonic mesoderm development and morphogenesis","description":"Top GO terms show strong signals for mesoderm development, cartilage and hair follicle morphogenesis, left-right patterning, and EMT in heart cushion formation, indicating a cohesive theme of embryonic tissue morphogenesis and patterning, particularly mesoderm-derived structures and organ formation. Minor terms related to RNA processing likely reflect general gene expression during development. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032298","count":14},{"id":"GO:0000055","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0060536","count":14}]},{"hash":"273433101293391019","title":"Chromatin Modification and Transcription Regulation","description":"The cluster is dominated by chromatin-related terms: DNA-templated transcription and multiple histone modifications (H3/H4 methylation/acetylation). This suggests a cohesive theme of epigenetic regulation of gene expression, with connected but broader signaling terms such as kinase and GTPase regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1821300899753529061","title":"Spindle assembly and microtubule dynamics","description":"The top GO terms cluster around mitotic spindle assembly, spindle pole separation, nuclear migration along microtubules, and meiotic spindle orientation, all describing microtubule-based spindle formation and movement during cell division. Additional terms reference actomyosin ring assembly (cytokinesis) and microtubule-dependent transport and cytoskeletal roles in neurons, reinforcing a common theme of cytoskeletal organization and spindle dynamics.","confidence":"High","size":15,"edges":67,"triangles":160,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":14},{"id":"GO:0000742","count":14},{"id":"GO:0000915","count":14},{"id":"GO:0098971","count":14},{"id":"GO:0021693","count":14}]},{"hash":"1309438891599623423","title":"Collagen biosynthesis and connective tissue morphogenesis","description":"The cluster is dominated by collagen-related processes (biosynthesis and fibril organization) and tissue morphogenesis terms (skin, cartilage, aorta smooth muscle), plus protein heterotrimerization which aligns with collagen triple-helix formation. Some signaling terms (insulin response, TNF, nitric oxide) may reflect remodeling of connective tissue, but the strongest signal is ECM collagen production and tissue organization.","confidence":"High","size":15,"edges":54,"triangles":74,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0032868","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0032760","count":2}]},{"hash":"2219833129615021723","title":"RNA Processing and Nuclear Transport","description":"This cluster is dominated by GO terms related to RNA metabolism and transport between the nucleus and cytoplasm, including mRNA export, splicing regulation, nucleolar localization, and miRNA-mediated silencing. While there are some trafficking-related terms (endocytosis, intracellular transport), the strongest signals point to RNA processing, export, and nucleolar functions, suggesting this is the primary shared theme among the proteins.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0016183","count":3},{"id":"GO:0071222","count":2}]},{"hash":"1830071349501785541","title":"Neural development and synaptic formation","description":"The dominant terms point to neural development and synaptic organization, including axonogenesis and midbrain development, plus regulation of synapse assembly and sensory perception of pain, which supports a neural signaling/function theme. The presence of ubiquitin-related deubiquitination and proteolysis, along with inflammatory cytokine regulation, suggests proteostasis and signaling links that can accompany neural development and neural-immune interactions. Overall, the cluster seems focused on neural development with synaptic/functional signaling components.","confidence":"Medium","size":15,"edges":12,"triangles":2,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0019233","count":3},{"id":"GO:0035522","count":3},{"id":"GO:0071108","count":3}]},{"hash":"1620270152505186905","title":"Neural development and broad signaling proteins","description":"The top terms cluster around neural development (cerebellar cortex formation, Bergmann glial differentiation, axon regeneration) while also highlighting major signaling pathways (insulin receptor, T cell receptor) and general transcription/cell cycle-related processes. This suggests a group of proteins involved in neural development together with broad signaling roles, rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":86,"triangles":260,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021697","count":12},{"id":"GO:0048679","count":12},{"id":"GO:2001275","count":12},{"id":"GO:0060020","count":12},{"id":"GO:0050852","count":12}]},{"hash":"923728964985003215","title":"Cerebellar development and glial signaling","description":"Dominant GO terms include cerebellar cortex formation and Bergmann glial cell differentiation, with related neural plasticity such as axon regeneration. While other terms reference broader signaling pathways and cell cycle regulation, the strongest theme is cerebellar development and glial involvement in neural signaling.","confidence":"Medium","size":15,"edges":67,"triangles":128,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":9},{"id":"GO:0045736","count":9},{"id":"GO:0021697","count":8},{"id":"GO:0048679","count":8},{"id":"GO:2001275","count":8}]},{"hash":"1360822989355860149","title":"Vertebrate organogenesis and cell cycle regulation","description":"This cluster centers on vertebrate development, with terms for placenta and ear morphogenesis and cardiac neural crest\u2013related heart development, while also including mitosis/cell-cycle related terms like kinetochore and centrosome localization and DNA replication initiation, suggesting a broader theme of organogenesis with associated cell-cycle control.","confidence":"Medium","size":15,"edges":97,"triangles":362,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":13},{"id":"GO:0060258","count":13},{"id":"GO:0070059","count":13},{"id":"GO:0001890","count":13},{"id":"GO:0042473","count":13}]},{"hash":"1208150894208947286","title":"Mitotic centromere assembly","description":"This cluster is dominated by GO terms linked to mitosis and centromere biology (cell division, mitotic cell cycle, CENP-A\u2013containing chromatin assembly, microtubule severing), suggesting a core theme around centromere assembly and chromosome segregation during cell division; other terms reflect broader housekeeping roles but are secondary. ","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0006888","count":8},{"id":"GO:0061641","count":7}]},{"hash":"1243380350989745921","title":"Plant cell wall polysaccharide biosynthesis","description":"The cluster is dominated by GO terms for biosynthesis of plant cell wall polysaccharides (homogalacturonan, glucuronoxylan, galactose-related pathways) and mucilage, plus cell wall organization and plant-type secondary wall biogenesis, indicating a cohesive program of cell wall production and remodeling; the glycosylation terms suggest secreted wall-associated proteins involved in this process.","confidence":"High","size":15,"edges":43,"triangles":42,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0010289","count":3},{"id":"GO:0035269","count":3},{"id":"GO:0010417","count":3},{"id":"GO:0006012","count":3},{"id":"GO:0010192","count":3}]},{"hash":"206477942067016399","title":"NOD1/NOD2 Signaling","description":"The top terms explicitly point to nucleotide-binding oligomerization domain (NOD1/NOD2) signaling pathways, suggesting a core NOD-like receptor signaling cluster. Associated terms such as cellular response to mechanical stimulus and detection of mechanical stimulus imply a link to stress or mechanotransduction, while proteasome regulatory particle assembly hints at protein turnover during signaling. Some terms are obsolete, but the central theme remains innate immune signaling via NOD pathways with related stress responses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1904743","count":5},{"id":"GO:0048709","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0071260","count":5},{"id":"GO:1903759","count":5}]},{"hash":"1447567557534406150","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":11,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0006189","count":3},{"id":"GO:0070365","count":2},{"id":"GO:0000278","count":2}]},{"hash":"302178676203751578","title":"Neural crest-driven craniofacial and sensory organ morphogenesis","description":"The top GO terms cluster around neural crest cell migration and a set of organogenesis processes (eye/retina, cochlea, habenula, cartilage/osteoblast development, dopaminergic neuron differentiation). This suggests a coordinated program of neural crest\u2013derived development affecting craniofacial structures and sensory organs, plus related neural differentiation, rather than a single linear pathway.","confidence":"High","size":15,"edges":92,"triangles":311,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0001755","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0002076","count":7},{"id":"GO:0060041","count":7}]},{"hash":"750574636689131583","title":"Acetyl-CoA\u2013Centered Central Metabolism","description":"This cluster is enriched for glycolysis and the TCA cycle, including pyruvate decarboxylation to acetyl-CoA, 2-oxoglutarate metabolism, and downstream lipid biosynthesis (malonyl-CoA, long-chain fatty acids). It also contains amino-acid catabolic routes (lysine, leucine) that funnel into acetyl-CoA, suggesting a core function in generating acetyl-CoA for energy and lipid synthesis.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0006096","count":6},{"id":"GO:0033512","count":6},{"id":"GO:0006103","count":5},{"id":"GO:0019878","count":5}]},{"hash":"1058581886472252853","title":"Adaptive and Innate Immune Receptor Signaling","description":"Top GO terms indicate strong involvement in TCR and BCR signaling, B cell maturation, and defense responses, along with innate immune responses (response to LPS, fungal origin, Gram-positive bacteria) and ERK signaling. This points to a cohesive module of proteins coordinating lymphocyte receptor signaling with innate defense pathways, hence the label reflecting both adaptive and innate immune signaling.","confidence":"High","size":15,"edges":43,"triangles":40,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0060337","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0002344","count":9},{"id":"GO:0006968","count":9}]},{"hash":"1510596435263126441","title":"Mitotic progression and DNA repair with ubiquitin signaling","description":"The top terms show a clear link to mitotic control (G2/M transition, exit from mitosis, chromosome segregation) together with DNA damage response (NER, DSB processing, TLS). In addition, ubiquitin-proteasome regulation (SCF-dependent degradation, N-end rule\u2013mediated degradation, and neddylation) ties these processes to proteostasis that governs cell cycle and repair. A viral-process term is present but does not define the cluster\u2019s core function; overall, the theme is mitosis coupled to DNA repair via ubiquitin signaling.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000086","count":15},{"id":"GO:0010458","count":15},{"id":"GO:0070911","count":15},{"id":"GO:0007059","count":15},{"id":"GO:0016032","count":15}]},{"hash":"2251578635768381165","title":"Nucleotide and amino acid biosynthesis","description":"The cluster\u2019s top GO terms center on biosynthetic pathways: purine nucleotide biosynthesis, histidine biosynthesis, and tetrahydrofolate-related metabolism, indicating a core focus on building nucleotides and amino acids. While a few terms are peripheral or obsolete, the dominant signal is metabolic assembly rather than degradation or signaling, justifying a label around nucleotide and amino acid biosynthesis.","confidence":"High","size":15,"edges":98,"triangles":385,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0000105","count":8},{"id":"GO:0009257","count":8},{"id":"GO:0001780","count":8},{"id":"GO:0009086","count":8}]},{"hash":"1168210343548081863","title":"Hormone and vitamin metabolism","description":"This cluster centers on endocrine signaling and vitamin-related metabolism, with terms for testosterone biosynthesis, retinoic acid biosynthesis, vitamin D catabolism, and reproductive development (female gonad, uterus). While there are some outliers related to plant terpenoid and antibiotic biosynthesis, the dominant pattern involves hormone and vitamin metabolic processes that influence development. ","confidence":"Medium","size":15,"edges":19,"triangles":8,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010241","count":12},{"id":"GO:0033072","count":12},{"id":"GO:0090350","count":12},{"id":"GO:0042904","count":12},{"id":"GO:0008585","count":12}]},{"hash":"1973965309952022421","title":"Embryonic organogenesis","description":"This cluster shows strong GO signals for development and morphogenesis across multiple organs\u2014heart (left ventricle and heart tube formation), pancreas (endocrine development and pancreatic cell lineage regulation), muscle, kidney nephron morphogenesis, and inner ear differentiation\u2014indicating a general embryonic organogenesis program rather than a single tissue function.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0009410","count":15},{"id":"GO:0090403","count":15},{"id":"GO:0031018","count":15},{"id":"GO:0003218","count":15},{"id":"GO:0003144","count":15}]},{"hash":"754941866739999299","title":"Transcription Regulation & Chromatin Modification","description":"The top GO terms strongly point to transcription initiation and chromatin remodeling (DNA-templated transcription initiation, RNA polymerase II preinitiation complex assembly, histone H3 acetylation). The circadian-related terms (entrainment by photoperiod, locomotor rhythm) suggest light-responsive transcription as a broader theme, with base-excision repair indicating a link to DNA maintenance; proteoglycan biosynthesis terms appear less directly related but may reflect signaling contexts that influence transcription. Overall, the cluster centers on transcription regulation and chromatin modification, with some ancillary connections to circadian/light-response processes.","confidence":"Medium","size":15,"edges":79,"triangles":194,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006352","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1820846387266552023","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0000398","count":9},{"id":"GO:0045944","count":9},{"id":"GO:1903608","count":9}]},{"hash":"183386131777500909","title":"Ubiquitin-Dependent Proteolysis and ERAD","description":"The top GO terms are dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process, autoubiquitination, and K6-linked ubiquitination, along with the ubiquitin-dependent ERAD pathway, indicating a core function in tagging proteins for degradation. Peroxisomal protein import and TNF signaling add related layers of regulation and signaling tied to ubiquitination, with some immune-related terms (V(D)J recombination) reflecting ubiquitin\u2019s broader regulatory roles. Overall, the cluster centers on ubiquitin-mediated proteolysis and quality control via ERAD and related pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0016558","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0033209","count":4}]},{"hash":"1625986473673439835","title":"Vertebrate Embryonic Development and Transcriptional Regulation","description":"This cluster is enriched for morphogenesis and developmental processes across multiple organs (eye, inner ear, heart outflow tract, gonads) alongside transcription by RNA polymerase II and its negative regulation, pointing to a set of proteins central to vertebrate embryogenesis and regulation of gene expression rather than a single tissue function.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0043010","count":10},{"id":"GO:0000122","count":9},{"id":"GO:0090009","count":9}]},{"hash":"97844926213563651","title":"Unknown","description":"The GO terms span disparate processes (microvillus assembly, translation initiation and preinitiation complex formation, IRES-dependent translation, regulation of translational initiation, endothelial barrier establishment, dendritic cell apoptosis, and cell division), suggesting no single cohesive function characterizes this cluster rather than a diverse set of roles.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030033","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0019933","count":2}]},{"hash":"79911367631966086","title":"Eye and neural organogenesis","description":"The top terms cluster strongly around eye development (embryonic eye morphogenesis, camera-type eye development) and neural lineage specification (cerebral cortex GABAergic interneuron differentiation, spinal cord motor neuron and oligodendrocyte fate specification), with additional organogenesis terms (lung and pancreas). This points to a cohesive theme of vertebrate eye and neural development.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0048048","count":8},{"id":"GO:0043010","count":8},{"id":"GO:0060441","count":8},{"id":"GO:0031018","count":7}]},{"hash":"1241697846473260514","title":"Broad Ion and Small Molecule Transporters","description":"The top GO terms cluster around transmembrane transport of ions (K+, Na+, Cl\u2212) and regulation of membrane potential, plus transport of sugars and other small molecules (arabinose, galactose, sialic acid) and even neurotransmitter loading into vesicles. This pattern points to a set of membrane transporter proteins with broad substrate range, rather than a single, narrow function. Hence the label reflects general transporter activity across ions and metabolites.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0042391","count":2},{"id":"GO:1902476","count":2}]},{"hash":"514249180690291303","title":"Cell Cycle Regulation and Ribosome Biogenesis","description":"This cluster is enriched with terms spanning mitotic cell cycle, transcription and translation processes, rRNA maturation, histone acetylation, and ubiquitin-mediated proteolysis, suggesting a cohesive theme around cell cycle control and the machinery for gene expression and ribosome production. The defense response term to Gram-positive bacteria seems less connected and may reflect broader functional annotation overlap.","confidence":"Medium","size":15,"edges":27,"triangles":13,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1742562064466991489","title":"Post-transcriptional RNA processing and translation regulation","description":"Proteins in this cluster are predominantly involved in post-transcriptional gene expression control, especially mRNA splicing and processing (spliceosome regulation, splice-site recognition, poly(A) tail regulation) and translation-related steps (initiation, reinitiation, and miRNA-mediated silencing). The convergence on splicing and translation suggests a coherent role in regulating mRNA fate after transcription.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0000381","count":15},{"id":"GO:0035278","count":14},{"id":"GO:0048026","count":14},{"id":"GO:0060211","count":14}]},{"hash":"1238294308684099724","title":"Chromatin remodeling and transcription regulation","description":"The cluster is dominated by chromatin-related terms: nucleosome assembly and histone acetylation, together with regulation of DNA-templated transcription. Some developmental terms (sensory organ precursor fate determination, imaginal disc fusion) suggest involvement in development, but the common theme is chromatin organization and transcription control.","confidence":"High","size":15,"edges":13,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0045652","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1221852841041268608","title":"Developmental Growth Signaling","description":"Top terms point to development (multicellular organism development, forebrain development, fertilization) and growth-related signaling (IGF stimulus response, autophosphorylation regulation, GTPase activity), with metabolic/stress responses (hypoxia, fatty acid, amino acid starvation) that often intersect signaling during development.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:1990314","count":5},{"id":"GO:0070542","count":5},{"id":"GO:0034198","count":5},{"id":"GO:0007338","count":5}]},{"hash":"2012799043171817122","title":"Developmental gene regulation and neuronal differentiation","description":"These proteins show enrichment for developmental processes (multicellular organism development, DNA-templated transcription) and neuronal differentiation functions (axonogenesis, long-term potentiation, visual perception). While there are broader terms like cell cycle and abiotic stress signaling that may reflect multifunctionality or annotation breadth, the dominant theme centers on transcriptional control of development and neural differentiation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0009738","count":5}]},{"hash":"1552438926400764940","title":"Ribosome-Associated Translation and Targeting","description":"The top GO terms cluster around translation and protein targeting, with entries for cytosolic and mitochondrial translation, ribosomal subunit assembly, and SRP-dependent cotranslational targeting to membranes, indicating a cohesive role in ribosome-driven protein synthesis and delivery to membranes. Some stress-response terms (response to antibiotic/cycloheximide) likely reflect translational perturbations rather than a distinct new function. ","confidence":"High","size":15,"edges":101,"triangles":407,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0046677","count":4},{"id":"GO:0070126","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0046898","count":2}]},{"hash":"1492789248253322669","title":"Central Metabolic and Amino Acid Biosynthesis","description":"The top GO terms indicate multiple biosynthetic pathways across central metabolism: lysine biosynthesis (via aminoadipic acid and diaminopimelate), L-glutamate biosynthesis, thiamine biosynthesis, protoporphyrinogen IX biosynthesis, and the TCA cycle, plus purine nucleobase metabolism and L-alanine catabolic process. Despite some terms being obsolete, the common thread is production of fundamental metabolites and cofactors, suggesting a cluster tied to core metabolism and amino acid/cofactor biosynthesis.","confidence":"High","size":15,"edges":64,"triangles":116,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0097054","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0042853","count":3}]},{"hash":"1910689574685118500","title":"Plant cell wall polysaccharide and secondary metabolite biosynthesis","description":"This cluster centers on nucleotide-sugar\u2013mediated biosynthesis (UDP-/dTDP-sugars) and plant-specific secondary metabolites (anthocyanin, phenylpropanoid) plus sporopollenin, suggesting a theme of cell wall assembly and related protective polymers, with some annotation noise from lipopolysaccharide terms. Confidence: Medium","confidence":"","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009103","count":4},{"id":"GO:0009718","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0033358","count":3}]},{"hash":"1633362352472131529","title":"Epidermal adhesion and planar polarity","description":"This label fits because the top GO terms emphasize epidermal cell adhesion structures (hemidesmosome assembly, heterophilic cell\u2013cell adhesion), with themes of planar polarity and hair orientation (establishment of body hair planar orientation, planar cell polarity pathway involvement). While a few terms touch on unrelated metabolism, the dominant signal is epidermal adhesion and PCP-related tissue organization.","confidence":"Medium","size":15,"edges":79,"triangles":205,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0045150","count":7},{"id":"GO:0048105","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0043654","count":7}]},{"hash":"930599645653375820","title":"Mitochondrial ribosome biogenesis and translation","description":"Based on enrichment for translation and LSU-rRNA maturation, coupled with mitochondrial protein import into the matrix and assembly of mitochondrial Complex I, the cluster appears to reflect mitochondrial gene expression processes, notably ribosome biogenesis and protein synthesis within the organelle.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006355","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0032981","count":2}]},{"hash":"517634744004632110","title":"JNK signaling and cytoskeletal regulation","description":"The top GO terms cluster around the JNK cascade and activation of JNK activity, together with cortical actin cytoskeleton organization and immune signaling pathways, plus some developmental processes (kidney development, cartilage condensation). This points to a module centered on stress-activated MAPK (JNK) signaling that interfaces with cytoskeletal remodeling and immune/developmental signaling. Confidence: High","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007257","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0043277","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0051897","count":2}]},{"hash":"81711371341384347","title":"Ubiquitin-Dependent Signaling and Immune Cell Fate","description":"The cluster shows enrichment for ubiquitination-related processes (autoubiquitination, K63-linked ubiquitination, ubiquitin-dependent proteolysis) together with signaling (small GTPases, JNK cascade) and cell fate outcomes (T cell proliferation, apoptosis, cell cycle regulation). This suggests a common theme of ubiquitin-regulated signaling pathways governing immune cell proliferation and survival, rather than unrelated functions. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2}]},{"hash":"2215041768305003701","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster is characterized by GO terms tied to actin cytoskeleton organization, lamellipodium assembly, and signaling through Rho/Rac that drive cell movement. While immune-related terms appear (cytokine responses and NK T cell differentiation), the dominant theme is cytoskeletal dynamics governing migration and morphology.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":7},{"id":"GO:0010572","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0030036","count":6}]},{"hash":"1154491726664816118","title":"Planar polarity and synapse assembly","description":"The cluster's top GO terms include cell-cell adhesion (homophilic/heterophilic), synapse assembly, and establishment of planar polarity, plus neurite/axon guidance. This points to processes where adhesive interactions coordinate planar polarity cues to organize neural connections and tissue organization, fitting a combined theme of planar polarity with synapse formation.","confidence":"High","size":15,"edges":10,"triangles":0,"max_degree":8,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0051965","count":13},{"id":"GO:0048105","count":12},{"id":"GO:0090251","count":12}]},{"hash":"1222573264103143849","title":"TLR/MyD88 Innate Immune Signaling","description":"Enriched terms center on Toll-like receptor signaling (TLR1) and MyD88-dependent pathways, plus innate antiviral defense and innate immune response. These dominate over a few development or cytoskeletal terms, suggesting the cluster functions in innate immune sensing and signaling via TLRs.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007186","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0051014","count":3},{"id":"GO:0002755","count":3}]},{"hash":"341092221516080057","title":"Cellular stress response and cytoskeletal remodeling","description":"Top terms cluster around cellular responses to mechanical stimulus, heat, and calcium signaling, plus actin filament bundle assembly, all pointing to stress-induced cytoskeletal remodeling. While a few terms touch on differentiation or immune signaling, the dominant pattern supports a theme of stress response with cytoskeletal dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0098703","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0009408","count":5},{"id":"GO:0051017","count":5}]},{"hash":"1945247927678308831","title":"Rho GTPase driven actin remodeling and endocytosis","description":"The top GO terms converge on Rho/small GTPase signaling, actin cytoskeleton organization, cell polarity, and endocytosis, suggesting a core function in cytoskeletal dynamics and membrane trafficking. While some terms appear unrelated (subtelomeric heterochromatin formation, certain growth factor signaling aspects), the dominant pattern points to Rho/GTPase-regulated actin remodeling coordinating cell shape and vesicle uptake.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0030036","count":4}]},{"hash":"1986906486971586929","title":"Endocytosis and actin-driven vesicle transport","description":"A strong set of GO terms centers on membrane trafficking and cytoskeletal remodeling, including multiple endocytic pathways (synaptic vesicle endocytosis, clathrin coat assembly, caveolin-mediated endocytosis) and actin-oriented transport and protrusion formation (vesicle transport along actin filament, filopodium assembly). This points to a coordinated role in vesicle trafficking tied to actin dynamics. Additional signaling-related terms (PDGF, IL-6, ECM-cell signaling) suggest the cluster integrates trafficking with extracellular cues and adhesion contexts, but the core theme remains endocytosis with actin-driven transport.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048488","count":4},{"id":"GO:0030050","count":3},{"id":"GO:0036119","count":3},{"id":"GO:0035426","count":3},{"id":"GO:0046847","count":3}]},{"hash":"166580146120567494","title":"Proteoglycan and ECM biosynthesis","description":"The dominant GO terms in the cluster are various proteoglycan and glycosaminoglycan biosynthetic/metabolic processes (heparan sulfate, dermatan sulfate, chondroitin/chondroitin sulfate) and chondrocyte development, pointing to extracellular matrix construction and cartilage biology. There are related signals like dermatan sulfate proteoglycan metabolism and chondrocyte development that support a connective tissue/ECM theme; the galactosylceramide biosynthesis and myelination terms add a potential nerve/myelin link but are less central. Overall, the cluster seems best described by proteoglycan/ECM biosynthesis with cartilage development involvement.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":2},{"id":"GO:0006694","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0006682","count":1},{"id":"GO:0015014","count":1}]},{"hash":"1605541467146408320","title":"Proteoglycan and GAG Biosynthesis","description":"The top GO terms are dominated by diverse proteoglycan biosynthetic processes (heparan sulfate, chondroitin sulfate, keratan sulfate, and heparin proteoglycans) as well as related glycosylation activities, pointing to extracellular matrix proteoglycan production and modification as the core theme of this cluster. Other terms (lipid-related regulation, thyroid hormone metabolism, and infection-structure formation) are present but less representative, so the proteoglycan biosynthesis theme best captures the cluster\u2019s function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045600","count":3},{"id":"GO:0006470","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0006486","count":2}]},{"hash":"923492009338743582","title":"Ion channels and auditory signaling","description":"The top GO terms cluster around ion transport (K+ and Na+), membrane depolarization, and excitatory postsynaptic potential, pointing to ion-channel\u2013driven neuronal excitability. Additional terms relate to auditory/sensory pathways (vestibulocochlear nerve development and detection of sound), supporting a hearing-related signaling theme; a few outliers (circadian regulation, muscle growth, insecticide response) are less central but do not override the main signal.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0051899","count":5},{"id":"GO:0048630","count":4}]},{"hash":"1513229340965415937","title":"Unknown","description":"The top GO terms span transcriptional regulation, coagulation/fibrinolysis, developmental signaling (Wnt), and multiple neural/sensory processes (visual perception, midbrain and trigeminal development, axonal fasciculation) as well as fertilization and glucose response, showing no single coherent theme to unify the cluster. This heterogeneity makes a specific, accurate label unlikely.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0016055","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0030901","count":3}]},{"hash":"161014866075990242","title":"Embryonic morphogenesis and mesoderm development","description":"This cluster is dominated by GO terms related to developmental morphogenesis and tissue patterning, notably mesoderm development, cartilage morphogenesis, hair follicle morphogenesis, left-right pattern formation, and epithelial-to-mesenchymal transition in heart development. Together these terms point to embryonic tissue morphogenesis and lineage specification as the core theme. While a few terms concern general cellular processes like splicing and ribosomal export, they do not define the cluster\u2019s primary function. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":15},{"id":"GO:0000055","count":15},{"id":"GO:0003198","count":15},{"id":"GO:0060972","count":15},{"id":"GO:0060536","count":15}]},{"hash":"208425467859847163","title":"Ubiquitination and ubiquitin-like modifications","description":"The majority of GO terms point to ubiquitin-related processes (ubiquitination, sumoylation, neddylation, autoubiquitination, ERAD) and a related proteostasis/autophagy pathway, indicating this cluster centers on ubiquitin-based protein modification and turnover, with some signaling links (TNF pathway).","confidence":"High","size":14,"edges":79,"triangles":244,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":9},{"id":"GO:1903265","count":7},{"id":"GO:0051865","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0034727","count":6}]},{"hash":"702326069690899008","title":"Synaptic plasticity and actin cytoskeleton remodeling","description":"Many terms point to coordinated signaling at synapses (Wnt and ephrin pathways; regulation of synapse structural plasticity) and to actin remodeling (actin polymerization/branching) plus endocytosis and adhesion/spreading. This pattern fits a module of proteins that couple extracellular cues to cytoskeletal changes and membrane trafficking to modulate synaptic structure and polarity. Therefore, the label Synaptic plasticity and actin cytoskeleton remodeling fits well.","confidence":"Medium","size":14,"edges":17,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090263","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0051835","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0033138","count":5}]},{"hash":"1317815579917365129","title":"Spliceosome Assembly and mRNA Decay","description":"This cluster is driven by GO terms for mRNA splicing via the spliceosome and spliceosomal assembly, plus deadenylation-dependent decapping and P-body assembly, pointing to RNA processing and mRNA turnover as the core theme; other terms like histone mRNA metabolism and chromatin-related processes are ancillary.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":13},{"id":"GO:0000245","count":11},{"id":"GO:0009737","count":10},{"id":"GO:0000290","count":10},{"id":"GO:0042633","count":10}]},{"hash":"924856635823922091","title":"GPCR Signaling and Second Messenger Networks","description":"The terms cluster around GPCR-mediated signaling (dopamine and adrenergic pathways) and downstream second messengers (calcium-dependent exocytosis, cAMP), with related phototransduction and Rho signaling. Despite some broader or outlier terms (heart development, pseudohyphal growth), the dominant theme is receptor-driven signal transduction and second-messenger cascades across contexts.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0060158","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0001302","count":7},{"id":"GO:0071880","count":7}]},{"hash":"1344049849970058716","title":"Cerebellar development and neural signaling","description":"The cluster is enriched for terms related to cerebellar neurodevelopment (cerebellar cortex formation, Bergmann glial cell differentiation) and neural signaling pathways (insulin receptor signaling, T cell receptor signaling, axon regeneration). While there are also cell cycle/mitosis terms (kinetochore localization, regulation of CDK activity, DNA replication initiation), the prominent neural development and signaling themes suggest a cerebellum-focused developmental signaling cluster rather than a strictly proliferative module.","confidence":"Medium","size":14,"edges":33,"triangles":36,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":13},{"id":"GO:0021697","count":13},{"id":"GO:0045736","count":13},{"id":"GO:0048679","count":13},{"id":"GO:2001275","count":13}]},{"hash":"1136491110762641573","title":"Growth and Differentiation Signaling","description":"The cluster is driven by major growth-regulatory pathways and differentiation processes, notably positive regulation of canonical Wnt signaling and Hippo signaling, plus keratinocyte differentiation and regulation of cardiac muscle cell proliferation, along with apoptosis. This points to a cohesive theme of cell fate decisions, growth control, and tissue development, with some broad terms like visual perception included, possibly reflecting shared signaling components or pleiotropy. Overall, the proteins appear to participate in networks governing development, tissue homeostasis, and programmed cell death.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":11},{"id":"GO:0033160","count":11},{"id":"GO:0060044","count":11},{"id":"GO:0035329","count":11},{"id":"GO:0030216","count":11}]},{"hash":"584244281612749127","title":"Pain and Developmental Signaling","description":"The cluster combines strong signals of pain perception and behavior with widespread developmental and stress-signaling pathways (multicellular development, placenta development, Wnt signaling, JNK cascade, ER stress\u2013related apoptosis, and PI3K-related activity). This points to a group of proteins that coordinate pain-related responses with developmental and cellular-stress signaling, rather than a single isolated function.","confidence":"Medium","size":14,"edges":14,"triangles":3,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0007275","count":14},{"id":"GO:0032298","count":13},{"id":"GO:0061368","count":13},{"id":"GO:0060258","count":13}]},{"hash":"450864792552861953","title":"Metabolic Biosynthesis and Cardiovascular Regulation","description":"The top GO terms point to a group enriched for biosynthetic and metabolic processes (sugar and fatty acid biosynthesis, pentose phosphate\u2013related steps, prostaglandin metabolism) alongside cardiovascular-related terms (positive regulation of blood pressure) and respiratory system processes. Additional hints of redox signaling (peptidyl-cysteine S-nitrosylation) and copper ion response suggest integrated metabolic and signaling roles that can influence vascular function. Together, these terms support a cluster centered on metabolic biosynthesis with cardiovascular signaling context.","confidence":"Medium","size":14,"edges":86,"triangles":310,"max_degree":13,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1901159","count":10},{"id":"GO:0019595","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0046370","count":10},{"id":"GO:0033859","count":10}]},{"hash":"1396618487412073516","title":"Proteolysis and Translation Regulation","description":"The dominant terms point to protein catabolic processes and proteolysis, indicating a proteostasis focus, while multiple terms relate to initiation and regulation of translation (formation of the preinitiation complex, regulation of translational initiation, IRES-dependent translation). This suggests a coherent theme around protein turnover and control of protein synthesis, with a few outlier terms (e.g., germ cell death, splicing, deneddylation) that are less central to the main cluster. Confidence: Medium","confidence":"","size":14,"edges":44,"triangles":54,"max_degree":12,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1904924","count":4},{"id":"GO:0030163","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0035234","count":4},{"id":"GO:0048140","count":2}]},{"hash":"560232919092184416","title":"Yeast mating, growth, and cell wall synthesis","description":"This cluster centers on yeast-like cell growth and mating, evidenced by karyogamy, beta-glucan cell wall biosynthesis, actin cortical patch assembly, and DNA replication, with supporting terms for membrane targeting and stress response that align with growth and morphogenesis.","confidence":"Medium","size":14,"edges":21,"triangles":14,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000147","count":4},{"id":"GO:0031204","count":3},{"id":"GO:0000742","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0090084","count":3}]},{"hash":"1670611446962035044","title":"Immune Activation and Phagocytosis","description":"Top GO terms point to both innate and adaptive immune processes, including phagocytosis (recognition and engulfment), complement activation, neutrophil degranulation, LPS response, interferon signaling, and TCR/BCR signaling. This suggests a cohesive cluster of proteins involved in general immune activation and host defense, spanning phagocytic activity and immune receptor signaling.","confidence":"High","size":14,"edges":12,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":8},{"id":"GO:0006958","count":6},{"id":"GO:0071226","count":6},{"id":"GO:2000502","count":6},{"id":"GO:0050852","count":6}]},{"hash":"1352870089208981072","title":"Rab-regulated synaptic vesicle exocytosis in nigral neurons","description":"This cluster centers on Rab protein signaling and regulation of synaptic vesicle exocytosis, aligning with terms for excitatory postsynaptic potentials and substantia nigra development. Additional redox/homeostasis and xenobiotic response terms suggest accompanying neuronal oxidative balance Activities, but the core theme appears to be Rab-mediated vesicle trafficking and excitatory neurotransmission in nigral neurons.","confidence":"High","size":14,"edges":34,"triangles":32,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:1903206","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0032482","count":4}]},{"hash":"6487931504547326","title":"Actin cytoskeleton remodeling and protrusion formation","description":"The cluster is enriched with GO terms tied to actin dynamics (polymerization, barbed-end capping, lamellipodium and ruffle/ spine morphogenesis, and actin cytoskeleton organization), pointing to a cohesive theme of actin remodeling and membrane protrusion. A couple of terms like translation and cell division appear but are secondary to the dominant actin-related functions.","confidence":"High","size":14,"edges":6,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0046626","count":3},{"id":"GO:1900029","count":3}]},{"hash":"1462405985967083738","title":"Fibrinolysis and Protease Regulation","description":"The dominant GO terms point to regulation of the fibrinolytic system, including fibrinolysis and plasminogen activation, with several entries noting negative or regulatory controls. This suggests the cluster centers on proteolytic processes that govern clot breakdown and tissue remodeling. Additional terms about cytokine production and responses to mechanical stimuli may reflect the broader inflammation and remodeling context in which fibrinolysis operates, but the core theme is proteolysis control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein maturation","top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0045721","count":4},{"id":"GO:2000098","count":4},{"id":"GO:0060770","count":4}]},{"hash":"541792836022522359","title":"Neural Crest and Craniofacial Morphogenesis","description":"The cluster is enriched for neural crest\u2013related processes (migration, formation) and development of craniofacial and sensory structures (cartilage/skeletal development, cochlea morphogenesis, retinal axon guidance), plus pattern specification, suggesting a cohesive program governing neural crest\u2013derived development.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0009952","count":7},{"id":"GO:0031290","count":7},{"id":"GO:0045617","count":7}]},{"hash":"1185051886723535619","title":"Hypoxia-responsive transcription and stress signaling","description":"The top terms center on DNA-templated transcription and hypoxia-related signaling (HIF-1alpha), with accompanying stresses such as estradiol and xenobiotic responses and aerobic respiration regulation. This points to a core theme of transcriptional regulation activated by hypoxic and chemical stress, supported by general signal transduction, while tissue-specific terms (intestinal maturation, elastin metabolism, B cell homeostasis) likely reflect broader physiological contexts rather than a single cohesive function. ","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:1903715","count":13},{"id":"GO:0071392","count":13},{"id":"GO:0009410","count":13},{"id":"GO:0097411","count":13}]},{"hash":"1559249506121233181","title":"Retinoid metabolism and signaling","description":"The top GO terms are retinal metabolic process, retinol metabolic process, and regulation of retinoic acid receptor signaling, which together point to a cohesive retinoid biology cluster. Other terms (prostaglandin response, testosterone biosynthesis, potassium transport) may reflect related signaling or tissue contexts but do not undermine the central retinoid theme.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":14},{"id":"GO:0042572","count":14},{"id":"GO:0051897","count":12},{"id":"GO:0071805","count":12},{"id":"GO:0071799","count":12}]},{"hash":"1022859576229862720","title":"Immune development and ubiquitin-TNF signaling","description":"This cluster is dominated by GO terms tied to immune system maturation (in utero development, thymic T cell proliferation, V(D)J recombination) along with ubiquitin-regulated processes (autoubiquitination, ubiquitin-dependent proteolysis, K6-linked ubiquitination) and TNF signaling pathways. The combination suggests a module of proteins involved in immune cell development and regulation via ubiquitin-mediated turnover and TNF signaling. ","confidence":"High","size":14,"edges":27,"triangles":33,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":10},{"id":"GO:0033092","count":10},{"id":"GO:0051865","count":8},{"id":"GO:0033209","count":8},{"id":"GO:1901253","count":8}]},{"hash":"326681327344255732","title":"Embryonic Organogenesis and Transcription Regulation","description":"The proteins cluster around embryonic development across multiple tissues (brain, eye, tooth, bone, heart) and transcriptional control by RNA polymerase II, suggesting a developmental gene-regulatory module.","confidence":"High","size":14,"edges":10,"triangles":1,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0008584","count":7},{"id":"GO:0007338","count":6},{"id":"GO:0006357","count":6},{"id":"GO:0007420","count":6}]},{"hash":"945464255214370639","title":"Embryogenesis and organ morphogenesis","description":"This cluster shows strong representation of embryonic development terms (in utero embryonic development) along with organ morphogenesis across several tissues (cardiac, eye, ovarian follicles, prostate gland), plus neuron maturation and general transcription processes, suggesting proteins involved in broad developmental regulation across multiple organs rather than a single pathway.","confidence":"High","size":14,"edges":16,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":11},{"id":"GO:0042551","count":10},{"id":"GO:0060038","count":9},{"id":"GO:0048048","count":9},{"id":"GO:0060528","count":9}]},{"hash":"1476007542970021294","title":"Ubiquitin-mediated innate antiviral defense","description":"This cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, autoubiquitination) alongside innate immune and antiviral defense terms (innate immune response, defense response to virus, TNF signaling). Together, these terms suggest proteins involved in ubiquitin-mediated regulation of immune signaling and antiviral responses, with apoptosis regulation also represented.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0000209","count":6},{"id":"GO:0045087","count":6},{"id":"GO:1903762","count":6},{"id":"GO:1901253","count":6}]},{"hash":"191537951749904933","title":"Ubiquitin-Dependent Proteolysis and Circadian/Immune Regulation","description":"Top GO terms indicate strong enrichment for ubiquitin-dependent protein catabolic processes and polyubiquitination (ERAD), with accompanying regulation of circadian rhythm, cell cycle, transcription, apoptotic processes, and innate immune signaling (NF-kappaB, innate immunity). Together these suggest a cluster centered on ubiquitin-mediated proteostasis that modulates circadian timing and immune responses.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0000209","count":7},{"id":"GO:0042752","count":6},{"id":"GO:0071157","count":5},{"id":"GO:0000122","count":5}]},{"hash":"1629103065190162183","title":"Embryonic Organ Development and Transcription Regulation","description":"The cluster is enriched for multiple embryonic development terms across organs (eye, lung, heart, pancreas, placenta) and for transcription by RNA polymerase II, including negative regulation of RNAP II. The presence of tRNA and rRNA methylation terms adds a layer of RNA processing context, suggesting the proteins participate in coordinating early organ morphogenesis with gene expression, alongside RNA modification activities.","confidence":"Medium","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":6},{"id":"GO:0006366","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0000122","count":5}]},{"hash":"408869728903680717","title":"Neuronal development and adhesion signaling","description":"The top GO terms cluster around neural development and adhesion: forebrain development and Notch receptor processing, plus glutamatergic synaptic transmission, point to neuronal differentiation and synaptic function. Integrin- and matrix-adhesion terms indicate cell-matrix interactions essential for neuronal migration and tissue organization. Inflammatory terms are present but appear secondary to the dominant neural development and adhesion theme, suggesting the core function is neural development with adhesion signaling rather than a primary inflammatory response.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0071356","count":4},{"id":"GO:0006954","count":4},{"id":"GO:0010042","count":4},{"id":"GO:0033631","count":4}]},{"hash":"270519083590972737","title":"Oskar mRNA localization and translation regulation","description":"The dominant GO signals describe oskar mRNA localization to the pole plasm and tightly linked translational control (translation initiation/reinitiation, translation regulation), along with mRNA export and splicing regulation. This points to a functional module that coordinates localization and timely translation of mRNAs, especially oskar, in germ plasm.","confidence":"High","size":14,"edges":81,"triangles":264,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0071456","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0000381","count":7},{"id":"GO:0006406","count":7}]},{"hash":"1852937384980644120","title":"Cardiovascular development and signaling","description":"The top GO terms are dominated by heart development, angiogenesis, and regulation of SA node action potential, plus related cardiac conduction processes, indicating a cluster centered on cardiovascular development and function. A few terms about bone ossification and general development appear as broader contexts, but the strongest signal is heart/vascular development and signaling.","confidence":"High","size":14,"edges":19,"triangles":7,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0038095","count":7},{"id":"GO:0045163","count":7},{"id":"GO:0032516","count":7}]},{"hash":"274541512572708287","title":"Neural development and transcriptional regulation","description":"This cluster is dominated by GO terms around RNA polymerase II\u2013mediated transcription and its negative regulation, paired with numerous neural development and cell fate specification terms (spinal cord motor neuron, oligodendrocyte, subpallium neuron fate, cortical interneuron differentiation). The strongest signal is transcriptional control of neural lineage specification, with a few broader developmental terms present. Overall, the proteins likely coordinate transcriptional programs that guide neural development.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0031018","count":8},{"id":"GO:0021892","count":6},{"id":"GO:0060435","count":6},{"id":"GO:0000122","count":6}]},{"hash":"2203787160218441277","title":"Phospholipid biosynthesis and remodeling","description":"The top GO terms cluster around lipid metabolism and membrane biosynthesis, including CDP-diacylglycerol biosynthesis, phosphatidylcholine acyl-chain remodeling, and ether lipid biosynthesis, with additional terms on phosphatidylcholine regulation. Mitochondrial ATP synthesis links to energy supply for these biosynthetic processes. A few immune/development terms appear peripheral, but the core signal is phospholipid biosynthesis and membrane remodeling.","confidence":"Medium","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":3},{"id":"GO:0070970","count":3},{"id":"GO:0021587","count":3},{"id":"GO:0010143","count":3},{"id":"GO:0008611","count":3}]},{"hash":"386372993302634701","title":"Thermoregulatory GPCR-cAMP signaling","description":"The cluster shows prominent terms for temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and adenylate cyclase\u2013activating GPCR signaling, suggesting roles in thermoregulatory signaling via cAMP. Autonomic processes (blood pressure regulation, saliva secretion) and nociception (pain perception, morphine response) co-occur, supporting a broader GPCR-mediated signaling role that links temperature sensing with autonomic and sensory responses; energy metabolism (electron transport chain) aligns with metabolic adjustments during thermal stress. ","confidence":"Medium","size":14,"edges":8,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0007190","count":7},{"id":"GO:0045777","count":7}]},{"hash":"1880240948206820649","title":"Hematopoiesis and Immune Cell Differentiation","description":"The top GO terms center on immune and blood cell development, including regulation of hemocyte proliferation, granulocyte differentiation, hematopoietic stem cell proliferation, and T cell differentiation in thymus, suggesting a theme of immune/hematopoietic differentiation. Additional terms for rRNA processing and ribosomal biogenesis point to the shared need for protein synthesis in proliferating cells, indicating housekeeping processes accompanying immune development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035206","count":2},{"id":"GO:0006376","count":1},{"id":"GO:0045843","count":1},{"id":"GO:0000280","count":1},{"id":"GO:0006364","count":1}]},{"hash":"1318546049412373763","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045492","count":1},{"id":"GO:0070072","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0034628","count":1},{"id":"GO:0015937","count":1}]},{"hash":"1042217255617593672","title":"Unknown","description":"The terms are highly heterogeneous, spanning transcriptional regulation, several developmental processes (midbrain, amelogenesis), immune defenses (IL-1\u03b2 production, defense against fungus), tissue remodeling (smooth muscle migration, matrix adhesion), metabolism (glucose response), reproduction (seminal clot liquefaction), and an obsolete growth-regulation term. There isn\u2019t a clear, single theme tying these functions together, suggesting the cluster is functionally diverse rather than a cohesive pathway.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0014909","count":3},{"id":"GO:0050720","count":3},{"id":"GO:0044130","count":3}]},{"hash":"24277602581717548","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0000350","count":1},{"id":"GO:0000380","count":1},{"id":"GO:0000389","count":1},{"id":"GO:0006400","count":1}]},{"hash":"2282323048032923254","title":"Synapse Assembly and Transmission","description":"This cluster is strongly enriched for neural-synapse related terms: synapse assembly, glutamatergic synaptic transmission, presynaptic active zone assembly, and postsynaptic density clustering, along with brain development, indicating a cohesive role in formation and function of synapses. A few terms about ossification or ureter maturation appear peripheral and do not define the core function.","confidence":"High","size":14,"edges":19,"triangles":0,"max_degree":8,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007416","count":10},{"id":"GO:0035249","count":10},{"id":"GO:0007420","count":10},{"id":"GO:0032533","count":9},{"id":"GO:1902897","count":9}]},{"hash":"311414844580969129","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071031","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0035167","count":2},{"id":"GO:0044829","count":2}]},{"hash":"2305819661521071754","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":61,"triangles":124,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035455","count":5},{"id":"GO:0045071","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0061744","count":3}]},{"hash":"1230576023013756560","title":"Embryonic Development and Morphogenesis","description":"The cluster shows GO terms centered on development and tissue formation, including multicellular organism development, cranial skeleton morphogenesis, gland/organ development, and EMT-related processes, with BMP signaling regulation and wound-healing-related epithelial proliferation\u2014pointing to a cohesive theme of embryonic development and morphogenesis. A couple of terms on nitrate and sialic acid transport are less connected and may be incidental.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060689","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0015739","count":2}]},{"hash":"657908490317985728","title":"TLR/NOD2-driven antibacterial inflammation","description":"The cluster is enriched for innate immune signaling terms tied to bacterial recognition (TLR2/4, NOD2, muramyl dipeptide, LPS) and downstream NF-kB\u2013mediated cytokine production (TNF, IL-6), plus defense against bacteria, indicating a coherent antibacterial inflammatory signaling function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002830","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0032498","count":2},{"id":"GO:0043124","count":2}]},{"hash":"251510650005094896","title":"Rho GTPase Signaling and Cytoskeleton Dynamics","description":"The proteins are enriched for GTPase activation and Rho signaling, and for actin cytoskeleton organization, suggesting a role in cytoskeletal remodeling. Additional localizations to plasma membrane, Golgi, and phagophore assembly site, along with intracellular transport, indicate involvement in membrane trafficking and vesicle movement that accompany cytoskeletal changes. The sensory perception term appears as potential noise rather than core function. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0072661","count":2},{"id":"GO:0034497","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0006461","count":2}]},{"hash":"490753635659234655","title":"Diverse Membrane Transporters","description":"The top GO terms show transmembrane transport for a range of nutrients and ions (glucose, biotin, myo-inositol, pantothenate, nitrite, sialic acid, Na+/K+ and Na+ transport), along with acetylcholine biosynthesis. This pattern indicates a cluster of proteins primarily involved in transporting various substrates across membranes, rather than a single specific function, so a label centered on diverse membrane transport is appropriate.","confidence":"High","size":14,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":6},{"id":"GO:0008292","count":5},{"id":"GO:0015878","count":5},{"id":"GO:0015798","count":5},{"id":"GO:0071436","count":5}]},{"hash":"1077272564139546350","title":"Axon Guidance and Olfactory System Development","description":"These proteins cluster around neural development and wiring: axon guidance (semaphorin-plexin signaling), axon extension, axonal fasciculation, and transmission of nerve impulses, plus olfactory system development (olfactory bulb and lobe) and synapse assembly. This strongly suggests a theme of neuronal connectivity with a focus on the olfactory pathway, making the proposed label representative. Ossification-related term appears incidental and does not define the cluster. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0050910","count":6},{"id":"GO:0021988","count":5},{"id":"GO:0051965","count":5}]},{"hash":"1217268437629032604","title":"Vesicle trafficking and signaling proteins","description":"This cluster centers on vesicle transport and related signaling processes, illustrated by terms like vesicle transport along microtubules, synaptic vesicle budding, and GTPase activation, with some neuronal and signaling themes contributing to a cohesive vesicle trafficking/signaling function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":2},{"id":"GO:0016185","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0090630","count":2}]},{"hash":"69329865941242586","title":"Cardiovascular development and endothelial signaling","description":"This cluster is driven by GO terms centered on heart formation and vascular differentiation, including cardiac right atrium morphogenesis, venous endothelial cell differentiation, and Notch signaling in heart development, with supporting Hedgehog/Smoothened pathway regulation and mechanical stimulus responses. While a few terms are peripheral (aging, vitamin D response), the dominant theme is cardiovascular development and endothelial signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0033280","count":3}]},{"hash":"1346605186273164058","title":"Inner ear and lateral line sensory development","description":"The top GO terms cluster around sensory organ development and function: sensory perception of sound, neuromast development, and labyrinthine layer blood vessel development (inner ear). This points to development and function of auditory/sensory systems (inner ear and lateral line); other terms like membrane tubulation regulation and signaling pathways are supportive but secondary. Overall, a coherent theme of sensory organ development emerges.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903526","count":2},{"id":"GO:0060716","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0014909","count":2},{"id":"GO:0002830","count":1}]},{"hash":"824829210518858943","title":"Wnt Signaling and Cell Adhesion Regulation","description":"This cluster shows strong signals for Wnt-related processes, including Wnt signalosome assembly and positive regulation of canonical Wnt signaling, alongside adhesion-related activity such as substrate adhesion-dependent cell spreading and establishment of the endothelial barrier. While other terms touch on trafficking and organelle contacts, the core enrichment centers on coordinating Wnt signaling with cell adhesion and vascular barrier functions.","confidence":"Medium","size":13,"edges":31,"triangles":28,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033144","count":11},{"id":"GO:1900026","count":11},{"id":"GO:1904887","count":10},{"id":"GO:0050975","count":10},{"id":"GO:0090263","count":10}]},{"hash":"644031162025564250","title":"Dopaminergic Signaling and Visual Processing","description":"The cluster shows strong enrichment for dopaminergic synaptic transmission and visual perception/learning, plus related signaling pathways (ERK cascade, GTPase regulation, protein phosphorylation) and behaviorally linked responses (cocaine). This points to a cohesive theme of dopamine-mediated neuronal signaling in visual/reward circuitry and activity-dependent plasticity, with supporting signaling cascades. Heart development appears as a peripheral term and does not define the cluster\u2019s core function. ","confidence":"High","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0043547","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0008542","count":8},{"id":"GO:0019233","count":8}]},{"hash":"364390798480522180","title":"Organogenesis and morphogenesis","description":"This cluster is dominated by GO terms tied to organ development and morphogenesis (placenta development, outer ear morphogenesis, cardiac neural crest cell development, heart development), indicating a coherent theme of organogenesis. Additional terms point to cell-cycle and mitotic regulation (DNA replication initiation, kinetochore/centrosome localization) and a ER-stress\u2013linked apoptotic pathway, suggesting coupling of developmental programs with proliferation control and stress responses. Therefore, Organogenesis and morphogenesis best captures the shared function of these proteins.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":13},{"id":"GO:0060258","count":13},{"id":"GO:0070059","count":13},{"id":"GO:0001890","count":13},{"id":"GO:0042473","count":13}]},{"hash":"300559458488078187","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for translation and ribosome subunit assembly (cytoplasmic translation; small and large subunit assembly), indicating proteins involved in ribosome formation and protein synthesis. A few other terms on transcription and RNA processing appear, but the core theme centers on ribosome-related gene expression.","confidence":"High","size":13,"edges":28,"triangles":37,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000028","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000027","count":2}]},{"hash":"1209615586616563681","title":"Bacterial cell wall and capsule biosynthesis","description":"The GO terms point strongly to surface polysaccharide and cell envelope construction, including teichoic acid, capsule polysaccharide, hyaluronan, cellulose, and mycolate layer assembly, along with UDP-glucose\u2013related sugar metabolism and glycosylation pathways. This suggests proteins that participate in building and modifying the bacterial cell wall and extracellular polysaccharide layers, rather than typical cytosolic processes. Immunoglobulin production appears as a less central term but does not override the dominant cell-surface biosynthesis theme.","confidence":"High","size":13,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":4},{"id":"GO:0036108","count":3},{"id":"GO:0045227","count":3},{"id":"GO:0030213","count":3},{"id":"GO:0019350","count":3}]},{"hash":"631676152265496036","title":"Protein Synthesis and Growth Machinery","description":"This cluster is dominated by translation, ribosome biogenesis, and DNA-templated transcription terms, pointing to global gene expression and protein production. Additional terms for cell cycle, glutamine metabolism, amino acid starvation response, and organelle transport/lysosomal organization suggest coordinated growth and biosynthetic capacity with maintenance of the secretory pathway. Together, these indicate a cohesive program underlying protein synthesis and cellular growth.","confidence":"Medium","size":13,"edges":57,"triangles":121,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006878","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006351","count":2}]},{"hash":"835141084719460573","title":"Coagulation and fibrinolysis regulation","description":"This cluster's top GO terms are dominated by blood coagulation, proteolysis, and fibrinolysis, including negative regulation of plasminogen activation and fibrinolysis, indicating a core function in proteolytic control of clot formation and breakdown. While there are additional terms related to digestion, ECM secretion, glucose response, and xenobiotic stimulus, the strongest signal centers on coagulation and fibrinolysis pathways.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0010757","count":3}]},{"hash":"266022982877058284","title":"Branched-chain amino acid biosynthesis cluster","description":"The proteins are dominated by GO terms for valine, leucine, and isoleucine biosynthesis (and related pyruvate-derived pathways), indicating a core theme of branched-chain amino acid production. While there are a few signaling-related terms present, the strongest and most frequent annotations center on amino acid biosynthesis, justifying a label focused on BCAA metabolism.","confidence":"High","size":13,"edges":21,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":5},{"id":"GO:0042866","count":3},{"id":"GO:0046656","count":3},{"id":"GO:0009099","count":3},{"id":"GO:0009098","count":3}]},{"hash":"1029177636030977705","title":"Organelle Protein Import and Membrane Transport","description":"Most terms point to targeting and translocation into organelles (mitochondria and chloroplasts) and membrane transport (proton and potassium ions). This suggests a cluster of proteins involved in organelle protein import and membrane-associated processes, with some peripheral metabolic terms appearing as ancillary associations.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046392","count":2},{"id":"GO:1901800","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0032094","count":1},{"id":"GO:0000002","count":1}]},{"hash":"2185313505506799508","title":"Embryonic organogenesis and morphogenesis","description":"The proteins here are linked to diverse developmental processes across several organs (heart, placenta, limb, gonads, eye, etc.), indicating a shared role in embryonic organogenesis and morphogenesis rather than a single tissue-specific function.","confidence":"High","size":13,"edges":37,"triangles":45,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001890","count":9},{"id":"GO:0048048","count":9},{"id":"GO:0021986","count":9},{"id":"GO:0003148","count":9},{"id":"GO:0030520","count":9}]},{"hash":"1692786970241929008","title":"Membrane Transport and Neural Signaling","description":"This cluster is mainly defined by multiple transmembrane transport terms (glucose, potassium, sodium, arabinose, sialic acid) and a GO term for neurotransmitter loading into synaptic vesicles, with additional neural-related terms (CNS myelin maintenance) and a skin differentiation term. The common thread appears to be membrane transport linked to neural signaling contexts, though there are outliers from other biological areas (nitrate assimilation, sebaceous differentiation), likely due to broad annotations. Overall, the dominant theme is transport and neural-related functions.","confidence":"Medium","size":13,"edges":16,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0001949","count":3},{"id":"GO:1904659","count":2}]},{"hash":"92134357426083562","title":"Actin Cytoskeleton Remodeling and Ubiquitin Deubiquitination","description":"The top GO terms emphasize actin organization and nucleation (actin cortical patch assembly; Arp2/3 complex\u2013mediated actin nucleation) together with multiple deubiquitination activities (K63-, K48-, K11-linked). This suggests a core theme around actin dynamics linked with ubiquitin signaling/removal. Other terms (mitochondrion inheritance, ossification, ATP export, protein methylation) appear ancillary or noisy with respect to this core. The lack of edges supports a loosely connected set sharing functional themes rather than a tight interaction module.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0006919","count":2},{"id":"GO:1904669","count":2},{"id":"GO:0070536","count":2}]},{"hash":"2102852235923920531","title":"LPS and sugar nucleotide biosynthesis","description":"The dominant GO terms are lipopolysaccharide biosynthetic process and related sugar nucleotide biosynthesis (dTDP-rhamnose, LPS core and O-antigen biosynthesis), pointing to proteins involved in building bacterial outer membrane components. A few plant-specific biosynthesis terms appear but are less prominent, so the cluster is best described by LPS assembly and sugar metabolism.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":4},{"id":"GO:0009243","count":4},{"id":"GO:0055114","count":4},{"id":"GO:2000324","count":3},{"id":"GO:0009244","count":3}]},{"hash":"711843628672606570","title":"Wnt signaling and vesicle trafficking","description":"This cluster centers on canonical Wnt signaling and Wnt signalosome assembly, with additional emphasis on membrane transport and vesicle trafficking (Golgi to plasma membrane transport, Cvt pathway). The inclusion of development-related terms like kidney development and acrosome assembly suggests a link between Wnt signaling, membrane dynamics, and developmental processes, supporting a theme of membrane-associated signaling and trafficking. ","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060070","count":2},{"id":"GO:0010628","count":2},{"id":"GO:0097345","count":2},{"id":"GO:0006893","count":2},{"id":"GO:0001822","count":2}]},{"hash":"1482271409422697926","title":"Unknown","description":"The top GO terms span multiple unrelated biological areas (development of facial/kidney/muscle tissues, B cell\u2013related immunity, and ubiquitination processes). There is no single coherent function linking all proteins, so a specific label isn't appropriate beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070294","count":3},{"id":"GO:0050853","count":3},{"id":"GO:1990390","count":3}]},{"hash":"1824649924868803424","title":"Dendrite development and ECM signaling","description":"The cluster is enriched for neuronal development cues: excitatory postsynaptic potential and dendrite morphogenesis point to synaptic and dendritic formation. At the same time, ECM- and adhesion-related terms such as hyaluronan metabolism, integrin signaling, and Wnt signaling suggest interactions with the extracellular matrix and cell adhesion that drive neuronal migration and synaptic organization. The combination indicates a protein group involved in shaping neural connections through ECM remodeling and signaling cross-talk, with some additional development-related processes.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030212","count":9},{"id":"GO:0060079","count":9},{"id":"GO:1905050","count":9},{"id":"GO:0031532","count":9},{"id":"GO:0000278","count":9}]},{"hash":"2120837064379333336","title":"Brain energy metabolism and neuronal development","description":"This cluster shows a strong representation of metabolic processes (glycolytic, glucose, pyruvate-related, branched-chain amino acid catabolism, glyoxylate metabolism) alongside neural development terms (mitral cell layer development, tangential migration to the olfactory bulb, pyramidal neuron development). The combination suggests proteins that participate in energy metabolism within neural contexts and in neuronal development pathways. Confidence: Medium","confidence":"","size":13,"edges":18,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0009083","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0010510","count":2}]},{"hash":"215793007926549986","title":"Vertebrate organogenesis and neural development","description":"The cluster\u2019s GO terms span embryonic development across multiple tissues (bone, cartilage, retina, pancreas, kidney) and neural development (neural crest migration, brain segmentation, parasympathetic system development), suggesting a shared theme of vertebrate organogenesis and neural differentiation rather than a single tissue-specific function. ","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002076","count":13},{"id":"GO:0060041","count":13},{"id":"GO:0002087","count":13},{"id":"GO:0051216","count":12},{"id":"GO:0090190","count":12}]},{"hash":"1483853756556145246","title":"Embryonic organogenesis and neural development","description":"The top GO terms indicate development across multiple organs and neural lineages during embryogenesis, including pituitary and endocrine pancreas development, cartilage formation, brain segmentation, neural crest migration, and parasympathetic nervous system formation. The cluster thus reflects broad morphogenetic and developmental regulatory processes rather than a single pathway, with cell-matrix adhesion supporting tissue organization. Hence this label captures the main theme of embryonic organogenesis and neural development.","confidence":"High","size":13,"edges":9,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":9},{"id":"GO:0051216","count":7},{"id":"GO:0090190","count":7},{"id":"GO:0001755","count":7},{"id":"GO:0010735","count":7}]},{"hash":"2012051025525383410","title":"Mitochondrial Stress Response and Mitophagy","description":"The top terms center on hypoxia response, oxidative detoxification, and general cellular stress, with mitophagy and mitochondrial protein turnover forming the core processes. While a couple of terms touch development, the dominant theme is mitochondrial quality control and stress adaptation in the cluster.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0033554","count":3},{"id":"GO:0035695","count":3},{"id":"GO:0035694","count":3}]},{"hash":"2078037425381247010","title":"ER Stress and Redox Homeostasis","description":"This cluster is dominated by GO terms for maintaining redox balance (cell redox homeostasis; cellular oxidant detoxification) and ER protein folding (protein folding in endoplasmic reticulum), pointing to an ER stress/redox response theme. Other terms like DNA-templated transcription and viral process are present but appear less central; overall the proteins seem linked to managing oxidative stress and proper folding in the ER rather than a single, distinct alternative pathway.","confidence":"Medium","size":13,"edges":25,"triangles":25,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0034975","count":7},{"id":"GO:0006662","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0055114","count":4}]},{"hash":"1192216807633792041","title":"Unknown","description":"The GO terms show multiple distinct biological processes (sensory perception of sound, eye morphogenesis, UV-induced DNA repair, transcription regulation, and cell-cycle/development regulation) without a single dominant function tying the proteins together, so there isn\u2019t a concise, representative label for this cluster.","confidence":"","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0000720","count":2},{"id":"GO:1901666","count":2},{"id":"GO:0010225","count":2}]},{"hash":"1954908832714942431","title":"Neuronal development and synaptic organization","description":"The cluster's GO terms cluster around neuronal differentiation and synaptic structure (generation of neurons, hippocampus development, synapse assembly, dendritic spine and postsynaptic density regulation), with supporting roles for actin cytoskeleton dynamics and protein trafficking between the Golgi and plasma membrane, indicating a cohesive theme of neural development and synaptic organization. A potential outlier is host-mediated activation of viral process, but it does not override the dominant neuronal/synaptic signal.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007416","count":1},{"id":"GO:0044794","count":1},{"id":"GO:1905875","count":1},{"id":"GO:0043001","count":1}]},{"hash":"592706907745999435","title":"GPCR\u2013cAMP Signaling Module","description":"This cluster centers on GO terms for adenylate cyclase activation, GPCR signaling and its regulation, and related blood pressure and IGF signaling processes, indicating a shared function in GPCR-mediated signal transduction and cAMP pathways. Some terms, such as electron transport chain and body hair orientation, appear more peripheral, but the dominant theme is GPCR\u2013cAMP\u2013related signaling and regulation. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045777","count":7},{"id":"GO:0007190","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0048105","count":5}]},{"hash":"236861856001657967","title":"Skeletal cartilage and bone development","description":"The top GO terms point to skeletal biology, with strong signals for cartilage development, chondrocyte differentiation, and osteoblast development, plus TGF-beta receptor signaling and SMAD-related regulation, all central to skeletogenesis. A few terms related to xenobiotic response and cholesterol biosynthesis appear but are less central to the core theme. Taken together, the cluster seems to group proteins involved in cartilage and bone formation and differentiation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0032332","count":3},{"id":"GO:0002076","count":3},{"id":"GO:0006695","count":2},{"id":"GO:0042493","count":2}]},{"hash":"241999381399554823","title":"Ribosome Biogenesis and Translation","description":"The cluster is driven by translation and ribosome biogenesis terms (translation and ribosome biogenesis appear among the top annotations), suggesting a shared involvement in protein synthesis machinery. While other terms point to stress responses and cell cycle, the strongest common theme across these proteins appears to be roles in ribosome assembly and mRNA translation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0071346","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0071549","count":2}]},{"hash":"333865848975304048","title":"Hematopoiesis and KIT signaling in megakaryocytes","description":"This cluster is enriched for terms tied to blood cell development: myeloid progenitor differentiation, megakaryocyte development, KIT signaling, and ERK cascade regulation, plus cytokine (IL-3) production and apoptosis\u2014pointing to hematopoietic lineage specification and related signaling pathways. Some non-hematopoietic terms are present but do not override the core theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0002318","count":4},{"id":"GO:0097194","count":4},{"id":"GO:0035855","count":4}]},{"hash":"579280125961198128","title":"EMT-Associated Innate Immunity and ECM Remodeling","description":"The proteins are enriched for epithelial-to-mesenchymal transition, fibronectin fibril organization, innate immunity, immunological synapse formation, and complement activation, with additional links to zymogen activation and apoptotic cell clearance. These terms together point to a theme where EMT and extracellular matrix remodeling intersect with immune signaling and proteolytic processing, in contexts including development (spinal cord and somite formation). The cluster therefore appears to represent an EMT/ECM-immune interface module active in development and tissue remodeling.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001837","count":8},{"id":"GO:0043277","count":7},{"id":"GO:0001771","count":7},{"id":"GO:1905590","count":7},{"id":"GO:0006958","count":7}]},{"hash":"789467510807029959","title":"Glycosaminoglycan Proteoglycan Biosynthesis","description":"This cluster is dominated by GO terms for proteoglycan and glycosaminoglycan biosynthesis, especially keratan sulfate and heparan sulfate proteoglycans, with supporting terms for dermatan/chondroitin sulfate biosynthesis and related sugar metabolism (N-acetylglucosamine). While other metabolic processes appear, the strongest and most recurring signals point to proteoglycan/GAG synthesis as the shared function of the proteins.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":3},{"id":"GO:0016042","count":2},{"id":"GO:0006805","count":2},{"id":"GO:0015012","count":2},{"id":"GO:0030210","count":2}]},{"hash":"1481059217276329135","title":"Neural development and neurotransmitter signaling","description":"The cluster shows terms tied to neural growth and function: regulation of axon extension, perineurial glial growth, actin filament assembly, and neurotransmitter handling (serotonin uptake, dopamine catabolic process, glycine import). While a couple terms hint at plant-related processes (auxin signaling, herbicide response), the dominant themes center on neural development, axon outgrowth, and synaptic/neurotransmitter activity, suggesting a cohesive neural-related cluster. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030516","count":2},{"id":"GO:0009635","count":2},{"id":"GO:0009734","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0042066","count":2}]},{"hash":"1393852705109584997","title":"Broad Developmental and Cell Cycle Regulators","description":"The cluster combines GO terms spanning developmental processes (brain and spinal cord development; osteoblast differentiation; prostate gland development) with core cell-cycle and gene-expression control (translation initiation/reinitiation, preinitiation complex formation, mitotic spindle and chromatin assembly) and inflammatory signaling, suggesting a set of proteins with broad regulatory roles in development and cell proliferation rather than a single cohesive pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0060770","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0001731","count":7}]},{"hash":"2194994728518475786","title":"Mitotic Cell Division and Microtubule Dynamics","description":"The cluster is dominated by GO terms related to the mitotic cell cycle and cell division (e.g., preprophase band assembly, microtubule anchoring), indicating a core role in mitotic spindle organization and cytoskeleton dynamics. Additional terms touch on growth regulation and cilia/morphogenesis processes (left-right patterning, gravitropism), which often connect to microtubule-based cellular architecture. Overall, the common thread is mitosis-associated microtubule organization and related cytoskeletal functions.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2000314","count":1},{"id":"GO:0030307","count":1},{"id":"GO:0000913","count":1}]},{"hash":"1228385506469115910","title":"Cortical Actin Patch Assembly and Arp2/3 Nucleation","description":"The cluster is dominated by GO terms related to actin cytoskeleton organization, especially cortical patch assembly/localization and Arp2/3-mediated actin nucleation, along with actin filament bundle assembly and roles in establishing cell polarity and cell shape. These themes point to actin polymerization dynamics at the cortex driving patch formation and possibly organelle trafficking/inheritance, with a few terms about muscle actin and some obsolete annotations likely noise. Confidence: High","confidence":"","size":12,"edges":61,"triangles":175,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0000011","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0071963","count":4}]},{"hash":"335593993652838987","title":"Golgi-ER trafficking and organelle dynamics","description":"This cluster highlights proteins involved in membrane trafficking and organelle remodeling: ER membrane fusion and Golgi retention are prominent, with mitochondrial fission also pointing to broader organelle dynamics. While some terms (like synaptic regulation) are less central, the dominant pattern centers on trafficking between Golgi/ER and changes in organelle structure.","confidence":"Medium","size":12,"edges":10,"triangles":1,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0045053","count":5},{"id":"GO:0045886","count":3},{"id":"GO:0016320","count":3}]},{"hash":"975631236138666309","title":"Spindle assembly and microtubule dynamics","description":"This cluster is dominated by GO terms related to mitotic and meiotic spindle assembly, spindle pole separation, and nuclear migration along microtubules, as well as actomyosin ring assembly, all pointing to microtubule-driven cell division and organization. Additional terms about plus-end depolymerization and microtubule-based dendritic transport support a broader theme of microtubule dynamics and intracellular transport, with a note on neuronal structural organization that can reflect cytoskeletal roles in neurons. Overall, the clearest shared function is microtubule-mediated spindle formation and related dynamics.","confidence":"Medium","size":12,"edges":52,"triangles":117,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":12},{"id":"GO:0000742","count":12},{"id":"GO:0000915","count":12},{"id":"GO:0098971","count":12},{"id":"GO:0021693","count":12}]},{"hash":"501472572509774598","title":"Nucleotide Catabolic Processes","description":"Dominant signal in the Top Terms is multiple nucleotide catabolic processes (GDP, ADP, UDP, CDP) with seven hits each, suggesting a shared function in nucleotide breakdown. While there are a few plant-reproductive terms (pollen exine formation, anther dehiscence) and glycosylation present, they are less represented, so the core theme likely centers on nucleotide metabolism.","confidence":"Medium","size":12,"edges":58,"triangles":155,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0046712","count":7},{"id":"GO:0046032","count":7},{"id":"GO:0071405","count":7},{"id":"GO:0006487","count":7},{"id":"GO:0010584","count":7}]},{"hash":"467677907887831226","title":"Thermo-sensory and neuroimmune signaling","description":"These terms cluster around sensing and responding to temperature and related stimuli (diet-induced thermogenesis, temperature stimulus), perception of pain, and inflammatory signals (prostaglandin stimulus, eosinophil chemotaxis). They also touch on neural regulation (dopamine signaling, prepulse inhibition) and autonomic processes (saliva secretion). Together, they suggest an integrated thermo-sensory processing framework with neuroimmune modulation, though one outlier term (viral release from host cell) is less connected to the core theme.","confidence":"Medium","size":12,"edges":37,"triangles":24,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0046541","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0071799","count":7}]},{"hash":"35703399535913201","title":"RNA Processing and Transcription Regulation","description":"The Top Terms center on RNA metabolism and control of gene expression: regulatory ncRNA\u2013mediated silencing, spliceosome-mediated splicing, translation initiation complex formation, and positive regulation of RNA polymerase II transcription. While there are peripheral terms related to DNA repair and development, the RNA processing and transcriptional control signals dominate, suggesting the cluster mainly reflects RNA processing and transcription regulation functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000398","count":2},{"id":"GO:1902455","count":2}]},{"hash":"2009014356117173807","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":16,"triangles":6,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0044205","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0007595","count":3}]},{"hash":"2030332679351419401","title":"Cell cycle and transcription regulation","description":"The cluster is dominated by cell cycle\u2013related terms (cell division; G2/M transition; positive regulation of CDK activity) and transcription regulation by RNA polymerase II, suggesting a core function in coordinating cell-cycle progression with transcriptional control. The other terms indicate broader signaling and differentiation contexts but do not override the central theme.","confidence":"Medium","size":12,"edges":11,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0045737","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0046626","count":5},{"id":"GO:0000086","count":4}]},{"hash":"908477498628594416","title":"Embryonic heart and eye morphogenesis","description":"The top terms cluster around developmental processes for heart-related structures (ventricular cardiac muscle tissue morphogenesis, embryonic heart tube development, secondary heart field specification, venous blood vessel development) and eye/lens development (embryonic eye morphogenesis, camera-type eye development, positive regulation of lens epithelial cell proliferation). Although a couple of terms (glucose homeostasis, ovulation) are less aligned, the dominant theme is embryonic organ morphogenesis, especially heart and eye. ","confidence":"High","size":12,"edges":56,"triangles":140,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055010","count":6},{"id":"GO:0042593","count":6},{"id":"GO:0001542","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0035050","count":6}]},{"hash":"721260275929515921","title":"Cytoskeleton dynamics and epithelial junctions","description":"The proteins cluster around regulators of Rho/Ras GTPase signaling and actin remodeling, plus processes for microvillus assembly and tight junction formation, indicating a coherent theme of coordinating cytoskeletal dynamics with cell\u2013cell junction integrity (endothelial barrier, bicellular tight junctions) and related morphogenesis (cochlea). This suggests a shared function in maintaining epithelial/endothelial structural organization and signaling. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0051835","count":3},{"id":"GO:0030033","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0090630","count":3}]},{"hash":"2271269120781606811","title":"Immune signaling and development","description":"The cluster shows enrichment for adaptive immune response, spleen development, and NF-kappaB signaling, plus GPCR-mediated pathways and ubiquitin-dependent proteolysis, pointing to an immune-regulatory and developmental theme. Some terms like blood coagulation, keratinocyte differentiation, and multicellular development reflect broader tissue-context roles that can intersect with immunity.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0072378","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0043123","count":2}]},{"hash":"2215179380822236071","title":"Regulated Signaling and Cytoskeletal Dynamics","description":"This cluster includes GO terms for negative regulation of STAT tyrosine phosphorylation and VEGF receptor signaling, plus positive regulation of NOS activity and ubiquitin-dependent protein catabolic process, indicating a set of regulators that tune signaling output and protein turnover. The cytoskeletal angle is supported by astral microtubule organization and regulation of stress fiber assembly, and mRNA transport adds a gene-expression dimension. Together these terms suggest proteins that coordinate signaling with cytoskeletal remodeling and differentiation programs, including lens fiber cell development, pointing to a growth/differentiation regulatory module.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042518","count":4},{"id":"GO:0030953","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051000","count":3}]},{"hash":"1817970629411085361","title":"Cell Division and Vesicle Trafficking Machinery","description":"These proteins cluster around cell division and intracellular transport: CENP-A chromatin assembly and general cell-cycle signals, combined with ER-to-Golgi and inter-Golgi vesicle trafficking, endosomal and autophagic processes, and peroxisomal import. The mix suggests a module that coordinates chromosome segregation with membrane trafficking and organelle maintenance, with supporting metabolic regulation signals. ","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0006888","count":6},{"id":"GO:0048219","count":5},{"id":"GO:0061641","count":5},{"id":"GO:2001171","count":5}]},{"hash":"655312005330944498","title":"Chromatin remodeling and transcriptional regulation","description":"The cluster is dominated by GO terms tied to chromatin remodeling and transcription, such as chromatin remodeling, negative regulation of transcription by RNA polymerase II, DNA-templated transcription, and transcription elongation by RNA Pol II, which together suggest a shared function in modulating chromatin structure to control gene expression. A couple of developmental terms (nose morphogenesis, semicircular canal morphogenesis) appear, but they are less central to the primary regulatory theme. ","confidence":"High","size":12,"edges":44,"triangles":73,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060303","count":8},{"id":"GO:0016584","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0048752","count":6},{"id":"GO:0043044","count":6}]},{"hash":"1764830972248959134","title":"Mitochondrial protein import and respiration","description":"The cluster shows strong signals for mitochondrial-focused processes: protein import into the mitochondrial matrix and inner membrane, and aerobic respiration, plus related mitochondrial genome maintenance. A chloroplast import term is present but the predominant pattern centers on mitochondria, suggesting a group of proteins involved in mitochondrial protein targeting and respiratory functions.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051289","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0032094","count":1}]},{"hash":"998862549974093055","title":"Hormone Metabolism and Reproductive Development","description":"This cluster centers on GO terms tied to hormone biosynthesis and signaling (prostaglandin, retinoic acid, androgen, vitamin D) and reproductive tissue development (uterus, female gonad). While there are a couple outliers (plant diterpene oxidation and vancomycin biosynthesis), the dominant theme points to endocrine regulation of reproduction and related metabolic pathways.","confidence":"Medium","size":12,"edges":20,"triangles":11,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":4},{"id":"GO:0008585","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0010241","count":2}]},{"hash":"1124053846343193335","title":"Spindle Assembly and Nuclear Migration","description":"The top GO terms converge on microtubule-based organization: mitotic and meiotic spindle assembly, spindle pole separation, nuclear migration along microtubules, and plus-end microtubule dynamics, plus involvement in cytokinesis-related structures. These collectively point to microtubule-dependent spindle formation and movement of nuclei during cell division, with some neuronal-related terms likely reflecting broader cytoskeletal roles. Overall theme is coherent around spindle/nuclear dynamics.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":6},{"id":"GO:0000742","count":6},{"id":"GO:0000915","count":6},{"id":"GO:0098971","count":6},{"id":"GO:0021693","count":6}]},{"hash":"1086219725442017642","title":"Heart, pancreas, and muscle organogenesis","description":"The cluster\u2019s strongest signals are embryonic heart development (embryonic heart tube formation, left ventricle formation), endocrine pancreas development, and muscle tissue morphogenesis, indicating a shared developmental program for heart, pancreas, and muscle formation. The prevalent transcription by RNA polymerase II term suggests coordinated transcriptional regulation during these developmental processes. Peripheral terms like xenobiotic response and astrocyte differentiation appear less central to the core theme.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0048712","count":8},{"id":"GO:2001038","count":8},{"id":"GO:0009410","count":6},{"id":"GO:0090403","count":6}]},{"hash":"1639892226759128300","title":"Ubiquitin-regulated TNF-NF-\u03baB signaling","description":"This cluster centers on ubiquitin-dependent protein catabolic processes that modulate TNF-mediated signaling, NF-\u03baB activation (I-kappaB phosphorylation), JNK cascade regulation, and apoptosis, suggesting a cohesive theme of ubiquitin-mediated control of inflammatory signaling and cell survival. Some terms (V(D)J recombination, dosage compensation) are less directly related and may reflect broader immune or chromatin-related roles among the proteins, but the dominant pattern is ubiquitin-driven regulation of TNF/NF-\u03baB/JNK pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:1903265","count":7},{"id":"GO:0042981","count":7},{"id":"GO:0070512","count":7},{"id":"GO:0046328","count":7}]},{"hash":"824055147390009351","title":"Actin cytoskeleton remodeling and cell migration","description":"The top GO terms are dominated by actin-related processes\u2014filament bundling, capping, polymerization, and organization\u2014together with actin-driven cell motility, ruffle formation, and cell migration, indicating a cluster centered on actin dynamics governing movement. The PNS myelin maintenance term likely reflects cytoskeletal roles in glial cells, but the core signal is actin remodeling and motility.","confidence":"High","size":12,"edges":14,"triangles":2,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007258","count":7},{"id":"GO:1900029","count":6},{"id":"GO:0051017","count":6},{"id":"GO:0051016","count":6},{"id":"GO:0070358","count":6}]},{"hash":"974727440005210751","title":"Nuclear Ribosome Export and mRNA Transport","description":"Predominant activities are nuclear-cytoplasmic transport of ribosomal components and mRNA (export/import, ribosomal subunit export, nuclear pore complex assembly, ribosomal protein import). This suggests a module in ribosome biogenesis and mRNA trafficking through the nuclear pore, with some ancillary transcription regulation signals.","confidence":"High","size":12,"edges":48,"triangles":99,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0042176","count":5},{"id":"GO:0006406","count":5}]},{"hash":"1174358220848519209","title":"Amino acid and GABA transport across the plasma membrane","description":"This cluster is dominated by transmembrane transport terms for multiple amino acids (lysine, methionine, ornithine, serine) and GABA, plus polyamines, indicating a shared role in importing these compounds across the plasma membrane. A few terms (GTPase regulation, nitric oxide biosynthesis) are peripheral and do not define the core function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0015812","count":2},{"id":"GO:0006884","count":2},{"id":"GO:0097639","count":2}]},{"hash":"2044075193216851101","title":"Cardiovascular development and function","description":"This cluster is dominated by cardiovascular themes, with GO terms for angiogenesis, heart trabecula formation, and heart-rate regulation, plus NO synthase activity; there are also peripherally related terms like ossification, kidney development, and memory, suggesting broader developmental roles but cardiovascular development is the core signal.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0060347","count":3},{"id":"GO:0035023","count":2}]},{"hash":"2157320906265417439","title":"Neurovascular development","description":"These proteins are enriched for angiogenesis and neural development terms (angiogenesis, axonogenesis, visual perception, synapse assembly, heart development), suggesting a coordinated role in neurovascular patterning and maturation. Ancillary terms like innate immune response and cell cycle appear less central, but do not override the core theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0007409","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0014068","count":4}]},{"hash":"149280123411222590","title":"Immune signaling and GI epithelium maintenance","description":"The Top Terms are dominated by immune-related processes (type II interferon production, mast cell cytokine production, NK cell cytotoxicity protection, humoral immune response) along with a specific term for maintenance of gastrointestinal epithelium. There are also broader terms like DNA-templated transcription and receptor-mediated endocytosis, which fit regulatory and antigen-processing roles common in immune contexts. Taken together, the cluster appears to group proteins involved in immune signaling with GI epithelial context, rather than a single enzymatic activity.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048260","count":2},{"id":"GO:0098711","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0090272","count":1},{"id":"GO:0045058","count":1}]},{"hash":"1443858643019578337","title":"Developmental and cell-cycle regulatory processes","description":"The cluster\u2019s top GO terms point to developmental pathways (placenta development; outer ear morphogenesis; heart development via cardiac neural crest) and to cell-cycle related processes (DNA replication initiation; kinetochore localization; centrosome localization), with additional stress-related signaling. This suggests proteins involved in both development and cell-cycle regulation, yielding a broad but coherent label.","confidence":"Medium","size":12,"edges":19,"triangles":12,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":12},{"id":"GO:0060258","count":12},{"id":"GO:0070059","count":12},{"id":"GO:0001890","count":12},{"id":"GO:0042473","count":12}]},{"hash":"1527752168866338295","title":"Organogenesis and Tissue Development","description":"This cluster is driven by GO terms centered on developmental processes across multiple tissues (angiogenesis, heart/CNS/gonad development, enamel mineralization, and cerebellar granule precursor proliferation), plus a general growth term. While a few immune-related terms appear, the dominant signal is organogenesis and tissue development, justifying a developmental cluster label.","confidence":"High","size":12,"edges":19,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007417","count":3}]},{"hash":"1183400288479284278","title":"Dendritic cell\u2013driven inflammatory response","description":"The top GO terms center on dendritic cell antigen processing/presentation, positive regulation of type 2 immune response, IL-1\u03b2 production, and inflammatory response, indicating a DC-mediated activation of inflammatory/immune pathways. While some developmental terms appear, the dominant signal is immune activation and inflammation via dendritic cells.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002830","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0061303","count":2}]},{"hash":"545447338565992913","title":"Embryonic craniofacial and mesoderm development","description":"The top GO terms cluster around craniofacial formation (roof of mouth development), mesoderm development, cartilage morphogenesis, left-right patterning, and EMT in endocardial cushion formation, all central to embryonic morphogenesis. While there are also general cellular processes (transcription by RNA Pol II, ribosomal export), the dominant signal is embryonic tissue patterning and morphogenesis, justifying this label as representative of the cluster.","confidence":"High","size":12,"edges":16,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0006366","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1642365599317214536","title":"Actin remodeling and vesicle trafficking","description":"This cluster centers on actin cytoskeleton reorganization alongside regulation of vesicle exocytosis and endocytosis, with supporting involvement of Rho signaling, cell polarity, and membrane transport, pointing to coordinated cytoskeletal dynamics that govern vesicle traffic and membrane remodeling in polarized or neuronal contexts.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0010796","count":5}]},{"hash":"1096902079578582664","title":"Actin cytoskeleton remodeling and cell migration","description":"This cluster is dominated by GO terms related to actin cytoskeleton organization, microspike assembly, and cell migration, with several terms pointing to Rho/Rac signaling that regulate actin dynamics. While a few immune and neural terms appear among the top terms, the core theme centers on actin-driven motility and cytoskeletal remodeling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":4},{"id":"GO:0051660","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0030035","count":3}]},{"hash":"1297666286094210648","title":"Unknown","description":"The Top Terms span endothelial proliferation, germline development, somatic muscle development, chromatin modification and dosage compensation, DNA damage response, actin regulation, and translation. This broad mix lacks a single cohesive function or pathway, suggesting the proteins may participate in multiple disparate processes or reflect annotation noise, so a concise, representative cluster label cannot be reliably assigned.","confidence":"","size":12,"edges":12,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0007526","count":1},{"id":"GO:0016457","count":1},{"id":"GO:0043984","count":1}]},{"hash":"2211989545078733651","title":"mRNA translation initiation and splicing regulation","description":"Proteins in this cluster are tied to RNA-level regulation: translation initiation/reinitiation, preinitiation complex assembly, miRNA-mediated translational silencing, and spliceosome-driven splicing regulation plus mRNA stability. The common thread is post-transcriptional control of gene expression at RNA processing and translation, justifying a label around translation initiation and splicing regulation.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0010610","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0035278","count":6},{"id":"GO:0048026","count":6}]},{"hash":"1137302411676228148","title":"Unknown","description":"The terms span translation initiation and GTPase-related regulation, plus diverse signaling and differentiation processes (B cell differentiation, IGF receptor signaling, angiogenesis, Golgi maintenance). There isn\u2019t a single clear function tying these terms together, so a coherent, specific label cannot be confidently assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0051096","count":2},{"id":"GO:0030183","count":2}]},{"hash":"1828114035191333651","title":"Negative regulators of growth and signaling","description":"These terms show a pattern of negative regulation across several cellular processes: fibroblast proliferation, multiple signaling pathways (activin, PI3K/AKT, Wnt), mitotic events, angiogenesis, germline stem cell division, and progenitor cell differentiation. There isn't a single pathway tying all terms together, but the common theme is inhibitory control of growth, development, and cell-cycle processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":3},{"id":"GO:0032534","count":2},{"id":"GO:0007084","count":2},{"id":"GO:0032926","count":2},{"id":"GO:0045950","count":2}]},{"hash":"61927782004089626","title":"Immune Signaling and Cell Adhesion","description":"The top GO terms heavily emphasize adaptive immunity (adaptive immune response; B cell receptor signaling) and cell\u2013cell interactions (homophilic and heterophilic adhesion). ERK signaling regulation and vitamin D response indicate broader signal transduction, while proteolysis points to tissue remodeling. Some terms also relate to neural processes (synapse assembly; chemorepulsion in interneuron migration), reflecting shared signaling roles across tissues. Overall, the cluster centers on immune signaling with adherent and remodeling components.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048661","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0002250","count":5}]},{"hash":"621848189152946942","title":"Neuronal signaling and behavioral regulation","description":"The terms converge on neural communication (potassium and sodium ion transport; EPSP; GABA signaling) and behavioral control (locomotion, circadian sleep/wake cycles, learning via conditioned taste aversion, and sensory development of the vestibulocochlear system), suggesting a cohesive theme of neural signaling shaping behavior. Some terms reflect broader regulatory or stress responses, but the dominant pattern is brain-based signaling and behavior.","confidence":"High","size":12,"edges":29,"triangles":39,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":11},{"id":"GO:0035725","count":11},{"id":"GO:0060079","count":11},{"id":"GO:0001661","count":11},{"id":"GO:0007214","count":11}]},{"hash":"639064865867848292","title":"Innate Immune Activation and Complement Signaling","description":"The top terms are dominated by innate immune functions and complement activation (innate immune response, classical complement pathway, type II interferon production, Fc-epsilon receptor signaling, negative regulation of MyD88-TLR signaling, and B cell activation). While a few terms relate to lens development or cardiac/neuronal processes, the core signal revolves around immune recognition and response, especially complement and innate immune signaling pathways.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0072643","count":4},{"id":"GO:0030277","count":4},{"id":"GO:0050871","count":4}]},{"hash":"1985559610555451533","title":"Innate Immunity and ECM Remodeling","description":"The cluster is enriched for innate immune functions (complement activation via the classical pathway, innate immune response) and immune communication (immunological synapse formation, apoptotic cell clearance), plus extracellular matrix remodeling (fibronectin fibril organization and associated proteolytic (zymogen) activation). Developmental and renal/blood pressure terms are present but appear as secondary associations; the dominant shared theme is immune signaling together with ECM remodeling, suggesting a functional group centered on host defense and tissue remodeling.","confidence":"High","size":12,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0035813","count":8},{"id":"GO:0003050","count":8},{"id":"GO:0043277","count":7}]},{"hash":"880323802380501097","title":"Developmental Growth and Cell Cycle Regulation","description":"This cluster centers on developmental processes (skin development, multicellular organism development, fertilization) and control of cell proliferation and the cell cycle (mitotic cycle, G0 to G1 transition, proliferation regulation). It also includes translation control and mRNA transport, and a hypoxia response, which often accompany development and growth. Taken together, the proteins seem linked to coordinating development with growth and gene expression regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0071902","count":3}]},{"hash":"1677788327169903509","title":"Unknown","description":"The top terms are highly diverse, spanning pollen development, hormone response, apoptosis, viral genome activation, mRNA tail processing, immune regulation, cadherin-mediated adhesion, metal stress response, and various biosynthetic processes, with no single unifying function across the cluster. This prevents a coherent, specific label beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009555","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0044829","count":1},{"id":"GO:0000289","count":1}]},{"hash":"763781026797741642","title":"Cardiac and Sensory GPCR-cGMP Signaling","description":"Top GO terms show cardiac muscle contraction and heart-rate regulation alongside sensory processes (phototransduction, olfactory behavior) and GPCR signaling coupled to cGMP. The unifying thread appears to be GPCR-cGMP signaling affecting both cardiac function and sensory pathways, though the cluster spans multiple systems rather than a single tissue-specific process.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":4},{"id":"GO:0071805","count":3},{"id":"GO:0003065","count":3},{"id":"GO:0060298","count":3},{"id":"GO:0007602","count":3}]},{"hash":"1173187821521616289","title":"Embryogenesis with integrin signaling and complement activation","description":"The cluster includes terms tied to embryonic development (in utero development, skin development), integrin-mediated cell adhesion and signaling, and both classical and alternative complement activation, suggesting a developmental program that couples adhesion/signaling with innate immune modulation and extracellular matrix remodeling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0033631","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0051044","count":3}]},{"hash":"2189444444250061400","title":"Ribosome Biogenesis and Protein Quality Control","description":"The cluster centers on making and maturing ribosomes (translation, ribosomal subunit assembly, SSU rRNA maturation) and on protein quality control (ubiquitination, deglycosylation). It also includes stress and trafficking processes (ER stress\u2013related apoptosis regulation, endocytosis and vesicle formation, TNF signaling), suggesting a theme of coordinated protein production, processing, and trafficking under cellular stress.","confidence":"Medium","size":11,"edges":38,"triangles":57,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":4},{"id":"GO:1902236","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0000028","count":4},{"id":"GO:0051865","count":4}]},{"hash":"1987300008139221048","title":"Neural signaling and circadian regulation","description":"This cluster is dominated by GO terms tied to neural signaling and behavior, including positive regulation of ERK1/2 cascade, regulation of dopamine receptor signaling, appetite, and prepulse inhibition, as well as regulation of circadian rhythm. While there are also immune-related terms (eosinophil chemotaxis, prostaglandin response) and a viral release term that could reflect broader host\u2013pathogen interactions, the most prominent pattern links neural signaling pathways to circadian and behavioral regulation.","confidence":"High","size":11,"edges":48,"triangles":110,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":11},{"id":"GO:0019076","count":11},{"id":"GO:0060134","count":11},{"id":"GO:1901652","count":11},{"id":"GO:0048245","count":11}]},{"hash":"561275572760998407","title":"Embryonic organ development and morphogenesis","description":"This cluster centers on broad embryonic development across multiple organs (pancreas, nose, forebrain, inner ear, forelimb), with pattern formation and morphogenesis highlighted. It also includes retinoic acid biosynthesis, a key developmental signaling pathway, and a hypoxia response context common in embryogenesis. The common thread is diverse organogenesis and tissue patterning during development.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0031016","count":11},{"id":"GO:1901023","count":11},{"id":"GO:0043584","count":11},{"id":"GO:0042904","count":11},{"id":"GO:0009954","count":11}]},{"hash":"2081248109383076297","title":"Unknown","description":"The top GO terms show a mix of nucleotide catabolic processes (GDP/ADP/UDP/CDP catabolism), plant reproductive processes (pollen exine formation, anther dehiscence), and cell division-related events (mitotic spindle assembly, karyogamy), plus other unrelated processes like protein glycosylation and methanol response. There isn\u2019t a single cohesive theme linking all terms, so a concise, informative label isn\u2019t evident.","confidence":"","size":11,"edges":39,"triangles":53,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046712","count":3},{"id":"GO:0046032","count":3},{"id":"GO:0071405","count":3},{"id":"GO:0006487","count":3},{"id":"GO:0010584","count":3}]},{"hash":"1297734965561185967","title":"Neuronal Golgi-SNARE vesicle trafficking and exocytosis","description":"The cluster is dominated by Golgi- and SNARE-related processes (Golgi ribbon formation, ER-to-Golgi and intra-Golgi vesicle transport, SNARE complex assembly) and synaptic functions (postsynaptic receptor exocytosis, long-term potentiation, spontaneous neurotransmitter secretion), indicating a coherent theme of neuronal vesicle trafficking and exocytosis driven by Golgi and SNARE machinery.","confidence":"High","size":11,"edges":41,"triangles":78,"max_degree":10,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:0090161","count":11},{"id":"GO:0098967","count":11},{"id":"GO:0035493","count":11},{"id":"GO:0060291","count":11},{"id":"GO:0006888","count":11}]},{"hash":"1199495658434554490","title":"Dopaminergic and Adrenergic GPCR Signaling","description":"The top GO terms cluster around GPCR signaling initiated by dopamine and adrenergic receptors, activating cAMP and PLC pathways and involving GTPase regulation. Additional terms like heart development and phototransduction reflect GPCR roles across tissues, supporting a cohesive catecholamine GPCR signaling module.","confidence":"High","size":11,"edges":36,"triangles":54,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0042493","count":7},{"id":"GO:0060158","count":7},{"id":"GO:0071880","count":7},{"id":"GO:0007507","count":7}]},{"hash":"2174701453588259521","title":"Neural signaling and circadian appetite regulation","description":"This cluster centers on neural signaling and behavioral regulation, with terms like positive regulation of ERK1/2 cascade, regulation of dopamine receptor signaling, prepulse inhibition, and regulation of circadian rhythm, plus appetite control. While a few terms touch on immune or viral processes, the dominant theme is neurobehavioral signaling and circadian/appetite regulation.","confidence":"Medium","size":11,"edges":43,"triangles":82,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":8},{"id":"GO:0019076","count":8},{"id":"GO:0060134","count":8},{"id":"GO:1901652","count":8},{"id":"GO:0048245","count":8}]},{"hash":"2227949388216868644","title":"Translational Regulation and mRNA Decay","description":"The cluster is dominated by GO terms tied to translation and post-transcriptional control. High-frequency terms include translation, positive regulation of translational elongation and termination, and selenocysteine incorporation, plus deadenylation-dependent mRNA decay, indicating a module centered on protein synthesis and mRNA fate. A couple of terms like glial cell proliferation and regulation of facultative heterochromatin formation are less directly connected to translation and may reflect peripheral associations.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0014009","count":4},{"id":"GO:0045903","count":4},{"id":"GO:1902802","count":4},{"id":"GO:0046677","count":4}]},{"hash":"1547611939021997247","title":"GTPase-regulated vesicle exocytosis","description":"The cluster centers on vesicle fusion and calcium-dependent exocytosis, supported by Rho GTPase signaling and positive regulation of GTPase activity, suggesting a cohesive role in GTPase-controlled vesicle trafficking. Some development-related and ABA-signaling terms appear, but the dominant theme is exocytosis regulated by GTPases.","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0009789","count":10},{"id":"GO:0006906","count":10},{"id":"GO:0007266","count":10},{"id":"GO:0001302","count":10},{"id":"GO:0007420","count":10}]},{"hash":"1219469822901878382","title":"Growth Factor Signaling and Regeneration","description":"The top terms cluster around growth-factor\u2013driven signaling pathways, especially PI3K/AKT and ERK cascades (PI3K activity/signaling, ERK1/2 cascade), VEGF receptor signaling in endothelial contexts, plus processes like cell-matrix adhesion and organ regeneration. This suggests a cohesive theme of signaling that promotes angiogenesis and tissue repair. ","confidence":"High","size":11,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045071","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0001954","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0051897","count":3}]},{"hash":"1907303657401670416","title":"Neural Development and Synaptic Signaling","description":"The cluster is dominated by GO terms related to nervous system development, dendrite morphogenesis, hippocampus development, and excitatory synaptic activity (EPSP), with several terms pointing to ERK/MAPK and Wnt signaling. While a few immune-related terms (T cell receptor signaling, beta selection) appear, the strongest and most frequent terms describe brain development and synaptic function, supporting a cohesive neural-development and synaptic-signaling theme.","confidence":"High","size":11,"edges":43,"triangles":99,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0000186","count":10},{"id":"GO:0050852","count":10},{"id":"GO:0090263","count":9},{"id":"GO:0043552","count":9}]},{"hash":"1852430778176550957","title":"Retinal development and neural signaling","description":"The top GO terms cluster around retina development, visual learning, and regulation of membrane potential, pointing to a theme of eye/retina formation and neural processing. While there are additional terms related to growth regulation and other processes, the dominant signals are vision-related and neuronal, justifying the label with a moderate level of confidence given some discordant terms.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":6},{"id":"GO:0008542","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0040015","count":5}]},{"hash":"1404052987178686078","title":"Metabolic Cofactor Biosynthesis and GPCR-Cilium Signaling","description":"This cluster shows strong representation of biosynthetic processes for cofactors (menaquinone, biotin, protoporphyrinogen IX) and carbohydrate metabolism, plus GO terms related to GPCR signaling and non-motile cilium assembly, suggesting a theme around metabolism coupled with GPCR/ciliary signaling pathways.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0005975","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1684508828831575934","title":"Stress-responsive transcription and aging regulation","description":"The top GO terms cluster around transcriptional control (DNA-templated transcription) and chromatin-related regulation (histone deacetylation, demalonylation), tied to stress- and nutrient-related responses (starvation, biotin starvation, epinephrine stimulus) and aging/senescent processes, with accompanying immune and vascular remodeling (macrophage apoptosis regulation, blood vessel branching). This suggests a theme of transcriptional and epigenetic regulation in response to stress and aging cues. ","confidence":"Medium","size":11,"edges":13,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:2000774","count":5},{"id":"GO:0071572","count":5},{"id":"GO:0042595","count":5},{"id":"GO:0071872","count":5}]},{"hash":"1542023434507841117","title":"Neurodevelopmental Signaling and Apoptosis","description":"The cluster is dominated by neural-development terms (hippocampus development, neurotrophin TRK signaling, heart development in a broader developmental context) and key signaling pathways (Wnt, Hippo, Rho, PI3K) with an apoptosis execution term, suggesting proteins coordinating neural development and cell fate. ","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0097194","count":3}]},{"hash":"1142946162544874388","title":"Neuronal synapse formation and plasticity","description":"Most terms point to neural/synaptic roles (nervous system development, synapse assembly, long-term potentiation), with additional signals linking to cellular remodeling (ubiquitin-dependent degradation, apoptosis) and Ras signaling regulation. This suggests the cluster centers on synapse formation and neuronal signaling with supporting remodeling processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1320296059306053764","title":"Immune Activation and Lymphocyte Differentiation","description":"This cluster is dominated by GO terms related to immune function, including cellular responses to GM-CSF, T cell costimulation, T cell proliferation, and B cell differentiation, indicating a core theme of immune activation and lymphocyte maturation. While there are also some development-related terms present, the strongest signal centers on immune signaling and lymphocyte differentiation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0000187","count":2}]},{"hash":"1065510042242019569","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":6,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0000480","count":3}]},{"hash":"398714380753690513","title":"Centrosome Duplication and Cell Cycle Regulation","description":"The cluster is dominated by GO terms related to centrosome duplication regulation (positive and negative) and the centrosome cycle, suggesting these proteins collectively influence centrosome dynamics during the cell cycle. Additional terms touch on kinase activity regulation and RNA processing/nucleolar localization, which may reflect broader regulatory roles, but the strongest signal points to centrosome cycle control.","confidence":"Medium","size":11,"edges":11,"triangles":1,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0010826","count":2},{"id":"GO:0010825","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0044387","count":2},{"id":"GO:0060699","count":2}]},{"hash":"618060505977007560","title":"Actin-driven synaptic remodeling","description":"The cluster is dominated by terms related to actin cytoskeleton dynamics (filopodium assembly, actin polymerization, branching) and processes tied to neuronal structural changes (synapse plasticity, endocytosis, cell polarity and adhesion). Signaling pathways like ephrin receptor signaling and Wnt also modulate actin remodeling and synaptic morphology, supporting a cohesive theme of actin-dependent remodeling in neurons and related cells. Confidence: High","confidence":"","size":11,"edges":7,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046847","count":10},{"id":"GO:0090263","count":9},{"id":"GO:0043552","count":9},{"id":"GO:0051835","count":9},{"id":"GO:0048013","count":9}]},{"hash":"105907807231197185","title":"Cardiovascular and blood cell functions","description":"The top GO terms cluster around heart development, oxygen transport, erythrocyte maturation, platelet aggregation, and nitric oxide biosynthesis, which together point to cardiovascular and hematopoietic biology. Some terms may reflect broader muscle or stress-related pathways, but the dominant theme is heart/blood vessel and blood cell-related processes.","confidence":"Medium","size":11,"edges":22,"triangles":20,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":7},{"id":"GO:0009636","count":7},{"id":"GO:0031444","count":6},{"id":"GO:0051291","count":6},{"id":"GO:0015671","count":6}]},{"hash":"1439920206043549860","title":"Zinc Homeostasis and Immune Response","description":"The cluster is dominated by GO terms related to zinc metabolism (zinc import, intracellular zinc ion homeostasis, detoxification of zinc) suggesting a core function in zinc transport/regulation. Additionally, immune-related terms (defense response to virus, positive regulation of T cell proliferation) and autophagy regulation imply zinc\u2019s role in immune signaling and antiviral processes, providing a coherent theme that ties these proteins together. Some terms (limb development, negative regulation of myelination) are less clearly connected but may reflect broader expression contexts; overall the zinc- and immune-related functions appear to be the defining link.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010508","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0031642","count":2},{"id":"GO:0060173","count":2}]},{"hash":"515766424519125452","title":"Transcription and Chromatin Regulation","description":"The cluster\u2019s top GO terms center on DNA-templated transcription, mRNA processing, and histone methylation, indicating regulation of gene expression at chromatin and RNA levels. Additional terms (ribosome biogenesis, centrosome cycle) reflect broader cellular growth/division processes that can tie into development, supporting a cohesive theme of transcriptional control and chromatin modification.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2}]},{"hash":"1493834175103835725","title":"Cell Cycle and Endosomal-Autophagy Regulators","description":"The dominant GO terms point to cell cycle control (mitotic exit, division, and overall cell cycle) alongside vesicle trafficking and autophagy processes (multivesicular body assembly/sorting and autophagosome regulation), suggesting proteins that coordinate mitosis with endosomal/lysosomal pathways. Some terms related to development (hippocampus, ossification) may reflect broader annotations rather than core cluster function.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010458","count":4},{"id":"GO:1902902","count":4},{"id":"GO:0071985","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":4}]},{"hash":"1053984751538131796","title":"Wnt-driven neural development and barrier formation","description":"This cluster centers on proteins involved in Wnt signaling (signalosome assembly and canonical pathway regulation) and neural development (substantia nigra development, synaptic plasticity, sensory processing). It also includes endothelial barrier and tight junction assembly terms, suggesting a link between neural development and barrier/junction formation. The combination points to a theme of Wnt-mediated neural development with concurrent regulation of cell junctions and barrier integrity.","confidence":"Medium","size":11,"edges":31,"triangles":28,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061028","count":7},{"id":"GO:0048169","count":7},{"id":"GO:0021762","count":7},{"id":"GO:0070830","count":7},{"id":"GO:1904887","count":6}]},{"hash":"1205004300718396431","title":"Post-transcriptional RNA processing and translation regulation","description":"The GO terms cluster around RNA-level regulation: splicing control (both positive and negative), mRNA stability during stress, poly(A) tail shortening, and silencing by miRNA and regulatory ncRNAs, plus initiation and reinitiation of translation. These together indicate a coherent post-transcriptional gene expression control cluster.","confidence":"High","size":11,"edges":15,"triangles":8,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048025","count":9},{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0035278","count":7}]},{"hash":"1918994766287443413","title":"Cell signaling and cytoskeletal remodeling at junctions","description":"The cluster centers on diverse intercellular signaling pathways (Wnt, EGFR, ephrin, T cell receptor) alongside cytoskeletal dynamics (actin branching, small GTPases) and adhesion/synapse-related processes (podosome and tight junction assembly, synaptic plasticity), suggesting a unified role in coordinating signal transduction with actin remodeling at cell\u2013cell contacts.","confidence":"Medium","size":11,"edges":17,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":10},{"id":"GO:0043552","count":10},{"id":"GO:0048013","count":10},{"id":"GO:0090135","count":10},{"id":"GO:0007173","count":10}]},{"hash":"162990083948127686","title":"Embryonic morphogenesis & cell adhesion","description":"This cluster centers on developmental processes (gastrulation, epiboly, tissue differentiation, organ/pattern formation) and adhesion-related activities (hemidesmosomes, cell spreading, heterophilic adhesion), suggesting a theme of embryonic morphogenesis with cell\u2013cell and substrate adhesion components.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010043","count":2},{"id":"GO:0033564","count":2},{"id":"GO:0060445","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0035987","count":2}]},{"hash":"1568668705712023645","title":"Neuroimmune activation and glucocorticoid response","description":"The terms cluster around brain-immune interactions (astrocyte activation, neutrophil chemotaxis, chemokine production) and stress-related signaling (glucocorticoid response, memory, response to electrical stimulus), suggesting a module of neuroinflammation linked to hormonal stress signaling. Some general transcriptional regulation and protein complex assembly are present but not core to the theme.","confidence":"Medium","size":11,"edges":17,"triangles":8,"max_degree":10,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0051290","count":5},{"id":"GO:0007613","count":4},{"id":"GO:0051384","count":3},{"id":"GO:0051602","count":3}]},{"hash":"998886938277666603","title":"Ureteric Bud Branching Morphogenesis","description":"GO terms are dominated by branching and development of the ureteric bud and metanephros (kidney development), including ureteric bud formation, ureteric bud morphogenesis, and metanephros morphogenesis. A few terms touch broader developmental processes, but the strongest signal is kidney development via ureteric bud branching.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0090190","count":4},{"id":"GO:0030326","count":4},{"id":"GO:0035462","count":4},{"id":"GO:0060676","count":4}]},{"hash":"341506553572500848","title":"Chromatin regulation and cell-cycle control","description":"This cluster is dominated by nuclear processes: rDNA heterochromatin formation, peptidyl-lysine N6-acetylation (histone modification), and regulation of the cell cycle, including the centrosome cycle. These indicate a theme of chromatin dynamics linked to cell-cycle control, with angiogenesis, immune defense, and lipid metabolism appearing as peripheral associations. Confidence: Medium.","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0051726","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0007098","count":3}]},{"hash":"1113440292328999786","title":"Wnt-driven morphogenesis and bone development","description":"The top GO terms point to Wnt signaling (Wnt signalosome assembly), bone ossification, and morphogenesis of nerves, along with ERK cascade regulation and responses to mechanical stimuli, suggesting a cohesive theme of Wnt-mediated developmental signaling guiding skeletal and neural morphogenesis. Receptor trafficking aspects (endosome to Golgi) support signaling processes, while immune-related terms appear less central. Overall, the cluster seems to represent Wnt-associated morphogenesis and bone development pathways.","confidence":"Medium","size":11,"edges":19,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:1904887","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0043552","count":8},{"id":"GO:1905279","count":8}]},{"hash":"85007033926862162","title":"Developmental Signaling and Differentiation","description":"These proteins cluster around developmental and signaling roles, including heart development and fat cell differentiation, plus Wnt signaling and MAPK regulation, which are central to cell fate decisions. GPCR internalization and spindle organization add layers of receptor trafficking and cell division context that often accompany developmental programs. Overall, the set suggests a cohesive theme of developmental signaling and differentiation rather than a single, narrow function.","confidence":"Medium","size":11,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0045444","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0002031","count":4},{"id":"GO:0010070","count":4}]},{"hash":"1551009855699957707","title":"Acetylation of proteins and polyamines","description":"The cluster is driven by GO terms describing acetylation events, including multiple N-terminal peptidyl acetylations and various amino-acid acetylations, as well as acetylation of polyamines (putrescine, spermidine, spermine) and related protein modifications. This suggests a cohesive theme around acetylation processes affecting both proteins and small molecules, with occasional peripheral terms like angiogenesis or arginine biosynthesis not altering the central Acetylation signature.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":10},{"id":"GO:0045150","count":9},{"id":"GO:0001525","count":9},{"id":"GO:0032919","count":9},{"id":"GO:0006526","count":9}]},{"hash":"1141998671459215809","title":"Ciliogenesis and Ciliary Motility Regulation","description":"This cluster is dominated by GO terms for assembling non-motile cilia and regulating ciliary beat frequency, indicating a primary role in ciliogenesis and ciliomotility. Additional terms point to broader signaling contexts, but the core theme remains ciliogenesis/ motility.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048496","count":3},{"id":"GO:1905515","count":2},{"id":"GO:0006463","count":2},{"id":"GO:0016570","count":2},{"id":"GO:0070389","count":2}]},{"hash":"2251121526844500787","title":"Glycan biosynthesis and cell wall assembly","description":"The top GO terms are dominated by biosynthetic processes for surface glycans and envelope components, including UDP-N-acetylglucosamine and GDP-mannose biosynthesis, lipopolysaccharide and O antigen biosynthesis, and a related cell wall organization term. This indicates the cluster groups proteins involved in building glycan-based cell envelope structures and associated carbohydrate metabolism.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006048","count":4},{"id":"GO:0019255","count":4},{"id":"GO:0009298","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0019388","count":4}]},{"hash":"892163562396503390","title":"Proteoglycan biosynthesis and glycosaminoglycan metabolism","description":"The top GO terms cluster around proteoglycan biosynthesis and modification (heparan/heparin proteoglycans, dermatan/chondroitin sulfate) and related carbohydrate metabolism (N-acetylglucosamine) plus protein sulfation, indicating a cohesive theme of proteoglycan/GAG synthesis and processing, with supporting metabolic roles in xenobiotic/ethanol/bile acid pathways.","confidence":"High","size":11,"edges":38,"triangles":57,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006805","count":5},{"id":"GO:0015012","count":5},{"id":"GO:0030210","count":5},{"id":"GO:0030205","count":5},{"id":"GO:0006044","count":5}]},{"hash":"864668951658270037","title":"Glycosylation and glycosphingolipid biosynthesis","description":"The top GO terms converge on glycan metabolism and glycosphingolipid pathways: glycosylceramide metabolism, N-linked glycosylation, protein sialylation, ganglioside biosynthesis, and oligosaccharide metabolism. While pollen-related terms appear, the strongest thematic signal is carbohydrate/glycan biosynthesis and glycosphingolipid formation, suggesting this cluster centers on glycosylation processes. ","confidence":"High","size":11,"edges":14,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009846","count":3},{"id":"GO:0071699","count":3},{"id":"GO:0006677","count":3},{"id":"GO:0018279","count":3},{"id":"GO:0006054","count":3}]},{"hash":"2095232180707796126","title":"Neural synapse formation and junction organization","description":"The terms cluster around neural development and synapse formation, including dendritic spine morphogenesis, regulation of synapse structural plasticity, and signaling pathways (Wnt, Rho) that guide neuronal connectivity. They also point to cell-cell junction organization (adherens and tight junctions) and cochlear morphogenesis, suggesting a cohesive theme of neural tissue development and synaptic/junctional maturation. Some immune-related terms are present but appear secondary to the main neuronal development signal.","confidence":"Medium","size":11,"edges":18,"triangles":10,"max_degree":8,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070433","count":10},{"id":"GO:1903760","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0060997","count":9},{"id":"GO:0045075","count":9}]},{"hash":"318218641702424062","title":"Mitochondrial Calcium Signaling in Development","description":"GO terms show mitochondrial calcium import, assembly of complex IV, and regulation of mitochondrial calcium concentration, alongside several development-related terms (eye morphogenesis, lens differentiation, neural crest migration, corticospinal tract morphogenesis). This suggests a theme where mitochondrial calcium handling intersects with developmental morphogenesis, justifying the label. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0051561","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0061635","count":1}]},{"hash":"347249364303435844","title":"Unknown","description":"The top GO terms cover ubiquitin-dependent protein catabolic processes, development (somitogenesis/somite development and hematopoietic progenitor differentiation), and multiple membrane transport activities, which do not converge on a single coherent function for the cluster. This diversity makes it hard to assign a specific, representative label, so I\u2019m marking it Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0001756","count":2},{"id":"GO:0061053","count":2},{"id":"GO:0002244","count":2}]},{"hash":"821369531268496295","title":"Unknown","description":"Top terms span inflammatory response, multi-tissue development (kidney, lung, ovary, nipple), and diverse signaling processes (acetylcholine metabolism, adenylate cyclase activation, IP3 biosynthesis) as well as photoreceptor maintenance. The terms do not point to a single cohesive function or pathway, indicating no clear common theme for this cluster. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":4},{"id":"GO:0072224","count":3},{"id":"GO:0060408","count":3},{"id":"GO:0007190","count":3},{"id":"GO:0060427","count":3}]},{"hash":"180272880467884533","title":"Unknown","description":"The top GO terms span bone remodeling, development across tissues (lung, oligodendrocyte), lipid metabolism and triglyceride storage, adipocyte differentiation, and cell adhesion, without a single clear unifying function. This diversity makes a cohesive, specific label difficult to justify.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046849","count":3},{"id":"GO:0030324","count":2},{"id":"GO:0010811","count":2},{"id":"GO:1903165","count":2},{"id":"GO:0044849","count":2}]},{"hash":"1229107045210112673","title":"Rho GTPase\u2013driven actin remodeling in development","description":"Based on the top GO terms, the cluster is enriched for Rho protein signal transduction regulation, actin cytoskeleton organization, and GTPase activation, which point to coordinated cytoskeletal remodeling controlled by Rho-family GTPases. The presence of development-related terms (heart and spinal cord development) suggests these proteins function in developmental contexts where cytoskeletal dynamics are critical, supporting a cohesive role in signaling-to-structure remodeling during development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0090630","count":3}]},{"hash":"269667104179229668","title":"TLR-driven innate immune signaling","description":"The cluster is centered on innate immune sensing and inflammation: multiple terms for TLR2/4 signaling, LPS-mediated signaling, dsRNA response, chemokine production, inflammatory and defense responses, and Gram-positive bacterial defense. Some terms like auditory receptor development and mechanical stimulus response are less directly related, but overall the dominant theme is Toll-like receptor\u2013mediated immune activation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0050830","count":2}]},{"hash":"992224049387093956","title":"Dopaminergic Neural Signaling and Behavioral Response","description":"Terms cluster around neural signaling and behavior: dopaminergic synaptic transmission, cocaine response, visual perception/learning, and ERK signaling. This points to a dopamine-centered neural pathway governing sensory processing and drug-related behavior. Some immune/vascular terms are present but likely peripheral to the core theme.","confidence":"Medium","size":10,"edges":31,"triangles":48,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0008542","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071380","count":8},{"id":"GO:0007601","count":8}]},{"hash":"2131745034689620581","title":"Cerebellar development and axonogenesis","description":"The top GO terms cluster around cerebellar-specific development and neurite growth, including cerebellar cortex formation, axonogenesis/axon regeneration, and Bergmann glial cell differentiation, suggesting proteins involved in cerebellar neuron development and cerebellar glia maturation; other signals like insulin signaling and T cell receptor pathways may reflect broader regulatory roles. ","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021697","count":6},{"id":"GO:0048679","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0008285","count":6}]},{"hash":"1770994098610279025","title":"Granulocyte and macrophage differentiation","description":"The strongest terms in the cluster are granulocyte differentiation and macrophage differentiation, suggesting a core theme of myeloid cell development. There are also signals of innate immune activation (response to lipopolysaccharide) and some transcriptional regulation, but the dominant pattern points to myeloid lineage differentiation. Other terms (Wnt signaling, lens morphogenesis, postsynaptic density) appear at lower frequencies and do not strongly redefine the main group, so the label centers on granulocyte/macrophage differentiation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030851","count":4},{"id":"GO:0030225","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0016055","count":2}]},{"hash":"1937013844291571927","title":"Neural development and mitochondrial regulation","description":"The top GO term is neuron projection development, and several other terms point to mitochondrial function (protein import into mitochondrial matrix, regulation of mitochondrial membrane permeability) as well as cell cycle control (exit from mitosis, spindle assembly in meiosis). This pattern suggests a theme where mitochondrial processes support neural development and associated cell cycle events, with some general regulatory terms. ","confidence":"Medium","size":10,"edges":12,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0010867","count":2},{"id":"GO:2000134","count":2},{"id":"GO:0046902","count":2},{"id":"GO:0070940","count":2}]},{"hash":"1701864541906287748","title":"Immune signaling and junction dynamics","description":"The top GO terms point to immune regulation (B cell homeostasis, T cell costimulation, T cell apoptotic process) and leukocyte movement (monocyte chemotaxis), alongside cell-cell junction and cytoskeletal assembly (bicellular/apical junctions, filopodium). This suggests a cluster of proteins involved in immune signaling coupled with regulation of cell\u2013cell contacts and adhesion during leukocyte trafficking and tissue interactions.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001782","count":3},{"id":"GO:0035900","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0002548","count":2}]},{"hash":"1046562127093914194","title":"Epigenetic transcriptional regulation in osteoblasts","description":"Top GO terms point to transcription control and chromatin state (DNA-templated transcription, negative regulation of miRNA transcription, peptidyl-lysine deacetylation, heterochromatin maintenance, and nucleosome density). The presence of osteoblast development and TGF-beta/SMAD signaling terms suggests participation in osteoblast differentiation. Together, these terms imply an epigenetic transcriptional regulatory module relevant to bone formation.","confidence":"High","size":10,"edges":19,"triangles":12,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:1902894","count":7},{"id":"GO:0002076","count":5},{"id":"GO:0000183","count":5},{"id":"GO:0060303","count":5}]},{"hash":"343938886872281738","title":"TGF-\u03b2/BMP-Driven Development","description":"The proteins appear linked to TGF-\u03b2/BMP signaling and its downstream regulation, with involvement in neural crest and chondrocyte differentiation, palatal and sebaceous gland development, and organ morphogenesis such as kidney branching and cardiac EMT. This suggests a cohesive theme of developmental control and tissue differentiation orchestrated by TGF-\u03b2/BMP pathways and their regulatory networks across multiple lineages. ","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0002062","count":4},{"id":"GO:0030512","count":3},{"id":"GO:0010991","count":3}]},{"hash":"490915295954376718","title":"Stress-related translational regulation","description":"Most terms point to translation and its regulation (translation, initiation, termination, positive regulation of cytoplasmic translation, and selenocysteine incorporation). A secondary signal is stress-related response (response to antibiotic/toxic substance), suggesting these proteins function in adjusting translation under stress. The cluster thus reflects translation control in stress contexts.","confidence":"High","size":10,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0014009","count":2},{"id":"GO:2000767","count":2},{"id":"GO:0001514","count":2},{"id":"GO:0006413","count":2}]},{"hash":"36196510231519076","title":"Ribosome Biogenesis & Translation","description":"The cluster is dominated by ribosome-related processes (biogenesis of both ribosomal subunits, export of large subunit, and overall translation including cytoplasmic translation), indicating proteins involved in ribosome assembly and protein synthesis. Other terms related to cell growth and differentiation accompany this core theme, but the strongest signal is the ribosome machinery and translation pathway. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0048515","count":2},{"id":"GO:0090529","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1655232420324880554","title":"Proteostasis and Stress Response","description":"Most terms indicate stress response and proteostasis: heat acclimation, protein unfolding/refolding (chaperone-dependent), stress granule disassembly, and photosystem II repair under stress. A few terms touch on vesicle transport or chromatin assembly, which are less central, but the dominant signal points to maintaining protein function under stress across compartments.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070370","count":1},{"id":"GO:0048219","count":1},{"id":"GO:1990171","count":1},{"id":"GO:0061641","count":1},{"id":"GO:0070389","count":1}]},{"hash":"914010022638936574","title":"Developmental signaling and morphogenesis","description":"This cluster centers on developmental processes and signaling cascades that drive tissue morphogenesis. The top GO terms include placenta development and outer ear morphogenesis (developmental organogenesis), along with signaling pathways such as Wnt, JNK, and FGFR-related apoptotic signaling, and ER stress\u2013induced apoptosis. Although one term mentions behavioral pain, most signals point to embryonic development and organogenesis with stress-responsive signaling, suggesting proteins that coordinate growth, patterning, and cell fate during development.","confidence":"Medium","size":10,"edges":28,"triangles":33,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032298","count":10},{"id":"GO:0060258","count":10},{"id":"GO:0061368","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0043552","count":10}]},{"hash":"1922504280340397625","title":"Developmental actin cytoskeleton dynamics","description":"The proteins cluster around actin-related processes: actin filament bundle assembly and regulation of actin filament depolymerization, plus cell-matrix adhesion, all of which are key to morphogenesis and tissue organization. The presence of development-oriented terms across organisms (insect eclosion, plant ovule morphogenesis, neuronal differentiation) supports a theme of actin-driven remodeling during development, though a few immune or obsolete terms may reflect broader annotations. Overall, the label reflects actin dynamics guiding development and adhesion.","confidence":"Medium","size":10,"edges":37,"triangles":67,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045805","count":9},{"id":"GO:0010735","count":9},{"id":"GO:0007160","count":9},{"id":"GO:0050859","count":9},{"id":"GO:0008585","count":9}]},{"hash":"547300507477352862","title":"Glucocorticoid-responsive anti-inflammatory and tissue regeneration","description":"The top GO terms indicate a glucocorticoid-stimulated program that dampens inflammation (negative regulation of inflammatory processes, MCP-1, NO synthase regulation), modulates prostaglandin biosynthesis, and engages stress and detox pathways (oxidant detoxification), while also relating to cell\u2013matrix adhesion and organ regeneration. Together, these terms suggest a coherent cluster centered on glucocorticoid-driven anti-inflammatory signaling linked to tissue remodeling and regeneration.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0001516","count":7},{"id":"GO:0071638","count":6},{"id":"GO:0071672","count":6},{"id":"GO:0051771","count":6}]},{"hash":"408094126072975365","title":"Embryonic brain and eye morphogenesis","description":"This cluster is dominated by GO terms tied to embryonic neural and ocular development (neuron migration, forebrain development, camera-type eye development, embryonic eye morphogenesis) and head/skull formation (cranial skeleton morphogenesis, osteoblast development), with related endocrine and somitogenesis processes. The shared theme is embryonic development of brain, eye, and head structures, suggesting a neuro-ocular craniofacial development cluster.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001764","count":7},{"id":"GO:0043524","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0002076","count":6}]},{"hash":"1528985366530106549","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms are translation and ribosome-associated processes (translation, maturation of SSU/LSU rRNA, ribosome biogenesis, translation initiation), indicating a cluster of proteins involved in ribosome assembly and protein synthesis, with some secondary links to ubiquitin-mediated regulation of proteostasis.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0000462","count":4},{"id":"GO:0006413","count":2},{"id":"GO:0050821","count":2},{"id":"GO:1904667","count":2}]},{"hash":"1967446513497345398","title":"Embryonic Patterning and Morphogenesis","description":"This cluster is largely defined by GO terms tied to early development and tissue patterning (somite axis specification, neural plate morphogenesis, mesoderm migration) along with processes about cell polarity and membrane localization (apical protein localization, polarity establishment, plasma membrane localization). While a few terms touch on immune or synaptic organization, the dominant theme centers on embryonic development and spatial organization of cells. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032525","count":3},{"id":"GO:0002315","count":3},{"id":"GO:0045176","count":3},{"id":"GO:0001839","count":2},{"id":"GO:2000114","count":2}]},{"hash":"337060988537991485","title":"Epigenetic regulation and RNA processing","description":"This cluster centers on chromatin-related control (histone modification) and transcription regulation, with supporting RNA metabolism terms (mRNA processing, mRNA tail shortening, tRNA processing) and mRNA processing body assembly\u2014reflecting a gene-expression regulatory theme. A few DNA-related terms are present, but the dominant signal is epigenetic regulation plus RNA processing.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0010606","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000289","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1031239296762479037","title":"ER-Golgi transport and Golgi organization","description":"Dominant terms are ER to Golgi vesicle-mediated transport and Golgi to ER retrograde transport, with additional signals for Golgi ribbon formation and regulation of GTPase activity, all pointing to a core role in the secretory pathway and Golgi architecture. Although there are some nucleosome assembly and histone methylation terms present, they appear less central to the cluster\u2019s main function, so the label emphasizes vesicle trafficking and Golgi organization as the representative theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006890","count":3},{"id":"GO:0090398","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0080182","count":2}]},{"hash":"1679634927958556806","title":"NOD1/2 Signaling and NF-kB Regulation","description":"Top GO terms indicate innate immune signaling via NOD1/2 pathways, with negative regulation of NF-kB transcription factor activity and involvement of protein ubiquitination. Additional terms related to mechanosensing and calcium import suggest broader regulatory connections or annotation noise, but the central theme appears to be NOD1/2\u2013NF-kB signaling and its ubiquitin-mediated control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0016567","count":4},{"id":"GO:1904743","count":3},{"id":"GO:0048709","count":3},{"id":"GO:0070431","count":3}]},{"hash":"1547433340266578729","title":"JNK-Mediated Innate Immune Signaling","description":"A cluster dominated by innate immune terms (innate immune response, defense against Gram-positive bacteria) and the JNK cascade points to MAPK-driven immune signaling. The inclusion of proteasomal ubiquitin-dependent protein catabolic process supports regulation of protein turnover during immune/stress responses. Some unrelated terms (photosynthesis, subtelomeric heterochromatin formation, DNA replication) may be background annotations or cross-species noise, but the core signals align with immune signaling and stress response.","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007254","count":2},{"id":"GO:0032436","count":2}]},{"hash":"2048595858138911272","title":"Innate immune signaling and neural development","description":"The top GO terms center on innate immune response and defense against Gram-positive bacteria, with key signaling pathways NF-kappaB, JNK, and ERK also enriched. Although there are neural development terms (axonogenesis, excitatory postsynaptic potential), they can be connected to signaling contexts where immune and developmental pathways intersect. A label emphasizing innate immune signaling with neural development captures the core theme, with proliferation-related terms likely reflecting broader cellular growth processes. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0050830","count":4}]},{"hash":"2270432851482765258","title":"Developmental transcription regulation and hormone signaling","description":"The cluster centers on transcriptional control (DNA-templated transcription and negative regulation of transcription) and includes multiple developmental/hormonal processes (Leydig cell differentiation, mammary gland alveolus development, lactation, and insulin signaling), with additional but broader associations to cell cycle regulation and environmental responses (G2/M transition, magnesium ion response). This suggests a general theme of transcriptional regulation coordinating development and hormonal signaling rather than a single specific pathway.","confidence":"Medium","size":10,"edges":17,"triangles":8,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0032026","count":7},{"id":"GO:0033327","count":6},{"id":"GO:0046626","count":6},{"id":"GO:0060749","count":6}]},{"hash":"376202417165326674","title":"Synapse organization and mitochondrial function","description":"These proteins cluster around synaptic organization: dendritic spine morphogenesis and NMDA receptor clustering point to synapse formation and maintenance, while mitochondrial translation and complex IV assembly reflect the energy and metabolism supporting synaptic activity. Additional terms (Wnt and Rho signaling) relate to cytoskeletal remodeling and signaling needed for synapse maturation, and lysosome localization hints at protein trafficking and turnover. Overall, a neuronal synapse\u2013mitochondria theme best explains the set.","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060124","count":2},{"id":"GO:0070131","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0001771","count":1},{"id":"GO:1903760","count":1}]},{"hash":"1243058326303660813","title":"Vesicle trafficking and membrane signaling regulation","description":"The terms cluster around regulation of vesicle trafficking (exocytosis, endosome-to-Golgi transport, membrane addition during cytokinesis) and membrane-associated signaling (Wnt signalosome assembly and positive regulation of canonical Wnt), suggesting a theme of proteins coordinating vesicle dynamics and signaling at the cell membrane, with ancillary tissue-context terms reflecting membrane functions.","confidence":"Medium","size":10,"edges":21,"triangles":9,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":10},{"id":"GO:0031384","count":10},{"id":"GO:0010796","count":10},{"id":"GO:1904887","count":9},{"id":"GO:0050975","count":9}]},{"hash":"1487253287441101966","title":"Neural differentiation and synaptic signaling","description":"This cluster is enriched for neural development and synaptic activity terms such as astrocyte differentiation, axonogenesis, and long-term potentiation, suggesting a core theme of neural differentiation and synaptic regulation; the presence of NF-kappaB signaling and glucocorticoid response indicates modulation by stress and immune signaling in neural contexts, while hypoxia response and heart contraction regulation reflect broader stress-related signaling that can intersect neural function.","confidence":"High","size":10,"edges":14,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0048708","count":3}]},{"hash":"1095187622202574857","title":"DNA Replication and Damage Tolerance","description":"Top GO signals point to DNA replication (GO:0006260) and both error-prone (GO:0042276) and error-free (GO:0070987) translesion synthesis, indicating a focus on DNA damage tolerance during replication. While some terms (e.g., ascospore formation, vascular morphogenesis, mevalonate pathway) seem unrelated and may reflect annotation noise, the dominant pattern among these proteins is involvement in replication-associated DNA damage response and tolerance.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051533","count":2},{"id":"GO:0042276","count":2},{"id":"GO:0042769","count":2}]},{"hash":"1372609441988997180","title":"Neural development and signaling","description":"The top GO terms cluster around neural development and function: dendrite morphogenesis, sensory perception of pain, multicellular organism development, and regulation of Rho/Ras signaling, which tie to neuronal differentiation and cytoskeletal dynamics. Potassium ion transport adds a connection to neuronal excitability. Although one term is obsolete, the predominant theme is neural development and signaling, so this label captures the cluster's core quickly.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043552","count":10},{"id":"GO:0048813","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0006813","count":10},{"id":"GO:0006351","count":10}]},{"hash":"2286572045298714618","title":"Wnt Signaling with Membrane Trafficking","description":"The top GO terms clearly emphasize Wnt pathway components: Wnt signalosome assembly and positive regulation of canonical Wnt signaling. This suggests a core Wnt signaling module. The other terms point to membrane-related processes (endosome-to-Golgi transport, ER-mitochondria tethering, and membrane dynamics at cytokinesis) that could modulate signaling or trafficking, as well as a potential link to endothelial barrier function. A few terms (touch perception, Fc-gamma receptor signaling) are less directly connected, but the dominant theme centers on Wnt signaling in conjunction with membrane trafficking.","confidence":"Medium","size":10,"edges":14,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904887","count":10},{"id":"GO:0050975","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0061028","count":10},{"id":"GO:0043552","count":10}]},{"hash":"821618463760675655","title":"Embryonic tissue morphogenesis and organ development","description":"The top GO terms span development and morphogenesis across diverse tissues\u2014cartilage, neural crest, brain segmentation, parasympathetic and pancreatic development, and digestive tract morphogenesis\u2014along with epithelial maturation. This suggests a broad, multi-tissue organogenesis theme rather than a single tissue-specific function, with ceramide biosynthesis likely supporting membrane remodeling during differentiation. ","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":10},{"id":"GO:0090190","count":10},{"id":"GO:0001755","count":10},{"id":"GO:1904081","count":10},{"id":"GO:0035284","count":10}]},{"hash":"1625045790036476139","title":"Protein acetylation and polyamine metabolism","description":"The top terms are dominated by acetylation processes, including N-terminal acetylation, peptidyl-lysine acetylation, and various polyamine acetylations (putrescine, spermidine, spermine). While there are a couple outliers (subtelomeric heterochromatin formation, angiogenesis, arginine biosynthesis), the common theme is acetylation-based post-translational modifications and polyamine modification/metabolism.","confidence":"High","size":10,"edges":36,"triangles":77,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":9},{"id":"GO:0045150","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0032919","count":8},{"id":"GO:0006526","count":8}]},{"hash":"1172779807754674920","title":"GPCR-cAMP Signaling and Neuromodulation","description":"The top terms cluster around activation of adenylate cyclase and GPCR signaling (GO:0007190, GO:0010579), including responses to prostaglandin D and regulation of dopamine signaling, which together point to cAMP-mediated GPCR pathways involved in neural modulation. Additional terms like eosinophil chemotaxis and viral release hint at broader or multifunctional roles, but the dominant theme across the cluster is GPCR-driven adenylate cyclase activation and downstream signaling. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0071799","count":6}]},{"hash":"1353244457207489106","title":"Mitotic and Meiotic Cell Division","description":"The top GO terms cluster around mitosis and meiosis\u2014mitotic cell cycle, exit from mitosis, cell division, spindle assembly in female meiosis, division septum assembly, and spermatogenesis\u2014indicating a suite of proteins involved in chromosome segregation and cytokinesis. A stray term on bacterial division is present but does not outweigh the overarching theme of cell-division machinery.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010458","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0030011","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4}]},{"hash":"571655463642030571","title":"Synaptic organization and neural development","description":"The top GO terms point to synapse assembly and regulation of synaptic components (e.g., PSD-95 clustering and vesicle clustering) and broader neural development processes like corticospinal tract morphogenesis, suggesting these proteins collectively participate in synaptic organization and neural maturation. While there are a few terms from other biological contexts (hair orientation, endothelial barrier, nephron differentiation), the strongest signal is focused on neuronal synapses and their development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048105","count":10},{"id":"GO:0021957","count":10},{"id":"GO:0007416","count":10},{"id":"GO:0060243","count":10},{"id":"GO:1903142","count":10}]},{"hash":"2032984450500167777","title":"Actin cytoskeleton remodeling and endocytosis","description":"The cluster is characterized by GO terms centered on actin cytoskeleton dynamics and membrane trafficking: regulation of Rho signaling, microspike formation, actin crosslinking, and cortical patch localization, along with endocytosis, cell adhesion, and cell polarity maintenance. Together these indicate a group of proteins coordinating actin remodeling, membrane organization, and endocytic processes. A couple of terms relate to signaling or translation that may be peripheral to the core theme.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0006897","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0051764","count":3}]},{"hash":"1851589276424506897","title":"Adherens and Tight Junction Assembly","description":"This cluster is dominated by GO terms related to the formation and organization of cell-cell junctions, especially adherens junctions and tight junctions (adherens junction, zonula adherens, bicellular tight junction). Immunological synapse formation aligns with specialized cell-contact interfaces, supporting a junction-centric theme. Some unrelated terms (e.g., cardiac action potential regulation, nucleotide biosynthesis) appear but do not override the core junction assembly signal. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001771","count":5},{"id":"GO:1903760","count":5},{"id":"GO:0098912","count":5},{"id":"GO:0071896","count":5},{"id":"GO:0070830","count":5}]},{"hash":"561213248616591947","title":"Nuclear Transport and Mitotic/Ciliary Assembly","description":"This cluster centers on nuclear import (nuclear localization signals, ribosomal protein import), nuclear pore complex and nuclear envelope dynamics (assembly and reassembly during mitosis), and mitotic/ciliary structural processes (spindle elongation, basal body docking). The mix of nuclear transport and mitotic/ciliary assembly terms suggests a cohesive role in managing nuclear-cytoplasmic traffic and chromosome/ciliary architecture during cell division.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0051232","count":3},{"id":"GO:0007084","count":3}]},{"hash":"57018387949653595","title":"mRNA Splicing and Translation Regulation","description":"These proteins cluster around post-transcriptional control: spliceosome-mediated mRNA processing (cis/spliceosome and alternative splicing regulation), mRNA stability and poly(A) tail regulation, miRNA-mediated translational silencing, and assembly of the translation initiation machinery (eIF4F) with translation reinitiation. This combination suggests a cohesive module governing mRNA maturation and translation control.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0035278","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0060211","count":4}]},{"hash":"2005372731913861112","title":"Innate and adaptive immune signaling","description":"The top terms cluster around innate NOD2 signaling, inflammatory response, B cell receptor signaling, and germinal center formation, indicating coordinated innate and adaptive immune activation. Some terms appear as plant-related or non-immune annotations, which are likely noise, but the dominant theme is immune signaling and inflammation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0009934","count":2},{"id":"GO:0014904","count":2}]},{"hash":"1021305371222754801","title":"Cartilage ECM and Integrin Signaling","description":"The cluster is enriched for extracellular matrix-related processes (collagen biosynthesis, collagen fibril organization), cell-matrix and cell-cell adhesion via integrins, and signaling pathways (BMP response, VEGF signaling) relevant to cartilage development and ECM remodeling, with a note on regulation of chondrocyte differentiation. This cohesive set suggests a core function in ECM assembly and integrin-mediated signaling in cartilage.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033631","count":3},{"id":"GO:0032964","count":3},{"id":"GO:0001953","count":3},{"id":"GO:0030199","count":3},{"id":"GO:1900748","count":3}]},{"hash":"2145672506236318269","title":"Membrane remodeling and GTPase signaling","description":"This cluster centers on membrane dynamics and signaling: ascospore-type prospore membrane formation and plasma membrane tubulation indicate membrane remodeling; sterol biosynthetic process links to membrane composition; regulation of GTPase activity and regulation of Rho protein signal transduction relate to trafficking and cytoskeletal control; other terms like nitrite transport and thrombin-activated receptor signaling are peripheral.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0032120","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0016126","count":2}]},{"hash":"2229130297577821791","title":"Downregulation of inflammatory cytokine production","description":"These proteins show recurring GO terms focused on negative regulation of inflammatory cytokines (TNF, IL-6, IL-1\u03b2) and related inflammatory responses, suggesting a cohesive role in dampening inflammation. Additional signals point to stress-related regulation (ROS metabolism, arsenite response) and other regulatory layers, but the strongest pattern is suppression of cytokine production. Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042307","count":2},{"id":"GO:1903936","count":2},{"id":"GO:0045019","count":2},{"id":"GO:1903799","count":2},{"id":"GO:0010595","count":2}]},{"hash":"1304645273617100287","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0071042","count":2},{"id":"GO:0000467","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0016973","count":2}]},{"hash":"892785600645858993","title":"Insulin signaling and cell migration","description":"The cluster is dominated by insulin receptor signaling (GO:0008286) and cell migration (GO:0016477), with related signaling through Rho and PI3K pathways (GO:0035023; GO:0043552). Multiple members are linked to cytoskeletal dynamics and movement (e.g., Rho signaling, smooth muscle migration), suggesting a cohesive theme around insulin-driven signaling promoting cellular motility. A few terms are more developmental or tissue-specific (thymus development, anterior/posterior pattern specification, brood size regulation, grooming behavior), which may reflect broader or pleiotropic roles of the proteins rather than a single functional module, but do not override the central migration/insulin signaling motif. ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":8},{"id":"GO:0035023","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0009952","count":7}]},{"hash":"407725763631082318","title":"MAPK and PI3K signaling regulators","description":"This cluster shows a concentration of GO terms describing positive regulation of the ERK/MAPK cascade and PI3K/AKT signaling, alongside terms related to proliferation, migration, and differentiation (osteoblasts, smooth muscle, fibroblasts). The common thread is up-regulation of key signaling pathways that drive cell growth and development, rather than a single molecular function, so a label capturing signaling regulation of growth fits best.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0043491","count":4},{"id":"GO:0048661","count":3},{"id":"GO:0010763","count":3},{"id":"GO:0045669","count":3}]},{"hash":"1182323754768518710","title":"Synaptic vesicle exocytosis and plasticity","description":"The set is dominated by GO terms tied to synaptic function: exocytosis of synaptic vesicles, calcium-dependent signaling, and long-term potentiation, along with receptor recycling. These point to proteins involved in neurotransmitter release and synaptic strength changes, with ancillary signals related to neuronal stress and growth factor responses.","confidence":"High","size":9,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0043154","count":2}]},{"hash":"1025093106331480824","title":"Nuclear transcription and DNA replication control","description":"The top GO terms center on DNA-templated transcription and DNA replication, with additional regulation of nuclear export and replication initiation, indicating a module of nuclear gene expression and cell-cycle processes. Some brain-development terms (hippocampus and cerebral cortex development) likely reflect tissue-specific contexts rather than defining function, but the core theme remains nuclear gene regulation and replication control.","confidence":"Medium","size":9,"edges":27,"triangles":39,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0046827","count":5},{"id":"GO:0021766","count":4},{"id":"GO:0034446","count":4}]},{"hash":"1088566625791626002","title":"Unknown","description":"The top terms cover a wide range of distinct biological processes (fungal sporulation, vascular development, chromatin regulation, metabolism, calcium signaling, cell cycle, cardiac and lung development, T cell homeostasis), with no clear shared function tying the proteins together. This makes a single coherent label unreliable.","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030437","count":8},{"id":"GO:0001569","count":8},{"id":"GO:0035562","count":8},{"id":"GO:1900486","count":8},{"id":"GO:0060316","count":8}]},{"hash":"111197307154524900","title":"SNARE-mediated synaptic vesicle exocytosis","description":"The cluster mixes GO terms for SNARE complex assembly, vesicle fusion, and exocytic insertion of neurotransmitter receptors with numerous Golgi/vesicle trafficking terms, plus spontaneous neurotransmitter secretion and synaptic potentiation. This points to proteins involved in packaging, trafficking, and fusion of synaptic vesicles to release neurotransmitters at the synapse, anchored by Golgi- and SNARE-mediated processes.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":3},{"id":"GO:0098967","count":3},{"id":"GO:0035493","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0006888","count":2}]},{"hash":"1734393879021540217","title":"Synaptic endocytosis and vesicle recycling","description":"The top GO terms are centered on endocytic processes and vesicle trafficking, including endocytic recycling, GPCR internalization, and synaptic vesicle budding from presynaptic endocytic zones. This points to a coherent theme of vesicle trafficking at synapses, with additional signals related to neuronal and neuromuscular activity (locomotion and muscle response) that fit the broader functional context. ","confidence":"High","size":9,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:2001137","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0032456","count":2},{"id":"GO:0016185","count":2}]},{"hash":"447581073674754750","title":"Cerebellar development and glial differentiation","description":"The terms highlight cerebellar cortex formation, Bergmann glial cell differentiation, and dendritic spine morphogenesis, indicating coordinated neuronal and glial maturation in the cerebellum. Additional terms on axon regeneration and cell proliferation regulation fit into developmental remodeling common in cerebellar circuits, while more general terms like protein dephosphorylation and TLR signaling are secondary. Overall, the cluster reflects cerebellar neural development with glial involvement.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014850","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0030948","count":3},{"id":"GO:0021697","count":3}]},{"hash":"404302134309569301","title":"Bacterial catabolic metabolism and xenobiotic response","description":"The top GO terms point to multiple small-molecule catabolic pathways (phenylacetate, propylene, acetoin) and antibiotic biosynthesis, along with redox homeostasis and xenobiotic response, indicating a metabolism- and detox-centric bacterial module. Sodium transport and fatty acid biosynthesis further support energy metabolism and membrane-associated processes; translation is a general baseline function but does not override the dominant metabolic theme.","confidence":"Medium","size":9,"edges":29,"triangles":48,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1618791987726052749","title":"Hematopoietic and Immune Differentiation","description":"The top GO terms cluster around blood/immune cell development and signaling (embryonic hematopoiesis, eosinophil fate commitment, megakaryocyte differentiation, thymic T cell selection, and type II interferon production), suggesting a common theme of hematopoietic-immune lineage differentiation. Some terms are broader developmental processes, but the dominant signal is immune-hematopoietic differentiation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045654","count":7},{"id":"GO:0072643","count":7},{"id":"GO:0035854","count":7},{"id":"GO:2000611","count":7},{"id":"GO:0060231","count":7}]},{"hash":"197369432865098775","title":"Calcium signaling in muscle contraction","description":"Enrichment is dominated by calcium handling and muscle activity: regulation of release of sequestered calcium, regulation of calcium-release channel activity (ryanodine receptor), and positive regulation of skeletal muscle contraction. Additional connections to mitochondrial membrane potential and oxidant detoxification, plus some secondary calcium-dependent processes in platelets and osteoblast differentiation, suggest a calcium-centered module coordinating muscle function and energy regulation.","confidence":"Medium","size":9,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009407","count":3},{"id":"GO:0009072","count":3},{"id":"GO:0051881","count":2},{"id":"GO:0014810","count":2},{"id":"GO:0051726","count":2}]},{"hash":"1787689932537605327","title":"Ubiquitin-dependent ER stress signaling","description":"The cluster\u2019s top GO terms strongly emphasize ubiquitination (autoubiquitination, polyubiquitination, ubiquitin-dependent proteasomal degradation) and ER stress\u2013related signaling (ERAD, ER stress\u2013induced apoptotic pathway), with supporting involvement in related growth signaling (EGFR, Hippo) and GTPase regulation. This points to a coherent theme of ubiquitin-regulated proteostasis linked to ER stress and downstream signaling, justifying a label centered on ubiquitin-dependent ER stress signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0046328","count":4},{"id":"GO:0051865","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070059","count":3}]},{"hash":"1391369883444349705","title":"ECM Remodeling and Collagen Catabolism","description":"The top GO terms cluster around extracellular matrix degradation and remodeling\u2014collagen catabolic process, basement membrane disassembly, and bone resorption\u2014indicating proteolytic remodeling of the ECM. While a couple terms touch on immune response or hormone signaling, the dominant signal is proteolysis-driven ECM remodeling. ","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001913","count":9},{"id":"GO:0010813","count":9},{"id":"GO:0051603","count":9},{"id":"GO:0045453","count":9},{"id":"GO:0034769","count":9}]},{"hash":"1298151239476526952","title":"Chromatin organization and histone modification","description":"The top GO terms are dominated by chromatin-related processes, including nucleosome assembly, heterochromatin organization, and establishment of protein localization to chromatin, as well as histone modifications such as H3-K27 trimethylation and H3-K4 trimethylation. A few terms mention defense responses and cytokine production, which may reflect broader regulatory links or annotation noise. Overall, the cluster appears to be centered on chromatin structure and histone modification rather than a single immune pathway.","confidence":"High","size":9,"edges":18,"triangles":13,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050832","count":3},{"id":"GO:0097298","count":2},{"id":"GO:0016584","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0070828","count":2}]},{"hash":"28350381449090794","title":"Mitotic cell cycle and cytoskeleton remodeling","description":"This cluster prominently features GO terms related to cell division and the mitotic cell cycle, alongside cytoskeleton and membrane-trafficking processes (Rho signaling, actin reorganization, endocytic recycling, endosome-to-lysosome transport, and cell polarity/shaping). The combination suggests a theme where cell division is coordinated with cytoskeletal dynamics and membrane trafficking.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1990126","count":2}]},{"hash":"775525428108409493","title":"RNA processing and translation regulation","description":"This cluster is driven by translation initiation and preinitiation complex formation terms, including viral IRES-dependent initiation and reinitiation, plus regulators of translation initiation and ribosome biogenesis. The presence of spliceosome-related mRNA splicing terms and poly(A) tail regulation suggests broader RNA processing involvement beyond translation. Overall, the proteins seem tied to RNA processing and control of translation.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0006446","count":4}]},{"hash":"1106270111943168683","title":"Unknown","description":"The top GO terms span diverse processes (gonad development, membrane potential maintenance, drinking behavior, hormone signaling, autophagy, digestion, xylan catabolic activity, membrane protein proteolysis, and protein turnover) with no clear single function tying them together. Because there isn\u2019t a coherent, shared biological theme across the cluster, a specific descriptive label is not justifiable beyond Unknown.","confidence":"","size":9,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0010248","count":3},{"id":"GO:0042756","count":2},{"id":"GO:0002003","count":2},{"id":"GO:0006914","count":2}]},{"hash":"1678965550660053112","title":"Sensory GPCR Signaling and Memory","description":"The GO terms cluster around GPCR signaling pathways (receptor guanylyl cyclase, adenylyl cyclase-activating, and adenosine receptor pathways), cGMP/cAMP second messengers, and sensory modalities (olfactory learning, blue light signaling), with memory-related processes (long-term memory, conditioned taste aversion) tying signaling to memory formation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008355","count":6},{"id":"GO:0070483","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0007168","count":6},{"id":"GO:0071880","count":6}]},{"hash":"1193343186690607636","title":"Fatty acid beta-oxidation","description":"Most of the high-frequency GO terms point to fatty acid catabolic processes (long-chain and medium-chain fatty acid catabolism) and beta-oxidation via acyl-CoA oxidase, indicating lipid energy metabolism as the main theme. A few terms (heart development, cold response) appear peripheral or context-specific, and some entries are obsolete, suggesting noise. Overall, the strongest common thread is fatty acid oxidation, so this label is representative. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006177","count":2},{"id":"GO:0009086","count":2},{"id":"GO:1904070","count":1},{"id":"GO:0046949","count":1}]},{"hash":"1128266953799118602","title":"Unknown","description":"The listed GO terms are highly diverse, spanning visual perception, memory, heart rate regulation, chromatin regulation, sporulation, cuticle development, proteolysis, membrane tubulation, and protein methylation. There is no single dominant function or pathway linking them, suggesting a mixed or noisy cluster without a coherent shared theme. Therefore, I cannot assign a more specific functional label beyond Unknown.","confidence":"","size":9,"edges":16,"triangles":12,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0006479","count":6},{"id":"GO:0030437","count":6},{"id":"GO:0001569","count":6},{"id":"GO:0007616","count":6}]},{"hash":"1786567314391414571","title":"Intracellular transport and stress signaling","description":"The GO terms point to nucleocytoplasmic transport (NLS-bearing protein import into nucleus; mRNA transport), organelle dynamics (mitochondrial calcium regulation; vacuole fusion), and signaling/modification processes (GTPase activity, protein methylation, apoptosis regulation) with responses to xenobiotic stress. Together, they suggest a cluster centered on intracellular transport and stress-response signaling rather than a single, cohesive pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0051561","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0051028","count":2}]},{"hash":"624592045961511231","title":"Neural axonogenesis and axon guidance","description":"The cluster is dominated by neural development terms, notably axonogenesis and corticospinal neuron axon guidance through the spinal cord, indicating a core theme of neuron growth and pathfinding. Other terms about signaling regulation and broader development are present but secondary to the neural axon guidance signal. ","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016525","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0019800","count":7},{"id":"GO:0006469","count":7},{"id":"GO:0060348","count":7}]},{"hash":"1609647276129092311","title":"Embryonic tissue morphogenesis","description":"This cluster centers on developmental and morphogenetic processes across multiple tissues, including cartilage development, neural crest cell migration, brain segmentation, parasympathetic nervous system development, endocrine pancreas development, and digestive tract morphogenesis. The recurrent GO terms point to embryonic tissue formation and organ morphogenesis, with ceramide biosynthesis potentially supporting lipid signaling in development. Confidence: High","confidence":"","size":9,"edges":33,"triangles":64,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051216","count":6},{"id":"GO:0090190","count":6},{"id":"GO:0001755","count":6},{"id":"GO:1904081","count":6},{"id":"GO:0035284","count":6}]},{"hash":"1895145013290459447","title":"DNA Damage Response and Ubiquitination","description":"The cluster centers on DNA repair processes (translesion synthesis and DSB processing) and ubiquitin-related regulation (neddylation, polyubiquitination, ER stress\u2013related apoptosis), suggesting a cohesive theme of DNA damage response coupled with protein homeostasis. Some terms also touch on meiotic chromosome dynamics, which can link to genome maintenance contexts, but the core signal remains DNA repair and ubiquitin-mediated regulation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042276","count":9},{"id":"GO:0071596","count":9},{"id":"GO:0000729","count":9},{"id":"GO:0045116","count":9},{"id":"GO:1902916","count":9}]},{"hash":"697939018254182414","title":"Immune Activation and Inflammatory Signaling","description":"This cluster heavily features immune-related responses: cellular responses to GM-CSF and LPS, neutrophil chemotaxis, T cell receptor signaling, and regulation of vascular permeability\u2014common hallmarks of inflammatory/immune signaling. The presence of DNA-templated transcription suggests concurrent gene-expression changes. Overall, the proteins appear to participate in rapid signaling and transcriptional programs driving innate/adaptive immune responses and inflammatory regulation.","confidence":"Medium","size":9,"edges":18,"triangles":8,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0019933","count":4}]},{"hash":"1817313256250533177","title":"Neurodevelopmental Transcriptional Regulation","description":"The top GO terms cluster around transcriptional control by RNA polymerase II and neural lineage specification (spinal cord motor neurons, interneurons, oligodendrocytes, subpallium), with additional cortex and organogenesis-related development (eye, pancreas, bronchioles). This points to a set of proteins involved in regulating gene expression during neural development, with some broader developmental roles.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0031018","count":5},{"id":"GO:0021892","count":5},{"id":"GO:0060435","count":5},{"id":"GO:0060163","count":5}]},{"hash":"1893932419117429385","title":"Ubiquitin-Dependent Proteostasis and TNF Signaling","description":"The cluster\u2019s top terms are dominated by ubiquitin-dependent ERAD and ubiquitin-mediated proteolysis, with additional links to TNF signaling and innate immune response. This points to proteins involved in ubiquitin-driven protein turnover that also regulate inflammatory signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0033209","count":2}]},{"hash":"427703949489357492","title":"mRNA splicing and post-transcriptional regulation","description":"The terms cluster around spliceosome-mediated mRNA processing (including splicing and alternative splicing) and post-transcriptional control such as mRNA stability and poly(A) tail regulation, with links to RNA silencing (miRNA/ncRNA) and translation initiation/reinitiation, pointing to a cohesive role in post-transcriptional gene regulation.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0045292","count":7},{"id":"GO:0035278","count":6},{"id":"GO:0060211","count":6}]},{"hash":"2171574665011919713","title":"RNA Splicing and Silencing Regulation","description":"This cluster is enriched for spliceosome-mediated mRNA splicing terms along with regulatory ncRNA- and miRNA-mediated gene silencing, plus translation initiation/reinitiation and mRNA stability control, indicating a coherent theme of post-transcriptional regulation at splicing, RNA stability, and translation.","confidence":"High","size":9,"edges":10,"triangles":4,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0035278","count":3}]},{"hash":"727323780897845532","title":"Neural development and synapse formation","description":"This cluster is dominated by terms tied to neural development and synapse assembly, including positive regulation of synapse formation, nervous system development, and cell\u2013cell adhesion, plus signaling pathways like ERK/MAPK and FGFR-related signaling. While an innate immune response term appears, the overall pattern points to neural connectivity and growth-factor\u2013mediated signaling as the core function. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0070374","count":5}]},{"hash":"2227822998178856861","title":"Unknown","description":"The terms span bone ossification, kidney development, xenobiotic and caffeine responses, opsin signaling, neural plasticity, cardiac hypertrophy regulation, pancreatic beta-cell apoptosis, and general cell proliferation. There is no single cohesive function or pathway tying these terms together, suggesting the cluster does not reflect a unified biological theme.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0035502","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0022400","count":2},{"id":"GO:1903244","count":2}]},{"hash":"1259440944713918820","title":"Multisystem Developmental Signaling","description":"The terms point to broad developmental processes across multiple tissues\u2014limb and kidney development, bone maturation, hedgehog signaling, and vascular regulation\u2014alongside neural-related functions (synaptic vesicle endocytosis, neurotransmitter secretion) and hypoxia response. This suggests a cluster of proteins involved in coordinated developmental signaling across organ systems rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":24,"triangles":22,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":7},{"id":"GO:0016525","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0001937","count":5},{"id":"GO:0060173","count":5}]},{"hash":"60779254692660298","title":"Circadian Regulation and Development","description":"This cluster shows enrichment for circadian-related terms (circadian regulation of gene expression; circadian temperature homeostasis) alongside a variety of developmental/differentiation roles (male gonad development, embryo implantation, Th17 cell differentiation, cerebellar granule cell precursor proliferation, cardiac muscle cell proliferation, lipoprotein transport). The mix suggests proteins that link circadian regulation with broader developmental processes, though the diverse set means the link is not extremely tight. ","confidence":"Medium","size":9,"edges":19,"triangles":15,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043433","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0021930","count":7},{"id":"GO:0032922","count":7},{"id":"GO:0072539","count":6}]},{"hash":"1317680608992750688","title":"Redox and xenobiotic stress response","description":"The top GO terms emphasize oxidation-reduction processes and responses to chemical stimuli, including xenobiotics, ethanol, and toxic substances, with a few reproductive terms appearing as less central outliers. This supports labeling the cluster as a chemical stress/redox response group.","confidence":"Medium","size":9,"edges":26,"triangles":35,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0045654","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0045471","count":3},{"id":"GO:0006212","count":3}]},{"hash":"1983670100654913885","title":"Innate and Adaptive Immune Activation","description":"The terms show strong enrichment for innate immune processes (innate immune response, complement activation, phagocytosis) and adaptive signaling (B cell activation, B cell receptor signaling), plus regulation of NK cell cytotoxicity and macrophage activation. Although a couple of terms relate to nervous system or cardiac cell adhesion, the overall theme centers on immune cell signaling and effector functions, justifying labeling as immune activation across innate and adaptive arms.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007422","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0050871","count":4},{"id":"GO:0006911","count":4}]},{"hash":"1267709240584409885","title":"Quinone biosynthesis and fatty acid catabolism","description":"The top terms cluster around biosynthesis of quinones (phylloquinone and menaquinone) and related antibiotic biosynthesis, coupled with fatty acid beta-oxidation and other catabolic processes (phenylacetate, L-valine). This suggests a metabolic module focused on quinone biosynthesis alongside lipid and amino-acid catabolism. A few represented terms (peroxisome autophagy, transport, angiogenesis) are low-frequency and less central, likely noise or distant associations. ","confidence":"Medium","size":9,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":8},{"id":"GO:0006635","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0017000","count":8},{"id":"GO:0010124","count":8}]},{"hash":"914092716059153093","title":"Rho GTPase signaling and developmental morphogenesis","description":"This cluster is enriched for terms related to regulation of GTPase activity (notably Rho), phosphatidylinositol-mediated signaling, and MAPK/ERK cascades, alongside developmental processes such as branching morphogenesis, mesenchymal proliferation, oligodendrocyte differentiation, and otic vesicle formation. Together, these terms point to a signaling network (Rho/PI3K/MAPK) that drives development and morphogenesis, making a cohesive, specific label appropriate.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0050677","count":2},{"id":"GO:0090263","count":2}]},{"hash":"2026658019557212114","title":"TLR Signaling Cluster","description":"The top GO terms cluster around Toll-like receptor signaling pathways (TLR3/5/6/7/8) and related innate immune signaling, including MyD88-independent TLR signaling. Also present are terms related to response to diacyl bacterial lipoproteptides and nitric-oxide synthase biosynthesis regulation, which fit within TLR-driven inflammatory responses. This consistent pattern indicates the proteins likely function together in pathogen recognition and downstream innate immune signaling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051770","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0034123","count":2},{"id":"GO:0034146","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1242576026026459045","title":"Developmental and Immune Signaling","description":"This cluster centers on broad developmental processes\u2014ossification, lung development, sprouting angiogenesis, myelination, and multicellular organism development\u2014with notable immune-related activities such as dendritic cell differentiation and regulation of T cell cytokine production, plus some signaling responses (cAMP). The GO terms point to a theme of organismal development intertwined with immune system modulation, suggesting a developmental program that also engages immune signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0002040","count":2},{"id":"GO:0042552","count":2},{"id":"GO:2001200","count":2}]},{"hash":"1346636235845422207","title":"Neural development and differentiation","description":"The GO terms are dominated by neural development themes (cranial ganglion development, midbrain dopaminergic neuron differentiation, CNS vasculogenesis) and related transcriptional regulation/morphogenesis, with only one cardiac-related term appearing as a secondary association. This suggests the cluster primarily reflects neural development programs, with ancillary developmental signals across tissues.","confidence":"High","size":9,"edges":29,"triangles":47,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061550","count":3},{"id":"GO:0048096","count":3},{"id":"GO:0032471","count":3},{"id":"GO:0022009","count":3},{"id":"GO:1904948","count":3}]},{"hash":"1350493193795865659","title":"Sperm\u2013Zona Pellucida Interaction and Acrosome Regulation","description":"The top GO terms strongly point to fertilization-related processes: sperm binding to the zona pellucida, penetration of the zona pellucida, and regulation of the acrosome reaction, with supporting signals from proteoglycan metabolism and reproductive development. A few terms (inflammation, learning) are less connected, but the core pattern supports a fertilization-focused cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":2},{"id":"GO:0007341","count":1},{"id":"GO:0060058","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0002526","count":1}]},{"hash":"1390000892501364451","title":"Neural signaling and ER-stress\u2013linked apoptosis","description":"This cluster shows strong neural-related terms: brain development, neuronal signal transduction, and response to L-glutamate, pointing to glutamatergic signaling and neural function. It also includes vesicle transport between the endoplasmic reticulum and Golgi and several terms tied to unfolded protein response and ER stress\u2013mediated or hypoxia-related apoptotic regulation, suggesting a coordinated neural stress response and apoptotic control mechanism. The NK cell activation term is less central here, potentially representing a secondary or broader regulatory role. Overall, the set appears to cluster neural signaling together with ER stress\u2013regulated apoptosis pathways.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032815","count":2},{"id":"GO:0006888","count":1},{"id":"GO:2000269","count":1},{"id":"GO:0023041","count":1},{"id":"GO:0007420","count":1}]},{"hash":"912437067922246129","title":"Cell-matrix adhesion and inflammatory responses","description":"The proteins show enrichment for extracellular matrix interactions (cell-matrix adhesion, heterophilic adhesion, response to mechanical stimulus, hyaluronan biosynthesis) together with immune/inflammatory pathways (inflammatory response, LPS response, extrinsic apoptotic signaling in absence of ligand, activation-induced T cell death), indicating a cluster involved in cell-ECM adhesion and signaling during tissue remodeling, inflammation, and vascular development.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1900127","count":5},{"id":"GO:2001241","count":5},{"id":"GO:0006924","count":5},{"id":"GO:0007160","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1755110972214064364","title":"Neural development and synapse formation","description":"These proteins show enrichment for synapse assembly, positive regulation of synapse assembly, and axon guidance (including serotonergic neuron axon guidance), along with cell\u2013cell adhesion terms, all pointing to neural development and synaptic connectivity. While a few terms relate to bone maturation or planar polarity, the dominant theme is neuronal development and synapse formation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0007416","count":4}]},{"hash":"1606971664594607257","title":"Neuronal synaptic plasticity and spine morphogenesis","description":"Most terms center on neuronal synapses and plasticity: dendritic spine morphogenesis, synapse structural plasticity, regulation of excitatory postsynaptic potential, and long-term synaptic depression, with Rho/JNK signaling guiding cytoskeletal remodeling. This indicates a theme of spine development and synaptic remodeling, supported by neural function terms like vocalization behavior. Therefore the label reflects the cluster\u2019s core function.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:1903760","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0071896","count":3},{"id":"GO:0051835","count":3}]},{"hash":"1005201241460767068","title":"Developmental signaling and cell adhesion","description":"The terms point to organ and nervous system development (kidney, heart, nervous system development) and processes related to synapse assembly and cell\u2013cell signaling via adhesion and integrin pathways, suggesting a cluster centered on developmental signaling and cell adhesion mechanisms. A few outliers exist (e.g., symbiont entry), but the dominant pattern supports this theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":4},{"id":"GO:0032516","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1078017173330024527","title":"Unknown","description":"These proteins show a broad, non-overlapping mix of functions (sperm capacitation, dendrite morphogenesis, pain perception, potassium transport, transcription, development, nuclear export regulation), with no single cohesive process tying the set together and no edges among them. Confidence: None","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048240","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0048813","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0006813","count":6}]},{"hash":"904855522262769670","title":"Ribosome Biogenesis and Protein Homeostasis","description":"This cluster is dominated by ribosome-related terms (ribosomal small subunit assembly, SSU-rRNA maturation, translation), indicating a core role in protein synthesis. It also includes protein quality-control and stress-response terms (autoubiquitination, deglycosylation, ER-stress\u2013related apoptosis, and vesicle trafficking) that together point to maintaining protein folding, maturation, and trafficking under cellular stress. The insecticide response and TNF signaling hints suggest broader stress-response involvement, but the central theme appears to be ribosome biogenesis with supporting quality-control pathways.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":8},{"id":"GO:1902236","count":8},{"id":"GO:0000028","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0002109","count":8}]},{"hash":"1204403068239945658","title":"Unknown","description":"The top GO terms span epigenetic regulation (protein methylation, chromatin binding), fungal/arthropod development (ascospore formation, cuticle development, branching in blood vessels), neural and cardiac functions (long-term memory, regulation of heart rate), and other cellular processes (self proteolysis, membrane tubulation; obsolete calcium channel regulation). Because there is no single dominant biological theme linking these terms, there isn\u2019t a coherent label that accurately captures the cluster's function.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006479","count":7},{"id":"GO:0030437","count":7},{"id":"GO:0001569","count":7},{"id":"GO:0007616","count":7},{"id":"GO:0002027","count":7}]},{"hash":"2128760611074702805","title":"Purine nucleotide biosynthesis and salvage","description":"The cluster is dominated by GO terms related to nucleotide metabolism and salvage, including AMP salvage, ADP biosynthesis, CDP biosynthesis, nucleoside monophosphate phosphorylation, and purine ribonucleotide interconversion (with NAD+ biosynthesis as a related nucleotide pathway). While brain and liver development terms appear, the core signal is purine nucleotide metabolism and salvage. ","confidence":"High","size":8,"edges":23,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0046041","count":6},{"id":"GO:0001889","count":6},{"id":"GO:0046939","count":6}]},{"hash":"114364325241925758","title":"Unknown","description":"The GO terms span muscle development, neural development, fungal sporulation, cytoskeletal assembly, endocytosis regulation, hypoxia response, protein methylation, vascular branching, and memory, with no single coherent function linking them all. This suggests a heterogeneous set or broad, unrelated annotations, so a specific label cannot be confidently assigned.","confidence":"","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0030100","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1350998388783856352","title":"ER stress response and protein quality control","description":"The top GO terms cluster around endoplasmic reticulum protein handling: unfolded protein response, chaperone-assisted refolding, ER-associated degradation, and upregulation of translation initiation during ER stress. This points to a coherent module dedicated to ER protein quality control and cellular stress responses. Some terms related to cell cycle and signaling (mitotic cell cycle, GPCR signaling, cilium assembly, steroid receptor assembly) may reflect broader regulatory connections or secondary associations with stress signaling rather than a core ER-focused function.","confidence":"High","size":8,"edges":9,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0070389","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006986","count":3}]},{"hash":"1304780288693972029","title":"DNA Repair and Damage Response","description":"Most of the top GO terms point to DNA repair pathways (base-excision repair; nucleotide-excision repair; interstrand cross-link repair) and DNA-damage\u2013triggered apoptotic signaling, suggesting the proteins cluster around genome maintenance and stress response. A few terms like copulation and sperm binding are less coherent with this theme and may reflect broader annotations, but the core signal is repair/damage response. The lack of edges supports this as a term-based grouping rather than a tightly interacting protein module.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007620","count":2},{"id":"GO:0061484","count":2},{"id":"GO:0007339","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0006641","count":2}]},{"hash":"356030705399892973","title":"Coagulation and Immune Activation","description":"GO terms center on blood coagulation, inflammatory responses, T cell activation, and cytokine signaling, with supporting pathways in PI3K/AKT signaling and apoptosis, plus PDGF receptor signaling and bone resorption regulation. This convergence suggests a module where coagulation processes intersect with immune and inflammatory signaling, along with cell survival and remodeling cues. Therefore, a concise label capturing this shared function is appropriate.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0051897","count":4},{"id":"GO:0002765","count":4},{"id":"GO:2001244","count":4},{"id":"GO:0002437","count":4}]},{"hash":"897640827562354082","title":"Fungal sterol and sphingolipid biosynthesis","description":"The strongest signals are ergosterol biosynthesis regulation and mannosyl-inositol phosphorylceramide metabolism, supported by unsaturated fatty acid biosynthesis; together they point to fungal membrane lipid production and sterol/sphingolipid pathways. Some terms (nitrate assimilation, nitric oxide biosynthesis, development-related terms) seem peripheral or potential misannotations, but the core cluster clearly centers on fungal lipid metabolism and membrane components. ","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0032443","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0000001","count":3}]},{"hash":"53107916133625485","title":"GTPase-regulated vesicle trafficking","description":"The cluster centers on small GTPase signaling (e.g., Rac), with multiple terms tied to vesicle movement and membrane remodeling\u2014ER-to-Golgi transport, endosome-to-lysosome transport, lysosomal membrane organization, and membrane tubulation\u2014plus exocytosis regulation. This combination suggests a cohesive theme around GTPase-driven control of vesicle trafficking and membrane dynamics, consistent with both general cellular processes and plant-specific events like floral organ abscission. ","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":4},{"id":"GO:1902953","count":3},{"id":"GO:0010227","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0061000","count":3}]},{"hash":"1071152686055970654","title":"Vacuolar Proton Transport and Acidification","description":"The two most represented GO terms are proton transmembrane transport and vacuolar acidification, which point to proteins involved in proton pumping across membranes to acidify vacuoles (e.g., V-ATPase activity). While additional terms touch on nuclear envelope dynamics and signaling, the strongest common theme across the cluster is proton transport/acidification within vacuolar membranes, supporting a label focused on this function.","confidence":"Medium","size":8,"edges":18,"triangles":16,"max_degree":7,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":4},{"id":"GO:0007035","count":4},{"id":"GO:0007084","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0097711","count":3}]},{"hash":"390081360878065859","title":"DNA Repair & Genome Maintenance","description":"The cluster\u2019s terms strongly point to DNA metabolism and genome integrity, with base-excision repair, DNA recombination, and DNA catabolic processes. Additional terms on redox homeostasis and apoptosis align with cellular stress responses that accompany DNA damage repair, supporting a genome-maintenance function; a sporadic signaling term and an outlier migration term are less central but do not outweigh the core theme. Overall, these proteins likely participate in DNA repair and genome stability pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0014912","count":4},{"id":"GO:0046856","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006308","count":3},{"id":"GO:0080111","count":3}]},{"hash":"329694876322775890","title":"Mitochondrial Ion Transport and Membrane Dynamics","description":"This cluster centers on mitochondrial functions: transport of Mg2+, Mn2+, and Fe into/out of mitochondria; regulation of mitochondrial membrane potential; and mitochondrial membrane fission, with oxidative stress responses and PLP transport as related metabolic activities. The GO terms together point to mitochondrial ion homeostasis linked to structural/dynamic processes and stress signaling.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1990616","count":5},{"id":"GO:0051881","count":5},{"id":"GO:0031921","count":5},{"id":"GO:0048250","count":5},{"id":"GO:0060546","count":5}]},{"hash":"1898403461455384675","title":"Nucleic Acid Processing and Gene Regulation","description":"The proteins in this cluster show enrichment for RNA metabolism (nonsense-mediated decay, RNA polymerase II promoter clearance) and DNA metabolism/repair processes (nucleotide-excision repair steps, strand invasion regulation, methylation-related terms). Although there are some development-related terms, the shared theme is nucleic acid processing and regulation of gene expression, making this label representative.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":3},{"id":"GO:0001111","count":3},{"id":"GO:0000717","count":3},{"id":"GO:0033683","count":3},{"id":"GO:0060543","count":3}]},{"hash":"1958355191783405625","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0001682","count":2},{"id":"GO:0031118","count":2}]},{"hash":"1473859495796083634","title":"Circadian Ubiquitin-Proteasome Regulation in Neural Signaling","description":"The top GO terms cluster around ubiquitin-mediated proteolysis (protein polyubiquitination, SCF-dependent degradation, and ubiquitin ligase activity regulation) with a notable emphasis on circadian rhythm regulation and neural signaling (dopaminergic synaptic transmission and cocaine-related behavioral responses), suggesting a theme of circadian and neural control via ubiquitin-proteasome pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042752","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0051436","count":3}]},{"hash":"299838258741077273","title":"Cell migration and immune cell trafficking","description":"The cluster is characterized by GO terms centered on cell movement and immune-related trafficking, including telencephalon cell migration, thymocyte migration, eosinophil chemotaxis, and leukocyte adhesion activation, as well as wound healing and TGF-beta receptor signaling that promote migration and tissue remodeling. PI3K/AKT signaling and related transduction terms support migratory signaling, while a metabolic term (D-glucose transmembrane transport) may reflect energy needs of migratory cells. This points to a cohesive theme of coordinated migration and immune/vascular remodeling.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"wound healing","top_go_terms":[{"id":"GO:0022029","count":4},{"id":"GO:0051897","count":4},{"id":"GO:1904659","count":4},{"id":"GO:0007179","count":4},{"id":"GO:0090303","count":4}]},{"hash":"486634421130992960","title":"Calcium-regulated neurotransmitter release and synaptic signaling","description":"The cluster contains GO terms centered on neuronal communication and calcium-dependent exocytosis, including potassium transport, synaptic vesicle fusion, membrane hyperpolarization, axonogenesis, neurotransmitter receptor internalization, short- and long-term plasticity, and calcium-regulated exocytosis. While it also touches on mast cell histamine secretion and insulin release, the dominant theme is synaptic signaling and calcium-controlled neurotransmitter release, justifying this label.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0031629","count":3},{"id":"GO:0060081","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0099590","count":2}]},{"hash":"1937417432746760035","title":"Developmental Morphogenesis and Signaling","description":"The terms point to organ morphogenesis (digestive tract morphogenesis; ureteric bud branching) and regulation of key signaling pathways (Wnt and VEGF signaling), with additional signals related to apoptosis and tyrosine phosphorylation. This suggests a cohesive module coordinating growth, tissue patterning, and differentiation through signaling networks during development.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045793","count":1},{"id":"GO:0090190","count":1},{"id":"GO:0048546","count":1},{"id":"GO:0042701","count":1},{"id":"GO:0090263","count":1}]},{"hash":"695700156862703540","title":"Unknown","description":"The GO terms span development, nuclear DNA metabolism, metabolism, and signaling with no single cohesive function tying the eight proteins together; while some terms suggest a nuclear role (DNA replication/repair), others point to unrelated processes (placenta development, cocaine response, chemotaxis). This lack of a unified theme supports labeling the cluster Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001890","count":3},{"id":"GO:0033160","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0045793","count":3},{"id":"GO:0006006","count":3}]},{"hash":"890240292859620602","title":"Lipid Biosynthesis and ER Stress Response","description":"The terms cluster around lipid metabolism: lipid metabolic process, very long-chain fatty acid biosynthetic process, wax biosynthetic process, and polyprenol catabolic process, with an ER stress response term linking ER function to lipid synthesis. This suggests the proteins are involved in lipid biosynthesis and ER-associated metabolism; obsoleted/outlier terms (bone resorption, female genitalia development, transcription) likely reflect noise rather than core function.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034976","count":2},{"id":"GO:0045453","count":2},{"id":"GO:1903206","count":2}]},{"hash":"1200693855061044469","title":"Chromatin assembly and histone modification","description":"This cluster is dominated by GO terms related to chromatin organization and epigenetic regulation, including rDNA heterochromatin formation, nucleosome assembly, histone acetylation/methylation, and negative regulation of transcription by RNA Pol II, all pointing to chromatin remodeling and control of gene expression. The presence of estradiol stimulus response and cellular senescence terms supports links between hormone signaling, aging processes, and chromatin state changes. While a couple terms (e.g., cobalamin biosynthesis, tRNA methylation) are less directly tied, the overall theme centers on chromatin structure and transcriptional regulation.","confidence":"High","size":8,"edges":19,"triangles":18,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0006334","count":3},{"id":"GO:0071392","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0009236","count":3}]},{"hash":"1233580474727975819","title":"Embryonic Development and Organ Morphogenesis","description":"The enriched terms reflect diverse embryonic tissues undergoing morphogenesis\u2014placenta, heart, hindlimb/limb, eye, habenula, gonads\u2014plus general in utero development and myoblast proliferation. This suggests the proteins are involved in embryonic development and organ formation rather than a single molecular function, so the name highlights the common theme of developmental morphogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001890","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0021986","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0001701","count":7}]},{"hash":"98028127069946087","title":"Oxidative stress response and redox homeostasis","description":"The top terms cluster around redox balance and oxidative stress responses (cell redox homeostasis, cellular oxidant detoxification, cellular response to oxidative stress), with ancillary transcriptional regulation in response to stress; together these point to a coordinated oxidative stress response pathway rather than a single specific process.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0006662","count":2},{"id":"GO:0016032","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1573802972615460607","title":"Hexosamine/GlcNAc Metabolism","description":"The cluster\u2019s GO terms are dominated by carbohydrate metabolism, especially UDP-N-acetylglucosamine biosynthesis and N-acetylglucosamine/glucosamine catabolic processes, along with the pentose-phosphate shunt. This points to a cohesive theme around hexosamine metabolism and related sugar pathways, with a few peripheral terms related to glucocorticoid response or vesicle dynamics. Overall, the core function appears to be hexosamine/GlcNAc metabolic processing.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006048","count":2},{"id":"GO:0009051","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0019262","count":2},{"id":"GO:0006098","count":2}]},{"hash":"437657820799977136","title":"Multi-tissue Signaling and Differentiation","description":"This cluster centers on regulatory signaling processes (GPCR and IGF receptor pathways, PIP2 catabolism, serine phosphorylation) and links them to differentiation and development across multiple tissues, including immune cell (B cell) differentiation, myoblast differentiation, meiosis activation, and vascular development. The shared theme is signaling-driven control of cellular differentiation rather than a single pathway or cell type, supporting a broad \u201csignaling and differentiation across tissues\u201d label.","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0008277","count":4},{"id":"GO:1902634","count":4},{"id":"GO:0032735","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0060466","count":4}]},{"hash":"1501498575067742083","title":"Mitosis and centromere/chromatin assembly proteins","description":"The prominent GO terms point to mitotic spindle assembly and CENP-A\u2013containing chromatin assembly, suggesting proteins involved in chromosome segregation and centromere/kinetochore organization. Additional terms cover protein oligomerization and regulation of GTPase activity, which can support mitotic machinery and signaling during cell division. Some terms like skin development, cytokine production, and obsolete aging appear less directly related and may reflect broader or outdated annotations. Overall, the cluster seems best described by a cell-division/chromatin-assembly theme, though the mix of terms reduces certainty, hence a Medium confidence.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0070208","count":4}]},{"hash":"44506556283524678","title":"Developmental signaling and proliferation regulators","description":"The top GO terms cluster around positive regulation of various developmental processes (Wnt signaling, ERK cascade, branching morphogenesis, progenitor proliferation, differentiation) across multiple tissues, suggesting these proteins act as general regulators promoting developmental signaling and cell proliferation rather than a single tissue-specific function.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":3},{"id":"GO:0050677","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0001569","count":2},{"id":"GO:0048709","count":2}]},{"hash":"2030459568959801585","title":"Cardiovascular and Hematopoietic Functions","description":"The cluster features strong enrichment for oxygen transport, erythrocyte maturation, heart development, nitric oxide biosynthesis, platelet aggregation, and oxidant detoxification, all pointing to blood/blood vessel physiology and hemodynamic signaling. A few terms like nitrogen fixation and slow-twitch muscle contraction are less related and may reflect cross-species annotation noise, but the dominant pattern groups around cardiovascular and hematopoietic processes.","confidence":"Medium","size":8,"edges":20,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031444","count":5},{"id":"GO:0051291","count":5},{"id":"GO:0015671","count":5},{"id":"GO:0009399","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1249886891534257921","title":"Lipid Metabolism and Signaling","description":"This cluster centers on lipid-related pathways: prostaglandin metabolism, farnesyl diphosphate metabolism, and biosynthesis of sterols and carotenoids (ergosterol, carotenoids, carotene). The presence of these lipid/isoprenoid processes suggests a cohesive theme around lipid synthesis and signaling, with additional terms related to development and cell adhesion that may reflect downstream effects of lipid-mediated signaling. Overall, a lipid-centric interpretation best ties the observed terms together, though some terms point to broader developmental roles.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006693","count":1},{"id":"GO:2000045","count":1},{"id":"GO:0001946","count":1},{"id":"GO:0016337","count":1},{"id":"GO:0048286","count":1}]},{"hash":"1329300113803987202","title":"Integrin signaling and cell growth regulation","description":"This cluster centers on integrin-mediated signaling and growth control, with associated cytoskeletal remodeling (stress fiber assembly) and broad signal transduction (cAMP response). Although a few terms touch systemic physiology, the core terms point to adhesion-driven signaling that modulates growth and cytoskeletal dynamics.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001558","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0051497","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0002244","count":2}]},{"hash":"662938172507271491","title":"Unknown","description":"The terms span iron transport, endocytosis regulation, RNA processing and silencing, development, and transcription-related activities, with several obsolete entries and no edges connecting the proteins. This scattered functional set provides no clear, shared theme to label the cluster, so a coherent name cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098711","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0016267","count":1},{"id":"GO:0060576","count":1},{"id":"GO:0010735","count":1}]},{"hash":"2030467579371219546","title":"Unknown","description":"The GO terms span a wide range of processes\u2014from signaling and cytoskeletal regulation to transcription, chromatin assembly, cell division, and various developmental pathways\u2014without a single cohesive function tying the cluster together. Therefore, a specific, representative label is not evident.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0002534","count":2}]},{"hash":"2178919666191109016","title":"Chromatin modification and silencing","description":"This cluster is dominated by GO terms for histone methylation (H3K9, H3K27, H3K4, H4K20) and rDNA heterochromatin formation, plus chromatin silencing and related development signals, indicating epigenetic regulation as the shared function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":3},{"id":"GO:1902231","count":2},{"id":"GO:0036124","count":2},{"id":"GO:1900477","count":2},{"id":"GO:0080182","count":2}]},{"hash":"1137717505074183732","title":"Starvation Response and Translation Regulation","description":"This cluster's GO terms converge on cellular responses to nutrient deprivation (glucose and amino acid/leucine starvation) and regulation of translation initiation in response to starvation, suggesting a cohesive role in adjusting protein synthesis under nutrient stress. Additional terms hint at broader stress signaling (UV response, HIF-1\u03b1) and DNA damage checkpoints, reflecting a general stress-adaptation theme. Overall, the dominant theme is nutrient-starvation response with translation control, justifying the label.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":2},{"id":"GO:0035435","count":2},{"id":"GO:1903833","count":1},{"id":"GO:0071264","count":1},{"id":"GO:0060765","count":1}]},{"hash":"1838400405671895562","title":"Insulin/IGF signaling and neural development","description":"The cluster\u2019s top GO terms are dominated by insulin receptor signaling and insulin-like growth factor receptor signaling, indicating core involvement in insulin/IGF signal transduction. Additional terms highlight neural development and synaptic regulation (spinal cord development; negative regulation of dendritic spine development) and broader signaling modulation (Rho/Ral pathways, GPCR desensitization), along with a note on vascular remodeling. Together, these suggest proteins that participate in growth factor signaling with roles in neural development and general signal regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0060313","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0048009","count":3}]},{"hash":"1213078524683983853","title":"EMT and Cytoskeletal Adhesion Remodeling","description":"The top terms point to epithelial-to-mesenchymal transition, integrin-mediated adhesion regulation, and Rho signaling, with links to endothelial barrier establishment and morphogenetic processes like apical constriction. This suggests a cohesive theme of cell shape changes and adhesion/cytoskeleton remodeling during EMT and related morphogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0033628","count":8},{"id":"GO:0001837","count":8},{"id":"GO:0035023","count":7},{"id":"GO:0061028","count":7},{"id":"GO:0002814","count":7}]},{"hash":"1959882453987082566","title":"Nuclear telomere maintenance and RNA localization","description":"The cluster's top GO terms point to nuclear- and telomere-related processes: regulation/localization of telomere-associated activities, scaRNA localization to Cajal bodies, and pore complex assembly, all of which are tied to nuclear RNA processing and chromosome end maintenance. Some terms appear peripheral or obsolete (e.g., response to cocaine, sperm binding), but the dominant theme is nuclear organization around telomeres and RNA localization. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051973","count":7},{"id":"GO:0090666","count":7},{"id":"GO:0007339","count":7},{"id":"GO:0050821","count":7},{"id":"GO:0042220","count":7}]},{"hash":"403489064881089665","title":"Growth-control signaling and differentiation","description":"The cluster shows enrichment for growth and proliferation regulation (positive regulation of canonical Wnt signaling, hippo signaling, DNA replication initiation, DNA-templated transcription) plus differentiation and apoptosis (keratinocyte differentiation, apoptotic process). This combination points to a common theme of coordinating cell growth, gene expression, and cell fate decisions during tissue development. The inclusion of a pain-behavior term is incidental and less central.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0090263","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0060044","count":5},{"id":"GO:0035329","count":5}]},{"hash":"1680552064642951814","title":"Unknown","description":"The GO terms cover disparate processes from carbon metabolism to protein processing and gene expression, with little cohesive overlap, so no single functional theme emerges.","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043427","count":3},{"id":"GO:0042413","count":3},{"id":"GO:0033611","count":3},{"id":"GO:0032781","count":2},{"id":"GO:0006626","count":2}]},{"hash":"128393737320711773","title":"Diverse stimulus-induced cellular signaling","description":"The Top Terms show responses to various stimuli (fungal origin, insulin, retinoic acid, M-CSF) and signaling processes (ERK/MAPK cascade and calcium signaling), along with cell-cell signaling and migration cues. This suggests a cohesive theme of cellular signaling and regulatory responses triggered by diverse external cues, rather than a single pathway. Therefore, a label centered on stimulus-driven signaling best captures the cluster.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:2000502","count":6},{"id":"GO:0071226","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0032869","count":4}]},{"hash":"1497061452478549242","title":"Unknown","description":"The top terms are diverse, spanning centrosome maintenance, neuron projection development, cell adhesion, calcium-channel regulation, muscle contraction, GPCR signaling regulation, cilium assembly, steroid receptor complex assembly, histone modification, and innate immune response. There is no single dominant function or pathway tying these proteins together, and the empty network suggests a heterogeneous set rather than a cohesive module. Therefore no specific label with confidence can be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051661","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0060314","count":1},{"id":"GO:0003009","count":1}]},{"hash":"1271701871144369135","title":"Unknown","description":"The top terms are a heterogeneous mix of biosynthetic pathways (sugar nucleotide and lipid biosynthesis, LPS core and wax formation, phenylpropanoid) alongside seemingly unrelated terms (B cell chemotaxis, hair follicle development). There isn\u2019t a coherent single function uniting these proteins, so a specific, representative label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":4},{"id":"GO:0033358","count":3},{"id":"GO:0009244","count":3},{"id":"GO:0035336","count":3},{"id":"GO:0008611","count":3}]},{"hash":"75192928087056973","title":"Quinone and antibiotic biosynthesis","description":"The top GO terms are strongly tied to biosynthesis: phylloquinone (vitamin K1) and menaquinone (vitamin K2) production, along with antibiotic biosynthetic process. This points to a bacterial metabolic module focused on quinone production and secondary metabolite (antibiotic) biosynthesis. Some other terms (e.g., tRNA methylation, xenobiotic response) are peripheral or reflect broader cellular processes, but the main theme is quinone and antibiotic biosynthesis.","confidence":"Medium","size":7,"edges":14,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0030488","count":3}]},{"hash":"1865937427580228218","title":"Mitochondrial ion transport and mitophagy","description":"This cluster centers on mitochondrial ion homeostasis and quality control. Terms include monoatomic anion and phosphate transport, calcium import into the mitochondrion, ROS metabolism regulation, and regulation of autophagy of mitochondrion (mitophagy), which together point to mitochondrial ion transport and mitochondrial quality control as the dominant theme. Some neuronal-related terms appear, but the mitochondrial pattern is strongest.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006817","count":2},{"id":"GO:1903146","count":1},{"id":"GO:0007270","count":1}]},{"hash":"1553069572511874520","title":"Immune Endocytosis and Phagocytosis Regulation","description":"This cluster is dominated by GO terms related to endocytosis and the negative regulation of phagocytosis and myeloid leukocyte differentiation, pointing to roles in immune cell uptake processes and immune regulation. Other terms (nucleotide biosynthesis, fatty acid response, neuronal projection development, and protein oligomerization) are less central but can reflect broader cellular signaling context; overall, the endocytosis/phagocytosis regulation theme best ties the proteins together.","confidence":"Medium","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0061508","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0002762","count":5},{"id":"GO:0050765","count":5},{"id":"GO:0006228","count":5}]},{"hash":"1374702129514942247","title":"Membrane Transporters for Ions, Sugars, and Xenobiotics","description":"The terms point to a set of proteins functioning as membrane transporters with diverse substrates, including potassium and sodium ions, sugars (arabinose, galactose, fucose), sialic acid, xenobiotics, and even neurotransmitter loading into synaptic vesicles. While one term relates to nitrate assimilation, the prevailing theme is transmembrane transport across substrates, suggesting a cohesive transporter function rather than a single metabolic enzyme. Confidence in this representation is high due to the clear transport-centric GO enrichment.","confidence":"High","size":7,"edges":8,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015751","count":2}]},{"hash":"823948178045391860","title":"B cell activation signaling and phagocytosis regulation","description":"Go terms indicate follicular B cell differentiation and positive regulation of B cell receptor signaling, along with regulation of Rho and Ras pathways and phagocytosis. This suggests a cohesive theme of B cell\u2013driven signaling and controlled immune/phagocytic responses, rather than a single isolated process.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0002316","count":5},{"id":"GO:0009395","count":5},{"id":"GO:0032959","count":5},{"id":"GO:0050861","count":5}]},{"hash":"1134404016711005522","title":"RNA splicing and translation regulation","description":"The GO terms cluster around mRNA processing (spliceosome, splice site recognition, poly(A) tail regulation, mRNA stability) and translation control (eIF4F complex assembly, translation reinitiation), suggesting a cohesive group involved in RNA maturation and regulation of translation. An outlier term like blastocyst formation appears incidental. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0002188","count":1}]},{"hash":"169357063052425372","title":"Unknown","description":"The GO terms span diverse cellular processes: Wnt signalosome assembly and canonical Wnt signaling, endothelial barrier establishment, membrane trafficking and ER-mitochondria contacts, membrane addition during cytokinesis, retrograde transport, and immune/neural signaling. There is no unifying function tying these terms together, so a specific label cannot be confidently assigned beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904887","count":7},{"id":"GO:0050975","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0061028","count":7},{"id":"GO:0043552","count":7}]},{"hash":"539352939331433960","title":"Neural development and synaptic connectivity","description":"This cluster\u2019s top GO terms point to neural patterning and circuit formation: axonal fasciculation, myelination, and synapse assembly, along with heterophilic cell\u2013cell adhesion. While there are also kidney development terms and other morphogenesis signals present, the neural connectivity terms are the most representative of the cluster\u2019s functional theme. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072237","count":4},{"id":"GO:0072287","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0036303","count":4},{"id":"GO:0007413","count":4}]},{"hash":"1053223577576445647","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019344","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0019379","count":1},{"id":"GO:0016311","count":1}]},{"hash":"1165202439416867071","title":"Developmental and Neural Signaling","description":"These terms span mitotic cell cycle and ER-stress\u2013induced apoptosis, but also prominently feature developmental and neural themes (heart development; Schwann cell development; visual perception; excitatory postsynaptic potential; cell morphogenesis). There are additional signals related to metabolism and immune defense, suggesting a broad mix rather than a single cohesive pathway. I label this cluster as Developmental and Neural Signaling, reflecting the strongest recurring themes around development and nervous system function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0070059","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001403","count":3}]},{"hash":"1924566574620452323","title":"Embryonic organogenesis","description":"This cluster centers on broad developmental and morphogenetic processes across multiple tissues (cartilage, neural crest derivatives, brain segmentation, nervous system development, kidney branching, pancreas development, digestive tract morphogenesis, and epithelial maturation). The shared theme is embryonic organ and tissue formation rather than a single biochemical function, so \u201cEmbryonic organogenesis\u201d is a fitting, concise label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":7},{"id":"GO:0090190","count":7},{"id":"GO:0001755","count":7},{"id":"GO:1904081","count":7},{"id":"GO:0035284","count":7}]},{"hash":"1355117523194550859","title":"Craniofacial and heart morphogenesis","description":"This cluster is enriched for embryonic development terms, especially craniofacial structures (roof of mouth development, embryonic cranial skeleton morphogenesis, organ induction) and heart-related morphogenesis (heart development, pulmonary myocardium development), plus multicellular organism development and neuron migration. While there are a few outlier terms (transcription by RNA polymerase II, complement activation), the predominant theme is developmental morphogenesis of craniofacial and cardiac tissues.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0090103","count":4},{"id":"GO:0006366","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0003350","count":3}]},{"hash":"500436433864020254","title":"Developmental Transcription Regulation","description":"The cluster shows enrichment for DNA-templated transcription and transcription elongation, with several terms tied to development and differentiation (muscle and epidermal differentiation, placenta morphogenesis, seed development). This suggests the proteins collectively participate in transcriptional control during development rather than a single discrete pathway, making a developmental transcription regulatory label appropriate.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0051154","count":2},{"id":"GO:0048316","count":2},{"id":"GO:0045605","count":2}]},{"hash":"138787524215948578","title":"Muscle calcium handling and ion homeostasis","description":"This cluster is dominated by calcium transport and homeostasis (ER and Golgi calcium, intracellular calcium signaling) and potassium ion management, all core to muscle excitability and contraction. The inclusion of terms about fiber-type transitions and regulation of heart contraction reinforces a muscle- and cardio-related theme, with steroid signaling and NOS activity as modulators. Overall, the central theme is calcium and ion balance governing muscle function.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":7},{"id":"GO:1900082","count":7},{"id":"GO:0071383","count":7},{"id":"GO:0032468","count":7},{"id":"GO:0098736","count":7}]},{"hash":"668721330738965350","title":"Plant cell wall polysaccharide biosynthesis and glycosylation","description":"The top GO terms point to protein glycosylation (N- and O-linked) and biosynthesis of plant cell wall components such as homogalacturonan, glucuronoxylan, mucilage, and related carbohydrate metabolism, plus cell wall organization. This suggests a cohesive role in building plant cell wall polysaccharides and glycoprotein processing.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":3},{"id":"GO:0005975","count":2},{"id":"GO:0010289","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0010417","count":2}]},{"hash":"1951172569411210442","title":"Membrane lipid and polysaccharide biosynthesis; osmotic stress","description":"The top GO terms are dominated by biosynthetic processes for lipids and polysaccharides (lipopolysaccharide, starch, glycogen, phospholipid, phosphatidylinositol, and GPI anchor biosynthesis), which point to membrane/envelope component assembly. A subset of terms refers to osmotic stress responses (water deprivation, flooding, sucrose, mannitol), suggesting regulation under osmotic conditions. Together, they imply a cluster of proteins involved in membrane and envelope biosynthesis with ancillary osmotic stress adaptation. ","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0008654","count":1},{"id":"GO:0009414","count":1}]},{"hash":"428283843586351174","title":"Glycan biosynthesis and root hair development","description":"The cluster is dominated by glycosylation- and glycan biosynthesis-related terms (arabinogalactan protein metabolism, Lewis a epitope biosynthesis, poly-N-acetyllactosamine biosynthesis, O-linked glycosylation via hydroxyproline) and plant cell-wall\u2013related processes (seed coat mucilage biosynthesis, root hair cell development). A few terms touch on membrane potential and adhesion, which can accompany tip growth in root hairs and cell-wall remodeling. Together, these signals point to a group of proteins involved in plant glycan biosynthesis/modification and related cell-wall processes, especially supporting root hair formation and seed mucilage. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0048354","count":2},{"id":"GO:0010405","count":2},{"id":"GO:0010493","count":2}]},{"hash":"1274498050314405105","title":"Neural development and synaptic assembly","description":"This cluster is driven by GO terms tied to nervous system development, brain development, synapse assembly (including positive regulation) and glutamatergic synaptic transmission, indicating a focus on neuronal maturation and synaptic connectivity. A smaller set of terms related to innate immunity (complement activation, innate immune response) appears, which can reflect microglial involvement but does not override the core neural/synaptic theme.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007156","count":3}]},{"hash":"727005638977154845","title":"Unknown","description":"The GO terms span diverse processes (mechanical stimulus response, B cell signaling, stem cell maintenance, neural differentiation, neuromuscular junction regulation, meiosis, mRNA localization, and platelet aggregation) with no clear unifying function. With obsolete terms present and no shared pathway or strongly connected theme, there isn\u2019t a coherent label to assign other than Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0019827","count":2},{"id":"GO:0045665","count":2}]},{"hash":"2152501458231016834","title":"Translation Regulation and RNA Processing","description":"Dominant GO terms center on translation and RNA metabolism: translation initiation, miRNA-mediated translational silencing, tRNA methylation, mRNA splicing, and poly(A) tail regulation, suggesting a cohesive cluster focused on controlling protein synthesis and RNA processing.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0090398","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0006744","count":1}]},{"hash":"2174957148563259472","title":"Unknown","description":"The GO terms for this cluster are highly heterogeneous, spanning Golgi-to-plasma membrane transport, metabolism, transcription and chromatin regulation, development (bone and endothelial morphogenesis), apoptosis regulation, and host interaction, with no clear single function linking the proteins. The sparse connectivity (one edge, no triangles) supports the absence of a cohesive shared pathway, so a specific label cannot be confidently assigned.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0036083","count":2},{"id":"GO:2000535","count":2},{"id":"GO:0035563","count":2}]},{"hash":"893411957760602769","title":"T and B cell activation and cytokine production","description":"The top GO terms cluster around immune signaling and lymphocyte activation: T cell apoptotic process, T cell cytokine production, B cell chemotaxis, and innate immune response-activating signaling pathway. Protein transport and secretion terms suggest the machinery for cytokine release, while ER retention reflects secretory pathway involvement. Together they point to a cluster of proteins involved in adaptive immune activation and cytokine communication.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0010204","count":2}]},{"hash":"360333872422880151","title":"Peptide Hormone Processing and Secretion","description":"The dominant GO terms in this cluster relate to proteolytic processing and secretion of peptide hormones (insulin processing; dibasic protein processing; renin secretion into blood). Additional entries touch on receptor trafficking and signaling (negative regulation of receptor recycling; LDL receptor-related regulation), and a few terms point to peptide maturation in pheromone signaling or developmental contexts. Taken together, the cluster most plausibly groups proteins involved in peptide maturation and secretory pathways, though some annotations may reflect broader or species-specific processes.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0002001","count":2},{"id":"GO:0032804","count":2},{"id":"GO:1905598","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0007323","count":2}]},{"hash":"1459296317945384826","title":"T and B Cell Development Regulation","description":"This cluster shows enrichment for adaptive immune processes, including germinal center formation, thymocyte apoptosis regulation, T cell differentiation in thymus, and B cell apoptotic regulation, indicating a theme of immune cell development and regulation. The integrin-mediated adhesion term supports cell\u2013cell interaction aspects of immune cell trafficking. Some terms (mucus secretion, alveolus development, purine metabolism) may reflect broader mucosal or metabolic contexts tied to immune function. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070256","count":1},{"id":"GO:0002636","count":1},{"id":"GO:0070244","count":1},{"id":"GO:0033632","count":1},{"id":"GO:0002906","count":1}]},{"hash":"207482100138129720","title":"Embryonic Morphogenesis and Patterning","description":"Proteins in this cluster are strongly linked to developmental morphogenesis and tissue patterning, including mesoderm development, left-right patterning, cartilage and hair follicle morphogenesis, and heart/endocardial cushion formation, plus placenta-related differentiation. While some terms touch on general cellular processes, the prominent theme is embryonic tissue formation and spatial organization during development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":6},{"id":"GO:0000055","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060536","count":6}]},{"hash":"1788773334364356887","title":"Cardiovascular development and gene regulation","description":"The cluster is driven by transcription-related GO terms (DNA-templated transcription, regulation of chromatin binding) and developmental processes such as proepicardium development and endothelial morphogenesis, pointing to gene regulation during heart/vasculature formation. Some terms (ossification, carbohydrate metabolism) are less clearly connected, likely representing broader or adjacent roles.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0003342","count":2},{"id":"GO:0006893","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0036083","count":1}]},{"hash":"223641741448678617","title":"Endothelial cell migration and barrier regulation","description":"These proteins show enrichment for endothelial-focused processes: negative regulation of endothelial cell migration, establishment of the endothelial barrier, response to mechanical stimulus, and cytoskeletal remodeling such as filopodium assembly and Rho signaling. A single term unrelated to endothelium is present, but the dominant pattern supports vascular barrier regulation and cytoskeletal dynamics.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:2001275","count":2},{"id":"GO:2000352","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0010596","count":2}]},{"hash":"166938254822863342","title":"Mitochondrial Ion Transport and Dynamics","description":"The proteins in this cluster show strong enrichment for mitochondrial processes: transport of multiple ions (Mg, Mn, Fe), regulation of mitochondrial membrane potential, and mitochondrial fission, along with responses to oxidative stress. These terms together point to a cohesive role in maintaining mitochondrial ion homeostasis, membrane potential, and dynamics, with metabolic signaling context (e.g., insulin response) included as a broader metabolic link.","confidence":"High","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1990616","count":5},{"id":"GO:0051881","count":5},{"id":"GO:0031921","count":5},{"id":"GO:0048250","count":5},{"id":"GO:0060546","count":5}]},{"hash":"1514396328195513055","title":"DNA Damage Response and Ubiquitin Regulation","description":"The terms point to stress-responsive DNA repair processes (translesion synthesis, DSB processing) and apoptosis triggered by ER stress, along with ubiquitin- and NEDD8-mediated protein turnover (neddylation, polyubiquitination, N-end rule). Together, they reflect a coherent theme of ubiquitin-regulated DNA damage response and cell fate signaling, with some additional connected roles that can broaden the scope of ubiquitin signaling. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042276","count":6},{"id":"GO:0071596","count":6},{"id":"GO:0000729","count":6},{"id":"GO:0045116","count":6},{"id":"GO:1902916","count":6}]},{"hash":"1857246595909266921","title":"Pollen exine formation and anther dehiscence","description":"The presence of GO terms for pollen exine formation and anther dehiscence strongly points to pollen development; the other terms (DNA replication, glycosylation, and nucleotide catabolic processes) may reflect general metabolism or supportive cellular activities but do not override the reproductive-development signal.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0046712","count":3},{"id":"GO:0046032","count":3},{"id":"GO:0071405","count":3},{"id":"GO:0006487","count":3}]},{"hash":"1394205991145899801","title":"Protein quality control and organelle targeting","description":"Based on GO terms dominated by ubiquitin-dependent ERAD, mitochondrion targeting, chaperone-assisted refolding, and membrane translocation, the cluster points to proteostasis maintenance and directing proteins to specific organelles. Some terms are obsolete or development-related, but the core themes revolve around protein quality control and organelle targeting.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006626","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0006452","count":1}]},{"hash":"547448700340751774","title":"Neural response to temperature and pain","description":"The prominent GO terms point to neural processing of thermal and nociceptive stimuli (diet-induced thermogenesis, cellular response to temperature stimulus, sensory perception of pain, prepulse inhibition) and modulation of neuronal signaling (regulation of membrane potential, negative regulation of dopamine receptor signaling). A few terms about immune or viral processes appear peripheral. Overall, the cluster seems best described as proteins involved in neural responses to temperature and pain.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0042391","count":4},{"id":"GO:0071799","count":3}]},{"hash":"1603110052547828779","title":"Developmental Signaling and Transcription Regulators","description":"These proteins are enriched for regulatory functions spanning signaling (positive regulation of GTPase activity; negative regulation of Rac signaling), transcription (positive regulation of DNA binding and transcription by RNA polymerase II), and developmental processes (angiogenesis, skin development, multicellular organism growth, floral organ abscission), with additional hints of intracellular trafficking (ER to Golgi transport) and lysosomal membrane organization. The convergence on regulation of development, gene expression, and cellular organization suggests a cohesive theme of developmental signaling and transcription regulation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0043388","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0043588","count":2}]},{"hash":"918159339740698926","title":"RNA splicing and mRNA processing","description":"Dominant GO terms are mRNA processing, RNA splicing, and spliceosomal complex disassembly, pointing to proteins involved in the RNA splicing machinery. A secondary signal of transcription regulation suggests coordination between RNA processing and transcription. Overall, the cluster appears to represent spliceosome-associated RNA processing components.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0032091","count":1},{"id":"GO:0031062","count":1}]},{"hash":"263758471215196899","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0000381","count":3},{"id":"GO:0000380","count":3}]},{"hash":"1260336943415080275","title":"Insulin-ERK signaling and cytoskeletal remodeling","description":"The terms cluster around insulin response, ERK signaling, PI3K activity, actin polymerization, GTPase activation, and integrin activation, suggesting a signaling module where insulin cues drive ERK/PI3K pathways that regulate the cytoskeleton, adhesion, and cell movement. The presence of angiogenesis and locomotion related terms fits within this signaling-to-membrane remodeling context.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0070374","count":2}]},{"hash":"758045730259612289","title":"Synapse assembly and plasticity","description":"This cluster is dominated by neural synapse-related terms: synapse assembly, NMDA receptor clustering, and long-term potentiation, along with grooming behavior regulation, all pointing to neuronal signaling and synaptic plasticity. While there are occasional broader stimulus-response terms (PDGF, LPS), the synaptic themes are most representative.","confidence":"High","size":6,"edges":6,"triangles":2,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0036120","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0071226","count":4}]},{"hash":"1590739213941105145","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010501","count":6},{"id":"GO:0031124","count":6},{"id":"GO:0017038","count":6},{"id":"GO:0000390","count":6},{"id":"GO:0006369","count":6}]},{"hash":"602767025277754543","title":"Ubiquitin-Dependent Proteolysis and TNF Signaling","description":"The top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, K6-linked ubiquitination, ERAD pathway) and TNF signaling, indicating a cluster of proteins involved in ubiquitin-mediated protein turnover and regulation of TNF pathways. Occasional terms like V(D)J recombination or peroxisome import are present but less representative of the core function. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051865","count":2},{"id":"GO:0033209","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0085020","count":2}]},{"hash":"2163294612924765490","title":"Dopamine signaling and circadian-immune regulation","description":"The GO terms indicate involvement in dopaminergic signaling (dopamine uptake/metabolic process, ERK cascade), regulation of circadian rhythm, and immune responses (innate and T-helper 1). This pattern suggests a cluster tied to dopaminergic signaling with links to circadian control and immune pathways, potentially via shared signaling modules and ubiquitin-mediated regulation. While the terms span several systems, the dopaminergic and circadian/immune connections offer a plausible cohesive theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0042752","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0000083","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1460228092775710318","title":"Ubiquitin-dependent TNF/NF-\u03baB signaling","description":"The GO terms are dominated by ubiquitination processes (K48- and K63-linked) and ubiquitin-dependent proteolysis, along with TNF-mediated signaling and NF-\u03baB pathway activation (including I\u03baB phosphorylation and NF-\u03baB-inducing kinase activity). This points to a cohesive role in regulating TNF signaling and NF-\u03baB activity through ubiquitin tagging and degradation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051865","count":3},{"id":"GO:0033209","count":3},{"id":"GO:1903265","count":3},{"id":"GO:0090073","count":3}]},{"hash":"675396644775295590","title":"Gut lipid metabolism and retinoic acid signaling","description":"The dominant GO terms point to lipid metabolic processes (insulin signaling, fatty acid oxidation regulation, phosphatidylcholine biosynthesis) and vitamin A signaling (retinoic acid response, vitamin A metabolic process), alongside maintenance of the gastrointestinal epithelium. This suggests a cohesive theme around lipid metabolism and retinoic acid/vitamin A pathways in gut tissue, with a few auxiliary terms that may reflect broader regulatory roles (e.g., immune signaling, neural-related prepulse inhibition). ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0060134","count":3},{"id":"GO:0046320","count":3},{"id":"GO:0032526","count":3},{"id":"GO:0030277","count":3}]},{"hash":"467413245922075446","title":"Developmental Differentiation and Stress Response","description":"This cluster includes terms tied to developmental processes (endodermal differentiation, spermatogenesis, luteinization) alongside cell movement and growth control (fibroblast migration, Hippo signaling, cytoskeletal regulation) and environmental stress responses (response to arsenite, hypobaric hypoxia). The mix suggests a broader module centered on development and tissue remodeling with accompanying stress responsiveness, rather than a single precise function.","confidence":"Medium","size":6,"edges":8,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904528","count":2},{"id":"GO:0035987","count":1},{"id":"GO:0035332","count":1},{"id":"GO:0001553","count":1},{"id":"GO:0010761","count":1}]},{"hash":"1193380074521699601","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000466","count":3}]},{"hash":"2295083032637486838","title":"Cdc42-Mediated Actin Dynamics","description":"The cluster is dominated by GO terms tied to Cdc42 signaling and actin cytoskeleton remodeling, including actin nucleation, filament network formation, and barbed-end capping, plus related processes like dendritic spine morphogenesis and skeletal muscle development. These reflect a cohesive theme of actin cytoskeleton organization guided by Cdc42, with a few peripheral terms that can relate to cytoskeletal dynamics in other contexts. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032488","count":1},{"id":"GO:0003232","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0045010","count":1},{"id":"GO:0051016","count":1}]},{"hash":"1926113659975059608","title":"Transmembrane nutrient and xenobiotic transport","description":"The proteins map to multiple transmembrane transport GO terms, including vitamins, xenobiotics, lipoproteins, and amino acids/ions, indicating a cohesive set of membrane transporters for diverse substrates.","confidence":"High","size":6,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0042891","count":5},{"id":"GO:0071805","count":4},{"id":"GO:0042908","count":4}]},{"hash":"2051662238956230329","title":"Synapse assembly and plasticity","description":"The dominant GO terms cluster around synapse formation, assembly, and long-term potentiation (excitatory postsynaptic potential), with supporting signals from actin remodeling and adhesion, and even immunological synapse concepts; development terms for heart and bone are likely ancillary rather than central.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":4},{"id":"GO:0051764","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060348","count":3},{"id":"GO:2000463","count":3}]},{"hash":"370341557783478963","title":"Hematopoietic lineage differentiation regulators","description":"The top GO terms point to positive regulation of erythrocyte, granulocyte, and megakaryocyte differentiation, indicating a hematopoietic lineage regulation theme. A few terms concern metabolism or stress signaling (thiamine biosynthesis, responses to corticosterone and ethanol), but they appear as secondary contexts; overall, the cluster most coherently represents regulators of blood cell differentiation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":4},{"id":"GO:0030851","count":4},{"id":"GO:0045654","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0010269","count":3}]},{"hash":"1082712362727664200","title":"Developmental Morphogenesis","description":"The top GO terms cluster around embryonic tissue formation and morphogenesis across diverse organs (heart, limb, brain, placenta, prostate, cartilage), indicating a broad developmental role rather than a tissue-specific function.","confidence":"High","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001890","count":4},{"id":"GO:0048048","count":4},{"id":"GO:0021986","count":4},{"id":"GO:0003148","count":4},{"id":"GO:0060527","count":4}]},{"hash":"1281637648906631432","title":"Developmental Signaling and Morphogenesis","description":"The terms span multiple tissues and processes (neurogenesis, axis/mesoderm formation, pancreas development, and reproductive tract development) and include proliferation, apoptosis, and cytokine signaling, suggesting a broad involvement in developmental regulation rather than a single specific function; thus a development/morphogenesis label captures the shared theme without overfitting.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060068","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0022008","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0035771","count":3}]},{"hash":"1653782753580074239","title":"Diverse sugar, polymer, and pigment biosynthesis","description":"The top GO terms cover sugar-nucleotide biosynthesis (UDP-L-arabinose, UDP-galactose, dTDP-rhamnose), lipopolysaccharide biosynthesis, and biosynthesis of plant secondary metabolites (phenylpropanoids, anthocyanins, sporopollenin) plus polymer biosynthesis (poly-hydroxybutyrate). This suggests the proteins participate in diverse biosynthetic processes across sugars, polymers, and pigments rather than a single pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033358","count":2},{"id":"GO:0009244","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0019305","count":2},{"id":"GO:0009699","count":2}]},{"hash":"501901058943765710","title":"Ubiquitin signaling and chromatin modification","description":"This cluster is dominated by ubiquitin-related functions (deubiquitination and regulation of ubiquitin ligases) and histone methylation signals, suggesting roles in ubiquitin signaling coupled to chromatin modification and transcriptional control. Behavioral terms like adult feeding behavior and righting reflex are likely secondary phenotype associations rather than core molecular functions. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070537","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0044313","count":1},{"id":"GO:0051568","count":1},{"id":"GO:0008343","count":1}]},{"hash":"849732986532259986","title":"ER-Golgi COPII trafficking and cell proliferation","description":"Top GO terms are dominated by COPII-coated vesicle budding and ER-to-Golgi transport, indicating a vesicle trafficking-centric cluster. Additional terms related to brain development, multicellular growth, and cell cycle suggest this trafficking machinery is linked to growth and developmental processes. Overall, the primary theme is ER-Golgi vesicle transport via COPII with connections to proliferation and development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0090114","count":4},{"id":"GO:0090307","count":4}]},{"hash":"958703056625313465","title":"Membrane Ion Transport and Energy Production","description":"The top GO terms point to proton, zinc, and cadmium transmembrane transport and to ATP synthesis driven by proton motive force, suggesting a set of membrane transporters tightly coupled to energy metabolism. While a couple terms relate to angiogenesis and osteoblast differentiation, they are less central to the main theme and may reflect broader roles or annotations. Overall, the cluster appears to be membrane transport proteins linked to energy production.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0071577","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0001649","count":2}]},{"hash":"2157740531813917225","title":"Vascular and Mesenchymal Development","description":"This cluster centers on developmental processes involving vascular and mesenchymal lineages, including angiogenesis (VEGF signaling), aorta and cardiac vascular smooth muscle development, mesenchymal cell migration, and SHH pathway-related morphogenesis. The presence of cell-matrix adhesion and broad organismal development terms supports a cohesive theme of tissue patterning and differentiation, with a neural development note (granule cell precursor proliferation) illustrating broader developmental roles. Collectively, these proteins appear to coordinate structural formation and differentiation of vascular/mesenchymal tissues during development.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0045880","count":3},{"id":"GO:0007160","count":2},{"id":"GO:0090370","count":2},{"id":"GO:2000270","count":2}]},{"hash":"1965755732719918258","title":"Translational control and ribosome dynamics","description":"The cluster is dominated by translation-related GO terms (translation, cytoplasmic translation, initiation, elongation, and mitochondrial elongation) plus ribosome disassembly and selenocysteine incorporation, indicating a core function in protein synthesis machinery and its regulation. An antibiotic response term aligns with translation-targeting stress, while glial proliferation appears incidental. Overall, these proteins likely participate in translation processes and their regulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0002184","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0001514","count":2}]},{"hash":"1474750587047916819","title":"Multicellular Development","description":"The top GO terms are dominated by developmental processes\u2014multicellular organism development, skin development, and spinal cord development\u2014with three proteins associated to each, indicating a cohesive theme in developmental biology. Other terms (SREBP signaling, cytokine production, translation reinitiation, etc.) are present but less prominent, suggesting peripheral or ancillary roles. Overall, the cluster is best described as centered on developmental and tissue formation activities.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0032933","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0002534","count":2}]},{"hash":"627769392911596460","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000453","count":1},{"id":"GO:0002938","count":1},{"id":"GO:0019344","count":1},{"id":"GO:0045880","count":1},{"id":"GO:0043602","count":1}]},{"hash":"1305186762752302136","title":"Neural excitability and xenobiotic responses","description":"This cluster combines GO terms linked to neural signaling and excitability (sodium/potassium ion transport and negative regulation of action potential), along with behavioral and sensory responses to xenobiotics and drugs (nicotine, cocaine, insecticide), plus circadian/sensory development cues. The recurring theme is nervous system signaling and modulation in response to xenobiotic and sensory stimuli, rather than a single isolated pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0017085","count":2},{"id":"GO:0060112","count":2},{"id":"GO:0071805","count":2}]},{"hash":"27794321696257759","title":"P-body RNA Processing and snoRNP Assembly","description":"The cluster shows a cohesive focus on post-transcriptional mRNA regulation, highlighted by GO terms for P-body assembly, mRNA decapping, and regulation of translational initiation, which point to involvement in mRNA metabolism and translation control. Additional terms about snoRNP assembly and snoRNA localization extend this RNA-processing theme to RNA modification and trafficking. Some terms (chromatin remodeling, transcription regulation, even a noise term like sensory perception of sound) appear ancillary or annotation-related, but do not overturn the main signal of RNA processing centers. Overall, this cluster best fits a role in P-body\u2013associated RNA processing and snoRNP\u2013related RNA maturation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010607","count":1},{"id":"GO:0000290","count":1},{"id":"GO:0045947","count":1},{"id":"GO:0033962","count":1},{"id":"GO:0007605","count":1}]},{"hash":"735236047678909734","title":"Glycosylation and immune signaling regulation","description":"This cluster\u2019s terms point to protein N-linked glycosylation and extracellular regulation of signaling, including regulation of immune response. While one term relates to neuromast hair cell differentiation and a couple are obsolete, the dominant theme appears to involve glycoprotein processing connected to extracellular signaling and immune modulation, suggesting secreted or membrane-associated roles that influence signaling pathways.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":1},{"id":"GO:0070658","count":1},{"id":"GO:0044179","count":1},{"id":"GO:0009405","count":1},{"id":"GO:1900116","count":1}]},{"hash":"164662842402703456","title":"Unknown","description":"Top terms are a mix of signaling (intracellular signaling, GPCR pathway, cAMP/cGMP biosynthesis) and unrelated processes (ascospore formation, kidney development, visual perception). The lack of edges and a clear shared function across members suggests no coherent, identifiable theme linking the proteins, so a single representative label isn\u2019t reliable.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0071805","count":2},{"id":"GO:0030437","count":2}]},{"hash":"966234188771497131","title":"Chromatin organization and nucleosome assembly","description":"Dominated by chromatin-related terms (nucleosome assembly, histone modification, heterochromatin organization, chromatin localization), suggesting a core role in chromatin regulation, with a few outlier terms related to signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":1},{"id":"GO:0016584","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0071169","count":1}]},{"hash":"1465660216738698896","title":"Chromatin Regulation and Transcription Control","description":"This cluster centers on nuclear gene expression regulation, including negative regulation of RNA Pol II, heterochromatin formation, and transcription-coupled repair, with some association to meiosis and germline maintenance; other terms are less cohesive, but the dominant theme is chromatin state and transcriptional control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043248","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0090054","count":1},{"id":"GO:1905636","count":1},{"id":"GO:0034260","count":1}]},{"hash":"1955393686992961485","title":"Cholesterol metabolism and transport","description":"The cluster shows clear signals of lipid metabolism, with GO terms for cholesterol metabolic process, positive regulation of intracellular cholesterol transport, and acetyl-CoA/propionyl-CoA\u2013related pathways. Developmental terms and an apoptosis-related term may reflect broader tissue-specific roles and regulatory context, but the dominant theme ties to cholesterol handling and CoA-based metabolic pathways.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046356","count":4},{"id":"GO:1901029","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0072229","count":4},{"id":"GO:1902860","count":4}]},{"hash":"1218420755267077894","title":"Unknown","description":"The Top Terms mix mitosis-related processes (kinetochore localization, mitotic M phase) with diverse metabolism and redox-related terms (redox homeostasis, glycerol metabolism, molybdenum cofactor biosynthesis, transsulfuration) and developmental cues, without a single cohesive function tying all proteins together. This makes a clear, representative label difficult to assign.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":4},{"id":"GO:0021510","count":3},{"id":"GO:2000220","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0006071","count":3}]},{"hash":"357687506030293462","title":"Neural development and cell proliferation","description":"This cluster is enriched for neural development terms (brain development, hippocampus development) and cell proliferation/mitosis terms (cell division, mitotic cell cycle, mitotic spindle assembly, cell population proliferation), with additional COPII-mediated secretory transport terms (ER-Golgi transport). Together, they suggest proliferating neural progenitors requiring secretory trafficking during brain development, supporting a cohesive theme of neural growth and division.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1094760553026603069","title":"Dopaminergic signaling and circadian appetite regulation","description":"The cluster's GO terms cluster around neural signaling and behavioral modulation: negative regulation of dopamine receptor signaling, prepulse inhibition, regulation of circadian rhythm, and positive regulation of appetite, with ERK cascade involvement. Although prostaglandin and eosinophil-related terms exist, the dominant pattern is neuromodulatory signaling and circadian/feeding regulation.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071799","count":4},{"id":"GO:0019076","count":4},{"id":"GO:0060134","count":4},{"id":"GO:1901652","count":4},{"id":"GO:0048245","count":4}]},{"hash":"1708322780561853180","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0006353","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0006351","count":2}]},{"hash":"579480209582034178","title":"ER Stress and Protein Quality Control","description":"The top GO terms point to ER-associated ubiquitin-dependent protein catabolic processes, deglycosylation, and deubiquitination, along with an intrinsic apoptotic signaling pathway in response to ER stress. While there are a few trafficking-related terms, the strongest signal is proteins involved in ER stress response and protein quality control (ERAD and related turnover). This makes \u201cER Stress and Protein Quality Control\u201d a concise, representative label for this cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030010","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0060340","count":1},{"id":"GO:1900186","count":1},{"id":"GO:0044313","count":1}]},{"hash":"1587581098962197831","title":"Immune cell chemotaxis and T cell regulation","description":"The top GO terms are dominated by chemotaxis of immune cells (neutrophils, eosinophils, macrophages) and immune modulation (negative regulation of CD4+ T cell proliferation, plasma cell differentiation), suggesting the cluster centers on immune cell recruitment and adaptive-immunity control. A couple of terms (plant seed coat mucilage biosynthesis) appear unrelated and likely represent annotation noise. Overall, the set points to an immune-migration and regulation theme, albeit with some heterogeneity and sparse connections.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000562","count":1},{"id":"GO:0030593","count":1},{"id":"GO:0048245","count":1},{"id":"GO:0035900","count":1},{"id":"GO:0007157","count":1}]},{"hash":"1427943966668915179","title":"Cellular energy metabolism and oxidative stress response","description":"The cluster is dominated by terms for glycolysis and the TCA cycle, plus redox/oxidative stress and xenobiotic response, pointing to energy production and redox management as the shared theme; a few terms (megakaryocyte differentiation, sperm capacitation) appear as minor outliers.","confidence":"Medium","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0042542","count":3}]},{"hash":"1065462845660797069","title":"Multiorgan morphogenesis","description":"These proteins\u2019 GO terms cluster around developmental morphogenesis across multiple organs\u2014heart (embryonic heart tube formation, left ventricle formation, vascular smooth muscle), pancreas (endocrine pancreas development, regulation of pancreatic cell development), kidney (nephron tubule morphogenesis), and general muscle morphogenesis\u2014along with some xenobiotic response and oxidative stress terms. The common thread is organogenesis and tissue morphogenesis across diverse tissues rather than a single, specific pathway, so a broad \u201cmultiorgan morphogenesis\u201d label fits best.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009410","count":5},{"id":"GO:0090403","count":5},{"id":"GO:0031018","count":5},{"id":"GO:0003218","count":5},{"id":"GO:0003144","count":5}]},{"hash":"2004425509114737188","title":"Broad biosynthesis and development","description":"This cluster\u2019s top GO terms are dominated by biosynthetic processes (e.g., ent-kaurene oxidation to kaurenoic acid; vancomycin biosynthetic process; 9-cis-retinoic acid and testosterone biosynthesis; alkaloid catabolic) and several development-related terms (female gonad development, uterus development). The terms span different organisms (plants, bacteria, animals) and show little cohesion beyond metabolism and development, with low connectivity in the network. Therefore, a broad label that captures the shared theme of biosynthesis/metabolism and developmental processes is most appropriate.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061188","count":3},{"id":"GO:0010241","count":2},{"id":"GO:0033072","count":2},{"id":"GO:0090350","count":2},{"id":"GO:0042904","count":2}]},{"hash":"356701901251006967","title":"Developmental cell adhesion and migration","description":"Terms point to developmental processes involving cell adhesion, migration, and patterning (keratinocyte migration, integrin signaling, EMT, left-right pattern formation, placental and pancreatic development), suggesting a function in developmental signaling and tissue organization. Some housekeeping processes (RNA processing, ribosome export) appear, but the dominant theme is developmentally linked cell movement and adhesion.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051549","count":2},{"id":"GO:0007229","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0032298","count":2}]},{"hash":"862843922953176369","title":"Membrane Transporters: Ions and Metabolites","description":"This cluster is dominated by GO terms describing transmembrane transport of various substrates, including ions (potassium, sodium), sugars (arabinose, galactose), sialic acid, xenobiotics, and neurotransmitter loading into synaptic vesicles. The common theme is membrane transport activity across diverse substrates, suggesting these proteins function as transporters or transporter-associated components. Confidence in this label is High.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3}]},{"hash":"369071404128599887","title":"Chromatin regulation and RNA processing","description":"The top terms cluster around histone modifications (acetylation/deacetylation) and ubiquitin-dependent protein turnover, plus mRNA splicing via the spliceosome and a cell division note. This combination points to a group of proteins involved in regulating chromatin state and RNA processing, potentially linking transcription, RNA maturation, and protein turnover. Some terms are marked obsolete in GO, but the core theme remains chromatin modification with RNA processing.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043984","count":2}]},{"hash":"1126613439769756133","title":"Circadian-Driven Development","description":"The top GO terms indicate a strong circadian component (positive regulation of circadian rhythm; circadian temperature homeostasis) intertwined with broad developmental programs (embryonic development, gonad and neuron maturation, multicellular organism growth, transcription). This pattern suggests a cluster of proteins involved in developmental processes that are modulated by circadian regulation or timing signals. While the terms span multiple developmental axes, the recurring circadian signals provide a coherent theme linking transcriptional control to developmental outcomes. Overall, the label captures the prominent circadian-development axis, though the connection is broad rather than pointing to a single pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042753","count":4},{"id":"GO:0060528","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0008584","count":4}]},{"hash":"1519313976423220315","title":"Neural development and cytoskeleton organization","description":"The GO terms mainly point to central nervous system development, dendritic spine morphogenesis, and cell polarity, with microtubule localization and ubiquitin-dependent proteolysis supporting neuronal architecture. A few terms like innate immune response or ethanol response seem less central to neural development, suggesting a core theme of neuron formation and cytoskeletal regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":2},{"id":"GO:0045087","count":2},{"id":"GO:2000114","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0035372","count":2}]},{"hash":"1316380259193156662","title":"Mitotic cell cycle regulation","description":"The terms cluster around mitotic entry and progression (G1/S and G2/M transitions, spindle pole separation, CDK activity) with phosphorylation and chromosome condensation elements, indicating a tightly coordinated mitotic control module. Other terms (insulin signaling, mammary gland proliferation) are less central but may reflect broader regulatory contexts.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000086","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0010696","count":2}]},{"hash":"594111781735293095","title":"Tubulin folding and microtubule assembly","description":"The top GO terms point to tubulin biogenesis and microtubule-related processes, including post-chaperonin tubulin folding, tubulin complex assembly, and intraciliary transport, suggesting a cohesive role in microtubule biogenesis and ciliary transport. Nuclear import terms are present but less central, so the dominant theme is tubulin/tubulin-driven microtubule assembly and related transport.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0006610","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0045196","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1921405585498102190","title":"Mitochondrial dynamics and mitophagy","description":"This cluster centers on mitochondrial processes: mitochondrial fusion, transport of mitochondria along axons, and components related to mitochondrial targeting and mitophagy (phagophore localization). The mix of terms points to mitochondrial maintenance, dynamics, and turnover, with hypoxia-related responses likely reflecting cellular stress responses impacting mitochondria.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048662","count":2},{"id":"GO:0090650","count":2},{"id":"GO:1990910","count":2},{"id":"GO:0008053","count":2},{"id":"GO:0019896","count":2}]},{"hash":"119201322890369852","title":"Rac-Arp2/3\u2013driven actin remodeling","description":"The cluster is dominated by GO terms tied to actin cytoskeleton dynamics and remodeling, including Rac signaling, Arp2/3-mediated actin nucleation, lamellipodium assembly, and dendritic spine morphogenesis. These points suggest a common theme of actin-driven structural changes affecting cell motility, polarity, and morphology, with supporting links to related processes like membrane tubulation and immune-cell functions. Confidence: High","confidence":"","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902236","count":2},{"id":"GO:0034351","count":2},{"id":"GO:0060263","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0007121","count":2}]},{"hash":"997775977806509091","title":"Otic placode and vascular development","description":"I named it Otic placode and vascular development because the top GO terms strongly indicate ear/otic placode formation and vestibulocochlear nerve structure, paired with vascular-related processes such as endothelial cell chemotaxis, smooth muscle migration, and platelet activation, suggesting coordinated development of auditory structures with vascular remodeling. Confidence: Medium","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0003416","count":5},{"id":"GO:1902168","count":5},{"id":"GO:0021649","count":5},{"id":"GO:0014909","count":5},{"id":"GO:0030168","count":5}]},{"hash":"1272585984181789889","title":"Embryonic development and morphogenesis","description":"The cluster is dominated by GO terms related to developmental processes (pancreas development, gastrulation/convergent extension, organogenesis, primitive hematopoiesis) and cell migration, along with transcriptional regulation during development; the arsenite response appears as a minor outlier, so the overall theme fits embryonic development and tissue morphogenesis.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031016","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0014812","count":1},{"id":"GO:0042074","count":1}]},{"hash":"182989169781534610","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017038","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0016575","count":2}]},{"hash":"1576238462963898052","title":"Unknown","description":"The top GO terms are highly diverse (sensory touch, endothelial barrier, PI3K regulation, cytokinesis membrane dynamics, ER-mitochondria tethering, glucan biosynthesis, Fc receptor signaling, exosomal secretion, pre-mRNA turnover, hair follicle morphogenesis). There is no single coherent biological function tying all terms together, with only a loose nod to membrane-related processes and many unrelated roles, so a unified label isn\u2019t supported.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050975","count":5},{"id":"GO:0061028","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0007107","count":5},{"id":"GO:1990456","count":5}]},{"hash":"2292865094593245694","title":"Embryonic brain and craniofacial morphogenesis","description":"This cluster is driven by multiple development-related GO terms centered on early vertebrate brain formation (forebrain-midbrain boundary, dorsoventral patterning, habenula development) and craniofacial/skeletal morphogenesis (embryonic cranial skeleton morphogenesis, neural crest formation), with additional notes on broad multicellular development and a nephric branching process as a minor outlier. Together, they point to coordinated embryonic organogenesis with a focus on brain and craniofacial structures.","confidence":"Medium","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090190","count":5},{"id":"GO:0021912","count":5},{"id":"GO:0021986","count":5},{"id":"GO:0021905","count":5},{"id":"GO:0007517","count":5}]},{"hash":"182929518995042575","title":"Post-transcriptional mRNA processing and translation control","description":"This cluster centers on RNA-level regulation, including miRNA-mediated silencing, modulation of mRNA splicing via the spliceosome, poly(A) tail dynamics, translation initiation factor assembly, and translation reinitiation. Together with mRNA stability control under stress, these terms point to coordinated post-transcriptional regulation of gene expression.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0002188","count":1}]},{"hash":"1099683305297445735","title":"Translation initiation and reinitiation control","description":"Dominant GO signals center on translation initiation and ribosome reinitiation (translation reinitiation, preinitiation complex formation, and IRES-dependent initiation), with a secondary signal of regulatory influence on initiation. This suggests a cohesive function in starting or modulating protein synthesis, justifying a label focused on translation initiation/reinitiation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0075525","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0006351","count":3}]},{"hash":"453698032371554907","title":"Synapse Assembly and Transmission","description":"The top GO terms cluster around synapse formation and function (synapse assembly, chemical synaptic transmission, gephyrin clustering in PSD), with related neural circuit development and behavior terms (prepulse inhibition, social behavior, vocal learning, axon guidance), suggesting the proteins are involved in neuronal communication and synaptic organization affecting behavior.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":1},{"id":"GO:0060134","count":1},{"id":"GO:2000821","count":1},{"id":"GO:0097116","count":1},{"id":"GO:0035176","count":1}]},{"hash":"1368028794850598644","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042276","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0042127","count":1},{"id":"GO:0006293","count":1},{"id":"GO:0006284","count":1}]},{"hash":"631007856059368490","title":"Apoptosis Regulation","description":"The dominant GO terms relate to apoptosis (execution phase, apoptotic DNA fragmentation, and regulation of apoptotic DNA fragmentation across cell types), with hints of caspase-related activity; this supports a label focusing on regulated cell death.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045602","count":2},{"id":"GO:0001659","count":1},{"id":"GO:1902511","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0006309","count":1}]},{"hash":"1293640243262184964","title":"Nuclear import/export and pore organization","description":"This cluster is dominated by GO terms related to nuclear transport and nuclear envelope dynamics\u2014nuclear import (including NLS-bearing import), tRNA export from the nucleus, nuclear pore organization, and mitotic nuclear membrane disassembly\u2014suggesting proteins involved in shuttling cargo into the nucleus and remodeling the nuclear envelope during cell division. A few terms about protein oligomerization may reflect assembly of transport complexes. A single outlier term on glucose transport does not define the cluster. ","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010827","count":2},{"id":"GO:0006409","count":2},{"id":"GO:0051290","count":2},{"id":"GO:0042306","count":2},{"id":"GO:0006607","count":2}]},{"hash":"191454636121592315","title":"Unknown","description":"The cluster provides no shared GO terms (Top Terms is empty) and has minimal connectivity (1 edge among 4 proteins), offering no clear common function to name. Without a unifying function, the appropriate label is Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1178530086545106834","title":"Purine nucleotide biosynthesis and metabolism","description":"The terms show clear enrichment for purine biosynthesis and nucleoside metabolism (AMP biosynthesis, hypoxanthine biosynthesis, PRPP biosynthesis, urate biosynthesis, nucleoside metabolism). Developmental terms are present but secondary, so the core function is purine metabolism.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043086","count":1},{"id":"GO:0034418","count":1},{"id":"GO:0009116","count":1},{"id":"GO:0060348","count":1},{"id":"GO:0031100","count":1}]},{"hash":"1511202342948892918","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050843","count":1},{"id":"GO:0017183","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0000453","count":1},{"id":"GO:0009236","count":1}]},{"hash":"1903185778659664345","title":"Neural Signaling and Translation Regulation","description":"The GO terms cluster around neural signaling and plasticity (olfactory learning, long-term potentiation, photoreceptor development, receptor internalization) and gene-expression control (circadian translation regulation, translational initiation, miRNA silencing, mRNA processing bodies), with broader cellular stress responses. This suggests a module of proteins coordinating neuronal signaling with circadian and translational control in sensory contexts.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090328","count":2},{"id":"GO:1900271","count":2},{"id":"GO:0097167","count":2},{"id":"GO:0060965","count":2},{"id":"GO:0042051","count":2}]},{"hash":"1411619514127739276","title":"Mitotic Cell Division and Growth","description":"The top GO terms are dominated by mitosis-related processes (mitotic cell cycle, exit from mitosis, spindle assembly in meiosis) with additional broad growth-related terms like ribosome biogenesis and DNA repair, and some development-associated terms (heart development, sperm mitochondrion organization). This suggests a cluster enriched for basic cell division and growth functions, with some developmental aspects, hence the label captures the main theme in a concise way.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902857","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0010458","count":1}]},{"hash":"1603963603679867888","title":"Neural Development and Synapse Formation","description":"These proteins cluster around neural development and synaptic organization, with terms like CNS development, dendritic spine morphogenesis, and positive regulation of synapse assembly. While there are also broader developmental terms (axial mesoderm formation, retina morphogenesis), the strongest cohesive signal is neuronal development and synaptic assembly.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048320","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0036060","count":2},{"id":"GO:0007417","count":2},{"id":"GO:1902960","count":2}]},{"hash":"2257598946544814027","title":"Neural development and synapse assembly","description":"The cluster shows strong enrichment for nervous system development, dendritic spine morphogenesis, and synapse assembly\u2014especially CNS development, dendritic spine morphogenesis, and positive regulation of synapse assembly\u2014along with retina morphogenesis, suggesting roles in neural development and synaptic connectivity.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048320","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0036060","count":3},{"id":"GO:0007417","count":3},{"id":"GO:1902960","count":3}]},{"hash":"1109314538836037269","title":"Unknown","description":"The top GO terms cover a broad mix of biological themes\u2014muscle-related processes (cardiac hypertrophy, G1/S cell cycle transitions in mitosis), organ and vascular development (lung development, branching in blood vessel morphogenesis), basic cell-cycle activities (meiotic cell cycle, G1/S transition), and even fungal sporulation\u2014without a single unifying function. Because there is no cohesive theme linking these terms, there isn't a clear, representative label I can assign with confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":2},{"id":"GO:0030437","count":1},{"id":"GO:0001569","count":1},{"id":"GO:0035562","count":1},{"id":"GO:1900486","count":1}]},{"hash":"1207269620374726097","title":"Kinase Regulation and ER\u2013Golgi Trafficking","description":"The GO terms emphasize regulation of phosphorylation and kinase activity, suggesting a kinase signaling module, while vesicle budding and Golgi\u2013ER transport point to the secretory pathway; together with developmental terms like brain development and multicellular growth, this implies kinases coordinating signaling and intracellular trafficking during development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031954","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0000747","count":2}]},{"hash":"937357760352195000","title":"Adaptive immune signaling and T cell activation","description":"The GO terms point strongly to adaptive immunity and T cell\u2013centered signaling, including adaptive immune response, T cell proliferation/proliferation regulation, and inflammatory response modulation (along with ERK and TGF-beta signaling). Some terms like development and mechanical stimulus are peripheral but do not override the core immune-focused signals. Overall, this cluster appears to reflect T cell\u2013mediated adaptive immune signaling and activation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0045060","count":2}]},{"hash":"1727225738074891847","title":"Unknown","description":"The GO terms are too diverse to reveal a single coherent function for the four proteins, spanning membrane targeting, protein folding, stress responses, and unrelated processes like cell wall biosynthesis and mating. There isn\u2019t a clear common theme to justify a specific label, so Unknown with None confidence is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903751","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0000742","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0090084","count":1}]},{"hash":"771518659660016669","title":"Unknown","description":"The Top Terms span widely disparate processes (regulation of transcription, spindle assembly, axial mesoderm formation, NMDA receptor clustering, dendritic spine morphogenesis, spermatogenesis, Rac signaling, angiogenesis, fibroblast apoptosis) with no clear single functional theme. The lack of edges supports grouping this as a non-specific or miscellaneous set, so no cohesive label can be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0051225","count":2},{"id":"GO:1904743","count":1},{"id":"GO:0048320","count":1},{"id":"GO:0097114","count":1}]},{"hash":"555325653036699982","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning hematopoietic differentiation (erythrocyte/granulocyte development), various biosynthetic processes for ergothioneine, plant gravitropism, DNA replication initiation, and even developmental terms. With no clear, single functional theme linking these terms and no edges among the proteins, there isn\u2019t a coherent biological function to label this cluster; thus it should be Unknown. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":2},{"id":"GO:0030851","count":2},{"id":"GO:1903253","count":1},{"id":"GO:1903255","count":1},{"id":"GO:1903257","count":1}]},{"hash":"1991215930404700196","title":"Neuronal mitochondrial regulation and mitophagy","description":"Most terms emphasize mitochondrial regulation: autophagy of mitochondrion, calcium import into mitochondrion, protein import into mitochondrial matrix, and ROS regulation. A neural aspect is represented by neuron-neuron synaptic transmission. Together these suggest a cluster focused on mitochondrial function and quality control in neural cells, with ancillary mentions of ciliogenesis and regeneration reflecting broader developmental contexts.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":4},{"id":"GO:0007270","count":4},{"id":"GO:1902017","count":4},{"id":"GO:1903959","count":4},{"id":"GO:0006820","count":4}]},{"hash":"1712141157628227194","title":"Unknown","description":"The GO terms span sporulation, vascular/organ development, chromatin regulation, isoprenoid biosynthesis, and cell cycle control, with no single dominant process linking all four proteins. This heterogeneous mix makes a coherent functional label unclear.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030437","count":1},{"id":"GO:0001569","count":1},{"id":"GO:0035562","count":1},{"id":"GO:1900486","count":1},{"id":"GO:0060316","count":1}]},{"hash":"1068449450264546356","title":"Cytochrome c\u2013mediated apoptosis and mitochondrial respiration","description":"This cluster is dominated by GO terms linking cytochrome c to apoptosis (cytochrome c\u2013heme linkage, apoptotic process, and cytochrome c\u2013mediated activation), and by mitochondrial electron transport (cytochrome c to O2). Additional terms about hydrogen peroxide metabolism and its negative regulation suggest ROS signaling and oxidative stress handling, which are closely tied to mitochondrial function and apoptosis, with a plant-related term like photosynthesis reflecting context but not changing the core theme. Overall, the proteins appear grouped around mitochondria-driven energy production and programmed cell death, with ROS as a modulatory factor.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008635","count":1},{"id":"GO:0018063","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0006470","count":1},{"id":"GO:0015979","count":1}]},{"hash":"1438384666234472725","title":"Telomere maintenance and transcriptional regulation","description":"Based on the prominent telomere-related terms (telomeric D-loop disassembly, telomeric loop formation, shelterin complex assembly, and negative regulation of transcription by RNA Pol II), the cluster appears to center on telomere maintenance coupled to transcriptional control. The leaf-related terms (leaf senescence, jasmonic acid response) are present but appear less central, possibly reflecting broader plant signaling annotations or incidental associations. Overall, the dominant theme ties telomere dynamics with transcriptional regulation.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1900056","count":2},{"id":"GO:0009753","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0010338","count":2},{"id":"GO:0061820","count":2}]},{"hash":"875447853743774158","title":"Innate immune response and antiviral defense","description":"Top terms include innate immune response and defense response to virus, indicating a core immune function; a cluster of transport-related transmembrane terms suggests supplementary membrane transport roles in the same set of proteins. With only four proteins and a mix of immune and transport GO terms, the label 'Innate immune response and antiviral defense' best captures the dominant signal while acknowledging secondary transport functions.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010735","count":2},{"id":"GO:1904706","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0015753","count":1}]},{"hash":"736445430222049779","title":"Amino acid metabolism and redox balance","description":"The Top Terms point to amino acid biosynthesis/metabolism (glutamine, phenylalanine, glutamate) and central carbon metabolism (TCA cycle), together with redox-related processes (cell redox homeostasis, oxidant detoxification, deglutathionylation). This suggests a cluster of proteins involved in basic amino acid metabolism linked to maintaining cellular redox state.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":1},{"id":"GO:0009094","count":1},{"id":"GO:0019552","count":1},{"id":"GO:0006537","count":1},{"id":"GO:0019551","count":1}]},{"hash":"1331167043625603007","title":"Mitosis and ubiquitin-dependent proteolysis","description":"The cluster is best described by strong signals for mitotic processes (mitotic cell cycle, cell division, anaphase-promoting complex\u2013dependent catabolic process) and ubiquitin-mediated regulation (ubiquitin-dependent degradation, protein autoubiquitination), suggesting these proteins function together in cell division and proteolysis. A few stress- or hormone-associated terms appear, but do not define the core theme. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030579","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0090359","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1447899324436827096","title":"Unknown","description":"The GO terms are diverse and largely unconnected (muscle development, sensory perception of sound, histone turnover/modification, TNF/NF-kappaB signaling, ubiquitination, and viral transport regulation), with no clear, cohesive function linking the proteins. Therefore an informative specific label cannot be assigned. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0036205","count":1},{"id":"GO:0090073","count":1},{"id":"GO:0007250","count":1}]},{"hash":"2256582336640897393","title":"Developmental Transcription Regulation","description":"The cluster\u2019s top GO terms converge on multicellular development (forebrain, skeletal system, general development) and DNA-templated transcription, suggesting these proteins participate in developmental transcriptional programs. While some terms touch on stress responses or immune-related processes, the dominant theme appears to be transcriptional control during development, with possible links to cell cycle aspects. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3}]},{"hash":"885028079760020457","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000461","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000028","count":1}]},{"hash":"2044015614389470779","title":"Antibacterial Humoral Defense","description":"Two proteins in the cluster are annotated with antibacterial immune functions (defense response to Gram-positive bacterium and antibacterial humoral response), suggesting a shared theme of antibacterial defense. The remaining terms are diverse (spermatid development, chromatin assembly, transcription regulation, etc.), indicating mixed functions beyond immunity. Thus the most representative, specific theme available is antibacterial humoral defense, though the signal is modest due to the small cluster size.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0019731","count":2},{"id":"GO:0000122","count":1}]},{"hash":"2243048887332415875","title":"Neural development signaling pathways","description":"This cluster centers on nervous system development with multiple neural signaling cascades\u2014canonical Wnt, SHH (Smoothened), ephrin receptor signaling, and Roundabout guidance\u2014along with hippocampus and spermatid development terms. The convergence on neural development and axon-guidance pathways suggests the proteins participate in neurodevelopmental signaling networks.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0060070","count":2}]},{"hash":"156842379193391696","title":"Embryonic tissue and vascular development","description":"The terms strongly point to development across multiple tissues (bone ossification, limb and skin development, metanephric tubule development) and vascular morphogenesis with endothelial regulation, suggesting a shared developmental program with a vascular emphasis. A few outliers (protein methylation, ascospore formation) are present but do not dominate the theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0001937","count":3},{"id":"GO:0072221","count":3}]},{"hash":"2244125840713807145","title":"Embryonic development and tissue differentiation","description":"The cluster includes GO terms tied to skeletal (osteoblast/chondrocyte development), dental (odontogenesis), limb morphogenesis, eye cell differentiation, immune lineage differentiation (T cell differentiation, hemopoiesis), and broad transcriptional activity, plus Hedgehog pathway regulation. This points to a shared theme of developmental differentiation across multiple tissues rather than a single pathway, hence the label. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":3},{"id":"GO:0006366","count":2},{"id":"GO:0042675","count":2},{"id":"GO:0002063","count":2},{"id":"GO:0030217","count":2}]},{"hash":"2004648407297484888","title":"Cell migration and cytoskeletal remodeling","description":"The major GO terms cluster around actin-driven membrane protrusions (filopodium/lamellipodium assembly), adhesion-dependent spreading, and cell migration, with regulation of Rho signaling supporting cytoskeletal dynamics. Although some terms touch on signaling pathways and vessel development, the dominant theme is motility and cytoskeleton.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0060313","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1621856823728891774","title":"Unknown","description":"The top GO terms are a mix of spermatogenesis-related annotations and unrelated processes (immune response, morphogenesis, biosynthetic processes), with no clear shared function across all four proteins. There isn\u2019t a coherent theme that ties the cluster together, so a specific, confident label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0007638","count":2},{"id":"GO:0006955","count":2}]},{"hash":"843841330268064274","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning metal ion transport, vacuolar import, cell division, immune antigen processing, sperm capacitation, and pheromone export, with no single cohesive function linking them. This makes it impossible to assign a precise, representative label for the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015689","count":2}]},{"hash":"2273939143037529347","title":"Vacuolar Proton and Ion Transport","description":"The GO terms cluster around proton and ion movement (proton transmembrane transport; proton motive force-driven ATP synthesis) together with vacuolar-specific processes (vacuolar acidification; vacuole organization; protein targeting to vacuole), and metal ion homeostasis (copper, calcium) and sodium transport. This pattern suggests a cohesive role in membrane-based ion regulation within vacuolar compartments, likely tied to proton gradients and transporters.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":4},{"id":"GO:0006626","count":3},{"id":"GO:0042777","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0006814","count":3}]},{"hash":"492197010677542198","title":"Isoprenoid and sterol biosynthesis","description":"This cluster shows GO terms centered on biosynthesis of terpenoids and sterols (geranyl/farnesyl/geranylgeranyl diphosphate, monoterpene, quinone, cholesterol), indicating involvement in isoprenoid/sterol production. Some terms like protein transport and immunological synapse formation are less connected and may reflect annotation noise, but the dominant theme is lipid/isoprenoid biosynthesis.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051290","count":1},{"id":"GO:1901663","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0033384","count":1},{"id":"GO:0045337","count":1}]},{"hash":"753328149422027196","title":"Cell cycle regulation and DNA damage response","description":"This cluster is dominated by terms related to cell division and genome integrity, including mitotic cell cycle, regulation of cytokinesis, and the intrinsic apoptotic signaling pathway in response to DNA damage, suggesting a core theme of cell cycle control coupled with DNA damage response; additional terms point to transcriptional activity and stress-related responses as contextual features.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0032466","count":2},{"id":"GO:0008630","count":1}]},{"hash":"1228305070313035115","title":"Innate Immune Activation and Cell Adhesion","description":"The cluster is dominated by terms for innate immune response and classical complement activation, complemented by cell adhesion and basement membrane development, suggesting proteins involved in immune defense at tissue interfaces; some neuronal-related terms appear less central but may reflect broader annotations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0071639","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0045162","count":2}]},{"hash":"2015298432787916507","title":"Mitochondrial tRNA charging and translation","description":"The cluster is strongly enriched for mitochondrial tRNA aminoacylation activities (aspartyl-, asparaginyl-, lysyl-, phenylalanyl-, etc.) together with translation in mitochondria, indicating these proteins are part of the mitochondrial protein synthesis machinery. The combination of tRNA charging and translation terms suggests a cohesive functional unit rather than unrelated roles.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0070145","count":3},{"id":"GO:0070146","count":3},{"id":"GO:0072581","count":3},{"id":"GO:0071915","count":3}]},{"hash":"644841386528524162","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0030466","count":1},{"id":"GO:0046331","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0009744","count":1}]},{"hash":"1208642600235493921","title":"Immune and endothelial regulation","description":"The top GO terms cluster around immune functions (plasma cell differentiation, immunoglobulin production) and vascular/endothelial processes (endothelial morphogenesis, angiogenesis regulation, endothelial proliferation), with several entries indicating negative regulation. This suggests a cluster centered on immune\u2013vascular regulation, with a possible minor neuronal note, rather than a single tight pathway. Confidence: Medium","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001886","count":1},{"id":"GO:0010977","count":1},{"id":"GO:0002317","count":1},{"id":"GO:0016525","count":1},{"id":"GO:0042985","count":1}]},{"hash":"532829184293951371","title":"Unknown","description":"The GO terms are highly mixed across sporulation, developmental processes (vascular branching, lung development, cardiac hypertrophy), chromatin regulation, metabolism (mevalonate pathway), calcium signaling, meiotic and mitotic cell cycles, and immune development. With only three proteins and no dominant shared function, there isn\u2019t a coherent theme to assign a specific, representative name.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030437","count":3},{"id":"GO:0001569","count":3},{"id":"GO:0035562","count":3},{"id":"GO:1900486","count":3},{"id":"GO:0060316","count":3}]},{"hash":"458943251116921888","title":"Developmental differentiation","description":"Several terms clearly point to developmental biology: brain development, spinal cord development, and osteoblast differentiation. These suggest a theme around differentiation during organismal development. Other terms (mitotic spindle assembly, chromatin assembly, translation reinitiation, inflammatory cytokine production, viral mRNA export, glucose signaling) are more scattered, so the label remains a cautious, development-focused category rather than a precise single function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0002534","count":1},{"id":"GO:0090307","count":1},{"id":"GO:0061641","count":1}]},{"hash":"38275575712316494","title":"Placental and cardiovascular development","description":"The predominant GO terms point to developmental processes, especially placental and cardiovascular/vascular development (heart development, labyrinthine layer blood vessel development, hemopoiesis). Hyaluronan metabolism suggests extracellular matrix remodeling typical of developmental formation. Taken together, the proteins seem involved in embryonic placental-vascular development rather than a single metabolic pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030097","count":2},{"id":"GO:0030212","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0035924","count":2},{"id":"GO:0097194","count":2}]},{"hash":"218009916009966934","title":"mRNA Splicing and Translation Regulation","description":"The proteins in this cluster are tied to RNA processing and post-transcriptional control, with GO terms spanning spliceosome-mediated splicing, alternative splicing regulation, splice site recognition, mRNA stability under stress, and translation control (miRNA-mediated silencing, eIF4F complex assembly, and translation reinitiation). This suggests a cohesive module coordinating RNA maturation with initiation/maintenance of translation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0060211","count":3},{"id":"GO:0097010","count":3},{"id":"GO:0002188","count":3}]},{"hash":"386612652217323587","title":"Unknown","description":"This cluster currently lacks shared GO annotations; there are no top terms listed and only a single edge connects the proteins, so a common function can't be inferred. With more GO terms or enrichment data, a more specific label could be assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"729367032143248969","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0009087","count":1},{"id":"GO:1903758","count":1}]},{"hash":"857742856440206629","title":"Cellular stress response and translation control","description":"This cluster centers on core processes of protein synthesis and ribosome biogenesis (ribosomal subunit assembly, translation, rRNA maturation) along with proteostasis and stress adaptation (protein autoubiquitination, heat acclimation, ER stress\u2013related apoptotic signaling). A few terms point to broader stress and immune responses (insecticide response, MyD88-dependent TLR signaling, DNA repair), which can also be part of generalized cellular stress responses. Overall, the patterns suggest a theme around how cells cope with stress by regulating translation and protein quality control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":3},{"id":"GO:0070911","count":3},{"id":"GO:0034126","count":3},{"id":"GO:0045759","count":3},{"id":"GO:1902236","count":3}]},{"hash":"83565482082944007","title":"Neural development and brain patterning","description":"The GO terms are dominated by neural lineage specification and brain region development (interneuron differentiation, motor neuron fate, oligodendrocyte fate, spinal cord patterning, anterior/posterior specification), with additional transcriptional regulation broadening to developmental processes. This suggests a coherent theme of neural development and regional patterning, despite a couple of non-neural terms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031018","count":2},{"id":"GO:0090103","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0021892","count":2},{"id":"GO:0060435","count":2}]},{"hash":"875692188201438217","title":"Mitochondrial Energy Metabolism and Redox Balance","description":"The cluster shows strong signals for mitochondrial processes (GO:0006120 NADH to ubiquinone) and redox-related activities (GO:0045454 cell redox homeostasis, GO:0009106 lipoate metabolic process), suggesting a cohesive theme around mitochondrial energy production and redox regulation. While a few terms are more peripheral (e.g., sperm capacitation, megakaryocyte differentiation), the core pattern points to metabolism and oxidative balance within mitochondria.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":3},{"id":"GO:0045654","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0010269","count":3},{"id":"GO:0097054","count":3}]},{"hash":"1662565716192438383","title":"Nucleotide biosynthesis and metabolism","description":"The Top Terms are dominated by nucleotide metabolism and phosphorylation processes (ADP, CDP, GTP, AMP, and nucleoside monophosphate phosphorylation, CDP biosynthetic process). While there are a couple of development terms (brain/liver development), the strongest and most frequent signals point to nucleotide biosynthesis and metabolism as the cluster\u2019s shared function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046041","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0046939","count":1},{"id":"GO:0046705","count":1},{"id":"GO:0046940","count":1}]},{"hash":"272672595696032653","title":"Immune-ECM Remodeling and Barrier Regulation","description":"Proteins in this cluster cluster around immune functions (complement activation, defense against Gram-positive bacteria, regulation of inflammatory mediators) and extracellular matrix remodeling, along with processes that affect endothelial barrier integrity and cell migration/proliferation. This suggests a theme of immune-driven extracellular matrix remodeling and vascular barrier modulation, even though a few terms (e.g., midbrain development, transcription regulation) are less clearly connected and may reflect broader annotations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045415","count":1},{"id":"GO:0014909","count":1},{"id":"GO:0006958","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0022617","count":1}]},{"hash":"1699101224902850478","title":"Cytokine and Growth Factor Signaling","description":"The top GO terms indicate involvement in multiple signaling pathways across immune and growth contexts (interleukin-4 and interleukin-3-related signaling, IGF receptor signaling, Wnt pathway regulation, ERK cascade, and Rho-mediated signaling), along with processes like platelet aggregation. This clustering points to a cohesive theme of cytokine/growth factor signaling regulation rather than a single, isolated function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035771","count":3},{"id":"GO:0045659","count":3},{"id":"GO:0090330","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0045401","count":3}]},{"hash":"2244489805047850409","title":"Adaptive immune regulation","description":"The GO terms are dominated by adaptive immune functions: T cell and B cell homeostasis, regulation of T-helper differentiation, germinal center formation, NF-kappaB and TNF signaling, autophagy, and antiviral transcription control. This points to coordinated regulation of adaptive immune responses and related signaling pathways, rather than a single metabolic process.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":2},{"id":"GO:0045623","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0006914","count":2},{"id":"GO:1903265","count":2}]},{"hash":"748641675007218626","title":"Unknown","description":"The GO terms for this cluster span inflammation, cell cycle and chromatin assembly, development across tissues, circadian regulation, translation, signaling, ubiquitination, and actin nucleation, with no clear, single pathway or function tying them together. This suggests a pleiotropic or mixed-function cluster rather than a cohesive module.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002534","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0042752","count":2}]},{"hash":"2117997190213441137","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":2},{"id":"GO:0046597","count":1},{"id":"GO:0045116","count":1},{"id":"GO:0045623","count":1},{"id":"GO:0001782","count":1}]},{"hash":"889785231850447360","title":"Circadian-regulated neural excitability","description":"The GO terms show a core theme of neuronal signaling and excitability (Na+/K+ transport, excitatory postsynaptic potential, action potential regulation) alongside circadian rhythm processes (circadian sleep/wake cycle and ovulation rhythm) and behavioral drug responses (nicotine, cocaine, insecticide). This suggests a cluster of proteins involved in neural signaling with circadian timing and responsiveness to external cues, including ion channels and synaptic components. Confidence is moderate given some terms extend beyond strict neuronal excitability, but the neuronal/circadian theme is clear.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":2},{"id":"GO:0017085","count":2},{"id":"GO:0060112","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2}]},{"hash":"2088803836998856171","title":"Cellular stress response and protein folding","description":"This cluster\u2019s GO terms cluster around heat acclimation, protein unfolding/refolding, stress granule dynamics, and microtubule remodeling under stress, suggesting a shared role in cellular stress management and protein quality control, with supportive links to trafficking and chromatin assembly under stress conditions.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070370","count":3},{"id":"GO:0048219","count":3},{"id":"GO:1990171","count":3},{"id":"GO:0061641","count":3},{"id":"GO:0070389","count":3}]},{"hash":"456541189696893645","title":"Chromatin modification and transcription regulation","description":"The terms cluster around histone modification (e.g., acetylation), nucleosome dynamics, and heterochromatin formation, paired with transcription initiation and RNA silencing. The inclusion of developmental cues (segment specification, vegetative-to-reproductive transition) and signaling pathways (Wnt/planar cell polarity) suggests a chromatin-level control of gene expression in developmental contexts, justifying a label tied to chromatin-based transcription regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":1},{"id":"GO:0007379","count":1},{"id":"GO:2000096","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0043486","count":1}]},{"hash":"2243047777151796853","title":"Unknown","description":"The GO terms span a wide and diverse set of processes (gene regulation via DNA binding, stress/heat response, chaperone/refolding, translational frameshifting, mesoderm development, nuclear export/regulation, inclusion body dynamics, redox homeostasis, membrane targeting, and hormone signaling) with no clear unifying function. The cluster also shows no edges or interactions, making it hard to define a concise, representative label. Therefore, there\u2019s no coherent theme to assign a specific cluster name.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0001707","count":1}]},{"hash":"847623254130481867","title":"Starvation-Responsive Translation and Stress","description":"The GO terms show a core of translation and starvation responses (positive regulation of translational initiation in response to starvation, cytoplasmic translation, and positive regulation of cellular response to amino acid starvation) with related stress and survival processes (autophagy regulation, phosphatidylserine exposure in apoptosis, LPS response). Although the terms are somewhat diverse, their common thread is how cells adjust protein synthesis and survival pathways under nutrient stress. Confidence in this thematic label is Medium due to gene-term diversity and sparse connectivity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042632","count":1},{"id":"GO:0060368","count":1},{"id":"GO:2000373","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0070782","count":1}]},{"hash":"1210049721640317912","title":"Chromatin organization and histone modification","description":"This cluster is dominated by GO terms related to chromatin structure and regulation (nucleosome assembly, heterochromatin organization) and histone modifications (H3K27me3, H3K4me3), indicating proteins involved in chromatin state regulation and nucleosome dynamics.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0098532","count":3},{"id":"GO:0070828","count":3},{"id":"GO:0071169","count":3}]},{"hash":"1619595508816066541","title":"Olfactory & Photoreceptor GPCR Signaling","description":"The top terms center on GPCR signaling coupled to cGMP and sensory outputs, notably phototransduction and olfactory behavior, with related navigation behaviors like thermotaxis and aerotaxis. This suggests a theme of sensory perception via GPCR pathways, particularly olfactory and photoreceptive signaling. Some terms (potassium transport, mRNA export) are less specific but do not override the main sensory GPCR pattern.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0003065","count":1},{"id":"GO:0060298","count":1},{"id":"GO:0007602","count":1}]},{"hash":"1321598549477343763","title":"Synapse Assembly and NMDA Receptor Clustering","description":"This cluster is strongly characterized by GO terms tied to synapse organization and receptor clustering, including synapse assembly, dendritic spine morphogenesis, and NMDA glutamate receptor clustering, indicating a focus on neuronal synapse formation and excitatory receptor arrangement.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":1},{"id":"GO:0001771","count":1},{"id":"GO:1903760","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0035023","count":1}]},{"hash":"585149597920582800","title":"Neural development and Wnt signaling","description":"Most terms point to neural development and signaling, including brain and corticospinal neuron axon guidance, heart development, and Wnt signalosome assembly, suggesting a neural-development/Signaling theme. Some outliers (mitochondrial complex IV assembly, copper transfer, brassinosteroid stimulus) may reflect broader cellular roles or annotation noise, but the dominant pattern is neural development and associated signaling pathways.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:1904960","count":1},{"id":"GO:0015680","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0018343","count":1}]},{"hash":"579099425525249511","title":"Metal ion and osmoprotectant transport","description":"The top GO terms cluster around transport of various ions (potassium, cobalt, molybdate) and osmolytes (glycine betaine) and phytochelatin import into vacuole, indicating a shared function of transporting metals and compatible solutes. Some non-related terms appear, but the dominant theme is ion/solute transport, hence the name.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0015689","count":3},{"id":"GO:0036246","count":3},{"id":"GO:0006824","count":3},{"id":"GO:0048240","count":3}]},{"hash":"2126773746747966421","title":"Wnt signaling and membrane trafficking","description":"The top GO terms emphasize Wnt pathway components (signalosome assembly and positive regulation of canonical Wnt signaling) and several membrane/trafficking processes (endosome-to-Golgi transport, ER-mitochondrial tethering, membrane addition at cytokinesis), suggesting a theme of Wnt signaling linked to membrane dynamics. Some terms (touch perception, Fc receptor signaling) may reflect annotation noise or multi-functional proteins, but the dominant pattern points to Wnt signaling in conjunction with intracellular trafficking.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904887","count":3},{"id":"GO:0050975","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0061028","count":3},{"id":"GO:0043552","count":3}]},{"hash":"1544067945901259026","title":"Embryonic Development and Morphogenesis","description":"The terms cluster around embryonic tissue formation, branching morphogenesis, and regulated proliferation across multiple organs (retina, forebrain, vasculature, adipose tissue, otic vesicle, etc.), with Wnt signaling involvement, indicating a general theme of developmental morphogenesis and proliferation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060059","count":3},{"id":"GO:0021846","count":3},{"id":"GO:0050872","count":3},{"id":"GO:0048807","count":3},{"id":"GO:0050677","count":2}]},{"hash":"1737115268919345161","title":"Neural development and signaling","description":"This cluster shows a convergence on neural development and signaling processes: axon extension and compound eye morphogenesis point to neuronal growth, while ERK and PI3K/AKT pathway terms indicate common signaling mechanisms underlying neural development. The presence of immune regulation terms suggests broader signaling regulation as well, but the strongest themes are neural development and associated signaling cascades.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":1},{"id":"GO:0032007","count":1},{"id":"GO:0050868","count":1},{"id":"GO:0050728","count":1},{"id":"GO:0070374","count":1}]},{"hash":"2259857904163120816","title":"Immune cell chemotaxis and T cell regulation","description":"This cluster shows GO terms centered on immune cell migration (neutrophil, eosinophil, macrophage chemotaxis) and immune regulation (negative regulation of CD4+ T cell proliferation; plasma cell differentiation) plus related adhesion. Despite a couple plant-specific terms appearing in the list, the dominant theme is recruitment and modulation of immune cells, suggesting a cluster tied to immune cell trafficking and function. Confidence: Medium.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000562","count":1},{"id":"GO:0030593","count":1},{"id":"GO:0048245","count":1},{"id":"GO:0035900","count":1},{"id":"GO:0007157","count":1}]},{"hash":"695270516146943802","title":"Triglyceride catabolism and lipid remodeling","description":"The top GO terms cluster around triglyceride metabolism and lipid turnover, including triglyceride catabolic processes, mobilization, and acyl-chain remodeling (also involving phosphatidylcholine and phosphatidylethanolamine catabolism). This shared theme points to lipid breakdown and remodeling as the cluster\u2019s core function.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036153","count":3},{"id":"GO:0010898","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0034638","count":3},{"id":"GO:2000480","count":3}]},{"hash":"687497649990515729","title":"RNA processing and translation control","description":"The proteins in this cluster are tagged mainly with GO terms tied to post-transcriptional regulation: miRNA-mediated gene silencing, splicing regulation via the spliceosome, mRNA stability under stress, poly(A) tail regulation, and assembly of the translation initiation complex (eIF4F) along with translation reinitiation. There is also a note of enhanced nuclear import, which complements the RNA processing theme, suggesting a cohesive module governing RNA processing and translational control from nucleus to cytoplasm.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0042307","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0097010","count":1}]},{"hash":"2166471427747007168","title":"Histone modification and transcriptional regulation","description":"The top GO terms cluster around histone acetylation (H3-K23, H3-K27) and the negative regulation of transcription, indicating an epigenetic/ chromatin-level control of gene expression. Although a few terms touch on development or immune processes, the strongest signal is epigenetic regulation via histone modification and transcriptional control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043972","count":2},{"id":"GO:0002458","count":2},{"id":"GO:0032602","count":2},{"id":"GO:0000122","count":2},{"id":"GO:1904388","count":2}]},{"hash":"47273774876188135","title":"Unknown","description":"This cluster's GO terms cover very disparate processes\u2014from fungal lipid metabolism (ergosterol, unsaturated fatty acids, MIPC) to nitrate assimilation and mitochondrion inheritance, plus several vertebrate development and signaling processes (Notch pathway, pharynx development, CNS myelin maintenance, sebaceous gland differentiation) and nitric oxide synthesis. There is no clear shared function linking the proteins, so a coherent, specific label isn\u2019t supported. ","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032443","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0006636","count":1}]},{"hash":"1696738285948546194","title":"Developmental differentiation and translation regulators","description":"The GO terms cluster around regulatory roles in development (bone/osteoblast/osteoclast differentiation, dentate gyrus development, endothelial differentiation, neural precursor proliferation) and gene expression control (protein methylation, mRNA deadenylation, translation regulation). This suggests a set of proteins that modulate when and how cells differentiate while tuning post-transcriptional and post-translational processes, rather than a single concrete pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006479","count":2},{"id":"GO:2000178","count":1},{"id":"GO:0045668","count":1},{"id":"GO:0045778","count":1},{"id":"GO:0060212","count":1}]},{"hash":"381774703110302478","title":"Oocyte mRNA processing and translation control","description":"These proteins cluster around post-transcriptional regulation of mRNA: translation initiation and reinitiation, miRNA-mediated silencing, splicing regulation, and poly(A) tail-related control, with a strong emphasis on oskar mRNA translation and oocyte axis specification. A single term about paranodal junctions appears out of place but does not override the overarching RNA processing/translation theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":2},{"id":"GO:0046011","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0060211","count":1}]},{"hash":"1746349793575086180","title":"Embryonic Organogenesis and Tissue Morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes across multiple organs (inner ear, cartilage, neural crest, brain segmentation, autonomic nervous system, endocrine pancreas, and digestive tract), indicating a broad theme of embryonic organ development rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":3},{"id":"GO:0051216","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0001755","count":2},{"id":"GO:1904081","count":2}]},{"hash":"2126149122834524779","title":"Developmental and Immune Signaling","description":"The top GO terms point to embryonic hemopoiesis, multicellular and heart development, alongside signaling pathways such as STAT phosphorylation, NF-kappaB, ERK, and responses to LPS, suggesting proteins that bridge development with immune/inflammatory signaling. This supports labeling the cluster as Developmental and Immune Signaling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035162","count":2},{"id":"GO:0042511","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043123","count":2}]}]