[{"hash":"1582914080740557498","title":"Ubiquitin-Driven Innate Immune Signaling","description":"The cluster shows strong enrichment for ubiquitination-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K63-linked ubiquitination) alongside innate immune terms (innate immune response, defense response to virus, TNF signaling, I-kappaB phosphorylation), indicating a cohesive role in ubiquitin-mediated regulation of antiviral innate immunity and proteostasis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0045087","count":9},{"id":"GO:0000209","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0051865","count":8}]},{"hash":"1427094795498934552","title":"Ubiquitin-Dependent Degradation and Innate Immunity","description":"The cluster is strongly enriched for ubiquitin-dependent proteolysis (including autoubiquitination and various ubiquitin linkages) and ERAD, plus immune-related terms such as innate immune response and defense against virus, along with regulation of JNK signaling. This points to a cohesive group of proteins that regulate protein turnover through ubiquitination while modulating antiviral and inflammatory signaling pathways.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051865","count":6},{"id":"GO:1903265","count":5},{"id":"GO:0036205","count":5},{"id":"GO:0045087","count":5}]},{"hash":"501845310520317607","title":"Neural development and axon guidance","description":"Most prominent GO terms point to nervous system and neuron projection development, including Roundabout signaling and ERK cascade regulation, indicating roles in neural connectivity and axon guidance. While there are also broader organ development terms (kidney, lens, skeletal), the shared function center is neural development and axon guidance.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":4},{"id":"GO:0001501","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0070306","count":3}]},{"hash":"2132939347217891060","title":"Mitosis and cell cycle regulation","description":"The top GO terms are dominated by mitotic cell cycle, cell division, and APC-dependent catabolic processes, pointing to a core function in mitosis and cell-cycle control. Additional terms like mRNA transport and regulation of GTPase activity/peptidyl-tyrosine phosphorylation suggest broader regulatory layers linked to cell signaling and gene expression during division; stress-response terms (cadmium, hypoxia) may reflect conditional modulation but do not override the central mitotic signal.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":16},{"id":"GO:0071276","count":13},{"id":"GO:0071456","count":13},{"id":"GO:0031145","count":12},{"id":"GO:2001162","count":12}]},{"hash":"1004119115911779880","title":"Unknown","description":"The top GO terms span development (uterus, atrioventricular canal, keratinocyte differentiation), signaling (IL-6, TGF-beta), transcription, sensory processes (visual perception, neurotransmitter handling), and transport, with no coherent, single functional theme tying all proteins together. Edges are zero, and many proteins were re-added by RECIPE, suggesting a random or heterogeneous set rather than a functionally cohesive cluster. Therefore there isn\u2019t a clear label beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0071407","count":2}]},{"hash":"2070300852089881960","title":"Diverse nutrient and neurotransmitter membrane transporters","description":"The top GO terms point to a cohesive set of transmembrane transport activities across many substrates (phosphate, nitrate, sugars like galactose and arabinose, vitamins, sialic acid, xenobiotics, etc.), plus a role in loading neurotransmitters into synaptic vesicles. This pattern suggests a cluster of membrane transporter proteins with broad substrate specificity, rather than unrelated functions.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0098700","count":4}]},{"hash":"1557643775025316","title":"GPCR-Mediated Signaling in Heart and Vision","description":"This cluster is driven by GPCR signaling (adenylate cyclase-activating pathways), ERK1/2 cascade, and prostaglandin responses, with strong cardiovascular terms (blood pressure, heart development) and sensory terms (pain, visual perception/learning). While energy metabolism (electron transport chain) appears, the dominant theme centers on GPCR-driven signaling affecting heart/vascular and visual sensory functions, with immune-related macrophage chemotaxis as a secondary link.","confidence":"Medium","size":29,"edges":35,"triangles":66,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007601","count":15}]},{"hash":"1072386426153374095","title":"Mitochondrial translation and nuclear protein regulation","description":"The terms center on protein synthesis and targeting, especially translation and mitochondrial translation, plus mitochondrial import and post-translational trafficking to membranes, and broader nuclear quality control via ubiquitin-proteasome pathways (including ERAD-related activity) and DNA replication. This suggests a cohesive theme around gene expression, protein targeting, and quality control across mitochondria and the nucleus, rather than a single specific function.","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006626","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070131","count":3},{"id":"GO:0006469","count":2}]},{"hash":"945860734703492884","title":"T cell signaling and stress responses","description":"The top GO terms show a clear emphasis on T cell\u2013related processes (T cell homeostasis, calcineurin-NFAT signaling, and negative regulation of T cell cytotoxicity), indicating an immune signaling theme. There are additional terms tied to core cellular processes (DNA replication, RNA polymerase II termination) and stress responses (unfolded protein response), suggesting the cluster spans immune signaling with broader cellular stress context rather than a purely immune module. Overall, the immune signaling aspect appears dominant, though not exclusive.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043029","count":8},{"id":"GO:0006260","count":6},{"id":"GO:0006986","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0022011","count":4}]},{"hash":"1749083616958225912","title":"Steroid receptor signaling and chromatin remodeling","description":"Most terms cluster around steroid hormone receptor complex assembly, male sex differentiation, and cellular processes tied to transcriptional regulation and chromatin state (e.g., histone methylation/dephosphorylation). While some terms reflect peripheral stress or immune responses, the core theme points to hormone-driven signaling influencing chromatin remodeling and gene expression, justifying this label.","confidence":"Medium","size":29,"edges":273,"triangles":1472,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043278","count":9},{"id":"GO:0046661","count":8},{"id":"GO:0006463","count":8},{"id":"GO:0035457","count":8},{"id":"GO:0070301","count":8}]},{"hash":"2129686232133907063","title":"Developmental angiogenesis and axon guidance","description":"Based on the top GO terms, the proteins are enriched for developmental processes involving blood vessel formation and neural guidance: coronary artery morphogenesis; cell migration during sprouting angiogenesis; axon extension and its positive regulation; cell adhesion. These converge on morphogenesis and guided cell movement, with additional adhesion terms supporting tissue remodeling. A lectin pathway complement activation term appears but does not dominate the theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060982","count":12},{"id":"GO:0048846","count":11},{"id":"GO:0001867","count":11},{"id":"GO:0045880","count":10},{"id":"GO:0048632","count":10}]},{"hash":"2214242140721182620","title":"Signaling pathways with metabolic and immune links","description":"The cluster\u2019s top GO terms span multiple signaling cascades (Ras, Wnt, interferon) along with immune-related responses (macrophage CSF stimulus, IL-15 response), metabolic regulation (glucose homeostasis, IP3 biosynthesis), and proteasomal degradation, plus CNS development. This suggests a cohesive group of proteins that primarily regulate signal transduction with interconnected roles in metabolism, immunity, and development. ","confidence":"Medium","size":29,"edges":53,"triangles":32,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":13},{"id":"GO:0042593","count":13},{"id":"GO:0036006","count":12},{"id":"GO:0086098","count":12},{"id":"GO:0090263","count":12}]},{"hash":"971404764188556630","title":"Angiogenesis and immune signaling with ECM remodeling","description":"The cluster is rich in terms related to blood vessel formation and endothelial cell migration (angiogenesis, positive regulation of angiogenesis, endothelial migration), signaling pathways (ERK/MAPK activation, receptor tyrosine kinase activation), and extracellular matrix remodeling (collagen fibril organization). It also features immune-related terms (complement activation, adaptive immune response) and responses to fungal origin, suggesting a connected vascular-immune signaling network. The combination points to coordinated angiogenesis with immune and ECM involvement rather than a single isolated function.","confidence":"Medium","size":29,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":22},{"id":"GO:0001525","count":18},{"id":"GO:0043536","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0002250","count":17}]},{"hash":"1791557010985391278","title":"Embryonic and Organ Development","description":"The top GO terms cluster around development and differentiation across several tissues (neural maturation and axonogenesis, heart and inner ear morphogenesis, in utero embryonic development, vaginal development, granulocyte differentiation, and transcriptional regulation). The common theme is broad developmental programs rather than a single pathway, so this label captures the overarching function of the cluster.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042551","count":6},{"id":"GO:0001701","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0030851","count":5},{"id":"GO:0050796","count":5}]},{"hash":"1944514719404525348","title":"Angiogenesis and Development Regulators","description":"This cluster shows enrichment for regulation of angiogenesis (both positive and negative) alongside broader developmental processes such as multicellular organism development, axis specification, mammary gland development, and sex differentiation, suggesting a group of proteins involved in vascular development and embryonic morphogenesis. Some terms (vesicle transport, mRNA processing) reflect general cellular functions and are less defining, but the core theme appears to be developmental regulation with a vascular component.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":4},{"id":"GO:0046718","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0032525","count":2}]},{"hash":"1132681885405090716","title":"GPCR Signaling with cAMP/PLC and Phototransduction","description":"The dominant GO terms center on GPCR signaling pathways that activate adenylate cyclase and phospholipase C (cAMP and PLC pathways), including dopamine- and adrenergic-receptor signaling, plus phototransduction and heart development. This points to a cluster of proteins involved in GPCR-mediated signaling cascades that regulate cAMP/PLC signaling, with roles in heart and visual-system signaling.","confidence":"High","size":29,"edges":64,"triangles":65,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":24},{"id":"GO:0010513","count":24},{"id":"GO:0007191","count":24},{"id":"GO:0007507","count":24},{"id":"GO:0043950","count":24}]},{"hash":"1813817896231485872","title":"Immune activation and ECM remodeling","description":"The top GO terms center on immune activation (T cell activation, complement activation), cell adhesion (cell-matrix and heterotypic adhesion), leukocyte extravasation, hyaluronan metabolism, and metallopeptidase activity, together indicating inflammation-driven leukocyte recruitment and extracellular matrix remodeling.","confidence":"High","size":29,"edges":67,"triangles":8,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007161","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0030212","count":6},{"id":"GO:0002291","count":6},{"id":"GO:0070208","count":5}]},{"hash":"1481649243742067522","title":"Developmental growth and organ differentiation","description":"This cluster highlights proteins involved in organismal development and tissue differentiation across multiple organs (heart, skeletal system, gonads, prostate), along with growth processes and developmental signaling (TGF-beta, p38MAPK) and transcriptional regulation, suggesting a cohesive theme of developmental regulation and organogenesis.","confidence":"High","size":29,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0035264","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0060528","count":7},{"id":"GO:0070059","count":6}]},{"hash":"1303396992269446479","title":"Developmental Cell Cycle and Signaling","description":"This cluster features strong signals for development-related processes (ureter development, maintenance of organ identity, male sex differentiation) along with cell division/mitotic cell cycle terms, suggesting a core theme of development coupled with cell proliferation. There are additional signaling and immune/stress-related terms (GPCR signaling regulation, interferon response, oxidative stress), but the dominant pattern points to developmental progression linked to cell cycle control.","confidence":"Medium","size":29,"edges":167,"triangles":431,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0046661","count":9},{"id":"GO:0035457","count":9},{"id":"GO:0070301","count":9},{"id":"GO:1903646","count":9}]},{"hash":"1263326267676364837","title":"Glutathione-driven detoxification and xenobiotic metabolism","description":"The cluster is dominated by GO terms for glutathione metabolism, glutathione derivative biosynthesis, and detoxification of xenobiotics and nitrogen compounds, suggesting a cohesive set of proteins dedicated to oxidative stress defense and processing of foreign compounds; the nucleotide-excision repair term is less central but may reflect broader stress response functions.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":25},{"id":"GO:0060316","count":20},{"id":"GO:1901687","count":20},{"id":"GO:0006749","count":20},{"id":"GO:2000255","count":20}]},{"hash":"356526743045164613","title":"Insect methyltransferases and hormone biosynthesis","description":"The cluster shows strong enrichment for methylation-related GO terms (N-terminal alanine/glycine methylation and arginine dimethylation) together with insect-specific biosynthetic processes such as juvenile hormone biosynthesis and sterol/biotin biosynthesis. This combination suggests a group of proteins involved in post-translational methylation and insect hormone metabolism, rather than a single, common cellular pathway. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090398","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0016049","count":5},{"id":"GO:0018012","count":5}]},{"hash":"222058197172876106","title":"Glycosylation and Development Across Species","description":"This cluster features multiple GO terms tied to glycan biosynthesis and glycosylation (poly-N-acetyllactosamine biosynthetic process, Lewis a epitope biosynthetic process, O-linked glycosylation) alongside developmental and epithelial polarity processes (follicle epithelium adhesion/polarity, root hair and insect visual primordium development). The mix suggests a broad theme where carbohydrate modifications intersect with developmental pathways across different organisms, rather than a single canonical pathway. Confidence: Medium","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0005978","count":5},{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0007299","count":3}]},{"hash":"724085587308212179","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around development and organogenesis across multiple tissues\u2014pancreatic development, cartilage morphogenesis, left-right patterning, EMT in heart cushion formation, endocrine system development, placenta-related differentiation, CNS development, and smooth muscle/epithelial processes. This points to a broad developmental/morphogenetic program rather than a single function, so the label \u201cEmbryonic development and tissue morphogenesis\u201d captures the shared theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0035270","count":7}]},{"hash":"1318259329476757275","title":"Membrane Signaling and Cell Adhesion","description":"The cluster combines membrane-proximal signaling activities (cadherin-mediated adhesion, Wnt signaling, GTPase regulation, IP3 biosynthesis) with broader responses like M-CSF and interferon signaling and membrane remodeling, suggesting proteins that coordinate signaling at the plasma membrane and cell\u2013cell contact rather than a single narrow function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044331","count":2},{"id":"GO:0036006","count":2},{"id":"GO:0086098","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090263","count":2}]},{"hash":"223911857802144658","title":"Thermo- and mechanosensory signaling with ion channels","description":"The cluster is dominated by GO terms for sensory perception of pain, temperature- and mechanosensation (touch), diet-induced thermogenesis, skin development, and ion transport/regulation of potassium channels, suggesting a coherent role in sensing thermal/mechanical stimuli and coordinating membrane potential through ion channels, across skin and heart-related contexts.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0007275","count":12},{"id":"GO:0098719","count":11}]},{"hash":"170949156120511696","title":"Embryogenesis and Reproductive Signaling","description":"The top GO terms cluster around developmental and reproductive processes (maternal axis specification, egg-laying behavior, placental development, and aggression), with supporting roles for signaling (Wnt secretion) and cellular trafficking (COPI vesicle coating, ER exit). While there are trafficking terms present, the strongest recurring theme is development and reproduction. This suggests a label focused on embryogenesis and reproductive signaling, rather than a single specific pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030220","count":2},{"id":"GO:0071225","count":2},{"id":"GO:0060020","count":2},{"id":"GO:0001893","count":1},{"id":"GO:0007311","count":1}]},{"hash":"1038916926241972526","title":"Rho/Rac-mediated cytoskeletal remodeling","description":"Top terms center on actin-based protrusions (filopodium, lamellipodium), Rho/Rac signaling, and cell morphogenesis, indicating cytoskeletal remodeling driven by Rho/Rac GTPases. Insulin signaling and heart development terms may reflect context but do not override the primary theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007266","count":3}]},{"hash":"1574552882019008487","title":"Innate Immune Signaling and Tissue Remodeling","description":"The top GO terms point to broad innate immune activation (innate immune response, dsRNA response, MyD88-dependent/independent TLR signaling) and B cell activity, while concurrently highlighting processes related to extracellular matrix organization, bone development, and angiogenesis regulation, suggesting a theme where immune signaling interfaces with tissue remodeling and mechanotransduction (bone/vascular remodeling). This motivates a label centered on innate immune pathways linked to remodeling processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0060348","count":7},{"id":"GO:0016525","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0030199","count":5}]},{"hash":"2083647754840022864","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":9,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0039702","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0019068","count":8},{"id":"GO:0030260","count":8},{"id":"GO:0019076","count":8}]},{"hash":"1729276274377744042","title":"Ubiquitin-dependent TNF/NF-\u03baB signaling in innate immunity","description":"The top GO terms center on ubiquitin-mediated protein turnover and ubiquitination, together with TNF- and NF-\u03baB\u2013related signaling (I\u03baB phosphorylation, NIK activity) and JNK regulation, plus an innate immune response. This pattern indicates the cluster consists of proteins involved in ubiquitin-driven regulation of TNF-NF-\u03baB signaling within innate immunity.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:1903265","count":11},{"id":"GO:0033209","count":11},{"id":"GO:0090073","count":11},{"id":"GO:1903721","count":11}]},{"hash":"622265779052162305","title":"Neural development and synaptic signaling","description":"The cluster is dominated by GO terms related to nervous system development (hippocampus development, nervous system development) and synaptic function (regulation of synaptic vesicle exocytosis, JNK signaling in neural contexts, Roundabout signaling for axon guidance), suggesting a cohesive theme of neuronal maturation and synaptic communication. Some immune or skeletal terms appear as less central contributors, but the neural-related terms drive the overall interpretation.","confidence":"High","size":28,"edges":196,"triangles":384,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":8},{"id":"GO:0043525","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0050852","count":6}]},{"hash":"474564109323252231","title":"Membrane organization and trafficking","description":"The cluster is dominated by GO terms tied to membranes and surface processes: membrane raft assembly, calcium ion transmembrane transport, protein localization to the cell surface, and apical junction assembly, plus Rho signaling regulation which links cytoskeletal dynamics to membrane changes. These together point to membrane organization, trafficking, and cell-cell junction functions as the core theme. Some terms (splicing, ribosomal export) are more general cellular processes and may be less central here, and viral release from host cell could reflect membrane remodeling in host-virus interactions, but overall the membrane/trafficking theme best explains the set.","confidence":"Medium","size":28,"edges":165,"triangles":385,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0019076","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0001765","count":3}]},{"hash":"1444732752633777503","title":"Cardiac morphogenesis and electrophysiology","description":"The top GO terms cluster around heart development and cardiac electrical activity, including left ventricular and outflow tract morphogenesis, Purkinje-to-ventricular signaling, regulation of SA node and atrial/ventricular action potentials, and calcium release from the sarcoplasmic reticulum, with a few less-specific terms like ossification. The dominant theme is cardiac structure formation and electrical function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0086029","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0003151","count":8},{"id":"GO:0098907","count":8},{"id":"GO:0071313","count":8}]},{"hash":"2093052281166943080","title":"DNA Replication and Damage Response","description":"The cluster is enriched for GO terms tied to DNA replication and processing (DNA replication, DNA unwinding, DNA topological change, primer synthesis) as well as the DNA damage/damage-response program (SOS response, UV protection). This points to a core theme of genome maintenance and replication stress response. Some terms like nonsense-mediated decay and embryonic development are present but seem less central to the cluster\u2019s primary function, likely reflecting broader annotation. Overall, the dominant signal is coordination of DNA replication with damage response pathways.","confidence":"High","size":28,"edges":15,"triangles":0,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006268","count":10},{"id":"GO:0009432","count":10},{"id":"GO:0000184","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0009650","count":9}]},{"hash":"1398002444410613011","title":"DNA replication and telomere maintenance","description":"The cluster is dominated by GO terms related to core DNA replication (DNA replication, replication fork dynamics, RNA primer processing during mitotic replication, replication fork progression) and telomere maintenance/regulation (telomere maintenance, negative regulation via telomerase, fork reversal). While some transcription and recombination terms appear, the prevailing theme ties to replication machinery and genome stability at telomeres.","confidence":"High","size":28,"edges":27,"triangles":8,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006310","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0032211","count":4},{"id":"GO:1903469","count":4}]},{"hash":"301280059121737162","title":"Transmembrane Ion and Metabolite Transporters","description":"The top GO terms are dominated by transmembrane transport activities for ions (sodium, potassium, phosphate, nitrate/nitrite) and small metabolites (4-hydroxyphenylacetate, fucose), with an additional note on neurotransmitter loading into synaptic vesicles, indicating a cluster of proteins primarily involved in membrane transport.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"469892592420101108","title":"Multi-Tissue Development and Differentiation","description":"The top GO terms point to developmental and differentiation processes across several tissues (lymphoid progenitors, erythrocytes, megakaryocytes, lens fibers, kidney), with additional transcriptional regulation and immune-related activity. The common thread appears to be roles in cell fate specification and organ development rather than a single, cohesive pathway, hence a broad developmental/differentiation theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0002320","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0045648","count":4}]},{"hash":"1460509423969920937","title":"Biosynthesis and methylation","description":"The top GO terms cluster around biosynthetic processes (antibiotic, biotin, sterol) and various methylation events (tRNA methylation, N-terminal methylation), with additional signals related to growth and aging. This suggests a set of proteins involved in core metabolic biosynthesis and in post-transcriptional/post-translational modifications, rather than a single precise function. Hence the label Biosynthesis and methylation captures the shared themes across the terms.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0030488","count":6},{"id":"GO:0090398","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0009102","count":5}]},{"hash":"1470643502929261096","title":"Unknown","description":"The top GO terms are a mix of transcription (DNA-templated transcription), signaling (Wnt pathway regulation), development (spongiotrophoblast development), cell division (spindle assembly in meiosis II), apoptosis regulation, ubiquitination, insulin secretion, and other diverse processes, with obsolete biosynthetic terms and no edges linking proteins. This scattered collection provides no clear unifying function for the cluster, so it is labeled Unknown with no confidence.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015015","count":5},{"id":"GO:0030206","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0090263","count":4},{"id":"GO:0043523","count":4}]},{"hash":"1324371665468657615","title":"Retroviral life cycle and integration","description":"The top GO terms cluster around retroviral processes: DNA integration, proviral latency, viral entry into the host nucleus, budding via the ESCRT complex, and retrotransposition/DNA transposition, plus spliceosome-mediated mRNA processing. Together these indicate proteins involved in the life cycle of retroviruses and related transposable elements, encompassing integration, replication, and release.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":7},{"id":"GO:0039651","count":6},{"id":"GO:0075713","count":6},{"id":"GO:0075732","count":5},{"id":"GO:0046718","count":5}]},{"hash":"874980967198816007","title":"Neural development and chromatin regulation","description":"The top GO terms point to neural development processes (brain development, regulation of synaptic transmission) alongside chromatin/epigenetic regulation (DNA-templated transcription, nucleosome assembly, histone H3-K9 methylation). This suggests proteins involved in neuronal development whose expression is governed by chromatin state, with supporting evidence from cytoskeletal organization and glial growth related to neural tissues. A few proliferation-related terms (mitotic spindle assembly) may reflect neural progenitor activity. Overall, a neural development program coordinated with chromatin regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006334","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0060416","count":2}]},{"hash":"1115339100430767332","title":"Phagosome formation and cytoskeletal remodeling","description":"The top GO terms cluster around phagolysosome assembly, lectin pathway complement activation, filopodium and integrin-related adhesion, and regulation of Rho signaling, all of which point to phagocytosis and actin-driven cytoskeletal remodeling and cell-matrix interactions. A few terms like growth regulation and vasoconstriction are less directly tied to these processes, so the label is representative but not perfect.","confidence":"Medium","size":28,"edges":5,"triangles":0,"max_degree":5,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001845","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0035023","count":4}]},{"hash":"2238125630045594045","title":"GPCR-cAMP Signaling with Developmental Roles","description":"This cluster is driven by GO terms for GPCR signaling and downstream cAMP pathways (adenylate cyclase activation, cAMP-mediated signaling) and regulation of small GTPases, with strong ties to promoting cell proliferation. The inclusion of retina and heart development and blood pressure regulation suggests roles in developmental and cardiovascular contexts, indicating these proteins participate in GPCR-driven signaling networks affecting growth and organ development.","confidence":"Medium","size":28,"edges":218,"triangles":792,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":24},{"id":"GO:0008284","count":23},{"id":"GO:0010513","count":23},{"id":"GO:0007191","count":23},{"id":"GO:0008283","count":23}]},{"hash":"2131180455671077264","title":"Zona pellucida binding and fertilization","description":"This cluster is dominated by GO terms tied to sperm\u2013zona pellucida interactions and fertilization-related processes, including binding of sperm to zona pellucida, penetration of the zona pellucida, and regulation of the acrosome reaction, along with glycosylation and proteoglycan biosynthesis that underpin the extracellular matrix components of the zona pellucida. An unrelated term like Purkinje cell layer development may reflect broader GO annotations, but the central theme points to fertilization-related extracellular matrix interactions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0005989","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0018146","count":4},{"id":"GO:0021680","count":3},{"id":"GO:0006486","count":3}]},{"hash":"1000321671797069216","title":"Cell-cycle and signaling regulators","description":"This cluster centers on regulation and signaling rather than a single pathway. Top GO terms include mitotic cell cycle, positive regulation of GTPase activity, positive regulation of protein serine/threonine kinase activity and protein autophosphorylation, as well as processes tied to protein turnover (SCF-proteasomal degradation) and mRNA transport. Additional terms reference cellular stress responses (hypoxia) and immune defense, suggesting a set of regulatory proteins that coordinate cell cycle progression, signaling cascades, and protein homeostasis under stress.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0031954","count":5},{"id":"GO:0071902","count":5}]},{"hash":"1776501580543929429","title":"Vascular development and hemostasis","description":"This cluster is dominated by GO terms tied to blood vessel formation and vascular remodeling (positive regulation of angiogenesis, endothelial cell migration, heart development, vasoconstriction) as well as coagulation-related processes (platelet aggregation, fibrinolysis, proteolysis). These collectively point to a cardiovascular/hemostatic theme. The presence of auditory/synaptic terms appears incidental and does not override the vascular signal, so the label focuses on the core vascular/coagulation functions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007605","count":6},{"id":"GO:0051968","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0045907","count":5},{"id":"GO:0042730","count":5}]},{"hash":"1947039794289198425","title":"Embryonic Development and Pattern Formation","description":"These terms cluster around developmental processes across multiple tissues\u2014neural development (midbrain, PNS), early gastrulation (primitive streak), left-right patterning, and organogenesis (palate, cartilage, pancreatic endocrine development). The inclusion of transcriptional regulation terms suggests coordinated control of development. Overall, it reflects a broad embryonic development and patterning program rather than a single tissue function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0003323","count":4}]},{"hash":"2018162754479078099","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis across multiple organs (eye, pancreas, cartilage, heart/endocardial EMT, placenta, habenula), indicating a shared theme of developmental processes rather than a single molecular function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0048048","count":5},{"id":"GO:0003323","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0060972","count":4}]},{"hash":"618193313919184933","title":"Integrin-mediated leukocyte adhesion and migration","description":"This cluster is dominated by GO terms for cell adhesion (cell-cell and cell-matrix), integrin-mediated signaling, and leukocyte tethering/rolling, plus links to angiogenesis and complement receptor signaling. Together these point to proteins involved in integrin-dependent adhesion and leukocyte trafficking during immune responses and vascular remodeling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0033631","count":4},{"id":"GO:0002042","count":4},{"id":"GO:0002430","count":4}]},{"hash":"1347201719706072664","title":"Brain development and synaptic organization","description":"Based on the top GO terms, many entries relate to brain development (hippocampus, cerebral cortex development), synaptic assembly/organization (AMPA receptor clustering, actin cytoskeleton organization), and neuronal fate processes (neuron/glial apoptotic processes) with Wnt signaling implicated in neurodevelopment. Although an immune-related term (T cell homeostasis) appears among the list, the majority of terms describe neural development and synaptic maintenance, suggesting the cluster reflects brain development and synaptic organization rather than immune function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0034349","count":2},{"id":"GO:0030036","count":2}]},{"hash":"1102801422858359817","title":"Muscle development and regeneration signaling","description":"The most represented terms relate to skeletal muscle biology: response to muscle stretch, skeletal muscle tissue regeneration, and signaling pathways (Notch, ephrin) that regulate muscle lineage decisions. While other terms (cell cycle, ubiquitination, telomere maintenance) reflect general cellular processes, the muscle-related terms predominate, supporting a label focused on muscle development and regeneration signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0035994","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0003270","count":5},{"id":"GO:1904357","count":5}]},{"hash":"1597353235855979582","title":"Proteoglycan biosynthesis and neuronal signaling","description":"The cluster is centered on proteoglycan biosynthesis terms (keratan sulfate and heparin proteoglycans), suggesting an extracellular matrix proteoglycan synthesis theme. Supporting terms related to neuronal function (membrane hyperpolarization, calcium response, neuronal stem cell maintenance, pain behavior) imply a connection to neuronal signaling. Some outliers (cadmium detoxification, phospholipid translocation) are less cohesive but don\u2019t override the main proteoglycan/neural theme.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":4},{"id":"GO:1902476","count":3},{"id":"GO:0060081","count":3},{"id":"GO:0098849","count":3},{"id":"GO:0045332","count":3}]},{"hash":"101904204445908941","title":"Craniofacial development and axon guidance","description":"The top GO terms cluster around craniofacial morphogenesis (embryonic cranial skeleton, cranial mesoderm fate, heart development) and neural development paths (axonal fasciculation, trigeminal and branchiomotor neuron axon guidance, semaphorin-plexin signaling, synapse assembly, collagen organization). This pattern points to coordinated development of craniofacial structures and neural connectivity, likely involving neural crest\u2013derived tissues and axon pathfinding. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0007413","count":7},{"id":"GO:0048701","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0048378","count":7}]},{"hash":"1249503378494308464","title":"Secretory vesicle exocytosis and neurotransmission","description":"This cluster is driven by exocytosis- and secretion-related terms: synaptic vesicle priming and fusion to the presynaptic membrane, exocytic insertion of neurotransmitter receptors to the postsynaptic membrane, and secretory events like histamine release from mast cells and platelet activation. These together suggest a unifying theme of vesicle trafficking and content release across neuronal and non-neuronal cells.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0009086","count":3},{"id":"GO:0046839","count":3},{"id":"GO:0030168","count":3}]},{"hash":"1786293192168406086","title":"Adhesion and Cytoskeletal Signaling","description":"Proteins in this cluster are enriched for cell adhesion, migration, epithelial polarity, and actin filament assembly, all pointing to cytoskeletal remodeling guided by small GTPase signaling and receptor pathways like EGFR. The inclusion of dendritic spine morphogenesis and vocalization hints suggests neuronal connectivity aspects as well, but the unifying theme remains cytoskeleton remodeling and cell\u2013cell contacts driven by signaling cascades. This makes the label a concise representation of the cluster\u2019s shared function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0051017","count":4}]},{"hash":"1590215869947827154","title":"Neuronal signaling and cytoskeletal remodeling","description":"This cluster centers on ion transport and intracellular signaling (sodium/potassium transport, intracellular signal transduction) combined with cytoskeletal dynamics (actin crosslinking) and mechanotransduction (cellular response to mechanical stimulus). The inclusion of neuronal development terms (cerebellar granule cell differentiation) and synaptic plasticity (long-term synaptic depression) suggests a cohesive theme of neuronal signaling intertwined with cytoskeletal remodeling and mechanosensitive pathways, despite a few broader terms like ossification. Overall, a neuronal signaling with cytoskeletal dynamics interpretation fits best.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0021707","count":3},{"id":"GO:0060292","count":3}]},{"hash":"2210226370772705828","title":"TLR NF-kappaB driven inflammatory signaling","description":"The dominant GO terms point to innate immune signaling and inflammation: MyD88-dependent Toll-like receptor signaling, canonical NF-kappaB activation, and responses to TNF and IL-6, plus the broader inflammatory response. While mRNA processing appears among the terms, the strongest pattern across the cluster is a coordinated TLR/NF-kappaB\u2013mediated inflammatory program, suggesting the proteins function together in immune signaling rather than a non-immune process.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0098586","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0097049","count":2}]},{"hash":"2129168216857832085","title":"Axon guidance and synapse formation","description":"Dominant neuronal development signals: axonal fasciculation, synapse assembly, Rho GTPase signaling, and Wnt pathway involvement; a few telomere-related terms appear minor noise.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007413","count":3}]},{"hash":"378291063602013636","title":"Gland development and steroid hormone metabolism","description":"This cluster is driven by terms related to steroid hormone processing (progesterone metabolism, aldosterone-related regulation) and development of hormone-responsive glands (mammary and prostate glands). Additional terms point to metabolic detoxification pathways (P450 omega-hydroxylation and xenobiotic catabolism), suggesting a broader metabolic role linked to hormone processing and gland function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042448","count":1},{"id":"GO:0002017","count":1},{"id":"GO:0019341","count":1},{"id":"GO:0009624","count":1},{"id":"GO:0046232","count":1}]},{"hash":"782249639270907193","title":"Multitissue Developmental Transcription Regulators","description":"The cluster is enriched for transcription-related GO terms (RNA polymerase II\u2013driven and DNA-templated transcription) and spans various developmental and regenerative contexts (pancreas, placenta, salivary gland, liver). It also includes immune and ER-stress associations (IL-4 response, macrophage differentiation, unfolded protein response), suggesting a regulatory module coordinating development with remodeling and immune signaling.","confidence":"Medium","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0071353","count":11},{"id":"GO:0035470","count":10},{"id":"GO:0097421","count":9},{"id":"GO:0006351","count":8}]},{"hash":"2020922042487832971","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"These proteins cluster around ubiquitin-related processes and innate immune pathways. Top GO terms show ubiquitin-dependent protein catabolic process and K63-linked ubiquitination, alongside innate immune response and NF-kappaB signaling (including TNF-mediated signaling). The enrichment for antiviral defense (defense response to virus) and regulatory ubiquitination (protein autoubiquitination) suggests a group of proteins involved in ubiquitin-mediated regulation of immune signaling, particularly NF-kB activation in antiviral responses and TNF signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0070534","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0043123","count":7},{"id":"GO:1903265","count":7}]},{"hash":"1707568892110498994","title":"Innate Immune Signaling and NF-\u03baB Regulation","description":"These proteins are enriched for innate immune and inflammatory signaling terms: innate immune response, defense response to virus, regulation of TLR signaling, NOD2 signaling, and positive regulation of canonical NF-\u03baB signaling. Protein polyubiquitination is prominent, indicating regulation of these pathways by ubiquitin conjugation. While some terms touch cell cycle and transcription, the dominant theme is antiviral defense and NF-\u03baB\u2013mediated signaling, pointing to a cohesive innate immune cluster.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000209","count":7},{"id":"GO:0034121","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0051607","count":5}]},{"hash":"117999142212903061","title":"Neuronal actin remodeling and spine morphogenesis","description":"The top GO terms indicate strong enrichment for actin cytoskeleton dynamics (actin polymerization, actin nucleation, filopodium/lamellipodium formation) and dendritic spine morphogenesis, with a hint of synaptic plasticity (long-term synaptic depression). This points to a coherent functional module of proteins coordinating actin remodeling in neuronal structures, especially at synapses.","confidence":"High","size":27,"edges":51,"triangles":22,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":5},{"id":"GO:0045010","count":4},{"id":"GO:2000251","count":3},{"id":"GO:1990441","count":3},{"id":"GO:0046847","count":3}]},{"hash":"888315247692737874","title":"Glutamatergic synapse assembly and adhesion","description":"This cluster is dominated by GO terms related to forming and functioning of glutamatergic synapses, including positive regulation of synapse assembly, synaptic transmission, excitatory postsynaptic potential, and cell adhesion (both homophilic and heterophilic). Sodium ion transport supports neuronal excitability at synapses. While there is an outlier term about ossification, the overall pattern points to neuronal synapse organization and adhesion as the unifying theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0035249","count":5},{"id":"GO:0007155","count":5}]},{"hash":"477500820678606136","title":"Unknown","description":"The GO terms span translation, metabolism, development, immune signaling, and other diverse processes, with no single shared function tying the 27 proteins together. The absence of edges and the scattered terms suggest there isn't a cohesive pathway or module represented, so a clear, specific label isn\u2019t supported.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006552","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0045654","count":2},{"id":"GO:0071353","count":2}]},{"hash":"2126846099408660364","title":"Ribosome biogenesis and rRNA processing","description":"The dominant GO terms center on ribosome assembly: large subunit biogenesis, export from the nucleus, and biogenesis of ribosomal subunits, along with maturation of LSU rRNA. Additional RNA-processing-related terms (splicing, tRNA surveillance, nuclear polyadenylation-dependent mRNA decay) are present but appear secondary, suggesting this cluster mainly represents proteins involved in ribosome biogenesis and rRNA maturation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0042518","count":2}]},{"hash":"288305985090807760","title":"Developmental organogenesis and cell migration","description":"This cluster shows strong representation of organ morphogenesis and tissue development (metanephros morphogenesis, endodermal cell fate commitment, maintenance of organ identity) along with cell movement (cell migration) and GTPase signaling, plus trafficking-related terms such as nuclear import and vesicle assembly, suggesting a cohesive theme of developmental patterning and morphogenesis coupled with cellular dynamics.","confidence":"Medium","size":27,"edges":108,"triangles":231,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015991","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0048496","count":7},{"id":"GO:0007050","count":7},{"id":"GO:0016477","count":7}]},{"hash":"2292785083434619382","title":"Broad-range transmembrane transporters","description":"The cluster is enriched for GO terms relating to transmembrane transport of many substrates (nitrate, phosphate, sialic acid, vitamins, sugars, xenobiotics) and even neurotransmitter loading into synaptic vesicles, pointing to a group of membrane transport proteins with broad substrate specificity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":5},{"id":"GO:0035435","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0098700","count":4}]},{"hash":"943908310321936386","title":"Neural Ion Transport and Development","description":"This cluster is dominated by GO terms for ion transport across membranes (calcium, potassium, manganese) and neural development processes (neuron migration, oligodendrocyte differentiation, photoreceptor maintenance), suggesting a cohesive module focused on neural tissue function and signaling that relies on ion gradients. Additional terms like skin development and organ identity are present but less central, while mechanosensory and gravitaxis hints may reflect broader sensory-related roles.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":5},{"id":"GO:0048496","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0043588","count":3}]},{"hash":"1289550361853411932","title":"Heterochromatin formation and transcription regulation","description":"Based on the top GO terms, the cluster centers on chromatin state maintenance (heterochromatin formation in both mating-type and rDNA contexts) and transcriptional control (negative regulation of transcription by RNA Pol II, plus RNA Pol I\u2013related regulation and histone methylation). Additional terms like ribosomal subunit assembly and plasmid partitioning fit with yeast-associated chromatin and gene-expression processes, reinforcing a theme of chromatin-mediated transcription regulation. A few outlier terms (e.g., cardiac morphogenesis, defense response) may reflect cross-species annotation spillover or broader GO usage rather than core cluster biology.","confidence":"Medium","size":27,"edges":38,"triangles":15,"max_degree":10,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030466","count":12},{"id":"GO:0000183","count":8},{"id":"GO:0007338","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0000027","count":7}]},{"hash":"2218735024889557994","title":"Methyltransferases for RNA and protein modifications","description":"The top GO terms are dominated by various methylation activities\u2014N-terminal methylation of peptides, peptidyl-arginine methylation, rRNA and RNA modification, and histone methylation\u2014indicating a cluster enriched for methyltransferase enzymes acting on both RNA and protein substrates, with some entries linked to related biosynthetic pathways.","confidence":"High","size":27,"edges":16,"triangles":5,"max_degree":6,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0018013","count":10},{"id":"GO:0017000","count":10},{"id":"GO:0031167","count":10},{"id":"GO:0009102","count":9},{"id":"GO:0016049","count":9}]},{"hash":"2289998794722997109","title":"Coagulation and Complement System Proteins","description":"This cluster is dominated by GO terms for complement activation (lectin pathway) and blood coagulation, indicating a core association with hemostasis and innate immune functions. Other linked terms (heart development, hypoxia response, NF-kappaB signaling, exocytosis regulation, glucocorticoid response, hippo signaling) suggest broader roles in cardiovascular development and stress-related signaling, but the strongest, most consistent theme is coagulation together with complement activity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0072378","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0043123","count":4}]},{"hash":"1065298163356587544","title":"Cerebellar glial development and signaling","description":"Reason: Multiple top terms point to cerebellar development and glial differentiation (Bergmann glial cells, cerebellar cortex formation) and neural signaling (insulin receptor pathway, ERK/MAPK), with axon regeneration regulation; immune signaling terms are likely secondary.","confidence":"High","size":27,"edges":334,"triangles":2534,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060020","count":23},{"id":"GO:0021697","count":23},{"id":"GO:0008286","count":23},{"id":"GO:0008285","count":23},{"id":"GO:0048679","count":23}]},{"hash":"119438396918855562","title":"Female reproductive development and steroid metabolism","description":"This cluster is characterized by strong representation of female gonad development, mammary gland development, and progesterone metabolic process, alongside regulation of aldosterone affecting blood volume. These terms point to hormone-driven development and function of female reproductive tissues. Some terms related to xenobiotic metabolism (omega-hydroxylase P450 pathway, dioxin and carbazole catabolic processes) are present but appear related to shared cytochrome P450 detoxification roles that can intersect with hormone metabolism.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":22},{"id":"GO:0042448","count":20},{"id":"GO:0002017","count":20},{"id":"GO:0019341","count":20},{"id":"GO:0009624","count":20}]},{"hash":"1877588634980430933","title":"Meiosis and oocyte maturation regulation","description":"The cluster is dominated by GO terms related to meiotic processes (sister chromatid cohesion, spindle elongation, nuclear division, and chromatid separation) and regulation of meiotic cell cycle during oocyte maturation, with additional signals for protein complex assembly and regulatory kinase activity. A minority of terms touch on apoptotic signaling in absence of ligand, but the central theme remains meiotic cell-cycle control and spindle dynamics.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":5},{"id":"GO:0051232","count":4},{"id":"GO:2001241","count":4},{"id":"GO:0006461","count":4},{"id":"GO:0042176","count":4}]},{"hash":"1508041301969570937","title":"Unknown","description":"The GO terms are highly heterogeneous (ERAD, cell division, chaperone refolding, forebrain morphogenesis, ribosomal export, biotin and sterol biosynthesis, etc.) with no clear shared function, and several terms are obsolete; there is no coherent theme tying these proteins together. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0048853","count":2},{"id":"GO:0000056","count":1}]},{"hash":"864524411953036242","title":"MAPK signaling and integrin-mediated cell adhesion","description":"The top GO terms cluster around MAPK pathways (ERK1/ERK2 and p38), integrin-mediated signaling, receptor clustering, and adhesion-related processes (cell spreading, anoikis regulation). These suggest a cohesive module of adhesion-driven MAPK signaling promoting cell survival and adhesion dynamics, with a few outliers (symbiont entry, DNA replication) that do not define the core function. Confidence: High","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070371","count":3},{"id":"GO:0034446","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0043113","count":2}]},{"hash":"1694674257866377266","title":"ECM Remodeling and Angiogenic Signaling","description":"The terms emphasize ECM assembly and organization (collagen biosynthesis/fibril organization), integrin-mediated signaling, and fibroblast migration, along with angiogenesis and immune regulation, suggesting a cohesive theme of extracellular matrix remodeling and cell-ECM interactions driving angiogenic and migratory processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0032964","count":3},{"id":"GO:0010763","count":3}]},{"hash":"82947058918161678","title":"Cerebellar Neuronal Signaling and Memory","description":"This cluster shows a focus on neuronal signaling and plasticity: GO terms for Wnt signaling, GPCR signaling, and calcium ion transport point to signaling dynamics; excitatory postsynaptic potentials and long-term memory align with synaptic function and memory processes. The inclusion of cerebellar granule cell differentiation suggests cerebellar neuron development, while positive regulation of pinocytosis hints at vesicle trafficking at synapses. While there are a few broader terms (e.g., cell cycle), the prevailing theme is cerebellar neuronal signaling and memory-related processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0048549","count":3}]},{"hash":"1232719832012601752","title":"Membrane Ion and Metabolite Transport","description":"The top GO terms show multiple transmembrane transport activities for ions (sodium, potassium, nitrate, nitrite, phosphate) and small molecules, plus related processes like neurotransmitter loading into vesicles and metabolite transport (fucose). This pattern strongly suggests a cluster centered on membrane transport functions, especially ion transport and metabolite uptake.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"1880845346470135864","title":"ECM adhesion and angiogenesis signaling","description":"This cluster centers on extracellular matrix components and cell-matrix interactions (heparan proteoglycan biosynthesis, negative regulation of cell-substrate adhesion, cell-matrix adhesion) and tissue vascular development (positive regulation of angiogenesis, mesenchymal-epithelial signaling in prostate development). Additional signals related to exocytosis and hormone secretion suggest secretory activities linked to signaling and tissue remodeling, supporting an ECM- and angiogenesis-focused theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030210","count":14},{"id":"GO:0010812","count":14},{"id":"GO:0001867","count":14},{"id":"GO:0007160","count":14},{"id":"GO:0045766","count":13}]},{"hash":"1058107888927343921","title":"Viral Entry, Integration, and Latency","description":"Top GO terms indicate viral life cycle steps: DNA integration, proviral latency, and viral penetration into the host nucleus, alongside symbiont-mediated host apoptosis and cell entry. This suggests the cluster primarily comprises proteins involved in viral infection, genome integration, and host manipulation, rather than general cellular processes.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0075732","count":2}]},{"hash":"1123375883761988407","title":"RNA Splicing and Viral Lifecycle","description":"This cluster is enriched for RNA processing and splicing terms (spliceosome, splice site recognition, miRNA catabolic process), alongside several viral lifecycle terms (virion assembly, viral budding/release via ESCRT, DNA integration) and host\u2013symbiont interaction terms (symbiont entry, symbiont-mediated activation of host apoptosis). The co-occurrence of RNA processing components with viral lifecycle and host interaction processes suggests proteins involved in RNA metabolism that are also linked to viral replication or host responses to infection, forming a cohesive theme around RNA processing intertwined with viral biology.","confidence":"Medium","size":26,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0039702","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0019068","count":1}]},{"hash":"1809256622399848379","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms point strongly to ubiquitination and proteasome-mediated degradation (including K48- and K6-linked ubiquitination, autoubiquitination, and ubiquitin-dependent protein catabolic processes) with links to ERAD and cell cycle regulation. A peroxisomal protein import term also appears, which can be connected to ubiquitin signaling in peroxisome maintenance, reinforcing a theme of regulated protein turnover. Overall, the cluster appears to represent components of the ubiquitin-proteasome system governing protein degradation and quality control.","confidence":"High","size":26,"edges":71,"triangles":22,"max_degree":16,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0016558","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0070936","count":4},{"id":"GO:0042787","count":3}]},{"hash":"1828524178822206344","title":"Placental differentiation and embryonic patterning","description":"This cluster is dominated by placental and embryonic development terms (trophoblast giant cell differentiation, embryonic placenta development, left-right pattern formation, endocrine system development, etc.), indicating a cohesive role in placental differentiation and early embryonic morphogenesis. The presence of general processes like mRNA splicing and protein ubiquitination is supplementary but does not override the central developmental theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":9},{"id":"GO:0003323","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0060806","count":8}]},{"hash":"2303874863863966","title":"Developmental Morphogenesis and Neural Signaling","description":"This cluster shows GO terms spanning morphogenesis across multiple tissues (retina, lung, osteoblasts, floral organs) and organ development, plus neural-related processes (synapse assembly and neurotransmitter catabolism). The common thread is proteins involved in developmental patterning and morphogenesis with components of neural signaling, rather than a single tissue-specific function. Confidence: Medium","confidence":"","size":26,"edges":321,"triangles":2505,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0060041","count":12},{"id":"GO:0002076","count":10},{"id":"GO:0002087","count":10},{"id":"GO:0060441","count":7}]},{"hash":"1240725738171978142","title":"Synaptic and Junctional Signaling and Polarity","description":"The cluster contains multiple GO terms tied to synapse formation and localization (protein localization to synapse, immunological synapse formation) and epithelial junctions/polarity (zonula adherens assembly, establishment of epithelial cell polarity), complemented by calcium transport and JNK signaling regulation, indicating a network coordinating synaptic signaling with cell\u2013cell junctions and polarity. Some terms like GDP/PRPP biosynthesis are more general metabolic processes, but the central theme appears to be signaling and organization at cell\u2013cell interfaces.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":4},{"id":"GO:0046328","count":3},{"id":"GO:0006015","count":3},{"id":"GO:1903764","count":3},{"id":"GO:0035418","count":3}]},{"hash":"2152143715565538962","title":"Unfolded protein response and ER quality control","description":"The cluster is dominated by terms related to protein folding, unfolded protein response, ER quality control and degradation (ERAD), as well as stress-related anti-apoptotic signaling, indicating a coherent proteostasis and ER stress handling theme. Although a DNA replication term appears, the strongest common thread is protein maturation and quality control under stress, with auxiliary connections to membrane targeting and broader cell stress responses.","confidence":"Medium","size":26,"edges":258,"triangles":1381,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0030433","count":7},{"id":"GO:1903382","count":6},{"id":"GO:0000742","count":6}]},{"hash":"424472720668851315","title":"RNA processing and ribosome biogenesis","description":"This cluster centers on RNA metabolism and ribosome production, with multiple GO terms spanning mRNA splicing regulation, mRNA stability under stress, ncRNA-mediated gene silencing, maturation of rRNA, ribosome biogenesis, and translation initiation/reinitiation, suggesting a cohesive theme of RNA processing connected to ribosome assembly and protein synthesis.","confidence":"High","size":26,"edges":180,"triangles":766,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0048025","count":5}]},{"hash":"1300805024985323803","title":"Developmental signaling and sensory perception","description":"This cluster combines GO terms tied to sensory perception (pain, vision, visual learning), development (multicellular organism, heart development), and signaling regulation (ERK cascade, prostaglandin response), plus transcription, suggesting a module where developmental programs intersect with sensory signaling and inflammatory cues. The presence of immune-related chemotaxis also hints at cross-t tissue signaling. Overall, a cohesive label that captures development plus sensory and signaling themes is appropriate.","confidence":"Medium","size":26,"edges":41,"triangles":19,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0007275","count":12},{"id":"GO:0006351","count":11},{"id":"GO:0046827","count":11},{"id":"GO:0007601","count":10}]},{"hash":"2061866967266894680","title":"Proteostasis and gene expression during development","description":"The dominant GO terms point to protein turnover (proteasome regulation and autophagosome maturation), intracellular trafficking (ER\u2013Golgi transport), and RNA biology (mRNA processing/export, transcription), plus development-related processes (blastocyst development, cell division, differentiation). This pattern suggests a cohesive theme of maintaining protein homeostasis while coordinating gene expression during development.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":2},{"id":"GO:0097352","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0070682","count":2}]},{"hash":"2019280817068464005","title":"Neuronal cytoskeleton remodeling and GTPase signaling","description":"The cluster\u2019s top GO terms center on cytoskeletal dynamics (mitotic spindle assembly, filopodium assembly, microtubule-based movement) and small GTPase signaling (activation of GTPase activity, GTPase-mediated pathways), with neural-context terms such as spinal cord development and GABAergic synaptic transmission. This combination points to coordinated cytoskeletal remodeling and signaling in neuronal development and function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0046847","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0007018","count":3}]},{"hash":"237763889600073422","title":"Viral DNA Integration and Latency","description":"The top GO terms point to viral genome processes: DNA integration, DNA recombination, RNA-templated DNA synthesis, and DNA replication, with specific references to proviral latency and viral entry into the host nucleus. Additional terms about symbiont entry and suppression of host RNA silencing support a theme of viral/symbiont manipulation of the host genome and cellular environment. Together, this suggests proteins involved in viral genome integration, reverse transcription, and establishment of latent proviruses within host cells, rather than routine cellular replication alone.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0006310","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0070200","count":2},{"id":"GO:0075732","count":2}]},{"hash":"2261067061930282828","title":"Xenobiotic and vitamin transmembrane transporters","description":"The cluster is strongly enriched for GO terms describing transport across membranes for xenobiotics, vitamins, and a range of small molecules (including potassium, phosphate, trehalose, urate, and dehydroascorbic acid). This pattern points to a group of membrane transporter proteins with diverse substrate specificity rather than a single, narrow function.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":25},{"id":"GO:0006855","count":25},{"id":"GO:0042891","count":16},{"id":"GO:0071805","count":16},{"id":"GO:0042908","count":16}]},{"hash":"93518169644928639","title":"DNA integration and proviral latency","description":"Most of the top GO terms cluster around DNA processing and retroviral-like genome integration: DNA integration, recombination, replication, and RNA-templated DNA biosynthetic processes, plus explicit terms about proviral latency. This points to a theme of genome remodeling and integration of foreign DNA, consistent with proteins involved in DNA transaction and maintenance of integrated proviral DNA. A couple of terms on cell wall organization and specific glycosylation may reflect additional roles or annotation noise, but they do not override the dominant theme.","confidence":"High","size":26,"edges":63,"triangles":44,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":8},{"id":"GO:0006310","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0016266","count":3}]},{"hash":"1246888451887089815","title":"Neural crest\u2013driven neural development and synapse organization","description":"Proteins in this cluster are dominated by GO terms for nervous system development, synapse assembly and organization, and specialized neural features such as clustering of voltage-gated sodium channels. Terms like trigeminal nerve structural organization and ventral trunk neural crest cell migration point to neural crest\u2013mediated craniofacial nervous system development. The combination of neuron differentiation, synaptic connectivity, and neural crest\u2013associated morphogenesis supports a cohesive label centered on neural development and synaptic assembly with cranial neural crest involvement.","confidence":"High","size":26,"edges":221,"triangles":793,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0001867","count":7},{"id":"GO:0007399","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0045162","count":6}]},{"hash":"462200934898401951","title":"DNA replication and cell cycle processes","description":"Most of the top GO terms cluster around DNA replication (GO:0006260), DNA-templated transcription (GO:0006351), mitotic cell cycle (GO:0000278), and DNA repair (GO:0006281). These indicate a core function in genome maintenance and cell proliferation. Additional terms like centrosome cycle (GO:0007098) reinforce the cell cycle/nuclear maintenance theme, while Golgi retention, homooligomerization, ERBB signaling, and glucose metabolism appear as supplementary processes. Overall, the dominant signal points to DNA replication and cell cycle regulation.","confidence":"High","size":26,"edges":7,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0006351","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0006281","count":7},{"id":"GO:0045053","count":7}]},{"hash":"39835477648341318","title":"Innate Immune Activation and Inflammation","description":"Genes in this cluster are dominated by innate immune and inflammatory processes, with terms for lectin pathway complement activation, Fc-gamma receptor signaling, leukocyte adhesion/rolling, and cellular responses to fungal origin. Additional terms related to platelet activation and arachidonate secretion reinforce an inflammatory context, while some developmental terms may reflect broader signaling roles.","confidence":"High","size":26,"edges":39,"triangles":15,"max_degree":19,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0071226","count":16},{"id":"GO:0010572","count":14},{"id":"GO:0001867","count":14},{"id":"GO:0001502","count":11},{"id":"GO:0090238","count":10}]},{"hash":"1923452553818606119","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"This cluster is dominated by GO terms for proteoglycan and glycosaminoglycan biosynthesis, including heparan sulfate, chondroitin/dermatan sulfate, and related proteoglycan metabolism. The linkage to chondrocyte development and ureteric bud formation supports a cohesive role in extracellular matrix assembly and tissue development driven by GAG-rich proteoglycans.","confidence":"High","size":26,"edges":25,"triangles":0,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":4},{"id":"GO:0015014","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0030206","count":3},{"id":"GO:0030202","count":3}]},{"hash":"144547336951210173","title":"Host cell invasion and gene regulation","description":"The top GO terms center on host cell entry and nuclear penetration, suggesting a theme of host invasion/manipulation, while related terms for transcription regulation and cell cycle indicate potential modulation of host gene expression. Some metabolic biosynthesis terms appear less connected to invasion but may reflect associated microbial physiology within the cluster.  ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046718","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0036265","count":4},{"id":"GO:0045737","count":4},{"id":"GO:0009102","count":4}]},{"hash":"1165494928244001172","title":"Neural development and synaptic signaling","description":"The cluster is dominated by terms tied to nervous system development and synaptic function: retina development, excitatory synapse assembly, positive regulation of glutamatergic transmission, neuron cell-cell adhesion, and vesicle exocytosis at synapses. These point to neural connectivity and communication as the core theme. An outlier is osteoblast development, which may reflect included genes with pleiotropic roles or annotation noise, but the overall signal aligns with neural development and synaptic signaling.","confidence":"High","size":26,"edges":319,"triangles":2463,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002087","count":12},{"id":"GO:0002076","count":12},{"id":"GO:0060041","count":12},{"id":"GO:0006366","count":11},{"id":"GO:1904861","count":10}]},{"hash":"51924697988787219","title":"Embryogenesis and organ morphogenesis","description":"The cluster shows strong representation of embryonic development (in utero), embryonic eye morphogenesis, left/right pattern formation, and cardiac tissue morphogenesis, along with transcriptional regulation (DNA-templated transcription and RNA polymerase II). Neuron maturation and ovarian follicle growth hint at broad developmental roles. Taken together, these proteins appear to participate in coordinated embryonic development and organogenesis via transcriptional programs, rather than a single tissue-specific function.","confidence":"Medium","size":26,"edges":210,"triangles":694,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":8},{"id":"GO:0048048","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0006366","count":6}]},{"hash":"1738134665269403317","title":"Unknown","description":"The top GO terms are split between chromatin organization (chromosome condensation, nucleosome assembly) and immune signaling (Fc-epsilon receptor signaling pathway, negative regulation of dendritic cell differentiation). With 26 proteins but no edges or coherent connection among them, there isn\u2019t a single unifying function to label the cluster; thus Unknown with None confidence.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030261","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0038095","count":1},{"id":"GO:2001199","count":1}]},{"hash":"2235354871094844673","title":"Neural signaling and sensory processing","description":"This cluster centers on neural signaling and sensory processing, with terms for sensory perception of pain, temperature response, and dopamine uptake in synaptic transmission. It also includes neural-related signaling pathways (ERK cascade, GTPase regulation, phosphatidylinositol biosynthesis) and neural development (retina development), suggesting a cohesive theme around neural communication and sensory function. While there are no observed physical interactions within the cluster, the prevalent GO terms support labeling it as neural signaling/sensory processing. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0043547","count":12},{"id":"GO:0008283","count":12}]},{"hash":"1091110258547166102","title":"Drosophila follicle epithelium adhesion and polarity","description":"The top terms cluster around follicle cell biology in Drosophila, including adhesion of follicle cells, maintenance of polarity in the follicular epithelium, and egg chamber-related development, with additional hints of broader developmental processes (eye/visual primordium formation). While there are some nucleic acid processing terms present, the strongest and most coherent theme is oogenesis-related follicle epithelium development and polarity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0071555","count":3},{"id":"GO:0007299","count":3},{"id":"GO:0042248","count":3},{"id":"GO:0001744","count":3}]},{"hash":"388376234841074544","title":"Interferon-driven innate immune response","description":"Top terms predominantly point to innate immune signaling and antiviral responses (dsRNA response, interferon production/signaling, TNF modulation, and defense against bacteria). Although there are no observed network edges among the proteins, the GO terms cohere around immune defense and interferon pathways, suggesting the cluster represents an interferon-driven innate immune module.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":2},{"id":"GO:0031204","count":1},{"id":"GO:0006620","count":1},{"id":"GO:0032760","count":1},{"id":"GO:0043330","count":1}]},{"hash":"1515788503850983466","title":"Viral genome integration and latency","description":"This cluster shows strong enrichment for GO terms tied to viral genome integration and maintenance: viral penetration into the host nucleus, RNA-templated DNA biosynthetic process, DNA integration, establishment of integrated proviral latency, DNA replication, and DNA recombination. These together point to a shared function in viral genome integration and latency programs, with additional terms such as proteolysis and keratinocyte migration likely reflecting broader host\u2013pathogen interaction roles or annotation breadth rather than core clustering signals.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0051549","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006278","count":2}]},{"hash":"1919672001359340139","title":"Plant defense signaling and cell-wall biosynthesis","description":"Top terms point to plant immune responses (Toll signaling, inflammatory regulation, callose deposition) combined with diverse biosynthetic processes for cell-wall and sugar metabolites (glucan, trehalose, UDP-GlcNAc). The cluster seems to mix defense signaling with metabolic pathways rather than a single specific function, so the label reflects both aspects.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":2},{"id":"GO:0008063","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0005992","count":2}]},{"hash":"1629089306049355053","title":"Mechanosensing and inflammatory signaling in development","description":"The cluster centers on cellular responses to mechanical stimuli, mechanotransduction, calcium release, and inflammation, suggesting a shared mechanism of mechanical signal transduction coupled to inflammatory signaling. Developmental GO terms (cartilage morphogenesis, left-right pattern formation, endocardial EMT) indicate these proteins may also be involved in mechanobiology during development, though not all terms fit a single cohesive function. Overall, the strongest common theme is mechanosensing-related signaling with inflammatory and developmental context.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0050966","count":3}]},{"hash":"1696004999866821412","title":"Innate immune signaling and vesicle trafficking","description":"This cluster is enriched for innate immune signaling terms, including dsRNA response and both MyD88-dependent and independent TLR signaling, and for inflammatory signaling (IL-8 production). It also includes vesicular transport processes (ER-to-Golgi, intracellular transport) and cytoskeletal remodeling (actin filament severing) that support immune signaling and trafficking, as well as autophagy. The combination points to a module coordinating immune receptor signaling with vesicle trafficking and cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051014","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0043330","count":2}]},{"hash":"489067246753194616","title":"Cardiovascular and Lung Development","description":"The top GO terms point to developmental regulation of heart, vascular, and respiratory systems (e.g., negative regulation of angiogenesis, heart trabecula formation, surfactant homeostasis, lung branching morphogenesis), with supporting vascular and blood pressure-related processes. While a few terms touch other organ systems, the dominant theme is embryonic cardiovascular and pulmonary development. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:1900747","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0060133","count":2},{"id":"GO:0002076","count":2}]},{"hash":"2223965135863751735","title":"Unknown","description":"Top GO terms are highly diverse, including Notch signaling in heart development, oligodendrocyte and cerebellar granule cell differentiation, skeletal muscle regeneration, ephrin signaling, plus unrelated processes like telomere maintenance, salicylic acid signaling, spindle assembly, and vitamin D response. There is no single cohesive theme tying these terms together, so a meaningful, specific label cannot be assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003270","count":4},{"id":"GO:1904357","count":4},{"id":"GO:2000031","count":4},{"id":"GO:0048709","count":4},{"id":"GO:0051225","count":4}]},{"hash":"556021706305227661","title":"Developmental signaling and tissue differentiation","description":"The set includes key developmental pathways (hippo signaling, canonical Wnt signaling) and processes governing growth, differentiation, and apoptosis across multiple tissues (skin keratinocytes, muscle myoblasts, retina/visual perception, neuronal synaptic plasticity). This suggests a broad role in developmental signaling and tissue differentiation rather than a single tissue-specific function.","confidence":"Medium","size":25,"edges":124,"triangles":398,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0060044","count":16},{"id":"GO:0035329","count":16},{"id":"GO:0006915","count":16}]},{"hash":"1189216295373685680","title":"Ubiquitin-Dependent Protein Degradation","description":"The dominant GO terms point to ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent proteasomal degradation, indicating a shared role in tagging and degrading proteins; other terms suggest associated stress-response and neuronal signaling connections, but the core cluster centers on ubiquitin-proteasome\u2013mediated proteolysis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0031146","count":8},{"id":"GO:1903378","count":7},{"id":"GO:0000209","count":7},{"id":"GO:0060386","count":7}]},{"hash":"485876971911567159","title":"Mesodermal and Skeletal Muscle Differentiation Regulation","description":"Most top GO terms emphasize differentiation of mesodermal/mesenchymal lineages and skeletal muscle development (paraxial mesoderm, osteoblast differentiation, mesenchyme, skeletal muscle), with supporting regulatory/process terms. This suggests a cluster centered on mesodermal tissue differentiation and its regulation, rather than a single tissue-specific function.","confidence":"Medium","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":20},{"id":"GO:0060766","count":20},{"id":"GO:0030318","count":18},{"id":"GO:2001016","count":18},{"id":"GO:0060485","count":18}]},{"hash":"1552968822585607746","title":"Cytoskeletal remodeling and membrane trafficking in immune signaling","description":"This cluster is enriched for terms related to actin-driven processes such as lamellipodium morphogenesis and Rho-mediated signaling, together with endocytosis regulation and membrane tubulation, suggesting a shared role in cytoskeletal remodeling and membrane traffic during signaling and immune responses. The inclusion of innate immune response and apoptosis hints at broader cellular stress signaling linked to these processes, making the label plausible though not exclusively definitive.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006915","count":4},{"id":"GO:2000394","count":4},{"id":"GO:0010976","count":3},{"id":"GO:1990314","count":3}]},{"hash":"703040333213958760","title":"Membrane Solute Transporters","description":"The cluster is dominated by transmembrane transport GO terms for small molecules (antimonite/arsenite transport, sodium-dependent organic anion transport, and pyruvate transport), suggesting a shared role in membrane transport. A few development-related terms appear but are much less represented, so the primary theme is transport rather than development.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015699","count":2},{"id":"GO:0015700","count":2},{"id":"GO:0006849","count":2},{"id":"GO:0043251","count":2},{"id":"GO:0003323","count":1}]},{"hash":"293443679817940811","title":"Motile cilium assembly and movement","description":"The cluster is dominated by cilia-related GO terms (axoneme assembly, motile cilium assembly, cilium movement), indicating a shared role in ciliogenesis and ciliary motility. While a few terms touch on visual perception or epithelial differentiation, the strongest signal centers on ciliary structure and movement, suggesting these proteins function primarily in motile cilia-related processes.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060294","count":1},{"id":"GO:0035082","count":1},{"id":"GO:0044458","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0007601","count":1}]},{"hash":"2290476529480108001","title":"Translation initiation and preinitiation complex assembly","description":"Top GO terms center on translation initiation and preinitiation complex formation (with reinitiation and IRES-dependent initiation), suggesting this cluster represents components of the translation initiation machinery. Some spliceosome-related terms appear but likely reflect ancillary RNA processing roles rather than core function.","confidence":"High","size":25,"edges":7,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":15},{"id":"GO:0002188","count":15},{"id":"GO:1901407","count":14},{"id":"GO:0006446","count":10},{"id":"GO:0075525","count":10}]},{"hash":"1785707339734841817","title":"Mitochondrial dynamics and respiratory complex assembly","description":"The terms point to mitochondrial membrane fission/fusion, mitochondrial fragmentation in apoptotic processes, and cytochrome complex assembly, with supporting signals for heme transport and ER membrane interactions. This pattern reflects core mitochondrial dynamics, biogenesis, and assembly of the respiratory chain, sometimes linked to apoptosis and necroptosis regulation, making a mitochondria-focused label appropriate.","confidence":"High","size":25,"edges":29,"triangles":1,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":3},{"id":"GO:0090149","count":3},{"id":"GO:0015886","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0017004","count":2}]},{"hash":"816954513853733172","title":"GTPase and kinase signaling regulation","description":"The cluster is enriched for positive regulation of GTPase activity and protein kinase activity (including autophosphorylation), pointing to shared control of signaling pathways. Tissue- and differentiation-related terms (skeletal development and prostate glandular acinus differentiation) suggest developmental contexts, while hypoxia response and synaptic plasticity regulation indicate broader stress- and function-related signaling. Overall, the common theme is regulation of signaling and differentiation processes.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0001501","count":8},{"id":"GO:0060528","count":8},{"id":"GO:0007568","count":8},{"id":"GO:0071456","count":8}]},{"hash":"1825155627484741157","title":"Steroid Hormone Biosynthesis and Lipid Metabolism","description":"This cluster is enriched for GO terms tied to biosynthesis and metabolism of steroid hormones (estrogen, androgen, glucocorticoids) and related lipid processes (fatty acid elongation), suggesting a cohesive theme around steroid hormone production and lipid metabolism. Some terms (BH4 biosynthesis, drug/antibiotic response) may reflect broader metabolic or stress-response roles, but the hormone and lipid-related terms predominate.","confidence":"High","size":25,"edges":131,"triangles":219,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":17},{"id":"GO:0006703","count":17},{"id":"GO:0006710","count":17},{"id":"GO:0006704","count":17},{"id":"GO:0008209","count":17}]},{"hash":"1959684794308617887","title":"Unknown","description":"There are no GO terms or connections to characterize this cluster (Top Terms is empty; edges/triangles/max degree are all zero), so there is no shared functional signal to define a meaningful label. Without enrichment or interaction data, a specific, representative function cannot be inferred.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2122219495428869388","title":"Immune and neuronal signaling","description":"The GO terms point to a cohesive theme of signaling pathway activity, with clear immune signaling components such as B cell receptor signaling, mast cell cytokine production, NF-kappaB/JNK regulation, PI3K activity, and integrin-mediated signaling, alongside neural signaling elements like neurotrophin TRK receptor signaling and dendritic spine morphogenesis. This blend suggests a cluster of proteins involved in transducing signals in both immune and nervous system contexts, despite some terms being obsolete or less directly connected. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0048011","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0060997","count":4}]},{"hash":"385409869617882004","title":"Auditory Signaling and Ion Transport","description":"The top GO terms indicate a strong focus on hearing-related neural processes (startle response to sound, cochlear development, detection of mechanical stimuli) coupled with ion channel activity that shapes synaptic signaling (sodium/potassium transport, calcium import and postsynaptic potentials). This points to proteins involved in auditory neural signaling and ion regulation, with a possible but lesser link to circadian modulation of sleep in sensory contexts.","confidence":"High","size":25,"edges":64,"triangles":38,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0001964","count":20},{"id":"GO:0071805","count":20},{"id":"GO:0098703","count":20},{"id":"GO:0045188","count":20},{"id":"GO:0050910","count":19}]},{"hash":"1222993125896837528","title":"Embryonic Development and Tissue Morphogenesis","description":"The GO terms revolve around broad developmental processes across multiple tissues (mesoderm, cartilage, pancreas, hair follicles, palate, placenta) and patterning (left/right), indicating a cohesive theme of embryonic organogenesis and tissue morphogenesis rather than a single specific function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0007498","count":6}]},{"hash":"701069101179569553","title":"Mechanosensitive ion transport and reflex signaling","description":"The cluster combines potassium/sodium transmembrane transport with mechanical-stimulus responses, startle signaling, vasopressin release, and SA node action potential regulation, suggesting a mechanosensation\u2013cardiac\u2013neuroendocrine module.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0035725","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0035994","count":3},{"id":"GO:1903759","count":2}]},{"hash":"246004433012198306","title":"Ubiquitin-regulated Wnt signaling","description":"The top GO terms cluster around positive regulation of canonical Wnt signaling and ubiquitination, suggesting a theme where protein ubiquitination modulates Wnt pathway activity, potentially impacting transcription. While other terms indicate diverse processes (neuron apoptosis, meiosis, placental development, insulin secretion), the core signals point to ubiquitin-mediated control of Wnt signaling as the central theme, giving a moderate level of confidence.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":9},{"id":"GO:0000209","count":9},{"id":"GO:0043523","count":8},{"id":"GO:0060712","count":8},{"id":"GO:0007058","count":8}]},{"hash":"351805917058160820","title":"Innate Immune Signaling and Leukocyte Trafficking","description":"The top GO terms cluster around innate immune processes: complement activation via the lectin pathway, Fc-gamma receptor signaling, and leukocyte tethering/rolling, plus regulation of NK cell chemotaxis. These indicate proteins involved in immune recognition and leukocyte movement. A few development-related terms (kidney and cartilage development) appear, but they likely reflect broader developmental roles or annotation overlap rather than a unifying function of the cluster. Overall, the dominant theme is innate immune signaling and leukocyte interactions.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0072177","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0060355","count":3}]},{"hash":"1475146591210934910","title":"Dopaminergic Synaptic Transmission and Plasticity","description":"The terms point to neuronal signaling, especially dopaminergic synaptic transmission and plasticity, with references to excitatory postsynaptic potential and long-term potentiation. Some apoptosis and detoxification terms appear but seem secondary, suggesting the core function is synaptic communication and plasticity with mild cellular stress responses. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":3},{"id":"GO:0000920","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2}]},{"hash":"570999180120463168","title":"NF-kappaB signaling and antiviral defense","description":"These proteins disproportionately feature GO terms related to NF-kappaB pathway regulation, including I-kappaB phosphorylation and positive regulation of canonical NF-kappaB signaling, as well as defense responses such as defense response to virus and TNF-mediated signaling. Although a few terms (like peptide amidation and actin ubiquitination) are less directly connected, the dominant theme is NF-kappaB\u2013driven immune signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018032","count":3},{"id":"GO:0001519","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0051607","count":3}]},{"hash":"692282144470468717","title":"Unknown","description":"The Top Terms show a mix of cardiac/mechanical-response terms (cellular response to mechanical stimulus, SA node signaling, response to muscle stretch) alongside immune-related and apoptotic processes (follicular dendritic cell differentiation, regulation of IL-12, hepatocyte apoptotic process) with no clear single theme or connectivity. Because there isn\u2019t a coherent function tying the proteins together, Unknown is the safest label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0002268","count":6},{"id":"GO:0045083","count":6}]},{"hash":"449108847518828537","title":"Developmental Morphogenesis and Signaling","description":"This cluster centers on tissue morphogenesis across multiple systems (lens fiber, heart, hair follicle, lamellipodium) and accompanying signaling processes (B cell receptor signaling, glutamatergic transmission). While some entries touch on broader cellular processes like splicing, the dominant theme is developmental morphogenesis with regulatory signaling roles, justifying a cohesive label with a moderate confidence given the term diversity.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000394","count":3},{"id":"GO:0045737","count":3},{"id":"GO:0070309","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0097428","count":3}]},{"hash":"694141563692335231","title":"Glutamatergic synaptic signaling and auditory behavior","description":"The dominant GO terms point to neural communication at excitatory synapses (positive regulation of synaptic transmission, glutamatergic, excitatory postsynaptic potential) and auditory-related processes (sensory perception of sound, vocalization behavior, neurotransmitter secretion). While a few terms touch immune signaling or myoblast development, the overall theme is neural synaptic signaling and auditory behavior, suggesting these proteins co-localize in glutamatergic synapses and related neuromuscular communication.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":4},{"id":"GO:2001199","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051965","count":2}]},{"hash":"1574959209772446149","title":"TLR-dsRNA Antiviral Signaling","description":"The cluster is dominated by innate antiviral signaling: dsRNA response, TLR pathways (MyD88-dependent and -independent), and downstream cytokine production (IL-8) and dendritic cell regulation. This points to antiviral innate immune sensing and inflammatory signaling, with a minor, likely nonspecific term about mechanical stimulus.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0045087","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0070431","count":7},{"id":"GO:0032088","count":7}]},{"hash":"854130015171201019","title":"RNA processing and translation regulation","description":"This cluster is enriched for terms involving mRNA maturation and handling (polyadenylation, polyadenylation regulation, mRNA export, spliceosome/alternative splicing, processome assembly) and control of translation initiation and stability (regulation of translational initiation, stress-related mRNA stability, viral IRES- and termination-reinitiation aspects). Together these functions point to a cohesive theme of RNA processing and translational control, with some development- or context-specific terms. ","confidence":"High","size":24,"edges":261,"triangles":1721,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":7},{"id":"GO:1900363","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0034462","count":6},{"id":"GO:0006446","count":6}]},{"hash":"1045412524258470321","title":"Ribosome biogenesis and cytoplasmic translation","description":"The cluster's top GO terms predominantly describe ribosome assembly and function\u2014ribosome biogenesis, export of the ribosomal large subunit from the nucleus, and cytoplasmic translation\u2014suggesting a cohesive role in ribosome production and protein synthesis. A few cell division and chromatid cohesion terms appear, but they are less central to the dominant ribosome-related themes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044376","count":2},{"id":"GO:0007064","count":2},{"id":"GO:1990022","count":2},{"id":"GO:0034087","count":2},{"id":"GO:1903833","count":2}]},{"hash":"1875405376605791657","title":"Cytoskeletal signaling and cell regulation","description":"The top GO terms are dominated by regulation of Rho signaling and cytoskeleton-related movements (regulation of Rho signal transduction, dynein-driven nuclear movement, nuclear migration), suggesting a protein cluster centered on signaling pathways that control cytoskeletal dynamics and cellular movement. Other terms like apoptotic process and secretion/detoxification are broader or ancillary, but do not outweigh the cytoskeletal signaling theme. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:1904706","count":4},{"id":"GO:0043154","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0098869","count":3}]},{"hash":"1918432247697680968","title":"Lymphoid development and T cell signaling","description":"This cluster is enriched for immune-related functions\u2014NK T cell differentiation, T cell receptor signaling, IL-4 production, and GM-CSF response\u2014plus hematopoiesis, suggesting a core theme of lymphoid development and T cell\u2013mediated signaling. Canonical Wnt and Hippo pathway terms indicate broader developmental regulation that can influence immune cell development and function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":14},{"id":"GO:0001865","count":13},{"id":"GO:0030097","count":13},{"id":"GO:0060044","count":13},{"id":"GO:0035329","count":13}]},{"hash":"394683531412271012","title":"Collagen signaling and cartilage development","description":"The top terms point to collagen-activated tyrosine kinase receptor signaling and cartilage condensation, suggesting a role in ECM-mediated signaling and cartilage differentiation. Supporting terms like mesoderm formation and regulation of Rho signaling reinforce a developmental and cytoskeletal remodeling theme. While other terms (DNA replication, neural tube patterning, wound response, synaptic transmission) are broader, the core signal appears to be collagen-driven signaling guiding cartilage morphogenesis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0038063","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0006260","count":3},{"id":"GO:0001707","count":3},{"id":"GO:1901621","count":3}]},{"hash":"402454821396174159","title":"Embryonic Development Regulators","description":"The GO terms point to transcriptional regulation by RNA polymerase II and widespread embryonic organogenesis (midbrain, eye, pancreas, lung, peripheral nervous system, primitive streak). This suggests the proteins act as transcriptional regulators coordinating developmental processes across tissues, rather than a single tissue-specific function.","confidence":"High","size":24,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0006366","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0048048","count":6}]},{"hash":"551795783801735523","title":"Ubiquitin-regulated immune signaling","description":"Top terms point to ubiquitin-related regulation (ubiquitin-dependent ERAD, autoubiquitination) combined with modulation of major immune signaling pathways (negative regulation of NF-\u03baB, TGF-\u03b2 signaling, and TNF/NFAT signaling). A lectin pathway complement activation term also fits a broad immune context, while miRNA processing hints at post-transcriptional regulation of immune genes. Overall, the cluster seems enriched for proteins that control immune signaling through ubiquitination and related regulatory processes, justifying the chosen name.","confidence":"Medium","size":24,"edges":32,"triangles":9,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0042347","count":4},{"id":"GO:0030512","count":4},{"id":"GO:0001867","count":4}]},{"hash":"1757798906578218836","title":"Ribosome biogenesis and translation","description":"Genes in this cluster are enriched for translation and ribosome-related processes, including cytoplasmic translation, ribosome biogenesis (small and large subunits), ribosomal subunit export from the nucleus, and tRNA modification, indicating a core role in ribosome assembly and protein synthesis. The presence of cell cycle/division terms may reflect growth coupling, but the dominant theme is ribosome production and translation.","confidence":"High","size":24,"edges":130,"triangles":320,"max_degree":19,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0002181","count":6},{"id":"GO:0007049","count":6},{"id":"GO:1903833","count":5},{"id":"GO:0000055","count":5}]},{"hash":"863326445242957683","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039702","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0019068","count":2},{"id":"GO:0030260","count":2},{"id":"GO:0019076","count":2}]},{"hash":"1313293645579194876","title":"Translation initiation and RNA processing regulators","description":"The Top Terms show a strong emphasis on translation initiation and reinitiation (including IRES-dependent viral translation and preinitiation complex formation), plus regulation of mRNA polyadenylation and spliceosome-mediated alternative splicing, with some transcription-related terms. This points to a cluster of proteins involved in RNA biology coordinating translation initiation with RNA processing steps.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0075525","count":8},{"id":"GO:0006446","count":8},{"id":"GO:0075522","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0002188","count":8}]},{"hash":"2035079273486306967","title":"Cardiac and skeletal muscle development and contractility","description":"The cluster is dominated by terms related to muscle biology\u2014especially regulation of cardiac muscle contraction (including calcium-release pathways) and skeletal muscle fiber development\u2014suggesting a cohesive theme around muscle development and contractile regulation. Additional terms like retina layer formation and axonogenesis indicate broader developmental roles, but the strongest signal centers on cardiac/skeletal muscle function and its regulation.","confidence":"Medium","size":24,"edges":10,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":9},{"id":"GO:0097274","count":8},{"id":"GO:0010842","count":8},{"id":"GO:1900242","count":8},{"id":"GO:0043388","count":7}]},{"hash":"652288065491302042","title":"T cell receptor signaling and ERK regulation","description":"The GO terms show strong ties to T cell receptor signaling and its negative regulation (GO:0050852, GO:0050860) and to regulation of the ERK1/ERK2 cascade (GO:0070373), plus related immune features such as CD8+ T cell proliferation and IL-2 signaling. This points to a cluster centered on immune signaling with modulation of MAPK/ERK pathways in T cells, with some stress response (PERK) associations. Confidence in this label is High.","confidence":"","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":24},{"id":"GO:0050860","count":24},{"id":"GO:0070373","count":24},{"id":"GO:1903899","count":21},{"id":"GO:2000566","count":21}]},{"hash":"2000060760091666482","title":"Complement and Adhesion in Development","description":"This cluster centers on immune-related functions (complement activation via lectin and classical pathways and MAC regulation) alongside adhesion and tissue remodeling (cell-cell and cell-matrix adhesion, junction assembly) and embryonic development terms. The co-occurrence of immune activation with developmental/adhesion processes suggests a theme around how innate immune components interact with cell adhesion and developmental signaling during embryogenesis, with a possible nod to PKC signaling as a mediator. Overall, the terms converge on immune-mediated regulation of development and tissue organization, though the mix is broad.","confidence":"Medium","size":24,"edges":4,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0007157","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0006590","count":6},{"id":"GO:0007160","count":6}]},{"hash":"398037404323607212","title":"Developmental transcription and signaling regulators","description":"Most terms cluster around DNA-templated transcription and regulation of signaling pathways (notably NF-kappaB and Wnt), along with cell cycle and cytokinesis regulation, and development-related processes (blastocyst development, spongiotrophoblast layer development). This points to a set of proteins functioning as transcriptional regulators and modulators of developmental signaling, potentially coordinating proliferation and differentiation in embryogenesis and placental development. A minor outlier term about mitochondrial inner membrane protein insertion is less consistent with the main theme, and one term is obsolete, but the dominant pattern supports developmental transcriptional regulation and signaling roles.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0032465","count":3},{"id":"GO:0043123","count":3}]},{"hash":"178198138232921160","title":"Embryonic tissue differentiation","description":"The proteins in this cluster are enriched for diverse developmental and differentiation processes across multiple lineages (neural patterning like floor plate, somite formation, mesenchyme, muscle, melanocyte, amacrine cell differentiation, etc.) and involve transcription by RNA polymerase II, suggesting a coordinated program of gene expression governing embryonic tissue development and lineage specification.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":20},{"id":"GO:0045668","count":13},{"id":"GO:0033504","count":13},{"id":"GO:0060766","count":13},{"id":"GO:0001756","count":13}]},{"hash":"1904920198667397905","title":"Cytokinesis and Endosomal Trafficking","description":"This cluster centers on cell division processes such as mitotic metaphase chromosome alignment, abscission, cell division, and nuclear membrane reassembly, and pairs them with membrane remodeling and vesicle trafficking functions like multivesicular body assembly/fusion and membrane fission. The combination of cytokinesis-related GO terms with endosomal/lysosomal trafficking terms suggests proteins coordinating membrane remodeling during cell division and ESCRT-mediated abscission, making this a coherent cytokinesis\u2013endosome cluster.","confidence":"Medium","size":24,"edges":29,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071454","count":4},{"id":"GO:0007080","count":4},{"id":"GO:0061763","count":4},{"id":"GO:0090148","count":4},{"id":"GO:0009838","count":4}]},{"hash":"363556479646444701","title":"dsRNA-Triggered Innate Immune Signaling","description":"The GO terms cluster around innate immune responses and dsRNA sensing (response to exogenous dsRNA, cellular response to exogenous dsRNA, innate immune response), with related NOD1/2 signaling and IL-8 production, plus ubiquitination and apoptosis. This combination points to antiviral/innate immune pathways activated by dsRNA and NOD signaling, with downstream inflammatory and cell death processes. A few terms about mechanical stimulus or food response seem peripheral. Confidence: High.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0043330","count":2},{"id":"GO:0045416","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0000209","count":2}]},{"hash":"734379089352025327","title":"Nuclear transcription control and DNA mobility","description":"The top GO terms cluster around nucleus-centered regulation of transcription (RNA Pol II tethering at the nuclear periphery, nuclear mRNA surveillance, negative regulation of transcription by RNA Pol II) and genome mobility processes (DNA transposition, retrotransposition, DNA integration). Additional terms touch on spindle assembly and stem cell differentiation,consistent with broader nuclear/cell-cycle roles. Together they point to a theme of transcriptional control within the nucleus coupled with genome rearrangement/mobility elements, potentially linked to viral/symbiont interactions that affect genome integrity. Confidence: Medium","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000973","count":2},{"id":"GO:0071033","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0051225","count":2}]},{"hash":"1483467587888017135","title":"Innate Immune Signaling and Stress Response","description":"The cluster\u2019s top terms are dominated by innate immune and stress-related processes (interferon response, dsRNA response, innate immune response, oxidative stress responses, and glucocorticoid signaling). While there are also cell cycle and GPCR-regulation terms present, the common theme appears to be immune signaling and cellular stress responses, suggesting these proteins participate in coordinating immune and stress-related signaling pathways.","confidence":"Medium","size":24,"edges":62,"triangles":24,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046661","count":14},{"id":"GO:0035457","count":14},{"id":"GO:0070301","count":14},{"id":"GO:1903646","count":14},{"id":"GO:0008277","count":14}]},{"hash":"120108141966498094","title":"Nuclear proteostasis and trafficking","description":"This cluster\u2019s terms largely point to ubiquitin-proteasome\u2013mediated quality control and transport-related processes in the nucleus, including nuclear export regulation, post-translational targeting to membranes, and DNA replication aspects tied to replication/repair quality control. Some terms appear obsolete or peripheral (e.g., adhesion-related term), suggesting some noise, but the core theme is nuclear protein homeostasis and trafficking.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":2},{"id":"GO:0006469","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0071630","count":1}]},{"hash":"348346321199757398","title":"Multiorgan development and signaling","description":"This cluster centers on organ development terms (bone, heart, kidney) and vascular/blood-related processes (blood coagulation), together with signaling-related terms (receptor clustering, protein heterooligomerization) and cellular machinery (centrosome-associated microtubule anchoring, mitotic transition). While not pointing to a single precise pathway, the dominant theme is proteins involved in signaling and development across multiple organs, with supporting roles in immune/coagulation contexts. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0034454","count":2},{"id":"GO:0007091","count":2}]},{"hash":"1676883103613985077","title":"Gland development signaling and ECM remodeling","description":"This cluster centers on secretory and signaling processes linked to gland development (notably mesenchymal-epithelial signaling in prostate gland development, exocytosis, and hormone secretion) and extracellular matrix (ECM) remodeling (collagen fibril organization, proteoglycan biosynthesis). Additional terms like angiogenesis and RTK activation support a tissue-structuring, signaling-rich context. The UV protection term is less aligned but does not overwhelm the main theme. Overall, a cohesive theme of gland development with ECM dynamics emerges.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045921","count":7},{"id":"GO:0045766","count":6},{"id":"GO:0060739","count":6},{"id":"GO:0030210","count":6},{"id":"GO:0009650","count":6}]},{"hash":"105495457389428669","title":"Embryogenesis and Tissue Patterning","description":"The cluster\u2019s top GO terms cluster around broad developmental processes across multiple tissues (pancreatic/endocrine development, cartilage morphogenesis, placenta-related differentiation, left-right patterning, EMT in heart development), suggesting a theme of embryonic development and tissue formation rather than a single pathway. This broad but coherent theme justifies a label of embryogenesis and patterning.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1687984006879648195","title":"Bone and connective tissue development","description":"These terms cluster around extracellular matrix organization and tissue morphogenesis, notably bone formation (endochondral and intramembranous ossification), collagen fibril organization, and basement membrane/dermal and vascular development (skin, glomerular basement membrane, aorta smooth muscle morphogenesis, lymphangiogenesis). Blood coagulation and amino acid stimulus response likely reflect ECM remodeling and tissue homeostasis rather than a single pathway. Overall, the proteins appear connected to skeletal/ connective tissue formation and ECM-driven maturation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":4},{"id":"GO:0001958","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0070208","count":3}]},{"hash":"127482963068848250","title":"Immune Signaling and Actin Cytoskeleton Remodeling","description":"This cluster is enriched for immune-related terms (B cell homeostasis, B cell proliferation, T cell proliferation, IL-6 production regulation) and for cortical actin cytoskeleton organization, suggesting a cohesive theme of immune cell activation coupled with cytoskeletal dynamics. Although there are some developmental and transposon-related terms present, the strongest recurring signal points to immune signaling and actin remodeling being the shared function of the cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":2},{"id":"GO:0032715","count":2},{"id":"GO:0035509","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0030890","count":2}]},{"hash":"290875304284698606","title":"Cardiovascular and Musculoskeletal Development","description":"The top GO terms cluster around heart development (Notch signaling in the secondary heart field, right atrium morphogenesis), vascular differentiation, and skeletal muscle regeneration, with additional differentiation signals (oligodendrocyte differentiation, vitamin D response). This suggests a developmental program spanning heart, vessels, and muscle tissues rather than a single narrowly defined function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003270","count":8},{"id":"GO:0048709","count":8},{"id":"GO:0033280","count":8},{"id":"GO:0060843","count":8},{"id":"GO:0071260","count":8}]},{"hash":"2043141895903193645","title":"Golgi-Endosome Vesicle Transport via GTPases","description":"This cluster is enriched for terms describing ER-to-Golgi and endosome-to-Golgi transport, including recycling endosome to Golgi and late endosome to Golgi pathways, which points to vesicle trafficking between Golgi and endosomal compartments. The presence of Rap protein signal transduction and activation of GTPase activity supports a mechanism driven by small GTPases. Some unrelated GO terms appear but the dominant theme is Golgi\u2013endosome vesicle trafficking.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0071955","count":2},{"id":"GO:0090630","count":2},{"id":"GO:1902018","count":2}]},{"hash":"533041164807633064","title":"Regulated Splicing and mRNA Processing","description":"Top GO terms are dominated by spliceosome-mediated regulation of mRNA splicing (positive/negative), alternative splicing, and related steps like processome assembly and mRNA export, with additional ties to mRNA stability and translational initiation. This points to a cohesive set of proteins functioning in RNA processing and spliceosome regulation.","confidence":"High","size":23,"edges":229,"triangles":1343,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":19},{"id":"GO:0031047","count":19},{"id":"GO:0010610","count":17},{"id":"GO:0048025","count":15},{"id":"GO:1900363","count":14}]},{"hash":"1690861597614479959","title":"NF-kappaB-driven innate immune signaling","description":"This cluster is enriched for innate immune response terms and NF-kappaB transcription factor activity regulation, with related ubiquitination processes (K63-linked and autoubiquitination) and TNF-mediated signaling, as well as defense against virus, indicating a core role in NF-kappaB\u2013mediated immune signaling via ubiquitination.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0070534","count":11},{"id":"GO:0051865","count":10},{"id":"GO:1903265","count":9}]},{"hash":"909296847423599170","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms cluster around translation machinery: mRNA export from the nucleus, formation of the translation preinitiation complex, translation reinitiation, and ribosomal large subunit assembly/export. The inclusion of viral translation initiation terms further emphasizes translation control. Taken together, these terms point to a module focused on ribosome construction and initiation of protein synthesis.","confidence":"High","size":23,"edges":251,"triangles":1729,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4},{"id":"GO:1901407","count":4}]},{"hash":"1388820474111809996","title":"DNA replication and repair","description":"Top GO terms cluster around DNA metabolism: DNA replication, helicase/unwinding during replication, DNA repair, and the SOS response, with UV protection also represented. Although some terms are obsolete or less consistent (NMD, MDA-5 signaling), the core signal points to a DNA damage response and replication/repair machinery.","confidence":"Medium","size":23,"edges":98,"triangles":136,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032508","count":8},{"id":"GO:0000184","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0006268","count":6},{"id":"GO:0009432","count":6}]},{"hash":"2035092593345269507","title":"Actin Dynamics and Cell Adhesion Signaling","description":"The cluster shows enrichment for actin-related processes (barbed-end capping, actin polymerization, ruffle assembly) along with ECM-cell signaling and substrate adhesion-dependent spreading, pointing to coordinated actin remodeling and cell\u2013matrix interactions. Additional terms like dendritic spine morphogenesis and Wnt-regulated stem cell processes suggest broader developmental and morphogenetic roles where actin dynamics drive shape changes and signaling. Innate immune response appears but is less central to the core theme, which remains actin-driven cytoskeletal dynamics and adhesion signaling.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:2000035","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0035426","count":2}]},{"hash":"1640553852799748183","title":"Insect Innate Immunity and Stress Response","description":"This cluster is enriched for innate immune and stress-related GO terms: innate immune response, defense against virus, response to TNF, DNA damage response, and oxidative stress (hydrogen peroxide, cobalt ion). The presence of hemocyte and heart development hints supports an insect (likely Drosophila) context where immune cells and signaling intersect with development. The NF-kappaB-related term, though obsolete, points to core inflammatory signaling. Overall, the proteins appear tied to an insect innate immune signaling and stress-response program.","confidence":"High","size":23,"edges":20,"triangles":2,"max_degree":5,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0051607","count":6},{"id":"GO:0045842","count":6},{"id":"GO:0045087","count":6}]},{"hash":"887130202529199270","title":"Unknown","description":"The GO terms span lipid transport (intestinal cholesterol absorption, cholesterol efflux), immune-like responses (defense response to Gram-positive bacteria, cellular response to lipopolysaccharide, apoptotic cell clearance), and other unrelated processes (mitotic cell cycle, transcription regulation, calcium signaling). The lack of a clear, singular functional theme and the sparse connectivity (one edge, no triangles) suggest no cohesive cluster function to name beyond Unknown.","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030299","count":3},{"id":"GO:0033344","count":3},{"id":"GO:0001954","count":3},{"id":"GO:0043277","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1246215266582794035","title":"Ribosome biogenesis and translation initiation","description":"The cluster\u2019s top GO terms center on ribosome production and function: rRNA processing (ITS1 cleavage, LSU-rRNA maturation), formation of translation preinitiation complex, and translation reinitiation, alongside positive regulation of TORC1 signaling and GTPase activity which tie into growth and protein synthesis control. While some differentiation terms appear, the core signal is ribosome assembly and regulation of translation, suggesting a cohesive theme of ribosome biogenesis and initiation control.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":5},{"id":"GO:1904263","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000447","count":5}]},{"hash":"1313856941607416835","title":"Steroid hormone biosynthesis and metabolism","description":"The majority of top GO terms cluster around steroid production and processing (estrogen biosynthetic process, androgen catabolic/metabolic, glucocorticoid biosynthetic process), with related biosynthetic and metabolic activities (tetrahydrobiopterin biosynthesis, methyl-branched fatty acid biosynthesis). A few other terms (regulation of transcription, sporulation, antibiotic response) seem ancillary, but do not override the dominant steroid-related signal. This supports a cohesive label focused on steroid hormone biosynthesis and metabolism.","confidence":"High","size":23,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006355","count":6},{"id":"GO:0006703","count":6},{"id":"GO:0006710","count":6},{"id":"GO:0006704","count":6}]},{"hash":"1520947454998858783","title":"Developmental differentiation signaling regulators","description":"The top GO terms point to keratinocyte differentiation and keratinization, as well as brain, uterus, and cardiac muscle development, with regulatory signaling terms like insulin receptor signaling and GTPase activity, suggesting these proteins act as general regulators of development and tissue differentiation rather than a single tissue-specific function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0030216","count":2}]},{"hash":"218361331490911774","title":"DNA replication and recombination repair","description":"Most GO terms point to core replication and repair activities: DNA replication; multiple homologous recombination/repair steps (strand invasion, synthesis-dependent strand annealing, replication fork processing); and cellular responses to DNA-damaging conditions (camptothecin, X-ray, hydroxyurea). This coherence suggests a cluster of proteins involved in genome maintenance via replication and recombination pathways.","confidence":"High","size":23,"edges":186,"triangles":748,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0072757","count":7},{"id":"GO:0045003","count":7},{"id":"GO:0010165","count":7},{"id":"GO:0000732","count":7}]},{"hash":"630821051606382140","title":"Nuclear mRNA processing and export","description":"The cluster centers on nuclear RNA maturation steps: spliceosome-mediated splicing, polyadenylation regulation, mRNA export, and translational initiation regulation, with supplementary links to stress-related mRNA stability and ribosome biogenesis. This combination points to a cohesive group of proteins involved in RNA processing and export rather than a single signaling pathway.","confidence":"High","size":23,"edges":249,"triangles":1691,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0006378","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0045292","count":11},{"id":"GO:0000398","count":10}]},{"hash":"376189309502648096","title":"Mitochondrial Translation Machinery","description":"The top GO terms are strongly biased toward translation, especially mitochondrial translation (GO:0032543) and general translation (GO:0006412), which suggests the cluster centers on components of the mitochondrial ribosome or associated translation factors. The other terms appear incidental or less coherent with the core function, indicating some noise but not overriding the main theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0015015","count":2}]},{"hash":"1731937262051515169","title":"Proviral integration and latency with chromatin remodeling","description":"The cluster\u2019s top GO terms center on DNA integration and establishment of integrated proviral latency, which points to retroviral integration and latent infection. The adjacent nucleosome assembly/disassembly terms indicate chromatin remodeling accompanying these processes, supporting a coherent theme of viral genome integration into host chromatin and maintenance in latency, with additional terms suggesting broader cellular context like transport and cytoskeletal dynamics. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006337","count":2},{"id":"GO:0006334","count":2}]},{"hash":"1397925380288543314","title":"Unknown","description":"The top GO terms span translation, mitochondrial translation, mRNA splicing, vesicle trafficking, several developmental processes, virion assembly, and ESCRT-dependent viral budding, with no dominant shared function connecting the proteins. The cluster has no edges or shared enriched process, suggesting it does not reflect a coherent, single biological theme. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0070124","count":1},{"id":"GO:0060576","count":1},{"id":"GO:0060628","count":1},{"id":"GO:0045466","count":1}]},{"hash":"842924201047818464","title":"RNA Processing and Translational Initiation","description":"The top GO terms are dominated by translation initiation and reinitiation processes (formation of preinitiation complex, translation reinitiation, regulatory initiation, viral-specific initiation), with additional terms related to RNA processing such as splicing regulation, mRNA export, and small-subunit processome assembly. This suggests a cluster centered on RNA metabolism with a strong emphasis on translational control. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0006446","count":9},{"id":"GO:0075525","count":9},{"id":"GO:0075522","count":9}]},{"hash":"1826940432531872302","title":"Vitamin and Cofactor Biosynthesis","description":"This cluster shows strong enrichment for biosynthetic processes of several vitamins and cofactors (biotin, thiamine, lipoate, menaquinone, molybdopterin cofactor, PQQ), indicating a cohesive role in cofactor assembly and metabolism across the proteins. Some terms like tRNA methylation and mRNA export are less central, but the dominant pattern supports a cofactor biosynthesis theme.","confidence":"High","size":23,"edges":42,"triangles":13,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0006777","count":4},{"id":"GO:0018189","count":4}]},{"hash":"1877551362186757200","title":"CD8 T cell Activation and Granule Maturation","description":"Based on the top GO terms, the cluster centers on cytotoxic T cell biology, including T cell receptor signaling and positive regulation of CD8+ T cell proliferation, as well as dense core granule maturation typical of cytotoxic lymphocytes. Other terms related to Rho/GTPase signaling reflect cytoskeletal changes during immune synapse formation, while endothelial barrier and UPR terms may be ancillary stress-related processes observed in activated cells. Overall, the dominant theme is CD8 T cell activation and cytotoxic granule maturation.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090557","count":2},{"id":"GO:1990502","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0070433","count":2},{"id":"GO:0043547","count":2}]},{"hash":"997445811257304932","title":"Neural and craniofacial development","description":"The top GO terms cluster around development of the nervous system and craniofacial structures (cochlea morphogenesis, brain and PNS neuron development, roof of mouth development, globus pallidus development), with additional signals for general transcription regulation and other tissue development (liver, myotome). This suggests a coherent theme of coordinated neural and craniofacial development rather than a single tissue-specific process.","confidence":"High","size":23,"edges":21,"triangles":4,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":11},{"id":"GO:0060021","count":10},{"id":"GO:0043524","count":10},{"id":"GO:0001889","count":10},{"id":"GO:0007420","count":10}]},{"hash":"1596971333641976986","title":"Mitochondrial redox and cofactor metabolism","description":"The cluster centers on oxidation-reduction processes and redox homeostasis, with strong representation of cofactors and energy-related metabolism (lipoate, thiamine, tetrahydrofolate, dihydrolipoamide, 2-oxoglutarate), suggesting a set of mitochondrial enzymes involved in redox balance and cofactor biosynthesis for central metabolism. Some terms related to gamete methylation and capacitation appear obsolete or incidental, but the core theme remains redox and cofactor metabolism. ","confidence":"High","size":23,"edges":122,"triangles":372,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0045454","count":13},{"id":"GO:0051068","count":9},{"id":"GO:0006103","count":9},{"id":"GO:0009228","count":9}]},{"hash":"2200859818155160196","title":"Steroid Hormone Biosynthesis and Drug Response","description":"The top GO terms point to estrogen, androgen, and glucocorticoid biosynthesis/metabolism, plus tetrahydrobiopterin biosynthesis, suggesting a core theme of steroid hormone production and related cofactor pathways. Additional terms for transcription regulation and responses to antibiotics and methotrexate indicate accompanying transcriptional control and xenobiotic/drug response signals. While an obsolete redox term appears, the strongest consistent signal is steroid hormone biology with drug-response associations, justifying this label.","confidence":"Medium","size":23,"edges":169,"triangles":569,"max_degree":22,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":20},{"id":"GO:0006355","count":15},{"id":"GO:0006703","count":14},{"id":"GO:0006710","count":14},{"id":"GO:0006704","count":14}]},{"hash":"1365339968924960240","title":"Unknown","description":"The GO terms span diverse themes (lipid metabolism such as long-chain fatty acid metabolism and fatty acid biosynthesis, bile acid metabolism, phenylpropanoid metabolism, siderophore biosynthesis, bioluminescence) plus regulatory and signaling terms (negative regulation of Notch signaling, positive regulation of seed germination). This mix does not reveal a single cohesive function or pathway tying all proteins together, making it hard to assign a confident, specific label. Therefore, the cluster is best described as Unknown.","confidence":"","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0045746","count":7},{"id":"GO:0001676","count":5},{"id":"GO:0036112","count":5},{"id":"GO:0019290","count":5}]},{"hash":"132620561779293130","title":"Innate immune activation and leukocyte trafficking","description":"This cluster is dominated by GO terms related to innate immune response, cytokine production in immune responses, leukocyte migration, and regulatory T cell differentiation, pointing to a cohesive theme of immune activation and movement of immune cells. A few neural development terms appear (myelination, cerebral cortex migration) but are less central, likely noise dentro the set. Overall, the immune-related terms best explain the cluster\u2019s function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0002374","count":2},{"id":"GO:0036071","count":2}]},{"hash":"1558238224762504523","title":"Neurodevelopment and synaptogenesis","description":"The top GO terms point to neural development (cerebellar granule cell differentiation, interneuron migration) and synapse formation (positive regulation of excitatory synapse assembly), with concurrent transcriptional regulation and signaling involvement, suggesting a cluster of proteins tied to neural differentiation and synaptic maturation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051091","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0007223","count":2},{"id":"GO:0042355","count":2}]},{"hash":"343513801461591827","title":"Unknown","description":"The GO terms are scattered across diverse processes (cell cycle regulation, neural development, barrier formation, post-translational modification, stress responses, and signaling) with no clear common function tying the cluster together.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":2},{"id":"GO:0098779","count":1},{"id":"GO:0071470","count":1},{"id":"GO:0021629","count":1},{"id":"GO:0008065","count":1}]},{"hash":"2253236089274626341","title":"Neural Crest Migration and Axon Guidance","description":"The top GO terms cluster around neural development, including neural crest cell migration, cranial nerve organization, axon fasciculation, various neuron projection guidance (sympathetic, branchiomotor, commissural), cell adhesion, and semaphorin-plexin signaling. This cohesively points to coordinated neural crest migration and axon pathfinding processes.","confidence":"High","size":23,"edges":42,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021637","count":3},{"id":"GO:0036486","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0097491","count":3}]},{"hash":"1142383937678408053","title":"Diverse Metabolite Biosynthesis","description":"The cluster shows strong enrichment for biosynthetic and metabolic processes across multiple contexts: lipoteichoic acid biosynthesis, fatty acid metabolism (medium/long-chain), siderophore biosynthesis, phenylpropanoid metabolism, bile acid metabolism, and related biosynthetic activities. Some terms (seed germination, bioluminescence) are broader or organism-specific, but the unifying theme is production of diverse metabolites and lipid-related molecules via biosynthetic pathways. Therefore, \"Diverse Metabolite Biosynthesis\" is a concise, representative label.","confidence":"High","size":23,"edges":68,"triangles":27,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070395","count":8},{"id":"GO:0036112","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0001676","count":7},{"id":"GO:1902987","count":7}]},{"hash":"1042012229051566381","title":"Nervous System and Eye Development","description":"This cluster shows terms tied to animal development, especially nervous system development and sensory structures (sensory perception of sound, compound eye retinal cell death, multicellular organism development), with some broader cellular processes like endosome organization and DNA replication. The strongest signal is development and formation of sensory/neural tissues, so a label focusing on nervous system and eye development is appropriate as a representative theme, though the diversity of terms suggests broader roles as well.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007032","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0071560","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0046672","count":1}]},{"hash":"2276948312189994586","title":"Exocytosis and secretory pathway","description":"This cluster is dominated by GO terms related to vesicle tethering, Golgi-to-plasma membrane transport, and exocytosis, indicating proteins involved in the secretory pathway and membrane trafficking. Some terms touch on regulatory processes (GTPase activity, transcription regulation) that may reflect broader control but are less central to the core function. Overall, the main signal points to membrane trafficking and secretion.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0090522","count":2},{"id":"GO:0006893","count":2},{"id":"GO:0006887","count":2}]},{"hash":"311681919480646687","title":"Unknown","description":"The top GO terms span endocytosis regulation, cardiac development signaling, telomere maintenance, various signaling pathways (salicylic acid, ephrin, vitamin D), neural differentiation (oligodendrocyte), mitotic spindle assembly, and skeletal muscle regeneration, indicating no single cohesive function tying these proteins together. They appear to reflect diverse signaling and developmental processes rather than a shared pathway or process.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048549","count":5},{"id":"GO:0003270","count":4},{"id":"GO:1904357","count":4},{"id":"GO:2000031","count":4},{"id":"GO:0048709","count":4}]},{"hash":"937172306410629131","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0070534","count":11},{"id":"GO:1903265","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0051092","count":8}]},{"hash":"568175550605023313","title":"Ubiquitin-Dependent Protein Degradation","description":"These proteins are dominated by GO terms for ubiquitin tagging and proteasomal degradation (ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent degradation, polyubiquitination, ERAD). Additional terms touch on downstream roles in neurons, synapse assembly, oocyte maturation, and DNA replication initiation, which can be linked to ubiquitin signaling. Overall, the cluster centers on proteostasis via the ubiquitin\u2013proteasome system.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0031146","count":10},{"id":"GO:0030433","count":9},{"id":"GO:1903378","count":8},{"id":"GO:0000209","count":8}]},{"hash":"555260785868333347","title":"Heparan sulfate proteoglycan biosynthesis","description":"Enrichment centers on heparan sulfate/heparin proteoglycan biosynthesis (GO:0015012, GO:0030210) and related glycosaminoglycan metabolism (N-acetylglucosamine, sulfate assimilation). This suggests the cluster mainly comprises proteins involved in proteoglycan biosynthesis and extracellular matrix components, with additional metabolic roles that are less defining.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":4},{"id":"GO:0030573","count":4},{"id":"GO:0048702","count":4},{"id":"GO:0006584","count":4},{"id":"GO:0015012","count":4}]},{"hash":"68975938331023604","title":"Developmental nuclear proteostasis and ribosome biogenesis","description":"The Top Terms include homologous recombination repair, embryonic organ development, ubiquitin-dependent ERAD and protein ubiquitination, spindle orientation, ribosome biogenesis, rRNA maturation, protein interactions, and histone acetylation. Together they point to nuclear processes governing genome maintenance, transcriptional regulation, and protein quality control in a developmental context, rather than a single pathway. Thus the label reflects development-associated nuclear functions and proteostasis, with a focus on ribosome biogenesis and related processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000724","count":6},{"id":"GO:0048568","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0000209","count":6},{"id":"GO:0000132","count":6}]},{"hash":"1818789504308931784","title":"Ribosome Biogenesis and Cell Cycle","description":"The top GO terms cluster around ribosome production and function (ribosome biogenesis, cytoplasmic translation, ribosomal subunit export) and cell cycle processes (cell division, cell cycle), suggesting proteins that coordinate ribosome assembly with proliferation. Some outliers exist (e.g., conjugation, iron homeostasis), but the dominant theme is ribosome-related biogenesis linked to division.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0055072","count":2},{"id":"GO:1903833","count":2}]},{"hash":"1550603680695088906","title":"Transcription Regulation and Cell Cycle Dynamics","description":"This cluster is dominated by GO terms for regulation of transcription (RNA Pol II) and DNA binding, with additional signals related to cell shape, spindle assembly, and mechanotransduction, suggesting a group of proteins involved in transcriptional control and cell cycle/cytoskeletal dynamics rather than a single metabolic pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0008360","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1934778231677351255","title":"Neurodevelopmental transcription and ciliogenesis","description":"This cluster centers on regulation of gene expression and development, with multiple terms tied to transcription (DNA-templated transcription, RNA guanine-N7 methylation, histone H3-K4 methylation) and development (multicellular organism development, brain development). The inclusion of cilium assembly further supports a role in neural differentiation and ciliogenesis. A single term about cocaine response is less representative, but overall the dominant theme is transcriptional/chromatin regulation linked to neurodevelopment and ciliary function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0016049","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1938187182582270326","title":"Ion Channel Regulation and Muscle Signaling","description":"The cluster is dominated by terms related to ion transport and membrane repolarization (potassium channels, calcium response) and muscle contraction (smooth muscle), with additional sensory perception terms (touch, pain). This points to a core theme of ion-channel\u2013mediated signaling that regulates muscle function across tissues and can influence sensory processes; the broader developmental and stress-related terms are less central but present as ancillary connections. ","confidence":"Medium","size":22,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098914","count":11},{"id":"GO:0050976","count":11},{"id":"GO:0051592","count":10},{"id":"GO:0060083","count":10},{"id":"GO:0034465","count":10}]},{"hash":"361974271746331967","title":"Axon guidance and neural development","description":"The top GO terms cluster around neural development and axon guidance (motor neuron migration, axon guidance, peripheral nervous system neuron axonogenesis) with supporting terms on cell\u2013matrix adhesion and receptor clustering, suggesting a group of proteins involved in neuronal connectivity and adhesion; a few terms (phloem development, platelet aggregation, immune regulation) appear divergent but do not override the dominant neural development signal.","confidence":"Medium","size":22,"edges":188,"triangles":863,"max_degree":21,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070527","count":10},{"id":"GO:0097477","count":10},{"id":"GO:0008045","count":8},{"id":"GO:0048936","count":8},{"id":"GO:0007160","count":8}]},{"hash":"1557063804375894656","title":"Multi-tissue developmental patterning","description":"The terms span retina, nervous system, heart (atrioventricular node, axis), somite/myotome, and chondrocyte differentiation, along with general cell cycle and protein ubiquitination roles, indicating a cluster of proteins involved in broad embryonic development and tissue patterning across multiple lineages.","confidence":"Medium","size":22,"edges":36,"triangles":6,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0032330","count":5},{"id":"GO:0048935","count":5}]},{"hash":"559615130008036387","title":"Embryonic Development and Organogenesis","description":"This cluster centers on developmental processes across multiple tissues, including primitive streak formation, left-right patterning, peripheral nervous system neuron development, and various organ developments (pituitary, pancreatic, cartilage). The terms point to broad embryonic programs and tissue morphogenesis, with transcriptional control during development contributing to the shared theme. ","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0048935","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0021983","count":4},{"id":"GO:0003323","count":4}]},{"hash":"2175546084619408758","title":"Aromatic compound metabolism and secondary metabolite biosynthesis","description":"The cluster is enriched for GO terms related to catabolism and transformation of aromatic compounds (beta-ketoadipate pathway, stilbene and uracil/alkaloid metabolism) and for antibiotic biosynthesis, suggesting a theme of processing and producing aromatic or secondary metabolites, including detoxification roles. Some outlier terms like visual perception and paranodal junction assembly are noted, but the dominant pattern points to metabolism and detoxification of aromatic compounds and related secondary pathways.","confidence":"Medium","size":22,"edges":8,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0019433","count":6},{"id":"GO:0030913","count":5},{"id":"GO:0008284","count":4},{"id":"GO:0006212","count":4}]},{"hash":"2264254770052480379","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007613","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0001525","count":2}]},{"hash":"476691566242966629","title":"Telomere maintenance and spindle assembly","description":"This cluster centers on telomere biology, with multiple terms for regulation and maintenance of telomeres (lengthening, telomerase-dependent maintenance, telomere capping, telomeric localization). The presence of spindle assembly as a top term suggests a broader link to chromosome handling during mitosis, potentially via chromatin/telomere-associated regulation (including ADP-ribosylation processes). ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":3},{"id":"GO:1904357","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0070212","count":2}]},{"hash":"1803707678267316854","title":"Neuronal morphogenesis and trafficking","description":"These proteins cluster around neuronal development and cytoskeletal remodeling, with GO terms for hippocampus development, dendritic spine morphogenesis, ruffle/lamellipodium assembly, and mitochondrial involvement in apoptosis, alongside membrane trafficking from Golgi to the plasma membrane and endosome transport. This combination points to a cohesive theme of neurite outgrowth, spine formation, and membrane remodeling in neurons.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006893","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0097345","count":5},{"id":"GO:0097178","count":5},{"id":"GO:0045022","count":5}]},{"hash":"989835903286152166","title":"Unknown","description":"The top GO terms cover a wide, unrelated set of processes (oxidation-reduction, toxic-substance response, cholesterol and flavonoid metabolism, carbohydrate phosphorylation, fucose catabolism, sulfate assimilation, and hormone- or galactose-regulated transcription), with several obsolete terms and no network connections (Edges 0). This lack of a cohesive functional theme suggests no single shared function for the cluster.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0006695","count":3},{"id":"GO:0042355","count":2},{"id":"GO:0046835","count":2}]},{"hash":"2288213243980545574","title":"Unknown","description":"The GO terms span diverse processes including cell cycle regulation, muscle development and regeneration, neural differentiation, and multiple signaling pathways, with no clear shared function linking the majority of proteins in this cluster, making a cohesive label unsupported.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":3},{"id":"GO:0045987","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0003270","count":2},{"id":"GO:1904357","count":2}]},{"hash":"2004239446535753776","title":"Neural development and glial signaling","description":"This cluster centers on nervous system development and glial/synaptic function. The top GO terms point to brain region development (substantia nigra), astrocyte activation, presynaptic calcium regulation, and myelination-related processes, implying roles in neural maturation and synaptic modulation. Additional terms like adenohypophysis morphogenesis and angiogenesis suggest broader developmental signaling that can intersect neural tissues. Overall, the proteins appear tied to neural development, glial activity, and synaptic regulation, with some broader developmental and vascular associations.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0048143","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0048855","count":2}]},{"hash":"497795121252581912","title":"Proteoglycan GAG Biosynthesis","description":"The top GO terms cluster around biosynthesis and metabolism of heparan sulfate, chondroitin/dermatan sulfate proteoglycans, and related extracellular matrix processes, with links to cartilage development and kidney morphogenesis, forming a cohesive theme of proteoglycan production and ECM assembly.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015014","count":1},{"id":"GO:0015015","count":1},{"id":"GO:0030206","count":1},{"id":"GO:0030202","count":1},{"id":"GO:0060676","count":1}]},{"hash":"636459036067756842","title":"Diverse stimulus response and transcription regulation","description":"The top GO terms are dominated by cellular responses to a variety of stimuli (lipopolysaccharide, insulin, estradiol, xenobiotics, fatty acids) and a note on transcription regulation by RNA Pol II, suggesting the proteins collectively participate in signal-induced gene expression changes. Some terms (forebrain development, erythrocyte differentiation) may reflect tissue-specific downstream effects but do not override the core theme of stimulus-responsive transcriptional regulation.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0070542","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0032496","count":3}]},{"hash":"1766946298961716","title":"Oxidative DNA Repair and RNA Regulation","description":"Enriched terms cluster around DNA maintenance (DNA recombination, base-excision repair) and oxidative stress response (hydrogen peroxide, redox homeostasis), with additional RNA stability and signaling terms suggesting coordinated stress response and gene regulation. The core theme appears to be genome integrity maintenance coupled with cellular stress signaling.","confidence":"Medium","size":21,"edges":177,"triangles":806,"max_degree":20,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0070301","count":5},{"id":"GO:2000466","count":5},{"id":"GO:0090502","count":5},{"id":"GO:0006284","count":5}]},{"hash":"1418395015533128954","title":"Neuronal development with immune signaling","description":"The cluster's top GO terms include CNS development and neuron-related features (central nervous system development, neuron cell-cell adhesion, clustering of voltage-gated potassium channels) alongside immune pathways (T cell receptor signaling, interleukin-27 signaling, negative regulation of T cell cytotoxicity) and apoptotic cell clearance. This pattern suggests proteins that participate in neural development and excitability while also engaging immune modulation within the CNS, pointing to neuroimmune interactions. Therefore, the label reflects a combined neurodevelopmental and neuroimmune function.","confidence":"Medium","size":21,"edges":206,"triangles":1256,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":17},{"id":"GO:0007417","count":17},{"id":"GO:0043277","count":17},{"id":"GO:1901491","count":17},{"id":"GO:0001915","count":17}]},{"hash":"1866063608807107989","title":"Translation initiation and mRNA export","description":"The top GO terms cluster around mRNA export from the nucleus and various aspects of translation initiation and reinitiation (including preinitiation complex formation and IRES-dependent viral initiation), suggesting a shared role in initiating protein synthesis and mRNA processing. Some terms like mitotic cell cycle and microtubule severing appear less central, likely reflecting secondary cellular roles.","confidence":"High","size":21,"edges":82,"triangles":100,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0006378","count":3}]},{"hash":"718266332679050539","title":"Mitochondrial OXPHOS and Translation","description":"This cluster is centered on mitochondria, with GO terms for protein import into the mitochondrial matrix, assembly of respiratory complexes I and IV, electron transport, proton motive force-driven ATP synthesis, and mitochondrial translation, plus oxidative stress response. The combination of assembly, energy production, and translation points to a cohesive mitochondrial energy-production module, likely plant-specific given seedling development and heme A biosynthesis signals. ","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":3},{"id":"GO:0032981","count":2},{"id":"GO:0033617","count":2},{"id":"GO:1903862","count":2},{"id":"GO:0006412","count":2}]},{"hash":"492977358126715703","title":"Developmental ECM and Organogenesis","description":"Most GO terms point to developmental processes and extracellular matrix interactions (cell-matrix adhesion, basement membrane/ossification, lung development, spinal cord development, endothelial differentiation) and signaling regulation (Notch). This suggests a cohesive theme of embryonic tissue morphogenesis and organ formation, with vocal learning appearing as an outlier.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042297","count":2},{"id":"GO:0010811","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0048286","count":2},{"id":"GO:0042130","count":2}]},{"hash":"1346340893214999494","title":"Developmental signaling and tissue regeneration","description":"These 21 proteins show enrichment in GO terms centered on developmental signaling and tissue formation/regeneration, including Notch signaling in heart field proliferation, ephrin signaling regulation, oligodendrocyte differentiation, and skeletal muscle tissue regeneration. While there are additional terms related to cell division (spindle assembly), telomere regulation, pain response, and vitamin D signaling that are less directly connected, the core pattern points to signaling pathways guiding development and regenerative processes across tissues. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0048265","count":9},{"id":"GO:0003270","count":8},{"id":"GO:1904357","count":8},{"id":"GO:2000031","count":8},{"id":"GO:0048709","count":8}]},{"hash":"875634276306473115","title":"RNA Processing and Translation Regulation","description":"This cluster centers on post-transcriptional control, with multiple GO terms for regulation of translational initiation, translation reinitiation, preinitiation complex formation, mRNA export, and mRNA splicing, plus spliceosome-related activities and ncRNA-mediated silencing. The inclusion of viral translation terms suggests involvement in specialized translation mechanisms, but the core theme remains RNA processing and translation regulation.","confidence":"High","size":21,"edges":86,"triangles":181,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0001731","count":4}]},{"hash":"1421337327719688541","title":"IRES-Dependent Viral Translation Initiation","description":"The terms are dominated by translation initiation and reinitiation, notably viral IRES-dependent initiation and regulation of translational initiation, plus formation of the preinitiation complex and translation reinitiation. This points to a cluster focused on translation initiation control, especially in viral contexts. A couple of unrelated terms appear (blastocyst formation, mRNA splicing) but with low support, likely noise.","confidence":"High","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3}]},{"hash":"638097977319450379","title":"Cerebellar neuron and Bergmann glia development","description":"The top terms cluster around cerebellar cortex formation and development, Bergmann glial cell differentiation, and neuron development, with supporting signaling terms like T cell receptor and insulin signaling likely reflecting shared pathways rather than tissue-specific function. Overall, the dominant theme is cerebellar neural development, including neuron formation and Bergmann glia differentiation.","confidence":"High","size":21,"edges":120,"triangles":295,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":20},{"id":"GO:2001275","count":20},{"id":"GO:0008286","count":20},{"id":"GO:0008285","count":20},{"id":"GO:0048679","count":20}]},{"hash":"95001677286506065","title":"Neural signaling and cerebellar development","description":"The GO terms show neural-related functions: visual perception, cocaine response, ERK signaling, and protein phosphorylation, plus cerebellar cortex development and proteasomal degradation. This suggests a cluster tied to neural signaling, synaptic regulation, and neuronal development in the cerebellum, with additional cellular stress and remodeling aspects (DNA repair, apoptosis, protein turnover). The label captures this overall neural signaling and cerebellar development theme without overfitting to a single term.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0042220","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0032092","count":9},{"id":"GO:0006915","count":9}]},{"hash":"782916325542468830","title":"Chloroplast RNA and nucleotide metabolism","description":"The top GO terms are dominated by nucleotide metabolism (adenosine metabolic process, ribonucleoside monophosphate catabolic process, nucleotide metabolic process, guanosine-containing compound catabolic process) and chloroplast organization, with Group II intron splicing pointing to chloroplast RNA processing. This pattern suggests a chloroplast-localized cluster focused on RNA processing and nucleotide turnover, rather than general cytosolic processes. The remaining terms appear incidental to the main theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000373","count":3},{"id":"GO:0046085","count":3},{"id":"GO:0009158","count":3},{"id":"GO:1901069","count":3},{"id":"GO:0009117","count":3}]},{"hash":"904103923897443500","title":"Unknown","description":"The top GO terms span a broad mix of regulatory signaling and immune-related processes (GTPase regulation, PI signaling, opioid/dopamine signaling, T cell chemotaxis, TNF regulation), along with a stress/apoptosis note and an unrelated plant cell wall catabolic process. There isn\u2019t a clear, single functional theme tying these terms together, so a cohesive cluster name cannot be confidently assigned.","confidence":"","size":21,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":19},{"id":"GO:1902239","count":19},{"id":"GO:0008284","count":19},{"id":"GO:0016998","count":19},{"id":"GO:0032962","count":19}]},{"hash":"1632222598825220288","title":"Steroid hormone signaling and development","description":"This cluster centers on GO terms related to steroid hormone signaling and developmental regulation, including positive regulation of nuclear receptor\u2013mediated glucocorticoid signaling, steroid hormone receptor complex assembly, male sex differentiation, and left/right asymmetry determination. While there are additional terms pointing to stress or immune responses (e.g., interferon response, hydrogen peroxide response), the strongest and most cohesive signals are tied to hormone receptor signaling and developmental patterning, suggesting a theme of hormone-regulated development. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000324","count":6},{"id":"GO:0051661","count":4},{"id":"GO:0055059","count":4},{"id":"GO:0046661","count":4},{"id":"GO:0006463","count":4}]},{"hash":"1600870041481561721","title":"Embryonic organ development and patterning","description":"These proteins co-occur with GO terms spanning embryogenesis, organogenesis, and patterning\u2014covering embryo development, heart and eye morphogenesis, gonad development, and left/right axis formation\u2014along with a general transcription activity term. This points to a broad developmental program rather than a single tissue-specific function, so a general embryonic organ development theme is most representative.","confidence":"High","size":21,"edges":40,"triangles":12,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":8},{"id":"GO:0048048","count":7},{"id":"GO:0021983","count":6},{"id":"GO:0060038","count":6},{"id":"GO:0006366","count":6}]},{"hash":"2220490598305312527","title":"Ion and metabolite membrane transporters","description":"The cluster is dominated by transmembrane transport terms for various ions (sodium, potassium) and small molecules (nitrate, nitrite, 4-hydroxyphenylacetate), plus related metabolic and vesicle-loading activity (neurotransmitter loading). This points to a cohesive group of membrane transport proteins with ancillary metabolic/vesicle roles.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0035725","count":4}]},{"hash":"1923220087306278392","title":"Broad Metabolic Pathways","description":"Top GO terms span lipid metabolism (long- and medium-chain fatty acids), fatty acid biosynthesis, pyruvate fermentation to acetate, siderophore biosynthesis, phenylpropanoid metabolism, bile acid metabolism, and bioluminescence, with a miscellaneous seed germination term. This diversity points to broadly active metabolic processes rather than a single pathway.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001676","count":6},{"id":"GO:1902987","count":6},{"id":"GO:0036112","count":6},{"id":"GO:0019290","count":6},{"id":"GO:0010030","count":6}]},{"hash":"1546078190558893691","title":"Actin Remodeling in Immune Signaling","description":"The cluster is dominated by actin cytoskeleton-related processes (actin filament polymerization, podosome and microspike assembly, GTPase activity regulation) together with immune responses (adaptive and innate). These suggest a cohesive theme of actin-driven remodeling supporting immune cell functions and signaling, with ancillary links to development. Thus the label emphasizes the core actin dynamics intertwined with immune activity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006348","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0002250","count":3}]},{"hash":"1935638205235069897","title":"Unknown","description":"The terms include defense and catabolic processes related to host-pathogen interactions (defense response to bacterium, cytolysis, cell wall and peptidoglycan catabolic processes) alongside broad signaling and developmental terms (G protein-coupled receptor internalization, negative regulation of adenylate cyclase, regulation of cytosolic calcium in a PLC-GPCR pathway, heart development) and even viral release from host cell. The diverse and weakly connected GO terms suggest there is no single cohesive function tying all proteins together. Therefore the cluster is best labeled Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":2},{"id":"GO:0019835","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0009253","count":2},{"id":"GO:0002031","count":2}]},{"hash":"1923005811754079595","title":"Mitochondrial respiration and angiogenesis regulation","description":"The cluster\u2019s top GO terms are strongly split between mitochondrial energy metabolism (mitochondrial electron transport NADH to ubiquinone; assembly of respiratory chain complex II) and vascular signaling (negative regulation of VEGF signaling and angiogenesis). This suggests a theme centered on energy production coupled with regulation of blood vessel formation, with other terms like response to mechanical stimulus and cell cycle providing broader cellular context but not forming a single cohesive theme. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2}]},{"hash":"1517259615421932907","title":"Cardiac Growth Signaling and Kinase Regulation","description":"This cluster centers on heart-related biology, with terms like heart development and cardiac muscle hypertrophy in response to stress, plus regulators of signaling such as protein kinase activity and GTPase activity, pointing to cardiac signaling pathways involved in growth and stress responses. Some terms are more general (transcription elongation, cell cycle), but the dominant theme is cardiac signaling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0034244","count":2},{"id":"GO:0007253","count":2}]},{"hash":"1886433553668063932","title":"Embryonic development and morphogenesis","description":"This cluster is enriched for diverse developmental GO terms across multiple tissues (CNS development, pancreatic cell development, cartilage morphogenesis, left-right patterning, EMT in endocardial cushion formation, endocrine and placental development, and biomineral tissue development), pointing to a broad role in embryogenesis and tissue morphogenesis rather than a single tissue-specific function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5}]},{"hash":"661628383795746578","title":"ER-Golgi trafficking and Golgi organization","description":"This cluster is dominated by GO terms related to vesicle transport between the ER and Golgi, protein transmembrane transport, and Golgi organization, with supporting signals from GTPase activity regulation and Rap signaling, pointing to a coherent theme of membrane trafficking and Golgi dynamics. Some terms like hippocampus development may be peripheral annotations, but they do not outweigh the trafficking-focused set. Overall, the cluster likely represents proteins involved in ER-to-Golgi transport and Golgi organization.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0043525","count":3},{"id":"GO:0048227","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0021766","count":3}]},{"hash":"967093372233123243","title":"Central carbon metabolism and energy production","description":"The top GO terms are dominated by core metabolic pathways\u2014glycolysis, pentose phosphate shunt, and the TCA cycle, plus regulation of acetyl-CoA production\u2014pointing to central carbon metabolism and energy generation as the cluster\u2019s main theme. While some terms like thalamus development or DNA repair are broader annotations, the prevalent metabolic signals support labeling this cluster as Central carbon metabolism and energy production.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006099","count":4},{"id":"GO:0006098","count":4},{"id":"GO:0021794","count":3},{"id":"GO:0006096","count":3}]},{"hash":"1213237528335072513","title":"Innate Immune Signaling and Cytokine Production","description":"Top GO terms point to innate immune recognition and inflammatory signaling: TLR/MyD88 pathway, NF-\u03baB and JNK cascades, response to dsRNA and peptidoglycan, and production of IL-17, IL-23, and chemokines. The cluster thus represents cells' innate immune sensing and cytokine-driven inflammation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0043330","count":2},{"id":"GO:0032740","count":2},{"id":"GO:0002755","count":2}]},{"hash":"84550548199714745","title":"Embryonic development and tissue morphogenesis","description":"GO terms in this cluster are centered on developmental processes across multiple tissues (pancreas, cartilage, placenta), pattern formation, mesoderm development, and EMT events during heart formation, indicating a broad embryonic development/morphogenesis signature rather than a single tissue-specific function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060972","count":6}]},{"hash":"1769344737795008441","title":"Diverse Transmembrane Transporters","description":"The top GO terms point to transport across membranes for a variety of substrates\u2014sugars (glucose, galactose), ions (phosphate, nitrate), vitamins, sialic acid, xenobiotics, antibiotics, and neurotransmitter loading into vesicles\u2014indicating a cluster of membrane transporter proteins with broad or varied substrate specificity rather than a single pathway.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0015739","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0042128","count":3}]},{"hash":"549843174498579509","title":"Neuroimmune signaling and ECM remodeling","description":"This cluster mixes neural development signals (positive regulation of synapse assembly; tangential migration) with innate immune pathways (MyD88-dependent/independent TLR signaling; response to dsRNA) and extracellular matrix processes (collagen fibril organization) plus inflammatory and autophagy-related terms, suggesting proteins coordinating neural development with neuroimmune responses and ECM remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0043330","count":2}]},{"hash":"1535214877167568193","title":"Cardiovascular development and Notch signaling","description":"The top terms point to heart development and related morphogenesis (cardiac right atrium, Notch signaling in heart field proliferation) and venous endothelial differentiation, with additional hints from mechanosensing and vitamin D\u2013related responses. This suggests a cohesive theme of cardiovascular development and endothelial biology, anchored by Notch pathway involvement in cardiac progenitors.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003270","count":4},{"id":"GO:0003213","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0060843","count":4}]},{"hash":"1397368698475969126","title":"Developmental signaling and differentiation","description":"This cluster shows enrichment for signaling pathways involved in development and cell communication, including GPCR signaling, Notch and ephrin pathways, and factors linked to oligodendrocyte differentiation and skeletal muscle regeneration. It also includes core cellular processes like mRNA processing, spindle assembly, and telomere regulation, suggesting a broader theme of coordinating gene expression with cell fate decisions. Overall, the proteins seem to participate in signaling networks that drive tissue development and maintenance.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0003270","count":3},{"id":"GO:1904357","count":3}]},{"hash":"1958120822064534206","title":"Ubiquitin-dependent TNF/NF-\u03baB signaling","description":"This cluster is dominated by GO terms for autoubiquitination, ubiquitin-dependent protein catabolic processes, and K63-linked ubiquitination, together with TNF-mediated signaling and NF-\u03baB activation (IKK activity and I\u03baB phosphorylation). The terms point to a functional group of proteins that regulate ubiquitin signaling to modulate inflammatory pathways, particularly TNF and NF-\u03baB signaling. A single entry about antiviral transport regulation is compatible with immune-related regulation but is less central.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":11},{"id":"GO:1903265","count":10},{"id":"GO:0042787","count":10},{"id":"GO:0070534","count":9},{"id":"GO:1901253","count":8}]},{"hash":"1070138887840906626","title":"Innate antiviral defense via ubiquitin-proteasome system","description":"The top terms cluster around ubiquitin-dependent protein degradation (ubiquitination, SCF-dependent proteasomal ubiquitin-dependent catabolic process) and innate immune antiviral defense (innate immune response, defense response to virus). This suggests the proteins function together in tagging and degrading proteins as part of antiviral innate immunity, with additional signaling connections to TNF pathways and T-cell differentiation that reflect broader inflammatory responses and lymphoid development. Overall, a coherent theme is innate antiviral defense coordinated by the ubiquitin-proteasome system.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0051607","count":10},{"id":"GO:0000209","count":8},{"id":"GO:0031146","count":8}]},{"hash":"1610122032215312197","title":"Plasma Membrane Solute Transporters","description":"The cluster shows a clear enrichment for membrane transport processes, including antimonite/arsenite transport and sodium-dependent organic anion transport, plus plasma membrane pyruvate transport, indicating a group focused on solute transport across the membrane; a few terms reference transcription and development, but the dominant theme is membrane transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015699","count":3},{"id":"GO:0015700","count":3},{"id":"GO:0006849","count":3},{"id":"GO:0043251","count":3},{"id":"GO:0006351","count":2}]},{"hash":"612904033502192169","title":"Muscle contraction and sarcomere organization","description":"These proteins are enriched for GO terms related to cardiac and skeletal muscle contraction, regulation of contraction, muscle filament sliding, and sarcomere organization, indicating a cohesive theme around the muscle contraction machinery and its regulation across muscle types (cardiac, skeletal, smooth) and development. The coexistence of contraction, regulation, and sarcomere assembly terms supports a single, representative function for the cluster.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":6},{"id":"GO:0031444","count":5},{"id":"GO:0055010","count":5},{"id":"GO:0006942","count":5},{"id":"GO:0030049","count":5}]},{"hash":"758147110942449167","title":"Developmental Growth and Ribosome Biogenesis","description":"The top GO terms point to developmental processes (brain, spinal cord, skeletal development, angiogenesis) alongside growth and biosynthetic activity (cell division, ribosome biogenesis, protein heterotrimerization, tyrosine phosphorylation). While a defense-response term is present, the overall theme centers on development and cellular growth/synthesis, suggesting these proteins function in development-related pathways and basic cellular machinery.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0016525","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0000747","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1160398123243070078","title":"Oxidative Stress Response and Protein Turnover","description":"GO terms cluster around oxidative stress responses (cellular response to oxidative stress, hydrogen peroxide response, oxidant detoxification) and protein turnover (proteolysis, protein catabolic process, oxidation-dependent protein catabolic process), with a minor nod to phospholipid catabolism and an obsolete ubiquitin-dependent ERAD reference. This supports a theme of stress-induced quality control where proteins are degraded to mitigate oxidative damage.","confidence":"Medium","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0010288","count":2},{"id":"GO:0070301","count":2}]},{"hash":"174082236630836133","title":"Nucleolar RNA processing and genome maintenance","description":"The cluster is dominated by RNA-processing and ribosome biogenesis terms (rRNA maturation, ITS1/5.8S processing, RNAP I transcription termination, nonsense-mediated decay) plus spliceosome-mediated splicing regulation and ncRNA silencing, all of which point to a nucleolar program focused on RNA maturation and quality control. The presence of DNA recombination and double-strand break repair terms suggests concurrent links to genome maintenance and chromatin remodeling, while a brain-derived neurotrophic factor\u2013related response hints at broader signaling context. Overall, these annotations cohere around nucleolar RNA processing and genome integrity functions.","confidence":"High","size":20,"edges":188,"triangles":1104,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":17},{"id":"GO:0000464","count":17},{"id":"GO:0048026","count":17},{"id":"GO:0000466","count":16},{"id":"GO:0045003","count":16}]},{"hash":"528977475866465668","title":"Embryonic development and gene regulation","description":"Top GO terms indicate a focus on developmental processes across multiple tissues (left/right patterning, cartilage morphogenesis, pancreatic cell development, placental and endocardial differentiation) along with RNA processing and transcriptional regulation (spliceosome-mediated splicing and RNA polymerase II regulatory region control). This suggests a cluster of proteins involved in embryogenesis with conserved gene-expression regulatory roles.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060536","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0060972","count":2}]},{"hash":"2159038844948186392","title":"Nuclear import/export and pore assembly","description":"The cluster\u2019s top GO terms cluster around nucleocytoplasmic transport and nuclear pore complex assembly: ribosomal protein import into the nucleus, NLS-bearing protein import into the nucleus, and import/export from the nucleus, as well as nuclear pore complex assembly. These signals point to a coherent theme of nuclear trafficking proteins, with a few outliers that are less central to the core function. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006610","count":6},{"id":"GO:0000060","count":6},{"id":"GO:0051292","count":6},{"id":"GO:0006607","count":6}]},{"hash":"190128524740681294","title":"Nucleocytoplasmic ribosome biogenesis and translation initiation","description":"This cluster is dominated by ribosome-related terms (ribosome biogenesis, large subunit biogenesis, translation preinitiation complex formation) and nuclear transport processes (ribosomal protein import, nuclear pore assembly, NLS-dependent import), suggesting coordinated ribosome assembly within the nucleus and subsequent export for translation. The presence of spliceosome-associated splicing and desumoylation regulation hints at broader nuclear RNA processing and regulation relevant to ribosome biogenesis and protein trafficking.","confidence":"High","size":20,"edges":13,"triangles":2,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1159817875799385332","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to translation and ribosome biogenesis (translation, ribosome biogenesis, ribosome disassembly, mitochondrial translation, and translational elongation/fidelity), indicating proteins tied to ribosome assembly and the translation machinery. Additional terms point to RNA processing and mRNA decay, which are commonly linked to quality control around translation and ribosome function, as well as selenocysteine incorporation. The overall theme is coherent: proteins participating in building and operating the ribosome and the translation process, with some associated RNA metabolism.","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":16},{"id":"GO:0042254","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0006407","count":4},{"id":"GO:0001514","count":4}]},{"hash":"241406123786267347","title":"Rap-Mediated Signaling and Endosomal Trafficking","description":"The top GO terms emphasize Rap protein signal transduction and localization to endosomes, indicating a cluster centered on small GTPase\u2013driven signaling linked to endocytic/trafficking processes. The presence of dopamine uptake regulation and dendrite development suggests neuronal signaling contexts, while TORC2 signaling and secretory pathway regulation point to broader membrane-traffic control. Although there are outliers like heart contraction and apical junction assembly, the cohesive theme is signaling integrated with intracellular transport.","confidence":"High","size":20,"edges":17,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032486","count":14},{"id":"GO:0051586","count":14},{"id":"GO:0036010","count":14},{"id":"GO:1903434","count":14},{"id":"GO:0060047","count":14}]},{"hash":"296899773592026081","title":"Plant development and RNA processing","description":"This cluster is marked by plant-focused terms like axillary shoot meristem initiation and regulation of secondary shoot formation, suggesting involvement in shoot development. It also includes core RNA processing and ribosome assembly terms (mRNA splicing, spliceosome, ribosomal small subunit assembly) and cell cycle, reflecting essential gene expression and growth machinery. The mix of developmental signals with basic cellular processes points to a broad plant development context rather than a single precise pathway, hence a moderate level of confidence.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0034198","count":1},{"id":"GO:2000032","count":1}]},{"hash":"1453762549819279187","title":"Collagen-Driven ECM Remodeling and Morphogenesis","description":"This cluster centers on collagen-related processes and tissue shaping, including collagen fibril organization and catabolic processes, skin and cuticle development, and oviduct morphogenesis, plus protein assembly and cell adhesion signaling that support extracellular matrix remodeling during development. While a couple terms relate to broader stress or immune pathways, the dominant theme ties to ECM-driven morphogenesis across multiple tissues.","confidence":"Medium","size":20,"edges":129,"triangles":436,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070994","count":3},{"id":"GO:0010743","count":3},{"id":"GO:0043589","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0030199","count":3}]},{"hash":"1028830819457865754","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The cluster is dominated by terms for heparan sulfate and proteoglycan biosynthesis (and related N-acetylglucosamine metabolism and sulfation), pointing to a cohesive theme of glycosaminoglycan/proteoglycan production. Other metabolic terms (xenobiotic, catecholamine, bile acid) appear as broader metabolic contexts but do not override the central proteoglycan biosynthesis signal.","confidence":"High","size":20,"edges":57,"triangles":37,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":10},{"id":"GO:0030573","count":10},{"id":"GO:0048702","count":10},{"id":"GO:0006584","count":10},{"id":"GO:0015012","count":10}]},{"hash":"1792425068981717166","title":"Unknown","description":"The top terms cover heart and placenta development, immune (B cell) homeostasis, sensory perception, apoptosis, leptin response, and protein processing, with no clear single function or pathway tying them together. This diverse mix makes a coherent cluster label unlikely, so Unknown is appropriate.","confidence":"","size":20,"edges":37,"triangles":18,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0001893","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0001782","count":4},{"id":"GO:0007605","count":4}]},{"hash":"1505312858190714381","title":"Proteostasis via ubiquitin-proteasome and ERAD","description":"Most prominent GO terms point to protein quality control and degradation: nuclear protein quality control by the ubiquitin-proteasome system and the ubiquitin-dependent ERAD pathway. Additional terms about nuclear export regulation and post-translational targeting to membranes align with coordinated protein maturation and trafficking, all of which are aspects of proteostasis. While there are a few broader terms (DNA replication, redox homeostasis) present, the core signal is maintenance of protein homeostasis through ubiquitin-proteasome and ERAD pathways, justifying a proteostasis-focused cluster name.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0046825","count":4},{"id":"GO:0038095","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0031204","count":3}]},{"hash":"1962313392158822193","title":"Unknown","description":"The top GO terms are a mix of nervous system development and innervation, kidney-related processes (glomerular basement membrane development, filtration), epithelial migration, signaling pathway regulation, and even a bacterial biosynthetic process (lipoteichoic acid). This broad, heterogeneous set lacks a single cohesive biological theme linking all proteins, so a specific, representative functional label isn\u2019t apparent.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":6},{"id":"GO:0060384","count":6},{"id":"GO:0032836","count":6},{"id":"GO:0061580","count":6},{"id":"GO:0040037","count":6}]},{"hash":"1615999651856583510","title":"Mitochondrial copper homeostasis and redox","description":"The cluster shows strong enrichment for mitochondrial processes, including copper ion transport and intracellular copper homeostasis, as well as assembly of respiratory chain complex IV and import of proteins into the mitochondrial matrix, all tied to redox balance. Additional terms like transsulfuration and tRNA seleno-modification may reflect connected redox maintenance pathways, but the core theme is mitochondrial copper handling and redox control.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0008535","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0006825","count":2},{"id":"GO:0007308","count":2}]},{"hash":"854578302205816899","title":"Neural apoptosis and hippocampal development","description":"The GO terms highlight neuronal and glial apoptotic processes and hippocampus development, with positive regulation of neuron apoptosis, suggesting a theme around neural cell fate and brain development. While there are also terms tied to cell cycle and Golgi-ER transport, and a defense response term that may reflect broader protein roles or noise, the dominant signal centers on neural apoptosis and hippocampal development.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0051402","count":2},{"id":"GO:0034349","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0051092","count":2}]},{"hash":"336954813074665810","title":"Cytoskeletal remodeling and signaling","description":"The top GO terms cluster around actin dynamics (actin filament depolymerization, sarcomere organization) and regulatory signaling (GTPase activity regulation, protein autophosphorylation), with additional themes in muscle/development (skeletal muscle fiber development, retina layer formation) and cell division (mitotic spindle assembly, mitotic cell cycle). This suggests a common thread of cytoskeletal remodeling coupled with signaling during development and division, hence the label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0010842","count":2},{"id":"GO:0045214","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1520042013202106164","title":"GPCR-GTPase Signaling and Metabolic Regulation","description":"These proteins cluster around GPCR signaling (adenylate cyclase-activating pathways) and Rho GTPase regulation, with links to energy metabolism (electron transport chain) and thermogenesis, as well as vascular/physiological processes like blood pressure regulation and pain perception. The mix suggests a signaling network that coordinates metabolic and physiological responses rather than a single, narrow function, justifying a label centered on GPCR/GTPase signaling intertwined with metabolic regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0035025","count":8},{"id":"GO:0019233","count":7}]},{"hash":"1930071199720691692","title":"Unknown","description":"The top terms span telomere maintenance and capping, cell movement and mechanotransduction, mRNA processing, protein ubiquitination, and adipocyte differentiation, indicating a diverse mix of telomere biology, mechanosensitive signaling, and gene regulation without a clear unifying function for the cluster. If forced, one might loosely describe it as broad regulation of cellular responses to stress and differentiation, but the connections are weak. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0035994","count":7},{"id":"GO:0006397","count":7},{"id":"GO:2001275","count":7}]},{"hash":"407500098262414179","title":"Developmental differentiation and organogenesis","description":"The terms cluster around embryonic development and tissue formation, including pancreatic cell development, cartilage morphogenesis, endocrine system development, placenta-related differentiation, and left-right patterning, plus trophoblast differentiation. A few terms reflect general regulatory processes (spliceosome-mediated splicing and autoubiquitination) that often accompany development, but the dominant signal is lineage specification and organogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3}]},{"hash":"955765974710239305","title":"Neural signaling and synaptic plasticity","description":"This cluster centers on nervous system functions: visual perception, calcium signaling, regulation of GTPase activity, long-term synaptic potentiation, NFAT signaling, and PNS myelination, plus intracellular trafficking relevant to neural cells. The shared theme is neural signal transduction and activity-dependent plasticity.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0051531","count":2}]},{"hash":"1761286623722053144","title":"Brush border actin dynamics","description":"The top GO terms are dominated by actin filament assembly, depolymerization, capping, and regulation of microvillus length, all pointing to the organization and remodeling of the actin-based brush border with terminal web involvement. The intestinal glucose absorption term further supports a brush-border context, indicating these proteins cluster around microvilli structure and actin cytoskeleton maintenance, with some regulatory signaling (e.g., Wnt) and ubiquitination connections.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0030042","count":3},{"id":"GO:0032532","count":3},{"id":"GO:0051693","count":3},{"id":"GO:1902896","count":3}]},{"hash":"870342858612874160","title":"RNA Splicing, Export, and Translational Regulation","description":"This cluster is dominated by GO terms tied to post-transcriptional RNA processing: both cis and alternative splicing via the spliceosome, mRNA export from the nucleus, and regulation of translational initiation and mRNA stability under stress. The inclusion of small-subunit processome assembly suggests a broader link to ribosome biogenesis, while viral translation terms (IRES-dependent initiation) point to translation control mechanisms in diverse contexts. Together, these terms imply a cohesive module of splicing, export, and translation regulation.","confidence":"High","size":19,"edges":158,"triangles":780,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:1900363","count":8},{"id":"GO:0006406","count":8},{"id":"GO:0034462","count":8},{"id":"GO:0006446","count":8}]},{"hash":"320637218639850150","title":"Cell cycle regulation and proteasome-mediated degradation","description":"The top GO terms center on mitotic control and protein turnover, including anaphase-promoting complex-dependent and SCF-dependent proteolysis, as well as cell division and ubiquitin-protein catabolic processes. Additional terms point to proteostasis (aggresome assembly) and basic biogenesis/transcription (ribosome biogenesis, DNA-templated transcription), suggesting a cluster of proteins involved in coordinating cell-cycle progression with protein turnover and maintenance. This combination supports a cohesive theme of cell-cycle regulation and proteasome-mediated degradation. ","confidence":"High","size":19,"edges":57,"triangles":75,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033209","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0010950","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0031145","count":4}]},{"hash":"604297855659596770","title":"Nuclear transcription and DNA replication regulation","description":"The cluster is dominated by nuclear processes: DNA-templated transcription (14), DNA replication (11), and centrosome cycle (11), plus positive regulation of nuclear events like export and DNA replication, pointing to core roles in genome expression and cell-cycle control. While there are also terms tied to signaling (Wnt, T cell receptor) and development (dendrite morphogenesis, cranial skeleton morphogenesis), the strongest common theme among the GO terms is nuclear gene expression and DNA replication/cell-cycle regulation.","confidence":"Medium","size":19,"edges":52,"triangles":44,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0046827","count":13},{"id":"GO:0043552","count":12},{"id":"GO:0090263","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1588506963601910404","title":"Multisystem Development and Differentiation","description":"The Top Terms cluster across diverse developmental and differentiation processes, including mesoderm formation, neuron development, retinal/retinoic acid\u2013responsive signaling, NK T cell differentiation, and branching in mammary gland morphogenesis. In addition, terms like DNA replication and heterochromatin formation reflect general cellular prep underlying development. The shared theme is development and tissue differentiation spanning multiple systems, rather than a single cohesive pathway, so the label captures the overarching function of this cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0001865","count":2},{"id":"GO:0060444","count":2},{"id":"GO:0006260","count":2}]},{"hash":"591557527945808574","title":"Unknown","description":"The GO terms include diverse processes (ion transport, neurotransmitter loading, ribosomal RNA maturation, embryonic cleavage, APP regulation, and oxidative signaling), and there is only a single edge (no cohesive common function). This makes a meaningful, specific label unlikely, so Unknown.","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042985","count":1},{"id":"GO:0032929","count":1},{"id":"GO:0040016","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0098700","count":1}]},{"hash":"560187509165073939","title":"Eye and organogenesis development","description":"The top GO terms are heavily focused on retina/eye biology (visual perception, retinal ganglion cell axon guidance, retina development) and neural connectivity (positive regulation of synapse assembly), with additional terms for heart, skeletal muscle, skull, and thyroid development, suggesting a developmental program spanning eye and multiple organs rather than a single narrow function.","confidence":"Medium","size":19,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0031290","count":2},{"id":"GO:0046513","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0060041","count":2}]},{"hash":"332553905344233312","title":"RNA Processing and Translation Regulation","description":"The cluster is dominated by GO terms tied to the mRNA life cycle and translation control: mRNA stability regulation, polyadenylation regulation and tail shortening, mRNA export, and alternative splicing, plus translational initiation (including IRES-dependent viral initiation) and small-subunit processome assembly. This points to coordinated RNA maturation and regulation of protein synthesis, applicable to both cellular and viral contexts, including ribosome biogenesis and stress responses.","confidence":"High","size":19,"edges":5,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":7},{"id":"GO:1900363","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0034462","count":6},{"id":"GO:0006446","count":6}]},{"hash":"241018038886253105","title":"Hair follicle morphogenesis and Wnt signaling regulation","description":"The cluster is dominated by terms linked to skin development, especially hair follicle placode formation and negative regulation of canonical Wnt signaling, suggesting a role in hair follicle morphogenesis. Supporting this, terms for calcium-dependent cell\u2013cell adhesion, cell migration, and regulation of the cell cycle indicate coordinated tissue structuring and growth control during epidermal development. While other terms like vesicle assembly and proton transport are broader, the convergent theme centers on hair follicle formation and its regulation by Wnt signaling.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0008285","count":12},{"id":"GO:0043065","count":12},{"id":"GO:0007050","count":12},{"id":"GO:0015991","count":12},{"id":"GO:0016477","count":12}]},{"hash":"1561337803504595468","title":"Acetylation-driven chromatin regulation in plants","description":"The cluster shows strong enrichment for acetylation-related GO terms, including N-terminal acetylation of various residues, histone H4 acetylation, and polyamine acetylation, alongside a chromatin-related term (subtelomeric heterochromatin formation) and a plant development term (regulation of leaf formation). This combination suggests proteins involved in acetylation-driven modulation of chromatin state and plant development.","confidence":"High","size":19,"edges":121,"triangles":405,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":15},{"id":"GO:0017196","count":14},{"id":"GO:0032918","count":14},{"id":"GO:0006041","count":14},{"id":"GO:0032919","count":14}]},{"hash":"2041386943284356713","title":"Multisubstrate membrane transporters","description":"The proteins in this cluster are strongly associated with transmembrane transport of diverse substrates, including vitamins, xenobiotics, ions (K+, phosphate), sugars (trehalose), urate, and organic cations. The GO terms converge on membrane transport rather than metabolism, suggesting a cluster of broad-spectrum transporter proteins.","confidence":"High","size":19,"edges":106,"triangles":244,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":19},{"id":"GO:0006855","count":19},{"id":"GO:0042908","count":17},{"id":"GO:0071805","count":17},{"id":"GO:0042891","count":13}]},{"hash":"2249142084947554196","title":"Rap-mediated signaling and trafficking","description":"This cluster is dominated by Rap protein signal transduction and trafficking-related processes (endosome localization, secretory pathway regulation, apical junctions) and includes signaling nodes like TORC2, plus hormone/neural pathways, suggesting a cohesive theme of Rap-driven signaling coordinating membrane trafficking and junctional organization across cell types.","confidence":"Medium","size":19,"edges":85,"triangles":188,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032486","count":19},{"id":"GO:0051586","count":19},{"id":"GO:0036010","count":19},{"id":"GO:1903434","count":19},{"id":"GO:0060047","count":19}]},{"hash":"1762201594333513622","title":"Cytoskeleton remodeling and cell polarity","description":"This cluster is enriched for GO terms tied to actin filament bundle assembly, cell migration, epithelial cell polarity establishment, and modulation of GTPase activity, which together point to roles in dynamic cytoskeletal remodeling and coordinated cell orientation. Although some terms touch on development or neural processes, the core signal is cytoskeletal control of movement and polarity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:2001275","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0043547","count":3}]},{"hash":"2276620715244334876","title":"Nuclear ribosome biogenesis and RNA processing","description":"The cluster\u2019s GO profile is dominated by nuclear RNA processing and ribosome-related processes, including ribosomal subunit export, ribosomal biogenesis, mRNA splicing, and RNA import into the nucleus, suggesting a core role in assembling and processing ribosomal RNA/ RNA in the nucleus; a few other terms appear but are less representative.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":3},{"id":"GO:0006656","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0042273","count":3}]},{"hash":"2192722181483662361","title":"Neural development and synaptic signaling","description":"Top terms cluster around neural development and synaptic function (vision-related perception, axonogenesis, long-term potentiation, excitatory postsynaptic potential, Schwann cell development). A heart development term and some cell-cycle or plant signaling annotations are present but do not outweigh the neural theme, so the label Neural development and synaptic signaling is appropriate.","confidence":"Medium","size":19,"edges":29,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0060291","count":8},{"id":"GO:0000086","count":8},{"id":"GO:0014044","count":8}]},{"hash":"350217857155179994","title":"Neural development and visual perception","description":"The cluster\u2019s top GO terms point to neural and visual system roles, notably cerebellar cortex development and visual perception, with retinoic acid\u2013responsive signaling that influences neural differentiation. While some terms are general (proteasomal degradation, cell cycle, apoptosis), the strongest signals tie to neural development and sensory processing, suggesting the proteins collectively participate in neural/visual system development and signaling.","confidence":"Medium","size":19,"edges":135,"triangles":500,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021695","count":19},{"id":"GO:0032436","count":19},{"id":"GO:0051973","count":19},{"id":"GO:0007257","count":19},{"id":"GO:0032762","count":19}]},{"hash":"1059043674018805485","title":"Lung branching morphogenesis and ECM remodeling","description":"This cluster is dominated by GO terms related to lung development, especially branching morphogenesis and epithelial tube branching (GO:0060448, GO:0060441). It is also enriched for extracellular matrix remodeling activities such as basement membrane disassembly and collagen catabolic processes (GO:0034769, GO:0030574), along with related peptide turnover (bradykinin and neuropeptides) and broader developmental signaling. Together, these suggest a coherent theme of lung tissue morphogenesis coupled with ECM remodeling.","confidence":"High","size":19,"edges":133,"triangles":537,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0060448","count":15},{"id":"GO:2000179","count":15},{"id":"GO:0010813","count":15},{"id":"GO:0097067","count":15},{"id":"GO:0060441","count":15}]},{"hash":"572562554932770565","title":"Neural signaling and temperature/osmotic stress response","description":"The GO terms center on neural-related processes (sensory perception of pain, locomotory behavior, myelination, ion channel regulation, calcium signaling) and stress responses to temperature and osmotic changes, with supporting ion homeostasis terms. This suggests a cohesive cluster of proteins involved in neural signaling and how neurons respond to thermal and osmotic stress.","confidence":"High","size":19,"edges":18,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0051209","count":4}]},{"hash":"2249688257991294270","title":"Mitochondrial calcium signaling and energy metabolism","description":"Most top GO terms point to mitochondrial processes: calcium import into mitochondrion, regulation of mitochondrial calcium ion concentration, ubiquinone biosynthetic process, and thyroid hormone metabolic process, all tied to mitochondrial energy production and stress responses such as xenobiotic stimulus. A few nuclear RNA processing terms appear, but they seem less central to the cluster\u2019s core theme. Overall, the dominant signal is mitochondria-focused energy metabolism and stress response.","confidence":"Medium","size":19,"edges":157,"triangles":754,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":2},{"id":"GO:0051561","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006744","count":2}]},{"hash":"1846467449356013877","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":1},{"id":"GO:0039702","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0019068","count":1},{"id":"GO:0030260","count":1}]},{"hash":"1325427318124187584","title":"Complement activation and leukocyte adhesion","description":"This cluster shows strong enrichment for complement activation pathways (classical and lectin) and regulation of complement, along with cell adhesion and leukocyte tethering/rolling, indicating a theme of immune response and leukocyte recruitment. While a few terms touch on neuronal channel clustering or signaling modulation, the dominant signals point to complement-mediated immunity and adhesion processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0007157","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0001759","count":2},{"id":"GO:0007155","count":2}]},{"hash":"2217187194693219665","title":"Mitochondrial Translation and Bioenergetics","description":"The top GO terms cluster around mitochondrial processes: translation within mitochondria, tRNA aminoacylation, protein import into the mitochondrial intermembrane space, cristae formation, and ATP synthesis coupled electron transport. Additional terms about mitochondrial calcium homeostasis and regulation of insulin secretion tied to cellular energy status reinforce a mitochondrial-centric functional theme. The menaquinone biosynthesis term appears ancillary but does not override the dominant mitochondrial signal.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0051560","count":2},{"id":"GO:0045041","count":2}]},{"hash":"2211011186295855397","title":"Viral integration and proviral latency","description":"The top GO terms cluster around viral genome integration into host DNA, entry into the host nucleus, establishment of proviral latency, and related DNA biosynthesis and replication processes, suggesting a theme of viral genome integration and maintenance within host cells; a few terms about host apoptosis and siRNA processing reflect host\u2013pathogen interaction and immune modulation. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0075732","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4}]},{"hash":"802839964252844536","title":"GTPase-regulated actin remodeling and migration","description":"This cluster is enriched for GO terms tied to actin cytoskeleton dynamics and movement, such as positive regulation of GTPase activity, lamellipodium and ruffle assembly, dendrite extension, and substrate-dependent cell migration. These terms point to small GTPase\u2013driven remodeling of the actin cytoskeleton underlying cell movement. Some outliers (vacuolar membrane localization, chromatin-related terms) are less representative of the dominant theme, but the cytoskeletal/migration signals prevail. ","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:1903778","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0097484","count":2},{"id":"GO:0030032","count":2}]},{"hash":"1027029415588799260","title":"Vesicle trafficking and Golgi-ER transport","description":"The top GO terms point to intracellular membrane trafficking\u2014endosome to lysosome, Golgi-to-ER retrograde transport, and related vesicle sorting\u2014with supporting membrane lipid homeostasis, indicating a cohesive function in vesicle routing and Golgi organization.","confidence":"High","size":19,"edges":13,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0032258","count":4},{"id":"GO:1900242","count":3},{"id":"GO:0055091","count":3},{"id":"GO:0010628","count":3}]},{"hash":"1196978151409045210","title":"Multiorgan Development and Innervation Signaling","description":"The top GO terms cluster around CNS development, innervation, and organ morphogenesis (glomerular development and filtration, colon epithelial migration, esophagus smooth muscle contraction), supported by signaling pathways such as GDNF receptor signaling and FGF receptor signaling. This points to a theme of developmental regulation and organ-specific signaling across tissues, rather than a single-tissue function. Immune terms are present but not central.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":4},{"id":"GO:0006955","count":4},{"id":"GO:0060384","count":4},{"id":"GO:0032836","count":4},{"id":"GO:0061580","count":4}]},{"hash":"713063311122457778","title":"Developmental Signaling and Differentiation","description":"The top terms cluster around signaling pathways (calcium release, GPCR signaling, Notch, ephrin signaling) and developmental/differentiation processes (oligodendrocyte differentiation, skeletal muscle regeneration) with a touch of cell-cycle involvement (spindle assembly). This suggests the proteins act in signaling-mediated development and tissue regeneration rather than a single specific pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0003270","count":4},{"id":"GO:1904357","count":4},{"id":"GO:2000031","count":4}]},{"hash":"2281181532726483795","title":"Endogenous retroelements and proviral integration","description":"This cluster is dominated by GO terms for DNA transposition, retrotransposition, DNA integration, and proviral latency, as well as viral entry into the host nucleus and related symbiont-host interactions. Together, these points strongly suggest activity of transposable elements and endogenous proviruses, i.e., retroelement life cycles and integration into the host genome. Some unrelated terms (e.g., collagen catabolism, sex differentiation) may be background noise in this set. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":5},{"id":"GO:0075732","count":4},{"id":"GO:0032197","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0039651","count":4}]},{"hash":"49183659755289640","title":"Neural Oxidative Stress and Apoptosis","description":"GO terms indicate stress-related responses in neural cells: neuron apoptotic process, glial cell apoptotic process, response to hydrogen peroxide, removal of superoxide radicals, and cadmium exposure. These point to neural oxidative stress triggering apoptosis, with antioxidant defenses and metal-induced stress. A couple of terms (sensory perception of sound, protein homooligomerization) are less clearly connected, but the dominant theme is neural oxidative stress\u2013induced apoptosis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006309","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1010299542413110151","title":"Glycine- and monoamine-neurotransmission regulation","description":"The cluster centers on neurotransmission processes involving glycine as well as monoamines (dopamine and serotonin), including glycine import/export and secretion, dopamine/serotonin uptake, and related transport and signaling dynamics, with a glial context suggested by perineurial glial growth. This combination points to a cohesive theme of coordinated neurotransmitter regulation at synapses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060092","count":7},{"id":"GO:0042066","count":7},{"id":"GO:0042420","count":7},{"id":"GO:0015734","count":7},{"id":"GO:1905847","count":7}]},{"hash":"620779225547959148","title":"Vascular development and signaling","description":"This cluster is dominated by angiogenesis, heart development, and endothelial barrier terms, with Rho and PKC signaling connections, pointing to proteins involved in vascular development and endothelial cell signaling. Some terms relate to cytoskeletal regulation (microvillus assembly, dendritic spine development), but the strongest themes are vascular-related processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0019933","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0070528","count":3}]},{"hash":"1255863908855486024","title":"Glial signaling and neural development","description":"This cluster centers on signals and pathways linked to glial and neural development and activity, including astrocyte activation, myelination, calcium regulation at synapses, and calcium-dependent signaling (calcineurin-NFAT) with accompanying protein dephosphorylation and GTPase regulation. While a few terms (e.g., pituitary morphogenesis, ROS generation) are less connected, the dominant themes are neural/glial signaling and maturation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0048143","count":2},{"id":"GO:0048855","count":2}]},{"hash":"890053681597629015","title":"Neuronal synapse morphogenesis and plasticity","description":"The Top Terms point strongly to processes involved in forming and modifying synapses, including dendritic spine morphogenesis, regulation of synapse structural plasticity, and positive regulation of excitatory postsynaptic potentials. Additional GO terms about GTPase activity and the JNK cascade suggest signaling pathways that drive cytoskeletal remodeling and synaptic changes. Some junction-related terms may reflect adhesion-related aspects at synaptic sites. Overall, the cluster appears to center on neuronal synapse development and plasticity with supporting signaling pathways.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0090630","count":2}]},{"hash":"991533361927742112","title":"Unknown","description":"These GO terms span innate immunity (innate immune response, mast cell cytokine production, IL-3 production), signaling (MAPK activation), development (embryonic development, atrial septum development), and other processes (mitotic cell cycle, cadmium response, sodium ion transport). There isn\u2019t a clear, single dominant theme tying these together, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":18,"edges":24,"triangles":8,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000187","count":3},{"id":"GO:0048240","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1113442462452586578","title":"Mitochondrial protein import and Complex IV assembly","description":"Reasoning: The top GO terms strongly point to mitochondrial processes, including targeting/import into mitochondria, insertion into the mitochondrial inner membrane, and assembly of the respiratory chain complex IV. Together they suggest a functional cluster centered on mitochondrial protein biogenesis and assembly, with only peripheral terms like tubulin folding, peroxisome autophagy, and apoptosis appearing less central. ","confidence":"High","size":18,"edges":39,"triangles":32,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":2},{"id":"GO:0072321","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0006810","count":1}]},{"hash":"1639706754486147274","title":"Ubiquitin-Proteasome\u2013Mediated Proteostasis","description":"The top GO terms consistently point to ubiquitin-dependent quality control and degradation pathways (ERAD) and nuclear protein quality control by the ubiquitin-proteasome system, alongside related processes like post-translational targeting and regulation of protein export; these collectively define a proteostasis-focused cluster. Some terms (DNA replication, redox homeostasis) may reflect broader nuclear roles within the set, but do not negate the central proteostasis theme.","confidence":"High","size":18,"edges":72,"triangles":159,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":12},{"id":"GO:0006469","count":11},{"id":"GO:0031204","count":11},{"id":"GO:0071630","count":11},{"id":"GO:0006260","count":11}]},{"hash":"2093495658908795010","title":"IRES-dependent translation initiation cluster","description":"The top GO terms cluster around translation initiation and reinitiation, including viral IRES-dependent initiation and formation of the preinitiation complex, plus translation reinitiation. A few terms touch on RNA processing and signaling, but the dominant signal is initiation/reinitiation of translation, especially the IRES pathway, which justifies labeling this cluster as an IRES-dependent translation initiation module.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075525","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1009601791278143782","title":"Cerebellar and visual neural development","description":"A cluster enriched for neural development and sensory signaling terms, including cerebellar cortex formation, Bergmann glial differentiation, Schwann cell development, visual perception, and synaptic potentiation, suggesting a focus on neural differentiation and function in cerebellar and visual pathways.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0000086","count":10},{"id":"GO:0014044","count":10},{"id":"GO:0009738","count":10}]},{"hash":"422902997555487679","title":"Rho GTPase signaling in neuronal differentiation and plasticity","description":"The top terms repeatedly point to positive/regulated Rho GTPase signaling and neuronal development processes such as neuron differentiation, morphogenesis, and long-term potentiation, with some ribosome biogenesis terms that may be incidental. Overall, the cluster appears centered on Rho-mediated cytoskeletal dynamics driving neuronal differentiation and synaptic plasticity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0035023","count":4},{"id":"GO:0060291","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0045666","count":3}]},{"hash":"1525228302026714122","title":"Nuclear envelope and ER dynamics during division","description":"The top GO terms cluster around nuclear envelope remodeling during cell division (meiotic/mitotic nuclear processes), nuclear pore complex assembly, and endoplasmic reticulum organization/inheritance, including ER stress response and ER-dependent peroxisome organization. This suggests a cohesive theme of coordinated ER and nuclear envelope dynamics during cell division and organelle partitioning, with a few unrelated terms likely representing noise.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007140","count":3},{"id":"GO:0071786","count":2},{"id":"GO:0007084","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0051292","count":2}]},{"hash":"1542435351570078542","title":"Glutamatergic synapse function and plasticity","description":"The cluster is dominated by terms tied to glutamatergic synaptic transmission, excitatory postsynaptic potentials, and long-term potentiation/depression, with additional terms on receptor clustering and learning/social behavior, all pointing to synapse function and plastic changes. Some peripheral signaling terms (GM-CSF stimulus, collagen receptor signaling) may reflect broader signaling contexts but do not override the core synaptic theme.","confidence":"High","size":18,"edges":39,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0097011","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0043113","count":2}]},{"hash":"886900049434091157","title":"Protein quality control and neural development","description":"Based on GO terms, the cluster is enriched for protein quality control and turnover (ubiquitin-dependent proteasomal degradation, autoubiquitination, ERAD) alongside neural development terms (cerebellar cortex development, visual learning). Additional terms touch on general cellular maintenance (ribosome biogenesis, peroxisomal protein import, DNA replication/repair, cholesterol biosynthesis), suggesting a broader theme of cellular homeostasis in neural contexts. This combination supports labeling the cluster as centered on protein quality control with neural development signals.","confidence":"Medium","size":18,"edges":88,"triangles":206,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006695","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0042273","count":2}]},{"hash":"1932656607022026552","title":"Developmental signaling and organogenesis","description":"The top GO terms point to a broad set of developmental processes across tissues: Notch signaling regulation (and heart field proliferation), somite specification, eye morphogenesis, endocardial differentiation, and kidney development (loop of Henle, distal tubule). Paranodal junction assembly and neuronal/axonal development terms also align with developmental maturation. Together they suggest a cluster of proteins involved in diverse but related developmental pathways and organogenesis, rather than a single specific function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":3},{"id":"GO:0045747","count":3},{"id":"GO:0072070","count":2},{"id":"GO:0072017","count":2},{"id":"GO:0003270","count":2}]},{"hash":"499989566002927496","title":"TORC1-driven growth and cell cycle regulators","description":"The cluster shows enrichment for TORC1 signaling, GTPase activity regulation, mitotic cycle and spindle assembly, and ER-Golgi vesicle trafficking, plus amino acid response and brain development terms. This points to a cohesive set of proteins coordinating nutrient-responsive growth with cell division and membrane trafficking, particularly through TORC1 pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0007420","count":3}]},{"hash":"748472482652442912","title":"Neural development and axon guidance","description":"This cluster's top GO terms predominantly describe nervous system development, hippocampus development, and axon guidance, with the Roundabout signaling pathway and ERK cascade modulation reinforcing neural signaling. A few terms relate to ossification and kidney development, but these are less represented. Overall, the proteins are best characterized by neural development and axon pathfinding.","confidence":"High","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0035385","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043931","count":4}]},{"hash":"543602941966769283","title":"Metabolism with renal-vascular development cues","description":"This cluster is enriched in diverse metabolic processes (retinol/retinal, digestion, glucuronate, arabinose, progesterone) and also includes vascular/renal development signals (renal system development, endothelial cell apoptotic regulation, smooth muscle proliferation). The combination suggests a shared theme of metabolic pathways intersecting kidney/vascular development, hence the label.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":16},{"id":"GO:0042574","count":16},{"id":"GO:0007586","count":12},{"id":"GO:0042448","count":12},{"id":"GO:0048661","count":12}]},{"hash":"627038022165351133","title":"Proteoglycan biosynthesis (GAGs)","description":"The dominant GO terms map to glycosaminoglycan/proteoglycan biosynthesis, especially heparan/heparin proteoglycans, including sulfation and N-acetylglucosamine metabolism. While there are some terms related to development and signaling (e.g., neurocranium morphogenesis, angiotensin regulation), the core signal is proteoglycan biosynthesis, making this label appropriate.","confidence":"High","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030210","count":8},{"id":"GO:0030573","count":8},{"id":"GO:0048702","count":8},{"id":"GO:0006584","count":8},{"id":"GO:0015012","count":8}]},{"hash":"105644460709643975","title":"Plant cell wall biosynthesis and glycosylation","description":"The cluster shows strong signals for cell wall-related processes (mucilage biosynthesis, homogalacturonan biosynthesis, cell wall organization) and protein O-linked glycosylation (GalNAc and mannose). While a few DNA recombination terms appear, the dominant themes point to extracellular matrix assembly and glycosylation rather than DNA-level functions, consistent with a small, sparsely connected set of proteins. ","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0075015","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0016266","count":2}]},{"hash":"684183506632200370","title":"Mitosis-linked vesicle trafficking and chromatin assembly","description":"This cluster centers on mitosis-related processes (cell division and CENP-A chromatin assembly) and ER-Golgi vesicle trafficking, with supporting roles for cytoskeletal regulation and GTPase signaling. The convergence of centromere/chromatin assembly and secretory pathway transport suggests a module coordinating chromosome maintenance with membrane remodeling during cell division, justifying a label that reflects both mitotic progression and trafficking. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0051016","count":5}]},{"hash":"235133502937587442","title":"Amino acid catabolism and quinone metabolism","description":"This cluster is enriched for amino-acid catabolic processes (valine, alanine, kynurenine) and quinone biosynthesis (menaquinone, phylloquinone), with supporting signals for central-carbon metabolism (oxaloacetate) and lipid metabolism (fatty acid beta-oxidation). The presence of Notch signaling appears as an outlier. Overall, proteins seem to participate in diverse metabolic pathways, especially amino acid catabolism and quinone biosynthesis.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":9},{"id":"GO:0006574","count":8},{"id":"GO:0010124","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0006635","count":8}]},{"hash":"1050952911415953206","title":"Fungal meiosis and sporulation with translation control","description":"The top GO terms strongly point to fungal reproductive processes, including ascospore formation, karyogamy, and spindle assembly in meiosis, indicating a core theme around meiosis and sporulation. Other terms mention cytoskeletal rearrangements (actin crosslink formation, terminal web assembly) and general translational regulation, suggesting linked cellular remodeling during reproduction. While there is some functional diversity, the dominant signal is fungal reproductive development with associated RNA translation control, justifying a concise label around this theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":2},{"id":"GO:0000973","count":2},{"id":"GO:0071033","count":2},{"id":"GO:0007053","count":2},{"id":"GO:0051764","count":2}]},{"hash":"1310046317428367453","title":"ER-Golgi Vesicle Transport","description":"The top GO terms cluster around ER-to-Golgi and Golgi-to-ER vesicle trafficking and COPII vesicle coating, indicating involvement in the secretory pathway and ER\u2013Golgi transport. A few unrelated terms appear but the dominant signal is vesicle transport between ER and Golgi, plus related vesicle-coating regulation. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0001822","count":1},{"id":"GO:1902953","count":1}]},{"hash":"860725033814344353","title":"Insect pheromone signaling and reproductive behavior","description":"This cluster shows GO terms centered on responding to pheromones, GPCR signaling, and behavioral regulation of mating-related activities (egg-laying, female receptivity), suggesting a theme around insect pheromone signaling and reproductive behavior. A few biosynthetic terms (pteridine/biopterin) may relate to cofactors influencing signaling, but the dominant pattern is behavioral signaling and mating functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006729","count":1},{"id":"GO:0008616","count":1},{"id":"GO:0006728","count":1},{"id":"GO:0019236","count":1},{"id":"GO:0007186","count":1}]},{"hash":"1793001148521143047","title":"Diverse organic compound catabolism","description":"These proteins collectively point to degradation/catabolism across a wide range of substrates\u2014lipids (triglycerides, monoacylglycerol, phosphatidylserine), chlorophyll and aromatic compounds (beta-ketoadipate pathway, stilbene), uracil, and other catabolic processes\u2014with an additional regulatory/biochemical context. The common theme is broad organic-molecule degradation rather than a single, specific pathway, supporting a label of diverse organic compound catabolism.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":6},{"id":"GO:0052651","count":6},{"id":"GO:0006660","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0019433","count":6}]},{"hash":"2231653826993935596","title":"P450-driven lipid hormone and xenobiotic metabolism","description":"The top GO terms cluster around prostaglandin biosynthesis (lipid mediator), progesterone and aldosterone-related hormone metabolism, and the omega-hydroxylase P450 pathway, along with xenobiotic catabolic processes. This points to a set of enzymes (notably cytochrome P450s) that metabolize lipids and steroid hormones and participate in detoxification. The terms cohere around lipid/hormone metabolism and oxidative processing, supporting a label focused on P450-driven metabolic roles.","confidence":"High","size":18,"edges":18,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":14},{"id":"GO:0042448","count":13},{"id":"GO:0002017","count":13},{"id":"GO:0019341","count":13},{"id":"GO:0009624","count":13}]},{"hash":"1216355842389386172","title":"Glutathione-Dependent Detox and Plant Hormone Signaling","description":"The cluster pools GO terms centered on glutathione metabolism and redox detoxification (glutathione metabolic process, glutathione derivative biosynthetic process, cellular oxidant detoxification) and xenobiotic catabolism, which together point to detoxification and oxidative stress response. The presence of the auxin-activated signaling pathway suggests plant hormone signaling is also a core feature. Some terms (smell perception, translation elongation) appear ancillary noise, but the dominant theme is detox/redox balance linked with hormone signaling.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0009734","count":18},{"id":"GO:0010044","count":18},{"id":"GO:1901687","count":18},{"id":"GO:0006749","count":18},{"id":"GO:0042994","count":18}]},{"hash":"762608444080503663","title":"Vision system development and perception","description":"The cluster is dominated by vision-related GO terms such as visual perception, retina development in camera-type eye, and visual learning, indicating a coherent theme around the visual system and its development/function. While there are some other sensory terms (pain, temperature response), the strongest signal centers on vision.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0002024","count":5},{"id":"GO:0051209","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0008542","count":4}]},{"hash":"1120951080763142538","title":"ER-Golgi vesicle transport and endocytic trafficking","description":"The proteins are enriched for GO terms related to intracellular vesicle transport between the ER and Golgi, endocytosis (including ubiquitin-dependent routes) and endosome-Golgi routing, plus autophagy and GTPase activity regulation, pointing to a cohesive role in vesicle trafficking and autophagic processes. Some developmental terms appear as minor associations, likely incidental. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0070086","count":2},{"id":"GO:0051291","count":2}]},{"hash":"423625935393247657","title":"Neural development and ciliogenesis","description":"The terms show enrichment for neuronal and glial apoptotic processes, spinal cord development, and cilium assembly, suggesting a neural-developmental role with ciliary biology; supporting terms like transcription and RNA processing reflect general gene-expression regulation during development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051402","count":5},{"id":"GO:0034349","count":5},{"id":"GO:0060271","count":5},{"id":"GO:0036265","count":5},{"id":"GO:0006351","count":5}]},{"hash":"930598907792718042","title":"Unknown","description":"The top GO terms are diverse (endothelial migration, axonogenesis, ubiquitination, manganese/cadmium transport, immune cytokine production, arginine transport, and metal homeostasis) with no single shared function or pathway linking them. The cluster has no edges or clear connectivity, indicating heterogeneous roles, so no specific thematic label fits better than Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010596","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0031397","count":1},{"id":"GO:0071421","count":1},{"id":"GO:0045730","count":1}]},{"hash":"2097394292490760403","title":"Tissue remodeling and cell migration","description":"The top GO terms cluster around tissue remodeling and cell movement, including ossification, collagen catabolic process, leukocyte and keratinocyte migration, and hemocyte development, all pointing to morphogenesis and extracellular matrix remodeling. Some terms like nucleosome assembly and chromosome condensation are general cell-cycle processes and don\u2019t contradict the overall theme. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001503","count":1},{"id":"GO:2001268","count":1},{"id":"GO:1904707","count":1},{"id":"GO:0050900","count":1},{"id":"GO:0030574","count":1}]},{"hash":"1868687709174997500","title":"Protein ubiquitination and degradation","description":"GO-term enrichment centers on ubiquitin conjugation and ubiquitin-dependent protein catabolic processes, suggesting the proteins function in tagging substrates for degradation. While some development-related terms appear, the strongest signal is ubiquitination, making this label representative.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0050999","count":2},{"id":"GO:0045623","count":2}]},{"hash":"322980229314364170","title":"Unknown","description":"The terms span neural development and synaptic vesicle exocytosis alongside gamete activation (acrosome reaction, egg activation) and diverse signaling pathways, plus some immune differentiation terms. The wide and seemingly unrelated functions do not point to a single coherent biological theme, making a precise, representative label unreliable. ","confidence":"","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:2000300","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0045943","count":3}]},{"hash":"2302942250477816797","title":"Spindle assembly and chromosome segregation","description":"This cluster is dominated by GO terms tied to mitotic spindle dynamics, centrosome separation, chromosome alignment/recapture, and spindle elongation, plus microtubule-based transport along the plus-end. Together these indicate a core function in spindle assembly and chromosome movement during mitosis, with supporting roles in microtubule-driven vesicle trafficking. ","confidence":"High","size":17,"edges":88,"triangles":238,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1990942","count":17},{"id":"GO:0098971","count":17},{"id":"GO:0007100","count":17},{"id":"GO:0099607","count":17},{"id":"GO:0007080","count":17}]},{"hash":"1957399559027950199","title":"Translation and proteostasis","description":"This cluster centers on translation and protein quality control, with terms like cytoplasmic translation, regulation of translational initiation, and tRNA queuosine biosynthesis, plus negative regulation of ubiquitin-dependent proteolysis and protein refolding. The presence of a few divergent terms (e.g., visual perception, pheromone-regulated transcription) suggests some noise, but the core signal points to a translation- and proteostasis-focused theme.","confidence":"Medium","size":17,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007329","count":2},{"id":"GO:1902605","count":1},{"id":"GO:0061084","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0001938","count":1}]},{"hash":"704486776016854003","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0051306","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0016180","count":1}]},{"hash":"150830047259956378","title":"Translation initiation and mRNA processing","description":"This cluster is dominated by GO terms tied to initiation of translation (preinitiation complex formation, reinitiation, regulation of initiation) and to mRNA processing/export (splicing via spliceosome, nuclear export, polyadenylation). The presence of IRES-dependent viral initiation terms reinforces a unifying theme around translation initiation machinery.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0006378","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0075525","count":5}]},{"hash":"2288368697013145384","title":"Unknown","description":"The top GO terms are highly heterogeneous: response to morphine, cell division, male sex differentiation, steroid hormone receptor complex assembly, interferon-alpha response, hydrogen peroxide response, lead ion response, and even plant gibberellin signaling, plus obsolete epigenetic terms. No single shared function or pathway emerges, and there are no connecting edges, so this cluster appears as non-cohesive noise rather than a definable biological module.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043278","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0046661","count":4},{"id":"GO:0006463","count":4},{"id":"GO:0035457","count":4}]},{"hash":"787849138705112258","title":"Central carbon metabolism and porphyrin biosynthesis","description":"This cluster is enriched for glycolysis, the TCA cycle, fatty acid biosynthesis via malonyl-CoA, and porphyrin/heme-related biosynthesis (protoporphyrinogen IX), indicating a cohesive set of core energy production and carbon-biosynthesis pathways. Some terms are obsolete, but the main theme remains central metabolism and biosynthesis. ","confidence":"High","size":17,"edges":131,"triangles":607,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0006103","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0019878","count":4},{"id":"GO:0006537","count":4}]},{"hash":"1788877875146604176","title":"Cell signaling and cell cycle regulation","description":"The top GO terms cluster around mitotic cell cycle and signaling pathways (mitosis, ERK/MAPK cascade, regulation of protein stability, PI3K-related activity) along with development-related processes (nervous system development, cellular response to dopamine). This suggests a cohesive module of proteins that coordinate cell division with signaling networks and developmental cues, rather than a single, isolated process. The sparse edges imply regulatory or co-expression relationships rather than a tight physical complex, supporting a broad regulatory/signaling cluster.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":16},{"id":"GO:0031647","count":15},{"id":"GO:0043366","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0031532","count":15}]},{"hash":"1094355986019277866","title":"Terpenoid and isoprenoid biosynthesis","description":"Top GO terms indicate a strong focus on terpenoid/isoprenoid biosynthesis (geranyl diphosphate, geranylgeranyl diphosphate, monoterpene biosynthesis) with related cholesterol and quinone biosynthesis; the pentose-phosphate shunt and phosphorylation signals suggest supporting metabolic flux for these pathways. Innate immune response appears as a secondary signal, but the core theme is terpenoid/isoprenoid production.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0006098","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0009051","count":2},{"id":"GO:0006695","count":2}]},{"hash":"611727107927238108","title":"Neural development and sensory perception","description":"The cluster features GO terms focused on nervous system development and sensory function, notably cerebellar cortex development and visual perception. Additional terms around retinoic acid response and cell cycle/protein turnover relate to neuronal differentiation and stress signaling, suggesting a cluster of proteins involved in neural development and sensory processing, even though some terms in the list are unrelated or obsolete.","confidence":"Medium","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021695","count":17},{"id":"GO:0032436","count":17},{"id":"GO:0051973","count":17},{"id":"GO:0007257","count":17},{"id":"GO:0032762","count":17}]},{"hash":"863098182863460595","title":"Insulin-Glucose Metabolic Signaling and Secretion","description":"Several top GO terms point to metabolic and secretory responses: cellular response to glucose stimulus, insulin processing, and cellular response to fatty acid, together with neurotransmitter secretion. Though a few terms relate to immune regulation, the dominant theme is metabolic signaling linked to insulin/glucose handling and secretion, suggesting a cluster of proteins involved in metabolic control and secretory processes.","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0042994","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0060316","count":2}]},{"hash":"166136381199133084","title":"Inflammatory immune signaling and leukocyte adhesion","description":"The cluster shows strong enrichment for innate immune/inflammatory processes, including Fc-gamma receptor signaling, basophil activation, leukocyte tethering or rolling, and regulation of NK cell chemotaxis, all pointing to leukocyte activation and trafficking. Arachidonate-related regulation further supports inflammatory signaling. While a few developmental terms appear, the dominant signal ties to immune cell activation and adhesion, suggesting a cohesive immune-inflammatory cluster.","confidence":"Medium","size":17,"edges":122,"triangles":501,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":17},{"id":"GO:0001502","count":16},{"id":"GO:0090238","count":15},{"id":"GO:0072177","count":15},{"id":"GO:0060355","count":15}]},{"hash":"1406054823140367440","title":"Developmental gene expression and proteostasis","description":"The cluster centers on regulation of gene expression and protein turnover during development, combining transcriptional control (negative regulation of RNAP II), translational initiation regulation, and proteasome assembly/ubiquitin-mediated degradation, plus embryonic and germline stem cell maintenance terms. The presence of viral translation terms broadens the translation-control theme rather than implying viral specificity. Overall, the terms point to coordinated control of gene expression and proteostasis in development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0036099","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0043248","count":2}]},{"hash":"360197313758690109","title":"Synapse development and plasticity proteins","description":"The top GO terms point to neural-related processes\u2014dendritic spine morphogenesis and positive regulation of synapse structural plasticity\u2014along with terms related to protein localization at adherens junctions and myelin-associated regions. This pattern suggests a cluster of proteins involved in synapse formation/maintenance and related neural connectivity, with some broader cell-adhesion or signaling contexts. While a few terms are less neural (e.g., endothelial barrier, centrosome localization), the strongest theme centers on synaptic development and plasticity, supporting this label with a medium level of confidence.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035750","count":5},{"id":"GO:1903760","count":5},{"id":"GO:0090557","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0060997","count":5}]},{"hash":"1447090578703402717","title":"Viral genome integration and proviral latency","description":"This cluster centers on processes tied to viral genome integration into the host genome, including DNA integration, RNA-templated DNA synthesis (reverse transcription), DNA replication, and establishment of proviral latency. Additional terms about viral entry into host cells and host apoptosis activation suggest a broader viral-host interaction theme, including manipulation of host defenses (e.g., RNAi). Overall, the common thread is viral genome integration and latent infection within the host.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0075732","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3}]},{"hash":"1386401784356260158","title":"ER-Golgi COPII Vesicle Trafficking","description":"This cluster is dominated by GO terms for ER-to-Golgi transport, COPII vesicle budding/coating, and related vesicle trafficking steps, pointing to a secretory pathway/COPII\u2013mediated transport theme. Additional terms on GTPase regulation and neuronal processes are present but secondary to the core trafficking function. ","confidence":"High","size":17,"edges":4,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0000747","count":5},{"id":"GO:0003400","count":5},{"id":"GO:0045022","count":5}]},{"hash":"581497947420518762","title":"Amino acid catabolism and related metabolism","description":"These proteins are enriched for multiple amino acid\u2013related catabolic processes (alanine, kynurenine/tryptophan) and related metabolic pathways (glyoxylate, oxalic acid, organic phosphonates), plus involvement in iron\u2013sulfur cluster cofactor assembly. The Notch signaling term appears but is not the central theme. The cluster therefore centers on amino acid catabolism and connected metabolic processes.","confidence":"Medium","size":17,"edges":132,"triangles":623,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0042853","count":11},{"id":"GO:0009436","count":10},{"id":"GO:0007219","count":10},{"id":"GO:0097053","count":10},{"id":"GO:0043420","count":9}]},{"hash":"2038898325605921486","title":"Embryonic organ morphogenesis","description":"This cluster centers on multiple organ development processes (eye, heart, hindlimb, placenta, habenula, prostate), indicating a shared role in embryonic morphogenesis. The presence of a broad transcriptional regulation term (negative regulation of transcription by RNA polymerase II) suggests these proteins may also participate in controlling developmental programs. Overall, the theme is embryonic organ development rather than a single tissue-specific function.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0048048","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0021986","count":6},{"id":"GO:2000288","count":6}]},{"hash":"158421253915626612","title":"Embryonic organogenesis","description":"The top GO terms cluster around morphogenesis and developmental processes across multiple organs during embryogenesis (eye, habenula, heart, placenta, prostate), plus broader transcriptional activity, suggesting a cohesive theme of embryonic organ development and morphogenesis.","confidence":"High","size":17,"edges":91,"triangles":205,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":7},{"id":"GO:0021986","count":6},{"id":"GO:2000288","count":6},{"id":"GO:0060527","count":6},{"id":"GO:0003148","count":6}]},{"hash":"2140797583796638047","title":"Proteoglycan Biosynthesis and ECM Remodeling","description":"The top GO terms cluster around glycosaminoglycan proteoglycans (heparan sulfate, chondroitin sulfate) biosynthesis/metabolism, alongside collagen catabolic processes and developmental contexts (chondrocyte development, ureteric bud formation). This points to a shared function in extracellular matrix composition and remodeling during development, despite some obsolete terms and minor unrelated processes; the core signal is proteoglycan/ECM biology. ","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0030574","count":3},{"id":"GO:0000103","count":3},{"id":"GO:0002063","count":3}]},{"hash":"2081154596422359504","title":"ECM remodeling and cell migration","description":"The top GO terms cluster around tissue remodeling: collagen catabolic process, ossification, leukocyte and keratinocyte migration, and vascular smooth muscle proliferation. Together they point to extracellular matrix remodeling and coordinated cell movement, characteristic of wound healing, tissue development, and ossification-related remodeling. Despite a small number of terms and some obsolete entries, the common theme is ECM restructuring and cell migration.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001503","count":1},{"id":"GO:2001268","count":1},{"id":"GO:1904707","count":1},{"id":"GO:0050900","count":1},{"id":"GO:0030574","count":1}]},{"hash":"1067945600717553565","title":"Unknown","description":"The GO terms span neural apoptosis (neuron/glial), spinal cord development, and male gonad development, along with unrelated nuclear and signaling processes (rRNA maturation, chromatin assembly, GTPase activity, protein complex formation). There is no cohesive, common function tying all terms together, and the lack of interactions (edges) supports labeling this cluster as Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051402","count":5},{"id":"GO:0034349","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0000466","count":4}]},{"hash":"2156225008089347954","title":"NF-\u03baB-regulating transcriptional modulators in inflammation","description":"The GO terms cluster around transcriptional control (RNA polymerase II) with a focus on NF-\u03baB signaling and inflammatory regulation (includes response to muramyl dipeptide, IL-2 and CD40 pathway modulation, and K63-linked deubiquitination). This suggests a set of transcriptional regulators that tune immune signaling and inflammatory gene expression, rather than a single enzymatic function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":2},{"id":"GO:0031536","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0032495","count":1}]},{"hash":"1203092372823494201","title":"TLR signaling and innate immune activation","description":"The top GO terms cluster around innate immunity and Toll-like receptor pathways, including MyD88-dependent and -independent signaling, TLR3 and TLR9 signaling, response to dsRNA, macrophage activation, dendritic cell cytokine production, and inflammatory regulation. This suggests the proteins function in pathogen sensing and initiating inflammatory and antigen-presenting responses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0002091","count":3},{"id":"GO:0043330","count":3},{"id":"GO:0002756","count":3},{"id":"GO:0002755","count":3}]},{"hash":"475207587533914686","title":"Innate Immune Signaling and Cytokine Production","description":"The top GO terms center on pattern recognition and inflammatory signaling (NOD2 pathway, dsRNA response, MDP detection) and cytokine production (TNF, IL-6), indicating an innate immune activation module. A few metabolic terms appear but the immune/inflammation themes dominate, making this label representative.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":3},{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:0032760","count":2},{"id":"GO:0043330","count":2}]},{"hash":"1658348452244282173","title":"Kidney tubule morphogenesis and sodium transport","description":"This cluster is best described by a kidney-focused development and transport theme. Several top GO terms point to metanephric proximal/distal tubule morphogenesis and sodium ion transmembrane transport, suggesting nephron-related processes. While additional terms reference broader development and lifestyle responses, the nephron-related signals are the strongest pattern, supporting this label. ","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0072237","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0002024","count":3}]},{"hash":"1132377840177298571","title":"Steroid Hormone Metabolism and Xenobiotic Detox","description":"The cluster shows enrichment in prostaglandin and progesterone metabolism, aldosterone-regulated blood volume, P450-mediated oxidation, and xenobiotic catabolism, pointing to a common theme of hormone-related metabolism and chemical detoxification, with ancillary links to immune modulation and tissue development.","confidence":"Medium","size":17,"edges":37,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":12},{"id":"GO:0042448","count":10},{"id":"GO:0002017","count":10},{"id":"GO:0019341","count":10},{"id":"GO:0009624","count":10}]},{"hash":"1338343698770329928","title":"Actin Cytoskeleton Remodeling and Cell Adhesion","description":"The top terms cluster around actin dynamics (crosslinking, filament bundle assembly, microspike assembly), vesicle transport along actin, and regulation of Rho signaling, all pointing to cytoskeletal remodeling and cell\u2013substrate adhesion; immune terms suggest ancillary roles but do not redefine the core theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0030050","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1085703134307570136","title":"Retrotransposon and Proviral Integration","description":"The dominant GO terms describe DNA transposition, retrotransposition, DNA integration, and proviral latency, all pointing to mobile genetic elements and viral integration processes. A couple of terms about symbiont entry/activation and metabolism are present but peripheral to the main theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4}]},{"hash":"345460391772532460","title":"Regulatory Signaling and Development","description":"Top terms revolve around regulation of signaling and development (negative regulation of protein serine/threonine kinase activity; NOD2 and Notch signaling; NF-kB regulation; angiogenesis; oligodendrocyte differentiation; spindle assembly). This pattern suggests proteins involved in tuning signaling pathways and related developmental processes rather than a single specific pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0070431","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0045766","count":3}]},{"hash":"559525114729282726","title":"Unknown","description":"The GO terms cover neural development (myelination, neuroblast proliferation, neuron apoptosis), lipid signaling, vesicle trafficking, and host\u2013virus interaction terms, with no single unifying function across the cluster and no connected network structure (edges/triangles are zero). Therefore there isn\u2019t a coherent theme to name a specific function; label as Unknown for representativeness. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060304","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0022011","count":2}]},{"hash":"1049667919685371423","title":"Neuronal Gene Regulation and Endosomal Trafficking","description":"Contains GO terms for regulation of DNA-templated transcription and transcription itself, together with endosomal processes (regulation of endosome size, receptor recycling) and glutamatergic synaptic transmission. This points to proteins that couple transcriptional control with membrane trafficking at synapses, suggesting a neuronal signaling\u2013gene expression link. Some terms are obsolete, but the overarching theme is transcription regulation tied to endosomal trafficking in neurons.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0051036","count":2},{"id":"GO:0034968","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0035023","count":2}]},{"hash":"473550809669325257","title":"Organelle Protein Import and Quality Control","description":"Top GO terms show import of proteins into mitochondria (matrix) and chloroplasts (stroma), implying a shared role in organelle targeting. Additional terms related to trafficking and quality control (misfolded protein response, ERAD regulation, Golgi retention, GPCR internalization) support a theme of protein handling from synthesis to organelle delivery and turnover, with some peripheral metabolic context (response to food). Overall, the cluster appears centered on organelle protein import and associated QC/trafficking processes.","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":5},{"id":"GO:0030150","count":4},{"id":"GO:0045039","count":4},{"id":"GO:0032094","count":4},{"id":"GO:0045037","count":4}]},{"hash":"1130853672110456939","title":"Epithelial Innate Immune Signaling","description":"This cluster\u2019s top GO terms cluster around innate immune functions (innate immune response, defense against virus, LPS signaling, receptor clustering), with supporting links to epithelial barrier biology (keratinocyte differentiation, epithelial morphogenesis). While a few terms are less directly connected (visual perception, DNA repair, placental morphogenesis), the recurring theme centers on innate immune signaling within epithelial contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0030216","count":4},{"id":"GO:0051092","count":3}]},{"hash":"1479829186588592797","title":"Membrane Transporters for Nutrients and Ions","description":"The top GO terms indicate a strong enrichment for transmembrane transport of diverse substrates (phosphate, nitrate, sialic acid, galactose, arabinose, vitamins) and a vesicular transport function related to neurotransmitter loading, pointing to a cohesive cluster of membrane transporter proteins handling nutrient and ion movement across membranes and into vesicles. The presence of multiple substrate-specific transport activities supports a broad but unified transporter role rather than a single pathway.","confidence":"High","size":16,"edges":22,"triangles":9,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0042128","count":4}]},{"hash":"377538173082913522","title":"Fungal Sterol and Sphingolipid Biosynthesis","description":"The cluster shows strong signals for fungal lipid metabolism, with terms like regulation of ergosterol biosynthesis, MIPC (mannosyl-inositol phosphorylceramide) metabolic process, and unsaturated fatty acid biosynthesis, pointing to sterol and sphingolipid biosynthesis typical of fungi. Additional mitochondrial-related terms (protein import into mitochondrial matrix, mitochondrion inheritance) suggest a link between lipid biosynthesis and mitochondrial function. Some neural terms appear, but the lipid/sterol signals are the clearest unifying theme. ","confidence":"High","size":16,"edges":24,"triangles":11,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":2},{"id":"GO:0032286","count":2},{"id":"GO:0006809","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0000001","count":2}]},{"hash":"537578321841649905","title":"Endocytosis and Membrane Trafficking","description":"Many of the top GO terms point to intracellular handling of membrane-associated proteins and cargo: receptor-mediated endocytosis, membrane protein proteolysis, transferrin transport, and vacuolar/lysosomal protein catabolism. While some terms like muramyl dipeptide response, B cell differentiation, and stomatal morphogenesis are more peripheral, the dominant theme centers on membrane trafficking and turnover of proteins and iron transport, so the label Endocytosis and Membrane Trafficking captures the core function of this cluster.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045577","count":2},{"id":"GO:0071225","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0006760","count":2},{"id":"GO:0035609","count":2}]},{"hash":"2154679063590731414","title":"Gene Expression and RNA Processing","description":"This cluster contains GO terms tied to transcription (RNA polymerases I, II, and III; RNA-templated transcription), RNA processing and splicing (mRNA cis splicing via spliceosome), and ribosome biogenesis, with a regulatory component (protein ubiquitination). Together, these terms point to core gene expression processes\u2014from transcription through RNA processing to ribosome assembly\u2014representing a cohesive gene expression machinery theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0042797","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0032728","count":1}]},{"hash":"606263398533480561","title":"Bacterial metabolism and cell envelope biosynthesis","description":"The top GO terms cluster around biosynthetic and metabolic processes (cobalamin, fatty acids, L-glutamine, tRNA wobble modification, extracellular polysaccharide and carbohydrate biosynthesis) and basic cell processes (cell division), all of which are characteristic of bacterial growth and envelope construction. The presence of terms like response to lipopolysaccharide and response to arsenic also suggests stress-response adaptations that these bacteria might mount. Overall, this cluster seems to represent proteins involved in core metabolism and cell-envelope-related biosynthesis with incidental stress-response roles.","confidence":"Medium","size":16,"edges":110,"triangles":431,"max_degree":15,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006541","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0002098","count":4},{"id":"GO:0006633","count":4}]},{"hash":"1393450318828341395","title":"GTPase-regulated vesicle trafficking","description":"The top GO terms cluster around vesicle transport and exocytosis, especially calcium-dependent exocytosis, ER-to-Golgi transport, and synaptic vesicle budding, all tied to small GTPase\u2013mediated signaling. This points to a coordinated program of vesicle trafficking and exocytosis regulation, with related roles in polarity and cytoskeletal dynamics; a few terms (mitotic cleavage and hepatocyte apoptosis) may reflect broader cellular remodeling contexts. Overall, the theme of GTPase-controlled vesicle trafficking best unifies the terms.","confidence":"Medium","size":16,"edges":11,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":4},{"id":"GO:0043547","count":3},{"id":"GO:1902953","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0090162","count":3}]},{"hash":"411041246327879596","title":"Neuronal development and synaptic signaling","description":"This cluster is dominated by neural-related terms: nervous system development, midbrain dopaminergic neuron differentiation, and regulation of synaptic vesicle exocytosis, along with Robo signaling. These co-occur with kidney development and T cell receptor signaling, but the core signal is neural development and synaptic function, suggesting a neuron-focused functional unit.","confidence":"Medium","size":16,"edges":50,"triangles":41,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035385","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0090324","count":6},{"id":"GO:0001822","count":6}]},{"hash":"671842390165478976","title":"Angiogenesis and EMT with lipid metabolism","description":"The top GO terms are dominated by vascular-related processes (angiogenesis, endothelial cell migration) and epithelial-to-mesenchymal transition, with supporting roles in plasminogen activation and exocytosis, pointing to matrix remodeling and cell movement. Additional terms touch on lipid metabolism and autophagy, suggesting a broader set of proteins involved in vascular remodeling and membrane dynamics, with lipid handling. The presence of EMT/angiogenesis signals is the strongest theme, justifying a label focused on those processes, while lipid metabolism and autophagy reflect secondary connected functions.","confidence":"Medium","size":16,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0030437","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0043536","count":2},{"id":"GO:0031639","count":2}]},{"hash":"1637085327836581911","title":"Neural development and sensory perception","description":"The top GO terms cluster around neural development and sensory functions: dendrite development, auditory receptor cell stereocilium organization, sensory perception of light stimulus, vocalization behavior, and regulation of neural signaling (e.g., JNK cascade, serotonin uptake). While a couple of terms touch on immune processes, the dominant pattern points to neural growth and sensory processing.","confidence":"Medium","size":16,"edges":31,"triangles":20,"max_degree":13,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0071625","count":9},{"id":"GO:0022007","count":8},{"id":"GO:0046328","count":8},{"id":"GO:0051612","count":8},{"id":"GO:0050953","count":8}]},{"hash":"2064137958880979496","title":"Ribosome biogenesis and translation","description":"Top terms are dominated by ribosome-related processes: ribosome biogenesis, export of the large ribosomal subunit, and tRNA modification, pointing to assembly and function of the protein synthesis machinery. The other terms are more diverse and likely secondary, so the core theme is translation-related. ","confidence":"Medium","size":16,"edges":10,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":5},{"id":"GO:0006855","count":5},{"id":"GO:0042891","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1418464426080839442","title":"Mammary gland development and lactation","description":"The top GO terms strongly indicate mammary gland biology: alveolus development, in utero embryonic development, lactation, and regulation of mammary epithelial proliferation, plus response to leptin. Although transcription and cell cycle terms are general cellular processes, they often accompany developmental and secretory programs. The ER unfolded protein response is consistent with the high secretory load during lactation. Taken together, the cluster appears to reflect mammary gland development and milk production-related functions.","confidence":"High","size":16,"edges":88,"triangles":239,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0030968","count":8},{"id":"GO:0060749","count":7},{"id":"GO:0001701","count":6}]},{"hash":"697401325901904166","title":"TGF-\u03b2/BMP Signaling Regulation","description":"The top GO terms cluster around transforming growth factor beta (TGF-\u03b2) response and BMP signaling, including cellular response to TGF-\u03b2 stimulus, negative regulation of BMP signaling and TGF-\u03b2 receptor signaling, and SMAD-related dephosphorylation. This suggests the proteins modulate TGF-\u03b2/BMP pathway activity, with some older or cross-connected annotations appearing as less-specific noise. Overall, a cohesive theme of pathway regulation rather than a single enzymatic function.","confidence":"Medium","size":16,"edges":24,"triangles":12,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0042006","count":5},{"id":"GO:0042347","count":5},{"id":"GO:0000173","count":5},{"id":"GO:0010991","count":5}]},{"hash":"1353863482279932344","title":"Microbial secondary metabolite and fatty acid biosynthesis","description":"Top GO terms indicate biosynthesis of ectoine, siderophores, and verruculogen, along with multiple fatty acid and acyl-CoA metabolic processes. This pattern points to a theme of microbial secondary metabolite production and lipid metabolism, with one seemingly outlier term related to seed germination. Confidence: High","confidence":"","size":16,"edges":64,"triangles":95,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042400","count":5},{"id":"GO:0097089","count":5},{"id":"GO:1902181","count":5},{"id":"GO:0001561","count":5},{"id":"GO:0019491","count":5}]},{"hash":"803990540776482033","title":"Neural development and apoptosis","description":"The top GO terms indicate strong representation of nervous system development (spinal cord and cerebellar cortex development) and neural/glial apoptotic processes, suggesting the cluster centers on neural development with programmed cell death in neural tissue. Some housekeeping processes appear but are less informative for the main theme. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0034349","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0006388","count":1}]},{"hash":"1663475835036681476","title":"Mitotic cell cycle and spindle assembly","description":"This cluster is strongly enriched for mitosis-related GO terms, including mitotic cell cycle, cell division, mitotic spindle assembly, and mitotic sister chromatid cohesion, which together point to a cohesive mitotic program. APC-dependent catabolic processes and regulation of meiotic nuclear division further support a role in chromosome segregation and mitotic progression, with some actin filament remodeling reflecting cytoskeletal changes during division. Overall, the dominant theme is mitosis and spindle dynamics.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:1904263","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0090307","count":6},{"id":"GO:0031145","count":6}]},{"hash":"355902423769293999","title":"Mitotic spindle and microtubule transport in development","description":"The term enrichment centers on mitosis and microtubule dynamics (spindle assembly, mitotic cell cycle, microtubule-based movement) and is reinforced by related processes like vesicle transport and growth signaling (TORC1, GTPase regulation). The inclusion of development-related GO terms (spinal cord development, neural tube closure, skeletal development) suggests these proteins function in cell division and intracellular transport in a developmental context.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0021510","count":3}]},{"hash":"223462406105555215","title":"Mitochondrial Transporters and Fission","description":"This cluster is strongly enriched for GO terms related to mitochondrial metabolite transport (ADP, phosphate, CoA, TPP, iron, magnesium, nucleotides) and mitochondrial membrane fission/localization, pointing to a cohesive role in mitochondrial transport and fission dynamics.","confidence":"High","size":16,"edges":48,"triangles":32,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070542","count":11},{"id":"GO:0015866","count":10},{"id":"GO:1990519","count":10},{"id":"GO:0035435","count":10},{"id":"GO:1990616","count":10}]},{"hash":"1492338480664656714","title":"Synaptic vesicle exocytosis and endosomal sorting","description":"Based on strong signals for regulation of synaptic vesicle exocytosis, brain development, calcium-dependent exocytosis, dopamine uptake in synaptic transmission, and endosome/multivesicular body trafficking, this cluster is best characterized by neuronal vesicle trafficking and endosomal sorting functions. A non-neuronal term appears among the top terms (mating projection growth), likely an annotation quirk, but the core theme remains synaptic/exocytic and endosomal processes. ","confidence":"High","size":16,"edges":90,"triangles":239,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:0045956","count":6}]},{"hash":"1663346184074285760","title":"Unknown","description":"The top GO terms span immune regulation, heart development, telomere maintenance, hormone and receptor signaling, neural/glial differentiation, muscle regeneration, cell division, and even plant defense signaling, with no clear single function uniting the proteins. This diversity suggests no coherent, shared theme for a specific label beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":4},{"id":"GO:0003270","count":3},{"id":"GO:1904357","count":3},{"id":"GO:2000031","count":3},{"id":"GO:0048709","count":3}]},{"hash":"2166243054627108420","title":"Auditory Synaptic Transmission and Cochlear Development","description":"These proteins show a strong pattern of neural signaling terms, including excitatory and inhibitory postsynaptic potentials, general nerve impulse transmission, and auditory-related processes like sensory perception of sound and cochlea development. While some terms (e.g., acrosome reaction, micturition-related transmission) suggest broader neuronal roles, the dominant theme is synaptic communication within the auditory pathway, justifying this label.","confidence":"Medium","size":16,"edges":23,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0007605","count":5},{"id":"GO:0007340","count":5},{"id":"GO:0071361","count":4},{"id":"GO:0060080","count":4}]},{"hash":"2045449749466492029","title":"Insulin/IGF Signaling and Small GTPase Regulation","description":"The top GO terms are dominated by insulin receptor signaling and insulin-like growth factor receptor signaling, along with positive regulation of small GTPase activity and Rho-mediated pathways. This points to a cohesive theme of growth-factor\u2013driven signaling coordinated with GTPase-regulated processes, despite some noise from less central terms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070562","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0051092","count":2}]},{"hash":"213222236847739007","title":"Unknown","description":"The proteins in this cluster map to a highly diverse and scattered set of GO terms, including mRNA processing, various developmental and transcription-related processes, immune cytokine production, and metabolic regulation, with several terms labeled obsolete. There is no clear shared pathway or cohesive function linking the proteins, so a specific, intuitive label cannot be justified.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:1903208","count":1},{"id":"GO:0060038","count":1},{"id":"GO:0060852","count":1},{"id":"GO:0051091","count":1}]},{"hash":"603889132213257833","title":"Heart Development Signaling and Vascular Differentiation","description":"This cluster centers on cardiac morphogenesis and heart-field signaling (e.g., right atrium morphogenesis, Notch signaling in heart development) and venous endothelial differentiation, with related signaling activities such as GPCR-mediated pathways and mechanical stimulus responses. Taken together, the terms point to a cohesive theme of heart development and vascular differentiation, with supporting regulatory processes like kinase activity control and telomere-related regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:0003270","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0060843","count":6},{"id":"GO:0071260","count":6}]},{"hash":"25183645634551131","title":"Unknown","description":"The top GO terms are highly diverse, covering neural signaling (glutamatergic transmission), responses to yeast, vascular processes (angiogenesis and vasoconstriction), and genome mobility (DNA transposition, retrotransposition, DNA integration) plus a viral entry term. There is no single cohesive function that ties these proteins together, and the lack of edges further weakens any shared pathway. Therefore there is no reliable, single-name label to assign; it remains Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051968","count":2},{"id":"GO:0001878","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0045907","count":2}]},{"hash":"1621002658685711037","title":"Embryonic organogenesis and heart development","description":"The cluster's top GO terms converge on embryonic development, with a strong emphasis on heart formation and patterning (e.g., left/right patterning, endocardial cushion EMT, Notch signaling in heart field). Additional terms include cartilage morphogenesis and endocrine system development, supporting a general embryonic organogenesis theme with notable cardiac development components. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1497431231929637314","title":"RNA processing and ribosome biogenesis factors","description":"The top GO terms center on mRNA processing (splicing, polyadenylation regulation, export, stability under stress) and early ribosome biogenesis (small-subunit processome assembly), plus regulation of translation initiation (including IRES-dependent initiation). This pattern suggests proteins involved in RNA maturation and assembly/regulation of the translation machinery, rather than a single signaling pathway.","confidence":"High","size":15,"edges":63,"triangles":140,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0010610","count":3}]},{"hash":"1015704272510135104","title":"Embryonic development and organ morphogenesis","description":"This cluster is dominated by GO terms related to embryonic development, tissue morphogenesis, left-right patterning, endocardial cushion formation (EMT), placenta and endocrine system development, and trophoblast differentiation, indicating a shared role in embryogenesis and organ formation. A few outlier terms (hydrogen peroxide response, single strand break repair, myelination) are less representative but do not override the core developmental theme.","confidence":"High","size":15,"edges":11,"triangles":1,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0035270","count":8}]},{"hash":"123295862109632396","title":"Neural development and synaptic organization","description":"The top GO terms cluster around CNS development, neuron differentiation, axon guidance, and presynaptic membrane organization, indicating a neural development and synaptic function theme. While a couple terms are peripheral, the dominant signal is neural development and synaptic organization, justifying a concise label that captures this core function.","confidence":"High","size":15,"edges":10,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002355","count":1},{"id":"GO:0021637","count":1},{"id":"GO:0030318","count":1},{"id":"GO:0021966","count":1},{"id":"GO:0097090","count":1}]},{"hash":"1959104399316765698","title":"Vesicular Neurotransmitter Loading and Ion Transport","description":"The top terms point to a core function in packaging and transporting neurotransmitters into synaptic vesicles, alongside multiple transmembrane ion transport processes (Na+, K+, phosphate, nitrate/nitrite). This suggests a cluster of membrane transport proteins involved in vesicular neurotransmission and general ion translocation, with some peripheral metabolic annotations likely less central. ","confidence":"Medium","size":15,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"1983770034283468348","title":"Neural development and immune cell migration","description":"The terms cluster around neural development (cerebral cortex migration, neuronal stem cell maintenance, synaptic potentiation) and immune/glycan-related processes (leukocyte migration, regulatory T cell differentiation, fucosylation/Lewis antigen biosynthesis). This suggests proteins involved in neurodevelopment with glycosylation-mediated cell interactions and potential neuro-immune signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900273","count":2},{"id":"GO:0006930","count":2},{"id":"GO:0036071","count":1},{"id":"GO:0002361","count":1},{"id":"GO:0006486","count":1}]},{"hash":"1046768080730821601","title":"Mitosis and Developmental Regulation","description":"The top terms cluster around mitotic processes (mitotic cell cycle, mitotic spindle assembly, proliferation) with several development-related terms (skeletal system development, neural tube closure) and signaling/chromatin modifiers (GTPase regulation, protein autophosphorylation, histone acetylation). This suggests a shared theme of cell division coupled with developmental regulation, rather than a narrow single function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0043981","count":2}]},{"hash":"1235505892078439037","title":"Post-transcriptional mRNA processing and translation regulation","description":"The cluster is dominated by GO terms for RNA processing steps (splicing, including alternative splicing; mRNA polyadenylation; mRNA export) and components tied to pre-rRNA/processing machinery, plus regulation of translation initiation and mRNA stability in stress. This points to a shared theme of post-transcriptional gene expression control, encompassing RNA maturation, export, and subsequent translation regulation. Some terms are obsolete or developmentally contextual (blastocyst formation), but the core signal is coherent around mRNA processing and translation control.","confidence":"High","size":15,"edges":33,"triangles":37,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":9},{"id":"GO:0006378","count":9},{"id":"GO:1900363","count":8},{"id":"GO:0006406","count":8},{"id":"GO:0034462","count":8}]},{"hash":"2231252565957372318","title":"Unknown","description":"The GO terms are scattered across hormone metabolism (androgen, testosterone, catecholamine, bile acid), proteoglycan biosynthesis, translation, transcription regulation, and embryonic development (neurocranium morphogenesis). There isn\u2019t a clear, single biological theme that cohesively binds these terms into a recognizable, specific function for this cluster, so a focused label isn\u2019t supported.","confidence":"","size":15,"edges":17,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006355","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1372113931883230113","title":"RNA Pol II Transcription Regulation & Methylation","description":"The top GO terms center on regulation of RNA polymerase II transcription (preinitiation complex assembly and elongation), which defines the core function of the cluster. Additionally, several entries relate to protein methylation (peptidyl-lysine and peptidyl-arginine dimethylation), supporting a theme of transcriptional control via chromatin or post-translational modifications. Though ribosome biogenesis and chlorophyll biosynthesis appear among the terms, they are less representative of the cluster\u2019s main signal, making transcription regulation with associated methylation the most coherent label.","confidence":"Medium","size":15,"edges":38,"triangles":40,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0009236","count":3},{"id":"GO:0045899","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0006281","count":2}]},{"hash":"1726888655158775958","title":"Ciliogenesis and neural/eye development","description":"Top terms strongly point to cilium assembly and development of neural and eye-related tissues (neuron projection development, lens fiber cell differentiation), suggesting proteins in this cluster are tied to ciliogenesis and sensory/eye development. Other terms like ribosome biogenesis and ER-Golgi transport reflect general cellular maintenance, while an isolated defense response term appears incidental. Overall, the main theme is ciliogenesis coupled with neural/eye development, yielding a moderate level of confidence.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0060271","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1330229887284427484","title":"Gene Expression Regulation and Ribosome Assembly","description":"This cluster centers on core gene expression processes: translation is the most prominent GO term, with transcription-related terms (DNA-templated transcription and its regulation) and ribosome assembly also represented. The presence of stress/antibiotic response terms (e.g., actinomycin D) and regulation of translation supports a cohesive theme around coordinating transcriptional and translational control and ribosome biogenesis.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006351","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0006353","count":1},{"id":"GO:0060702","count":1}]},{"hash":"1903660420591895991","title":"Dopaminergic Neuronal Signaling","description":"The cluster prominently features terms tied to nervous system development, cellular response to dopamine, excitatory postsynaptic potential, and ERK signaling, all pointing toward dopamine-responsive synaptic signaling and neuronal plasticity. Some entries are obsolete or broad (e.g., regulation of protein stability), but the dominant theme centers on neuronal/dopaminergic signaling pathways.","confidence":"Medium","size":15,"edges":53,"triangles":70,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031647","count":15},{"id":"GO:0043366","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0031532","count":15},{"id":"GO:0043304","count":15}]},{"hash":"1521052434375550501","title":"Steroid Hormone Metabolism and Xenobiotic Detoxification","description":"The cluster is dominated by GO terms for progesterone metabolism, aldosterone-related renal regulation, and the omega-hydroxylase P450 pathway, along with xenobiotic catabolic processes (dibenzo-p-dioxin, carbazole). This pattern points to a set of proteins involved in steroid hormone processing and detoxification of environmental compounds, with additional hints from hormone-driven tissue development and immune modulation. Overall, the theme centers on steroid metabolism and xenobiotic detoxification.","confidence":"High","size":15,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042448","count":11},{"id":"GO:0002017","count":11},{"id":"GO:0019341","count":11},{"id":"GO:0009624","count":11},{"id":"GO:0046232","count":11}]},{"hash":"748337627608992653","title":"Cell Cycle and Transcription Regulation","description":"The cluster combines centrosome cycle and centriole replication terms with transcriptional regulation (DNA-templated transcription and repression of RNA Pol II), plus regulatory signaling and development terms. This points to a shared theme around control of cell division and gene expression, with some neural development associations.","confidence":"Medium","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007098","count":4},{"id":"GO:0008542","count":3},{"id":"GO:0097350","count":3},{"id":"GO:0045819","count":3},{"id":"GO:0007099","count":3}]},{"hash":"187967884643164851","title":"Unknown","description":"The top GO terms span metabolism (retinol/retinal, fructose biosynthetic), plant development (phloem development), multiple animal developmental processes (head development, spinal cord interneuron specification, nephric duct elongation), immune signaling regulation (T and B cell pathways), and cytoskeletal dynamics (actin depolymerization). This wide, cross-kingdom mix suggests no single coherent function ties the cluster together, so I classify it Unknown.","confidence":"","size":15,"edges":99,"triangles":385,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":6},{"id":"GO:0046370","count":5},{"id":"GO:0042574","count":5},{"id":"GO:0010088","count":4},{"id":"GO:0046013","count":4}]},{"hash":"465779921623584077","title":"Temperature- and Pain-Responsive Signaling","description":"Based on the top GO terms, the proteins are enriched for sensory perception of pain and cellular response to temperature stimulus, with references to diet-induced thermogenesis, suggesting a core theme of temperature- and pain-sensing. Additional terms point to signaling modulation (GTPase activity, IP3 biosynthesis) and downstream neuromodulatory/immune processes (dopamine uptake regulation, T cell chemotaxis). Some outliers (cell wall catabolic process, osmotic-stress\u2013related apoptotic regulation, cell proliferation) may be peripheral, but the dominant signal is temperature/pain sensing and associated signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0043547","count":10},{"id":"GO:1902239","count":10}]},{"hash":"1781160669984889228","title":"Neural signaling and myelination regulation","description":"The top GO terms point to neuronal signal transduction, including positive regulation of adenylate cyclase activity, cellular response to cAMP, response to amine, and regulation of GTPase activity, which together suggest neural signaling pathways. Additionally, terms about myelination in the peripheral nervous system and oligodendrocyte differentiation support a neural development theme. Some terms appear unrelated (blastocyst development, vitamin E metabolism), but the dominant pattern centers on neural signaling and myelination. Confidence: Medium","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045762","count":2},{"id":"GO:0014075","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0048715","count":1},{"id":"GO:0043547","count":1}]},{"hash":"110539766519610639","title":"Developmental gene expression regulation","description":"The cluster centers on DNA-templated transcription and RNA modification (guanine-N7 methylation) with several development-related terms (multicellular development, skeletal system development, neural tube closure). Additional stress/defense terms suggest regulatory responses under environmental challenges, but the core signal is regulation of gene expression during development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036265","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006351","count":3}]},{"hash":"369619295519856195","title":"Cardiac electrical signaling and stress-induced hypertrophy","description":"Based on the top GO terms, this cluster centers on cardiac muscle electrophysiology: action potential generation in atrial and Purkinje/AV node cells, regulation of potassium channels, and a stress-responsive hypertrophy pathway. While a few terms are unrelated (ossification, T cell homeostasis), the prevailing pattern ties to cardiac electrical signaling and hypertrophic remodeling.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":5},{"id":"GO:1902259","count":4},{"id":"GO:0008627","count":4},{"id":"GO:0010961","count":4},{"id":"GO:1903759","count":4}]},{"hash":"1653956643466020069","title":"Unknown","description":"The top GO terms cover very diverse processes (vitamin D response, mechanical stimulus response, mitochondrial energy production, transcription, innate and antiviral immunity, Notch-related heart development, telomere regulation, salicylic acid signaling, and oligodendrocyte differentiation), with no clear unifying theme or pathway linking them, and no edges to suggest a cohesive functional module.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0042775","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1143341497698856335","title":"Cell signaling and differentiation regulators","description":"This cluster centers on multiple signaling and differentiation processes (GPCR signaling, NOD2 signaling, Notch signaling, NF-\u03baB regulation) along with differentiation-related terms (fat cell differentiation, macrophage foam cell differentiation) and related cytoskeletal and apoptotic processes. The diversity suggests a broader theme of regulation of signaling pathways and cellular differentiation rather than a single, tightly defined function, though these terms collectively point to signaling regulation and lineage/differentiation control as the core concept. Some terms are obsolete, and plant-specific signaling is present, which adds noise. Medium","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0010745","count":5},{"id":"GO:0032088","count":5}]},{"hash":"1879625709307402842","title":"Monosaccharide Catabolism","description":"The Top Terms show multiple specific monosaccharide catabolic processes (rhamnose, arabinose, lyxose, fucose, D/L-arabinose, ascorbic acid), suggesting a core theme of sugar breakdown. There are a couple of outlier terms (thymus development, pyroptotic inflammatory response) that are less representative of the main pattern, which is why the label focuses on monosaccharide catabolism as the central theme. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048538","count":2},{"id":"GO:0019284","count":1},{"id":"GO:0019301","count":1},{"id":"GO:0019569","count":1},{"id":"GO:0019854","count":1}]},{"hash":"20280426091293496","title":"Oxidative Stress Response and Redox Signaling","description":"This cluster is dominated by GO terms pointing to cellular stress and redox biology: responses to oxidative stress, ROS production (superoxide, respiratory burst), and pathways that regulate oxidative-stress\u2013induced apoptotic signaling. Additional terms like protein repair and copper ion import reinforce a theme of maintaining redox homeostasis. A few terms (developmental or endocrine) appear incidental, but the core signal is to cluster proteins involved in managing oxidative stress and related cellular responses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030091","count":1},{"id":"GO:0003081","count":1},{"id":"GO:0048855","count":1},{"id":"GO:1902177","count":1},{"id":"GO:0045730","count":1}]},{"hash":"1822762840878555771","title":"Plant ROS detoxification and lignin remodeling","description":"The top GO terms cluster around oxidative stress responses and plant-specific cell wall processes (cellular oxidant detoxification; hydrogen peroxide catabolic process; lignin catabolic process; plant-type cell wall organization), pointing to a module involved in ROS detoxification and lignin-based cell wall modification. A few animal-associated terms appear, but the plant signals dominate.","confidence":"High","size":15,"edges":16,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0046274","count":4},{"id":"GO:0009664","count":4},{"id":"GO:0042744","count":4}]},{"hash":"2106416014185968034","title":"Phospholipid biosynthesis and membrane organization","description":"The cluster is dominated by GO terms for ethanolamine and choline metabolism and phosphatidylethanolamine biosynthesis, plus the CDP-choline pathway, which together indicate a cohesive theme of phospholipid production and membrane assembly. Related terms like presynaptic membrane organization and nerve structural organization support a membrane-centric functional context, with phosphorylation-related terms adding a link to signaling processes associated with membranes. Overall, the common thread is phospholipid biosynthesis and membrane organization.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006580","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0006646","count":1},{"id":"GO:0019695","count":1},{"id":"GO:0006657","count":1}]},{"hash":"1188602434213783490","title":"Neural-immune synapse remodeling","description":"The cluster includes neural development signals (Purkinje cell layer development and synapse maturation) alongside immune/complement-related processes (complement activation, leukocyte tethering, and regulation of complement). This pattern suggests proteins involved in neural-immune crosstalk and synaptic remodeling influenced by complement and immune signaling, with some signaling pathway context (PKC, apoptosis). The connection is plausible but not uniformly cohesive across all terms, hence a moderate confidence.","confidence":"Medium","size":15,"edges":97,"triangles":360,"max_degree":14,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0090036","count":4},{"id":"GO:0021680","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0060074","count":4},{"id":"GO:0007338","count":4}]},{"hash":"109418898263414239","title":"Angiogenesis and endothelial signaling","description":"The top GO terms center on angiogenesis and endothelial cell migration, supported by signaling pathways such as ERK/MAPK and Wnt, plus related developmental and extracellular matrix processes (mesenchymal-epithelial signaling, heparin proteoglycan biosynthesis) and secretion/exocytosis. An adaptive immune response term suggests immune-vascular interactions, but the dominant theme is vascular development and endothelial signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0090263","count":2}]},{"hash":"137370782241935252","title":"Unknown","description":"The top GO terms span neural signaling, development, reproduction, extracellular matrix remodeling, and basic gene expression with no single cohesive theme dominating the cluster, making it hard to assign a specific, representative name.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0051968","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0007369","count":3},{"id":"GO:0048240","count":3}]},{"hash":"871443351163277289","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0070306","count":2},{"id":"GO:2000060","count":2},{"id":"GO:0006388","count":1}]},{"hash":"1376868625882396515","title":"Cardiac development and signaling","description":"This cluster centers on heart formation and function, with terms for Notch-regulated heart field proliferation, SA node action potential regulation, atrial morphogenesis, calcium release for contraction, and mechanical stimulus sensing, plus related vascular differentiation and vitamin D responsiveness, pointing to integrated cardiac development and excitation\u2013contraction signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003270","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0060843","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1073565596329213225","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple tissues, including fertilization, placental branching and trophoblast differentiation, pancreatic cell development, nerve organization, and hair cell differentiation, with supporting growth factor signaling (HGF receptor). This points to a unified theme of embryonic tissue formation and organ morphogenesis rather than a single specific pathway.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0048632","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0060672","count":3},{"id":"GO:0048012","count":3}]},{"hash":"130109207161262352","title":"Unknown","description":"The GO terms span transcription regulation, RNA modification (tRNA methylation, wybutosine biosynthesis), signaling (forskolin/cAMP related), centrosome maintenance, skeletal muscle atrophy, vascular and blood pressure regulation, and dynein-driven nuclear movement. The functions are very diverse with no single unifying theme, so a concise, specific label cannot be confidently assigned beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0061178","count":2},{"id":"GO:1904322","count":2},{"id":"GO:0031591","count":1},{"id":"GO:0030488","count":1}]},{"hash":"466661529839521711","title":"Proteasome Assembly and Proteostasis","description":"The top terms center on proteasome assembly and proteasomal degradation, with supporting terms for misfolded protein response and proteostasis, suggesting the cluster is mainly about protein quality control and degradation. Some development-related terms are present but do not form a cohesive alternative function. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070682","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007205","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1242719693048284272","title":"Membrane Transporters (ions and metabolites)","description":"The cluster\u2019s top GO terms mostly describe transmembrane transport of ions (sodium, potassium, phosphate, nitrate, nitrite) and small molecules, plus a transporter-related process for neurotransmitter loading and a few metabolic transports (fucose, 4-hydroxyphenylacetate) and nitrate assimilation. This points to a cohesive theme of membrane transport activity across substrates rather than a single enzymatic pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"1425241090343017509","title":"Ubiquitin-like Modifications and Yeast Growth Regulation","description":"The top terms include protein sumoylation, urmylation, and ufmylation, pointing to ubiquitin-like modification processes. Others indicate yeast-specific regulatory and metabolic pathways, such as regulation of cell cycle and pseudohyphal growth, transcriptional regulation, the Cvt autophagy pathway, and thiamine biosynthesis. This combination suggests a cluster of yeast proteins involved in ubiquitin-like modifications integrated with growth and metabolic regulation, rather than a single enzymatic pathway.","confidence":"Medium","size":14,"edges":17,"triangles":4,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0009228","count":4},{"id":"GO:1990592","count":3},{"id":"GO:0045892","count":3},{"id":"GO:0051726","count":3}]},{"hash":"1908187322942157189","title":"Glial development and neural signaling","description":"This cluster is dominated by astrocyte-related terms (activation, differentiation) and glial functions in the peripheral nervous system (myelination), with supportive signals from calcineurin-NFAT and phosphatidylinositol pathways. The presence of mitotic cell cycle/proliferation terms suggests progenitor or expansion phases typical of glial development. While adenohypophysis morphogenesis is less directly tied to glia, it fits into broader neural-endocrine development themes. Overall, the terms cohere around glial differentiation and neural signaling.","confidence":"Medium","size":14,"edges":72,"triangles":178,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":12},{"id":"GO:0048143","count":11},{"id":"GO:0048855","count":11},{"id":"GO:0008284","count":11},{"id":"GO:0022011","count":11}]},{"hash":"1287982991065614350","title":"Skin-immune inflammatory signaling","description":"The GO terms emphasize immune and inflammatory processes, notably cytokine production (including IL-8), leukocyte tethering/recruitment, and endosomal acidification, with a context hint from skin development. While there is some noise (e.g., osteoblast differentiation), the dominant pattern points to skin-associated inflammatory signaling and stress responses.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0043588","count":5},{"id":"GO:0071230","count":5},{"id":"GO:0008630","count":3},{"id":"GO:0045668","count":3},{"id":"GO:0050715","count":3}]},{"hash":"1182429612746630327","title":"Neuronal Nutrient and Ion Transport","description":"The top GO terms are dominated by various transmembrane transport activities for nutrients and ions (pantothenate, biotin, glucose, myo-inositol, sodium export), plus neuronal-related processes (acetylcholine biosynthetic process and synaptic vesicle clustering). This points to a theme of membrane transport supporting neuronal function and neurotransmission. Some terms (bone mineralization, biotic stimulus response) are less connected and may reflect multifunctional annotations, but do not override the main transport/neuron signal. ","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0015887","count":1},{"id":"GO:0015878","count":1},{"id":"GO:1904659","count":1},{"id":"GO:0008292","count":1}]},{"hash":"1388383178809118291","title":"Temperature- and Sensory Perception Signaling","description":"This cluster centers on temperature-related responses (thermogenesis, cellular response to temperature) and sensory modalities (pain, vision), coupled with signaling pathways (adenylate cyclase/cAMP, calcium release, GTPase). Together these indicate a temperature-sensing signaling module with broad sensory transduction components, though a few terms like heart development and general proliferation are more general.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0007190","count":7},{"id":"GO:0043547","count":6}]},{"hash":"119174152163074755","title":"Mitotic division and cilium assembly","description":"The top GO terms cluster around mitosis (cell division; mitotic cell cycle; chromosome passenger complex localization to kinetochore) and cilium assembly, indicating a module tied to spindle/centrosome dynamics and ciliogenesis. Additional terms involving Ran signaling, GTPase regulation, and hippo signaling support broader cell-cycle control and signaling integration, while cadmium response and endosome size regulation may be secondary. Overall, the cluster reflects proteins involved in mitotic processes and ciliogenesis.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0060271","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1426180530100953751","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for ribosomal large subunit biogenesis, rRNA processing, and overall translation (cytoplasmic and general), including maturation steps for LSU- and SSU-rRNA, which together point to ribosome assembly and protein synthesis. A few developmental terms appear (pupariation, blastocyst formation) but do not override the central ribosome-related theme; a minor outlier is negative regulation of protein ubiquitination. Overall, the proteins cluster around ribosome biogenesis and translation functions.","confidence":"High","size":14,"edges":14,"triangles":1,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042273","count":4},{"id":"GO:0006364","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0031397","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1832028053061451032","title":"Circadian transcription regulation with chromatin control","description":"The cluster centers on DNA-templated transcription and circadian rhythm regulation, with multiple GO terms for circadian regulation of gene expression and positive/negative regulation of transcription. Additionally, chromatin-related terms like histone deacetylation and nucleosome positioning suggest a chromatin-modifying regulatory module that modulates transcription in a circadian manner. Negative regulation of miRNA transcription and transcription factor activity further support a broad transcriptional control theme, tying together clock-controlled gene expression with chromatin state and transcriptional repression mechanisms.","confidence":"Medium","size":14,"edges":66,"triangles":158,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:1902894","count":9},{"id":"GO:0042753","count":8},{"id":"GO:0032922","count":8},{"id":"GO:0043433","count":8}]},{"hash":"2271143383117042965","title":"Neural development and immune signaling proteins","description":"This cluster\u2019s top GO terms emphasize nervous system development (including CNS development) and immune signaling pathways (B cell receptor signaling, dendritic cell differentiation, Kit signaling). There are also notes on intracellular transport and Golgi retention, reflecting supporting cellular trafficking roles. Together, these terms suggest a group of proteins involved in neural development and immune signaling, with some general trafficking functions. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0045053","count":2},{"id":"GO:0006886","count":2},{"id":"GO:2001200","count":2}]},{"hash":"2141570937977179345","title":"Unknown","description":"The terms span extracellular remodeling (collagen catabolism) and immune activation (complement) as well as various RNA processing and translation regulation processes, with no clear single unifying function.","confidence":"","size":14,"edges":14,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":2},{"id":"GO:0006958","count":2},{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1632845200664064460","title":"Bacterial central metabolism and gene expression","description":"The cluster is enriched for central metabolism and biosynthesis pathways (TCA cycle, oxaloacetate, beta-oxidation, menaquinone, amino acid catabolism) together with basic gene expression processes (DNA-templated transcription and translation). This combination points to proteins involved in core metabolism and synthesis, with some links to secondary metabolite pathways like antibiotic biosynthesis.","confidence":"Medium","size":14,"edges":84,"triangles":301,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0006107","count":3},{"id":"GO:0006099","count":2}]},{"hash":"436316082840267624","title":"Sugar metabolism and salvage pathways","description":"The GO terms cluster around carbohydrate processing and salvage, including glycolytic steps through fructose-6-phosphate, responses to various sugars (sucrose, fructose), and catabolic routes for ribose and lactose, plus nucleotide salvage (adenosine/AMP). This combination strongly suggests a cohesive sugar metabolism and nucleotide salvage module.","confidence":"High","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":4},{"id":"GO:0044209","count":3},{"id":"GO:0009744","count":3},{"id":"GO:0010264","count":3},{"id":"GO:0006175","count":3}]},{"hash":"722991455028591802","title":"Histone H3 acetylation (multiple sites)","description":"Most top GO terms point to histone H3 acetylation at several lysines (K9, K14, K18, K27) and related chromatin silencing/heterochromatin organization, suggesting the proteins cluster around epigenetic regulation via histone modification. A few peripheral terms (dexamethasone response, cerebellar cortex development, IgA isotype switching) may reflect broader signaling connections or annotation noise, but the core signal is histone acetylation-driven chromatin regulation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070868","count":1},{"id":"GO:0043971","count":1},{"id":"GO:0043970","count":1},{"id":"GO:0044154","count":1},{"id":"GO:0006469","count":1}]},{"hash":"1757386459005294614","title":"RNA splicing and synapse assembly regulation","description":"The strongest signals are mRNA splicing via the spliceosome and positive regulation of synapse assembly, suggesting a functional link between RNA processing and neural connectivity. Supporting terms include rRNA maturation and chromatin-related processes (CENP-A assembly, histone acetylation), which point to broader genome regulation that could co-occur with neuronal development signals. Overall, the cluster seems to center on RNA processing with a notable emphasis on synaptic organization, with some chromatin remodeling context.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0008284","count":2}]},{"hash":"998525799752361884","title":"DNA Metabolism and Host Defense","description":"The top terms are largely about nucleic acid metabolism (DNA integration, replication, recombination, RNA-templated DNA biosynthesis) with a few entries tied to host interactions and defense (viral penetration into host nucleus, symbiont-mediated activation of host apoptosis, autophagosome maturation, siRNA processing regulation). This suggests a loosely connected theme around DNA/nucleic-acid processes coupled to cellular defense and host-pathogen interactions, rather than a single, cohesive pathway. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0097352","count":1},{"id":"GO:0006426","count":1},{"id":"GO:0006420","count":1},{"id":"GO:0075732","count":1}]},{"hash":"1576481945474508475","title":"Vertebrate neural and musculoskeletal development","description":"This cluster is dominated by GO terms tied to vertebrate embryonic development, especially neural development (peripheral nervous system neurons, midbrain, globus pallidus) and somite/muscle formation (myotome, somite specification, axis specification, muscle organ development), with an additional note on transcriptional regulation suggesting developmental gene control. The combination points to a cohesive theme of early vertebrate patterning and organogenesis across neural and musculoskeletal lineages.","confidence":"High","size":14,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0032330","count":2},{"id":"GO:0048935","count":2},{"id":"GO:0021759","count":2},{"id":"GO:0061055","count":2}]},{"hash":"1150881433903289908","title":"Pain and temperature sensation signaling","description":"The cluster centers on sensory modalities of pain (mechanical and chemical detection) and thermoception (temperature and cold), with supporting signals for calcium entry and TRP-related responses (capsazepine), plus neuroendocrine and cardiac signaling influences (vasopressin secretion, SA node action potential regulation). This combination points to a cohesive theme of nociceptive and thermal signaling pathways modulated by calcium dynamics.","confidence":"Medium","size":14,"edges":18,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":10},{"id":"GO:1903759","count":9},{"id":"GO:0030103","count":9},{"id":"GO:0050966","count":9},{"id":"GO:0098907","count":9}]},{"hash":"762393951484728913","title":"Mitotic spindle and APC/C-Dependent Regulation","description":"Top GO terms indicate mitotic spindle assembly, APC/C-dependent catabolic processes, and regulation of meiotic division, with supporting signals from ubiquitin ligase activity and cell-cycle control pathways. This suggests a coherent theme around cell-cycle progression, particularly mitosis/meiosis, governed by APC/C and protein turnover mechanisms. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0040020","count":3},{"id":"GO:1904263","count":3},{"id":"GO:1904668","count":3}]},{"hash":"95186866489225817","title":"Neural development and axon guidance","description":"This cluster is dominated by GO terms tied to neural development and signaling: nervous system development, Roundabout signaling (axon guidance), axon extension, Wnt signaling in development, and dopamine uptake in synaptic transmission, indicating a coherent theme around neuronal growth and connectivity. A few terms (T cell receptor signaling, ribosomal subunit export) appear as outliers or broader annotation signals, but do not override the central neural theme.","confidence":"Medium","size":14,"edges":15,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0035385","count":5},{"id":"GO:0071338","count":4},{"id":"GO:0032486","count":4}]},{"hash":"2205980747347773674","title":"RNA Splicing Regulation and Processing","description":"The top GO terms center on mRNA splicing (cis splicing via spliceosome) and its regulation, plus regulatory ncRNA\u2013mediated gene silencing, with additional signals of mRNA processing. Other terms like fertilization or angiogenesis are less representative, so the strongest theme is RNA processing and post-transcriptional control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009566","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0031047","count":2}]},{"hash":"337830335003816585","title":"Unknown","description":"The terms are highly heterogeneous (lipid metabolism, leptin signaling, muscle regulation, transcription, pheromone signaling/mating, and metal ion transport), with no clear shared pathway or function tying all proteins together; no interactions are evident, so a cohesive label isn\u2019t supported.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070328","count":2},{"id":"GO:0014842","count":2},{"id":"GO:0044320","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000750","count":1}]},{"hash":"205071940050143466","title":"Unknown","description":"The top GO terms cover a highly diverse set of functions, including cell wall macromolecule and peptidoglycan catabolism, viral release from host cells, cerebellar granule cell differentiation, protein ubiquitination, NF-kappaB regulation (obsolete), cytolysis, conditioned taste aversion, defense against bacteria, regulation of pain perception, etc. With no edges or connectivity (max degree 0), there is no coherent shared function or pathway tying these proteins together, suggesting the cluster may be a heterogeneous mix or annotation noise. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0032088","count":3}]},{"hash":"2142552532614738520","title":"Neural development with apoptosis and xenobiotic response","description":"The top GO terms center on brain/neuronal development (brain, hippocampus), neuron apoptotic processes (positive regulation of neuron apoptotic process, extrinsic apoptotic signaling), and synaptic function (regulation of synaptic vesicle exocytosis), with an additional note on xenobiotic stimulus response. While broad developmental terms like heart and hemocyte development appear, the strongest signal is neural development and apoptosis/synaptic activity, sometimes linked to stress or detox pathways. This suggests labeling the cluster as neural development with apoptotic and xenobiotic response captures the core theme.","confidence":"Medium","size":14,"edges":67,"triangles":160,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043525","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0042493","count":5},{"id":"GO:0097192","count":5}]},{"hash":"1665877299720932718","title":"Golgi SNARE-driven vesicle trafficking and exocytosis","description":"The terms cluster around ER-to-Golgi and intra-Golgi transport, Golgi ribbon formation, and SNARE complex assembly, with downstream exocytic events such as neurotransmitter receptor insertion and NK cell degranulation, indicating a cohesive secretory pathway centered on Golgi and SNARE machinery, including neuronal synaptic exocytosis.","confidence":"High","size":14,"edges":22,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":5},{"id":"GO:0098967","count":5},{"id":"GO:0006891","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0090161","count":5}]},{"hash":"122240190205434086","title":"Proteoglycan biosynthesis (HS/KS)","description":"The proteins in this cluster are tied to the biosynthesis of proteoglycans, especially heparan sulfate and keratan sulfate variants, as shown by multiple GO terms for keratan sulfate and heparan/heparin proteoglycan biosynthetic processes. While a few terms touch on glycosylation or regulatory activities (protein adenylylation) or visual-related processes, the dominant signal is proteoglycan synthesis, suggesting these proteins function in building sulfated proteoglycans.","confidence":"High","size":14,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0015012","count":2}]},{"hash":"252636158884544302","title":"Fatty acid metabolism and lipid biosynthesis","description":"The top GO terms are dominated by fatty acid and lipid-related processes (long-chain and medium-chain fatty acid metabolism, fatty acid biosynthesis, bile acid metabolism), suggesting a lipid metabolism-focused cluster. Other terms are peripheral/metabolic in nature, but the core signal points to lipid biosynthesis and fatty acid pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001676","count":4},{"id":"GO:1902987","count":4},{"id":"GO:0036112","count":4},{"id":"GO:0019290","count":4},{"id":"GO:0010030","count":4}]},{"hash":"1884042198589756505","title":"General cell signaling and vesicle transport","description":"The top GO terms cluster around signaling and trafficking processes, including neurotransmitter secretion and long-term synaptic potentiation (neuronal signaling), inositol triphosphate biosynthesis and phosphatidylinositol-mediated signaling (PI signaling), and intracellular protein transport, plus related regulatory processes like Rho signaling and protein modification. While there are some outliers (immune B cell differentiation, plant hormone signaling), the common theme is broad signal transduction coupled with vesicle traffic, rather than a single, distinct biological pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0032959","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0006886","count":2}]},{"hash":"811389004834663431","title":"Mitotic Spindle Assembly Checkpoint Signaling","description":"Most of the top GO terms describe mitotic control, especially spindle assembly checkpoint signaling, kinetochore-microtubule attachment, metaphase plate congression, and microtubule-directed chromosome movement. This pattern indicates the cluster represents proteins involved in mitosis surveillance and chromosome alignment. A couple of terms relate to thymus development and germ-line stem cell maintenance, which may reflect broader pleiotropy or annotation noise but do not redefine the dominant mitotic theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042130","count":1},{"id":"GO:0090268","count":1},{"id":"GO:1901925","count":1},{"id":"GO:0007094","count":1},{"id":"GO:0044774","count":1}]},{"hash":"2112585332999173636","title":"Neuro-immune development signaling","description":"The cluster\u2019s terms span neural communication (glutamatergic synaptic transmission), innate immune signaling, and developmental processes (TGF-beta response, skin development), with hints of synaptic scaffolding (guanylate kinase-associated protein clustering) and ubiquitin-related pathways. This suggests a broad signaling module coordinating neuro, immune, and developmental cues rather than a single, narrow function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051968","count":3},{"id":"GO:0031666","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0050731","count":2}]},{"hash":"985000901442105710","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The cluster is dominated by ubiquitin-dependent proteolysis (SCF and APC/C pathways), proteasomal degradation, and cell cycle events like chromosome segregation and anaphase progression. Autoubiquitination and related degradation processes reinforce this proteostasis/control theme, with additional but secondary links to DNA repair and chromatin aspects. This cohesive pattern supports labeling as ubiquitin-proteasome\u2013driven cell cycle regulation.","confidence":"High","size":13,"edges":27,"triangles":37,"max_degree":6,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0016032","count":6},{"id":"GO:0070911","count":6},{"id":"GO:0031145","count":5}]},{"hash":"1009833310594329298","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0031118","count":3},{"id":"GO:0031120","count":3}]},{"hash":"1745669700116745758","title":"Cytoskeleton remodeling and vesicle trafficking","description":"The terms indicate a shared role in organizing the actin cytoskeleton and guiding vesicle trafficking and membrane dynamics\u2014encompassing endocytosis, Golgi targeting, and endosome-to-membrane transport, with related processes in endothelial lumen formation and cell polarity. The apparent cross-cell-type functions (neuronal transport, angiogenesis) reflect common trafficking/cytoskeleton machinery rather than a single pathway.","confidence":"High","size":13,"edges":16,"triangles":7,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0090334","count":4},{"id":"GO:0090051","count":4},{"id":"GO:0007264","count":4}]},{"hash":"2116271714793882964","title":"Telomere maintenance and DNA replication regulation","description":"This cluster centers on processes that regulate telomere maintenance and telomerase activity, along with DNA replication and fork dynamics (including replication fork reversal and DNA strand elongation), plus DNA repair and recombination. The recurring themes point to genome stability through telomere control and replication-associated maintenance.","confidence":"High","size":13,"edges":67,"triangles":188,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032508","count":10},{"id":"GO:0051974","count":7},{"id":"GO:0032211","count":7},{"id":"GO:1903469","count":7},{"id":"GO:0006310","count":7}]},{"hash":"400301339685742467","title":"Phosphoinositide biosynthesis and membrane dynamics","description":"The top terms cluster around phosphatidylinositol phosphate biosynthesis (PI signaling, PIP2) and membrane-related processes such as focal adhesion assembly, protein localization to the plasma membrane, endomembrane system organization, ruffle assembly, and autophagosome assembly, indicating a group of proteins involved in membrane remodeling and lipid signaling rather than a single linear pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902635","count":1},{"id":"GO:0048041","count":1},{"id":"GO:0035855","count":1},{"id":"GO:0046854","count":1},{"id":"GO:0032288","count":1}]},{"hash":"1043269887205954811","title":"Craniofacial and cerebellar neural development","description":"The top GO terms point to developmental processes, especially embryonic cranial skeleton morphogenesis, face development, and cerebellar cortex formation, along with Bergmann glial differentiation and heart development. Neural function terms like long-term potentiation and visual perception also appear, suggesting neural development and brain maturation with a cerebellar focus. Together, these terms indicate a cluster of proteins involved in craniofacial/brain development and neural differentiation, rather than a single, narrowly defined pathway. Confidence: Medium","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0060324","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0048701","count":5}]},{"hash":"1584516171923700207","title":"Genome maintenance and stress response","description":"The top GO terms cluster around genome integrity and cellular stress responses: DNA repair (base-excision repair, DNA recombination), oxidative/stress signaling (response to hydrogen peroxide, membrane repair), and transcriptional/posttranscriptional regulation (mRNA stability) with links to signaling (phosphatidylinositol dephosphorylation) and cell cycle coordination (G1/S transition). This suggests a cohesive theme of maintaining genome integrity while adapting to stress.","confidence":"Medium","size":13,"edges":17,"triangles":5,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":5},{"id":"GO:0006310","count":4},{"id":"GO:0001778","count":3},{"id":"GO:0070301","count":3},{"id":"GO:2000466","count":3}]},{"hash":"1460244241457934809","title":"Cell Cycle and Proteostasis Regulation","description":"This cluster is dominated by GO terms related to DNA replication and cell-cycle control (DNA replication; G1/S transition) and proteostasis (proteasomal ubiquitin-dependent protein catabolic process). While some terms touch on retinoic acid response, apoptosis regulation, and other processes, the strongest recurring theme is coordination of DNA synthesis, cell-cycle progression, and targeted protein degradation, which links proliferation with regulated protein turnover. A few terms point to neural or immune contexts, but the core signal supports a cell-cycle/proteostasis focus.","confidence":"Medium","size":13,"edges":13,"triangles":7,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0071333","count":8},{"id":"GO:0021695","count":7},{"id":"GO:0032436","count":7},{"id":"GO:0051973","count":7}]},{"hash":"1386767549462350919","title":"Unknown","description":"The terms span diverse processes: negative regulation of CDK activity (cell cycle), telomere maintenance, cell migration, muscle stretch response, mRNA processing, adipocyte differentiation, ephrin signaling, and synaptic plasticity regulation. There is no single cohesive functional theme across the proteins, suggesting a mixed set of regulatory features rather than a defined biological module.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1306498109878023874","title":"Peroxisomal fatty acid metabolism","description":"The top GO terms cluster around fatty acid beta-oxidation and peroxisomal-related processes (glyoxysome organization), with supporting signals from lipid-related development in liver and adipose tissue and hormone response. While a few terms (sporulation, PHB biosynthesis) are less related, the dominant theme points to peroxisomal lipid metabolism and energy-related pathways across tissues.","confidence":"Medium","size":13,"edges":70,"triangles":226,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":7},{"id":"GO:0014070","count":7},{"id":"GO:0030435","count":7},{"id":"GO:1902109","count":7},{"id":"GO:0060612","count":7}]},{"hash":"1410083703864070325","title":"Heparan sulfate proteoglycan biosynthesis and ECM metabolism","description":"This cluster is dominated by GO terms for biosynthesis of heparan sulfate/heparin proteoglycans and related glycosaminoglycan metabolism, aligning with extracellular matrix (ECM) synthesis and embryonic cranial/ ECM development processes; other terms like xenobiotic metabolism and angiotenin regulation appear supplementary to this core ECM-related theme.","confidence":"High","size":13,"edges":65,"triangles":168,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":11},{"id":"GO:0030573","count":11},{"id":"GO:0048702","count":11},{"id":"GO:0006584","count":11},{"id":"GO:0015012","count":11}]},{"hash":"1218408328410882334","title":"Unknown","description":"The GO terms show a highly diverse mix (neural development, signaling, detoxification, various metabolic and biosynthetic processes, and inflammation) with no clear single theme tying all proteins together, so a coherent, representative label isn\u2019t identifiable.","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0019740","count":4},{"id":"GO:0006212","count":4},{"id":"GO:0017000","count":4}]},{"hash":"1463536847995831428","title":"Redox signaling and prostaglandin-linked platelet function","description":"The top GO terms indicate redox-related processes (oxidation-reduction, cellular oxidant detoxification, redox homeostasis, glutathione metabolism) alongside prostaglandin biosynthesis and platelet aggregation, with calcium-channel regulation hinting at calcium signaling in platelets. Together, these points suggest a theme where redox balance modulates prostanoid signaling and platelet activation. Some metabolic terms (aromatic amino acid metabolism, starvation response) may reflect broader metabolic context but are secondary to the redox/platelet/inflammation cluster. ","confidence":"Medium","size":13,"edges":43,"triangles":69,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0001516","count":5},{"id":"GO:0006749","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0060315","count":4}]},{"hash":"1888119418508047109","title":"Nuclear RNA processing and transcription elongation control","description":"The TOP terms cluster around nuclear RNA maturation (capping, splicing, rRNA processing, mRNA localization) and regulation of transcription elongation by RNA polymerase II and I, with related transcription-coupled repair notes. This points to a cohesive set of proteins involved in RNA processing and transcription regulation within the nucleus, despite some noise from translation-related terms.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0032968","count":2},{"id":"GO:2001208","count":1},{"id":"GO:0000398","count":1},{"id":"GO:2001209","count":1}]},{"hash":"1064540298094107858","title":"Nucleotide and NAD salvage metabolism","description":"This cluster centers on salvage and recycling pathways for nucleotides and cofactors, including methionine salvage, purine ribonucleoside salvage/interconversion, uridine catabolism, and nicotinamide/nicotinate salvage related to NAD biosynthesis. The presence of a menaquinone biosynthetic process term also fits with broader metabolite salvage/cofactor metabolism. An outlier term for interleukin-2 production appears unrelated noise. Overall, the proteins seem tied to salvage metabolism rather than a single, cohesive signaling function.","confidence":"Medium","size":13,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019284","count":1},{"id":"GO:0034356","count":1},{"id":"GO:0006166","count":1},{"id":"GO:0006218","count":1},{"id":"GO:0070970","count":1}]},{"hash":"1800472341281854940","title":"Cofactor Biosynthesis and Related Metabolism","description":"The top GO terms cluster around biosynthesis and metabolism of cofactors and related compounds (pantothenate/CoA, cobalamin, methanopterin, and glutathione), with additional terms like sporulation and TNF response that may reflect broader cellular roles or annotation noise. The lack of interaction edges suggests these proteins do not form a single cohesive pathway, but they share a common link to cofactor biosynthesis.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":1},{"id":"GO:0015941","count":1},{"id":"GO:0015937","count":1},{"id":"GO:1901285","count":1},{"id":"GO:0070988","count":1}]},{"hash":"234413756008071631","title":"Embryonic Development and Neural Signaling","description":"The top GO terms point to embryonic development (in utero) and neural development (axonogenesis), coupled with transcriptional regulation (DNA-templated transcription) and signaling inputs (retinoic acid, leptin), suggesting a developmental program governing neural differentiation and gene regulation. Some coagulation/immune terms appear but do not define the main theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0030194","count":3},{"id":"GO:0071300","count":2},{"id":"GO:0070328","count":2}]},{"hash":"1231389874517297217","title":"Immune signaling and developmental proteins","description":"The top GO terms show a strong immune signature, including innate immune response, cytokine production, complement activation, and B cell receptor signaling. There are also development- and structure-related terms (heart and nervous system development, sarcomere organization, cell adhesion, and channel clustering), suggesting the proteins may have immune signaling roles with ancillary developmental or structural functions. Therefore, I label this cluster as immune signaling with developmental associations. ","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002374","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0045162","count":3}]},{"hash":"769453729157976960","title":"TLR signaling and cytokine induction","description":"The proteins show strong representation of toll-like receptor pathways (both MyD88-dependent and independent, including TLR13 signaling) and dsRNA response, coupled with increased production of inflammatory cytokines (IL-6, IL-8, IL-17). This suggests a cohesive innate immune sensing theme driving cytokine regulation, with additional links to inflammasome regulation and systemic defense signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043330","count":1},{"id":"GO:0032740","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0002755","count":1},{"id":"GO:2000778","count":1}]},{"hash":"1025909516043985570","title":"Neuronal Synaptic Transport and Chromatin Localization","description":"This cluster is dominated by GO terms related to neuronal function, especially neurotransmitter loading into synaptic vesicles and synapse assembly, pointing to synaptic signaling. There is also a notable term for protein localization to chromatin, suggesting some nuclear/chromatin-associated roles among the proteins, while transport terms (ions, nitrite) add a broader cellular transport context. These combined signals justify a label focused on neuronal synaptic activity with chromatin-related localization.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":3},{"id":"GO:0051965","count":3},{"id":"GO:1900747","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0098700","count":2}]},{"hash":"1383311065363613961","title":"Developmental Signaling and Tissue Regeneration","description":"This cluster is dominated by GO terms linked to signaling pathways and differentiation processes across tissues, including Notch signaling in heart development, ephrin receptor signaling regulation, cerebellar granule cell differentiation, and skeletal muscle tissue regeneration, suggesting a common theme of developmental signaling and tissue regeneration. Some terms are more peripheral (plant hormone signaling, vitamin D response, obsolete terms), but the core pattern points to multi-tissue developmental signaling and regeneration.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0003270","count":4},{"id":"GO:1904357","count":4},{"id":"GO:2000031","count":4},{"id":"GO:0051225","count":4}]},{"hash":"922184723010277213","title":"Neural development and innate immune signaling","description":"The cluster includes innate immune terms (MyD88-dependent TLR signaling and innate immune response) together with neural development/migration processes (tangential migration to the olfactory bulb, regulation of nerve branching morphogenesis, and actin cytoskeleton remodeling), suggesting proteins that link immune signaling with neurodevelopment. A bone development term appears but likely reflects shared developmental signaling contexts rather than a primary function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0060161","count":5},{"id":"GO:0002755","count":4},{"id":"GO:0022028","count":4}]},{"hash":"185054294322805366","title":"DNA damage repair and redox response","description":"Based on the top GO terms, the cluster centers on DNA repair processes (base-excision repair, DNA recombination) and oxidative stress management (cell redox homeostasis, cellular response to hydrogen peroxide). These terms co-vary, suggesting a functional module in maintaining genome integrity under oxidative stress. Some terms are obsolete or peripheral (RNA hydrolysis, PI dephosphorylation, mRNA stability, glycogen synthase regulation), but the dominant themes point to DNA damage response and redox balance.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0070301","count":1},{"id":"GO:2000466","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0006284","count":1}]},{"hash":"882000420140559725","title":"Transcriptional regulation and immune signaling","description":"This cluster centers on regulatory processes affecting gene expression (histone catabolic process, negative regulation of transcription by RNA polymerase II, histone acetylation) and immune-related signaling (regulation of JNK cascade, TNF signaling, lymph node development, T-helper cell differentiation). The inclusion of endosome localization suggests a trafficking component tied to signal transduction, aligning transcriptional control with inflammatory pathways overall.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036205","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0050999","count":1},{"id":"GO:0045623","count":1}]},{"hash":"1508360412781171008","title":"Immune and Xenobiotic Stress Response","description":"The top GO terms point to immune signaling (cellular response to interleukin-4; T cell homeostasis) alongside responses to xenobiotics (cellular response to xenobiotic stimulus; response to cocaine). Additional terms link to stress-related processes (autophagy; regulation of mitochondrial membrane potential) and general signaling/transcription activity. Together, these suggest a functional theme around coordinating immune function with cellular stress and metabolic regulation, rather than a single, narrow pathway.","confidence":"Medium","size":12,"edges":19,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":2},{"id":"GO:0032435","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0042220","count":2}]},{"hash":"713506916447906323","title":"TLR-Mediated Innate Immunity and Autophagy","description":"The top GO terms cluster around innate immune activation via Toll-like receptors, including both MyD88-dependent and -independent signaling, responses to dsRNA, detection of microbial ligands like muramyl dipeptide, and downstream effects such as interleukin-8 production and type II interferon signaling. Also present is positive regulation of macroautophagy, which is a known mechanism linking TLR signaling to autophagic degradation of pathogens, with a note of actin filament remodeling that can accompany immune responses. Together these terms support a cohesive theme of TLR-driven innate immune sensing and autophagic effector responses.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0043330","count":1},{"id":"GO:0032498","count":1},{"id":"GO:0051638","count":1}]},{"hash":"2272295741321297776","title":"Developmental signaling and cell-cycle regulation","description":"These proteins show a pattern of regulating signaling and phosphorylation (positive regulation of GTPase activity, serine/threonine kinase activity, and protein autophosphorylation) together with mitotic cell cycle control and proliferation. Developmental processes (embryonic organ development, pigmentation) and stress responses (hypoxia) are also represented, suggesting a cluster of regulators coordinating growth, division, and developmental signaling rather than a single metabolic pathway.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0031954","count":6},{"id":"GO:0071902","count":6},{"id":"GO:0051028","count":6}]},{"hash":"342496341155631843","title":"ER Proteostasis and Redox Homeostasis","description":"This cluster centers on processes for protein folding in the endoplasmic reticulum, protein repair, and responses to oxidative stress, as shown by GO terms for ER protein folding, redox homeostasis, hydrogen peroxide response, and oxidant detoxification. The inclusion of a glycosylation term tied to the ER further supports a role in ER proteostasis. Some transcription-related terms (DNA binding regulation, transcription) may reflect co-regulatory proteins within the cluster, but do not override the dominant ER proteostasis/redox theme. A magnesium ion transport term is less clearly connected. Taken together, the core signal is ER-associated protein quality control intertwined with redox balance and oxidative stress response.","confidence":"High","size":12,"edges":27,"triangles":25,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0034975","count":7},{"id":"GO:0030091","count":6},{"id":"GO:0015693","count":6},{"id":"GO:0043388","count":6}]},{"hash":"1848318526505289842","title":"Hormone- and stress-response signaling","description":"This cluster centers on GO terms for responses to hormones and various stressors, including glucocorticoids, lipopolysaccharide, UV, xenobiotics, and hydrogen peroxide, plus modulation of signaling via negative regulation of protein kinase activity. While there are a few development-focused terms (angiogenesis, pituitary morphogenesis, cuticle development) the dominant theme is activation or regulation of cellular signaling in response to hormonal and environmental stress.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0034644","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0048855","count":2}]},{"hash":"1129928912942302754","title":"PNS development and axonal transport with stress signaling","description":"The top GO terms point to peripheral nervous system development and myelination, plus anterograde axonal transport, indicating neural development and axon-centric function. Co-occurring terms reflect stress and immune signaling (IL-1 response, heat/stress response, MAPK cascade, ROS regulation), suggesting these proteins operate in neural contexts under inflammatory or stress conditions. The combination of neural development/transport with stress signaling supports this label as a cohesive theme for the cluster.","confidence":"Medium","size":12,"edges":10,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0071347","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0099641","count":1},{"id":"GO:0032463","count":1}]},{"hash":"1461739391474811665","title":"Integrin-ECM signaling and angiogenesis","description":"This cluster centers on extracellular matrix interactions and signaling: collagen fibril organization, integrin-mediated signaling, and regulation of cell growth, along with angiogenesis and neural development terms like axon guidance and synapse assembly. While some immune-related terms appear, the core theme points to ECM remodeling and cell-adhesion\u2013driven signaling shaping tissue growth and neural connectivity.","confidence":"Medium","size":12,"edges":12,"triangles":0,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001558","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0033564","count":5},{"id":"GO:0002448","count":5},{"id":"GO:0030199","count":5}]},{"hash":"75857549599076437","title":"mRNA processing and translational regulation","description":"Top terms cluster around spliceosome-mediated splicing, mRNA export, preinitiation complex formation, translation initiation and reinitiation, and stress-related mRNA stability, with related viral translation contexts, indicating coordinated post-transcriptional processing and control of translation.","confidence":"High","size":12,"edges":29,"triangles":56,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":7},{"id":"GO:0006406","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:1900363","count":6}]},{"hash":"961463363300004359","title":"Proteostasis and Misfolded Protein Handling","description":"The top GO terms point to protein quality control and stress responses: cellular response to misfolded protein, aggresome assembly, and proteasomal protein catabolic processes, along with stress granule disassembly. These collectively suggest a theme of managing protein damage and turnover under stress. Some terms (sensory perception of smell, cGMP signaling) are peripheral or context-specific annotations, but the strongest signal centers on proteostasis and protein quality control.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0035617","count":5},{"id":"GO:0007608","count":5},{"id":"GO:0071321","count":5},{"id":"GO:0010754","count":5}]},{"hash":"2250583969908978507","title":"Cell Cycle Regulation and Stress Responses","description":"The GO terms are dominated by DNA-templated transcription and key cell-cycle transitions (G1/S and G2/M), indicating a core role in cell-cycle control. The inclusion of endoplasmic reticulum unfolded protein response and stress-related terms (response to X-ray, early viral transcription) points to cellular stress management linked to proliferation. Tissue-specific terms (lactation, mammary gland proliferation, leptin response) suggest context-dependent roles in mammary tissue but do not outweigh the central theme. Overall, the cluster appears to represent proteins involved in regulating the cell cycle and handling cellular stress.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0030968","count":5},{"id":"GO:0033601","count":4}]},{"hash":"1384390802654892240","title":"Cardiac muscle and coronary vasculature development","description":"The cluster\u2019s terms strongly point to heart development, with explicit notes on coronary vasculature morphogenesis and positive regulation of cardiac muscle cell growth. Auxiliary terms like positive regulation of canonical Wnt signaling and GTPase activity regulation fit well with signaling and cytoskeletal regulation in cardiac formation. While ubiquitination and ribophagy terms are more general cellular processes, their presence doesn\u2019t contradict the heart development theme. Overall, the most representative core is cardiac muscle and coronary vessel morphogenesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:0048368","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0035519","count":1},{"id":"GO:0006513","count":1}]},{"hash":"1817023563055014953","title":"Neural development and visual perception","description":"The cluster shows strong enrichment for neural-related terms, including cerebellar cortex development and visual perception, with retinoic acid signaling involved in neural differentiation. While there are also terms related to cell cycle and apoptosis, the dominant theme appears to be brain development and sensory processing.","confidence":"Medium","size":12,"edges":38,"triangles":43,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021695","count":12},{"id":"GO:0032436","count":12},{"id":"GO:0051973","count":12},{"id":"GO:0007257","count":12},{"id":"GO:0032762","count":12}]},{"hash":"870586267324063227","title":"DNA Repair and Genome Maintenance","description":"This cluster is dominated by GO terms for DNA repair and replication (base-excision repair, nucleotide-excision repair, DNA replication, recombination) and DNA integration, suggesting proteins centered on maintaining genome integrity and processing DNA damage. Additional signals related to RNA-templated DNA synthesis and RNAi modulation hint at connections to retrotransposition and gene silencing, but the core theme is genome maintenance through repair and replication.","confidence":"Medium","size":12,"edges":19,"triangles":10,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006289","count":2}]},{"hash":"1524994633868509663","title":"Ribosome Biogenesis","description":"Several GO terms point to ribosome biogenesis (GO:0042254) and ribosomal large subunit assembly (GO:0000027), which anchors this cluster, while other terms (cell cycle assembly, various metabolic processes) appear less coherently connected. The dominant signal is ribosome-related, making this a concise representation of the main function of the cluster, though there are peripheral processes present.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045725","count":2},{"id":"GO:0006267","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0010197","count":1},{"id":"GO:0000027","count":1}]},{"hash":"1007342996507567600","title":"TLR-NFkB cytokine signaling cluster","description":"Most of the top GO terms point to innate immune signaling: TLR2 and TLR4 pathways with MyD88, NF-kB activation, and downstream cytokine production (e.g., IL-18, CCL5). The presence of terms for positive regulation of NF-kB signaling and TLR pathways supports a cohesive theme of Toll-like receptor\u2013driven immune responses and cytokine modulation. A few terms reference antifungal peptide production and translation or mitochondrial processes, which may reflect broader cellular readiness or housekeeping but do not define the cluster's primary function.","confidence":"High","size":12,"edges":31,"triangles":32,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0071651","count":1},{"id":"GO:0043123","count":1},{"id":"GO:2000494","count":1}]},{"hash":"51790495744263357","title":"DNA Replication and Centrosome Cycle Regulation","description":"The cluster is anchored by GO terms for DNA replication, centrosome cycle, and nuclear cell cycle regulation, pointing to proteins involved in cell-cycle progression and replication. Some development and signaling terms appear, but the dominant pattern is replication-centrosome machinery.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":12},{"id":"GO:0007098","count":12},{"id":"GO:0006260","count":12},{"id":"GO:0048701","count":12},{"id":"GO:0021695","count":11}]},{"hash":"704845392069732849","title":"Organogenesis and Immune Activation","description":"GO terms in this cluster center on organ development across tissues (nipple morphogenesis, metanephric glomerulus development, cornea development, lung connective tissue development) and immune-related processes (inflammatory response, cellular response to exogenous dsRNA, IL-1\u03b2 production). A nod to signaling pathways (Wnt) supports a developmental theme. Overall, the proteins appear linked to developmental programs with concurrent immune modulation, justifying the label Organogenesis and Immune Activation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071360","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0090141","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0060658","count":2}]},{"hash":"1811171591962174643","title":"Ribosome biogenesis and Pol II transcription","description":"The top GO terms point to ribosome biogenesis processes: maturation and assembly of the large subunit, preribosome assembly, and rRNA maturation/export, indicating a core role in ribosome production. In addition, terms related to RNA polymerase II preinitiation complex assembly and transcription initiation at Pol II promoter suggest involvement of transcription initiation components. Together, the cluster appears enriched for both ribosome assembly and Pol II transcription initiation functions.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":2},{"id":"GO:0000466","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000027","count":1},{"id":"GO:1902626","count":1}]},{"hash":"2081511764930727575","title":"Liver energy metabolism and carnitine pathways","description":"This cluster centers on metabolic processes typical of energy homeostasis in the liver, including amino acid catabolism (leucine and valine), fatty acid oxidation (medium-chain fatty acids) linked to carnitine metabolism/biosynthesis, glycogen biosynthesis, and regulation of gluconeogenesis. The presence of liver development and starvation-response terms further supports a liver-focused, energy-regulating theme rather than a specific non-hepatic pathway. Overall, the GO terms cohere around hepatic metabolism and energy management.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006552","count":2},{"id":"GO:0051793","count":2},{"id":"GO:0019254","count":2},{"id":"GO:0045329","count":2},{"id":"GO:0006574","count":2}]},{"hash":"740682803718386158","title":"Signaling and Muscle Regeneration","description":"The top GO terms point to several signaling pathways (GPCR-related, Notch, ephrin, salicylic acid signaling) along with processes linked to muscle development/regeneration (skeletal muscle tissue regeneration) and cell movement (cell migration). The presence of some obsolete terms and a broad mix of signaling-related functions suggests a cluster of proteins involved in diverse signaling processes with a connection to muscle-related biology, rather than a single cohesive function. Confidence: Medium","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0003270","count":4},{"id":"GO:1904357","count":4}]},{"hash":"1228986762721183701","title":"Developmental Gene Expression","description":"Many GO terms point to developmental processes (in utero embryonic development, forebrain and skeletal system development, multicellular organism development, and single fertilization), suggesting a cluster involved in organismal development. The presence of transcripts-related terms (DNA-templated transcription) and RNA maturation/rRNA processing indicates active gene expression machinery supporting development. While some terms like blood coagulation are peripheral, the developmental and transcriptional themes predominate.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007338","count":2}]},{"hash":"774478321726522446","title":"Ion and metabolite membrane transporters","description":"The cluster shows strong representation of transmembrane transport roles for multiple ions (Na+, K+, nitrate, nitrite, phosphate) and various metabolites (4-hydroxyphenylacetate, fucose), plus a specific note on neurotransmitter loading into synaptic vesicles. Together, these terms point to a shared function as membrane transporters moving ions and small molecules across cellular membranes, potentially including vesicular transporters for neurotransmitters. The pattern supports a transporter-focused label rather than a single metabolic pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1476279201286645885","title":"Unknown","description":"The Top Terms span highly diverse functions (calcium ion transport; sensory perception of sound; sperm individualization and axoneme assembly; interferon-beta production; TRAMP-dependent tRNA surveillance; mRNA export and nonsense-mediated decay; telomere maintenance), with no clear unifying pathway or function linking them. The lack of edges and the disparate GO categories suggest the cluster does not reflect a coherent, single biological theme, so a specific, representative label cannot be determined.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0050910","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0032608","count":1},{"id":"GO:0007288","count":1}]},{"hash":"1463764953142801659","title":"RNA processing and chromatin regulation","description":"The cluster\u2019s top GO terms point to RNA metabolism (tRNA processing; spliceosomal snRNP assembly), nuclear processes (import into nucleus), and chromatin organization (pericentric heterochromatin formation). These together suggest a cohesive theme around RNA processing and chromatin regulation within the nucleus, with other terms like translation and viral release likely representing ancillary or broader cellular contexts. Confidence: Medium","confidence":"","size":11,"edges":31,"triangles":50,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0051170","count":2},{"id":"GO:0009414","count":2}]},{"hash":"1269848205259961134","title":"Proteostasis via ubiquitin, ERAD, and aggrephagy","description":"The top GO terms point to protein quality control: deubiquitination, ubiquitin-dependent ERAD, aggresome assembly, and aggrephagy, along with deglycosylation and membrane insertion into the ER. These collectively reflect cellular pathways that manage misfolded or damaged proteins and maintain protein homeostasis, including ER-associated processes and autophagic clearance; mitochondrial fusion regulation may reflect broader quality-control interfaces. Overall, a cohesive proteostasis theme emerges.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0051572","count":5},{"id":"GO:0071816","count":5},{"id":"GO:1902283","count":5},{"id":"GO:0070842","count":5}]},{"hash":"1973634826301052459","title":"DNA replication and repair","description":"The cluster\u2019s top GO terms are dominated by DNA replication and nucleotide-excision repair (e.g., GO:0006260, GO:0006289, GO:0033683), including DNA unwinding, incision, and responses to DNA-damaging agents like bleomycin and hydroxyurea. Although a few terms relate to development (hair cell differentiation, embryonic organ development), the recurring theme across these proteins is genome maintenance\u2014replication fidelity and DNA damage repair, including meiotic DSB processing. ","confidence":"High","size":11,"edges":21,"triangles":15,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0035315","count":6},{"id":"GO:0000717","count":6},{"id":"GO:0072711","count":6},{"id":"GO:0006289","count":6}]},{"hash":"253570676578934940","title":"Unknown","description":"The GO terms are highly heterogeneous, including nutrient response, GTPase regulation, rRNA maturation, chromatin assembly (CENP-A), histone acetylation, microtubule-based movement, development, and proliferation. There is no clear, single biological process that unifies these terms, suggesting the proteins participate in multiple, distinct functions rather than a coherent cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0043547","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0070208","count":1}]},{"hash":"1535492575994936769","title":"Retrotransposons and proviral integration","description":"The top GO terms are dominated by DNA transposition, retrotransposition, DNA integration, and proviral latency, pointing to mobile genetic elements and viral-like integration processes. A few metabolic transport terms appear but do not define the cluster; overall the motif is transposable elements and provirus-related activity.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0032197","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0039651","count":2}]},{"hash":"481315816328059050","title":"Neural Development and Axon Guidance","description":"Neural development and axon guidance as the common theme: terms point to axonogenesis, nerve structure organization (trigeminal and vestibulocochlear), neuron projection, and signaling pathways (RTK activation, PKC) with synaptic plasticity regulation, suggesting these proteins function in neural connectivity and development.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902378","count":1},{"id":"GO:0021637","count":1},{"id":"GO:0060672","count":1},{"id":"GO:0021649","count":1},{"id":"GO:0007171","count":1}]},{"hash":"407239437131710167","title":"Wnt-Driven Bone Development and Neural Signaling","description":"This cluster contains terms centered on canonical Wnt signaling and bone morphogenesis/mineralization, suggesting a primary theme of Wnt-regulated skeletal development. It also includes neural-related processes (synaptic vesicle clustering, neuromuscular control), indicating broader developmental signaling that links bone formation with neural function; additional terms like apoptosis and endosomal transport point to supporting cellular dynamics.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0009607","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0030282","count":1}]},{"hash":"2036800135705600406","title":"Capsule and cell wall polysaccharide biosynthesis","description":"This cluster is dominated by GO terms for capsule polysaccharide biosynthesis, peptidoglycan biosynthesis, arabinan biosynthesis, and cell wall organization, suggesting a cohesive bacterial cell envelope biosynthesis module; occasional antibiotic response terms likely reflect envelope stress. ","confidence":"High","size":11,"edges":11,"triangles":1,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":4},{"id":"GO:0008360","count":3},{"id":"GO:0009820","count":3},{"id":"GO:0071555","count":3},{"id":"GO:1903457","count":3}]},{"hash":"206072958986560512","title":"Retroviral Integration and Proviral Latency","description":"The cluster centers on processes of genome integration and latency linked to viral life cycles and host interaction: DNA integration, replication, recombination, RNA-templated DNA biosynthetic (reverse transcription), viral entry into the host nucleus, and establishment of integrated proviral latency. Some terms also touch on symbiont-host interactions, reflecting similar host manipulation themes, but the core connection is proviral integration and maintenance within the host genome.","confidence":"High","size":11,"edges":53,"triangles":147,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0006260","count":4},{"id":"GO:0075732","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006278","count":3}]},{"hash":"642489708389172619","title":"Embryonic development and placental morphogenesis","description":"These terms cluster around embryogenesis and organ development, including pancreatic, cartilage, left-right patterning, heart cushion EMT, and placental/embryonic endocrine development. A couple of transport-related GO terms appear but do not override the dominant embryonic development theme. Overall, the proteins appear to be tied to embryonic tissue formation and placental morphogenesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0035270","count":1}]},{"hash":"2167999511928945118","title":"Unknown","description":"The top GO terms span diverse and largely unrelated processes, including DNA integration, NF-kappaB signaling, cell cycle, keratinocyte differentiation/keratinization and proliferation, salivary gland morphogenesis, deglycosylation, and even hemoglobin metabolism. This mix provides no single cohesive function or pathway linking all proteins, so a definite label cannot be assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0043123","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0030216","count":1},{"id":"GO:0048661","count":1}]},{"hash":"958094598909856614","title":"Unknown","description":"The top GO terms include diverse processes (GTPase regulation, IP3/PI biosynthesis, neurotransmitter signaling, immune chemotaxis, TNF regulation, and even plant cell wall catabolism), giving a highly heterogeneous functional mix with no single cohesive theme. Therefore a specific, representative cluster label cannot be assigned beyond Unknown.","confidence":"","size":11,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:1902239","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0016998","count":1},{"id":"GO:0032962","count":1}]},{"hash":"1871912086521186368","title":"Transcriptional Regulators in Neuronal Development","description":"This cluster centers on DNA-templated transcription and retinoic acid response linked to cerebellar cortex development, with accompanying cell-cycle and apoptosis regulation that together point to transcription-driven neuronal differentiation.","confidence":"Medium","size":11,"edges":29,"triangles":42,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0021695","count":8},{"id":"GO:0032436","count":8},{"id":"GO:0051973","count":8},{"id":"GO:0007257","count":8}]},{"hash":"1436040124228142310","title":"Cytoplasmic and mitochondrial translation machinery","description":"The dominant GO terms center on protein synthesis and ribosome function\u2014cytoplasmic translation, ribosomal large subunit assembly, translation elongation/termination, and mitochondrial translation (with selenocysteine incorporation). Some terms (mRNA decay, RNA-templated transcription, antibiotic response) are less central, but the overall pattern clearly points to the translation apparatus and its regulation.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0000027","count":4},{"id":"GO:0006415","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0001514","count":2}]},{"hash":"62358331432271847","title":"TLR-driven antiviral innate immune signaling and autophagy","description":"Proteins cluster around innate antiviral responses: TLR signaling (MyD88-dependent and -independent), dsRNA response, and autophagy regulation, with supportive antimicrobial and cytokine-related terms. The mitotic terms appear incidental and do not define the main theme, which is antiviral innate immunity.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1124402329616617155","title":"Ion and metabolite transporters","description":"Proteins in this cluster are tied to transmembrane transport across membranes for a variety of ions (potassium, sodium, phosphate, nitrite, nitrate) and substrates (4-hydroxyphenylacetate, neurotransmitter loading into synaptic vesicles). The common theme is membrane-embedded transporter activity moving ions and small molecules, with one entry hinting at vesicular neurotransmitter transport, supporting a cohesive \u201cion and metabolite transporters\u201d label.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0035725","count":3}]},{"hash":"459011025845127162","title":"Embryonic Organ Morphogenesis","description":"The top GO terms center on development and morphogenesis across multiple organs (heart, eye, limb, placenta, prostate, habenula), indicating organogenesis during embryogenesis. This label is concise and representative of the cluster's shared function.","confidence":"High","size":11,"edges":19,"triangles":4,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021986","count":5},{"id":"GO:2000288","count":5},{"id":"GO:0060527","count":5},{"id":"GO:0003148","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1359271928674829472","title":"Angiogenesis and ECM-cell adhesion","description":"The top GO terms cluster around vascular and neural development processes: negative and positive regulation of angiogenesis, collagen fibril organization, and integrin-mediated signaling, plus anterior/posterior axon guidance and synapse assembly. This pattern points to extracellular matrix remodeling and cell-ECM adhesion as a common theme driving vessel formation and neural connectivity. Some immune-related and microbe interaction terms may be incidental or reflect multifunctional proteins, but the dominant signal is ECM\u2013adhesion signaling linked to angiogenesis and neural patterning.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016525","count":8},{"id":"GO:0045766","count":7},{"id":"GO:0033564","count":7},{"id":"GO:0002448","count":7},{"id":"GO:0030199","count":7}]},{"hash":"1066807153526345411","title":"Golgi-Endosome Trafficking and Signaling","description":"The top GO terms cluster around intracellular trafficking: Golgi organization, protein localization to endosome, and regulation of secretory pathways, suggesting a core theme of vesicle trafficking. Additional terms such as Rap signaling and dopamine uptake tie trafficking to neuronal signaling, while nervous system and spermatid development, heart contraction, and apical junction assembly indicate broader roles in development and tissue function. Taken together, the cluster seems to represent proteins involved in trafficking and signaling that influence development and organ physiology, hence the label Golgi-Endosome Trafficking and Signaling. ","confidence":"Medium","size":11,"edges":16,"triangles":6,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0007030","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0032486","count":2}]},{"hash":"751261436573128939","title":"Neural development and axon remodeling","description":"Top GO terms cluster around neural development, axon diameter regulation, peripheral nerve regeneration, and neuron/glial apoptotic processes, pointing to a neuronal growth and remodeling function. A few outliers (complement activation, nuclear pore localization, general development terms) are present but do not outweigh the neural signal. Thus, the label Neural development and axon remodeling is a reasonable summary of this cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031133","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0072201","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0008584","count":2}]},{"hash":"120791136976519621","title":"Neuronal transcription and signaling regulators","description":"Based on the top GO terms, the cluster is driven by regulation of DNA-templated transcription and multiple neuronal signaling pathways (ephrin receptor signaling, Wnt signaling), plus processes linked to synaptic plasticity and neuron survival. While a few terms touch on placental development or meiosis, the dominant theme is neural transcription control and signaling regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006355","count":2},{"id":"GO:1901187","count":2},{"id":"GO:2001275","count":2},{"id":"GO:1900383","count":2}]},{"hash":"2179812588460942673","title":"Transposons and Proviral Latency","description":"GO terms are dominated by DNA integration, DNA transposition, retrotransposition, and establishment of integrated proviral latency, all pointing to mobile genetic elements and proviral/viral genome integration into host DNA. A few other terms (glycogen catabolism, astrocyte activation, symbiont-host interactions) are less central, likely background or secondary associations. Confidence in the transposon-proviral theme is high.","confidence":"High","size":11,"edges":32,"triangles":46,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0075732","count":5},{"id":"GO:0006313","count":5},{"id":"GO:0032197","count":5},{"id":"GO:0039651","count":5}]},{"hash":"1352617929920060987","title":"Vertebrate neural and cardiac development","description":"The terms cluster around neural development (peripheral NS, midbrain, basal ganglia) and vertebrate axial/somitic formation (somite, myotome, axis specification) with inclusion of heart conduction system development (atrioventricular node). This suggests a cohesive theme of early vertebrate embryonic development linking nervous system and heart/axial structures.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0032330","count":1},{"id":"GO:0048935","count":1},{"id":"GO:0021759","count":1}]},{"hash":"1146912034407182963","title":"Unknown","description":"The GO terms are a mix of extracellular matrix proteoglycan biosynthesis, several metabolic pathways (xenobiotic, bile acid, catecholamine, sulfate assimilation), and a vascular/physiological term (regulation of angiotensin), with no clear single function tying the proteins together, and no edges within the cluster, so there is no coherent theme to name it beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0030210","count":1},{"id":"GO:0030573","count":1},{"id":"GO:0048702","count":1},{"id":"GO:0006584","count":1}]},{"hash":"110007411456828064","title":"Hormone Signaling and Stress Response","description":"The terms point to hormonal signaling (male differentiation and steroid receptor assembly) together with multiple stress/defense responses (interferon, hydrogen peroxide, lead ion), plus related chromatin modification and cell division processes. The mix suggests a broad theme of signaling integration under stress rather than a single, cohesive pathway, and some terms are plant-specific or obsolete, which limits precision.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046661","count":7},{"id":"GO:0006463","count":7},{"id":"GO:0035457","count":7},{"id":"GO:0070301","count":7},{"id":"GO:0010288","count":7}]},{"hash":"804651436920342690","title":"Lipid biosynthesis and fatty acid metabolism","description":"The cluster is dominated by GO terms tied to lipid biology: unsaturated fatty acid biosynthesis, sphingosine biosynthesis, cholesterol esterification (even if obsolete), and sebaceous gland differentiation, all pointing to lipid production and lipid-based signaling. The inclusion of CNS myelin maintenance supports a lipid-rich context, while terms like nitrate assimilation or photoinhibition are likely noise rather than core drivers. Overall, the common theme is lipid metabolism and fatty acid biosynthesis across the proteins. ","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":2},{"id":"GO:0070542","count":2},{"id":"GO:0034435","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0046512","count":2}]},{"hash":"767210338191929590","title":"Axon guidance and tissue morphogenesis signaling","description":"This cluster centers on ephrin receptor signaling and retinal ganglion cell axon guidance, with additional terms pointing to cell adhesion, morphogenetic processes (notochord formation, nephric duct morphogenesis), and related neural development activities (synaptic depression, social behavior). The common theme appears to be developmental signaling that governs neural connectivity and tissue morphogenesis, aided by adhesion dynamics and cAMP-responsive pathways. The label emphasizes the dominant axis\u2014axon guidance and morphogenesis\u2014while remaining concise.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0071372","count":2},{"id":"GO:0014028","count":2},{"id":"GO:0033628","count":2}]},{"hash":"1904997489373557691","title":"Membrane ion and metabolite transporters","description":"These proteins cluster around transmembrane transport functions, with GO terms covering sodium, potassium, nitrite, nitrate, and phosphate transport, plus metabolite transport such as fucose and 4-hydroxyphenylacetate, and even neurotransmitter loading into synaptic vesicles. The common theme is membrane transport activity across diverse substrates, suggesting a cohesive group of transporter proteins. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0071805","count":2}]},{"hash":"1172862941855953452","title":"Signaling and cell division regulators","description":"The listed GO terms cluster around regulation of diverse signaling pathways (extrinsic apoptotic signaling via NF-kappaB and Hedgehog/Smoothened signaling) and processes linked to cell division (cytokinesis, mitotic spindle assembly), with additional hints at development and lysosomal functions. This points to a broad set of regulatory roles governing signaling and chromosome/cell-cycle events, rather than a single specific function. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0045880","count":2},{"id":"GO:0048168","count":2}]},{"hash":"1508238307789504811","title":"Ubiquitin-Proteasome Regulation of Mitosis and DNA Repair","description":"The terms cluster around ubiquitin-dependent protein degradation via the proteasome, especially in mitotic control (G2/M transition, chromosome segregation) and DNA repair (NER, postreplication repair), plus ubiquitin linkages (K27, K29) and cytoplasmic quality control. These together suggest a core function: ubiquitin-proteasome\u2013mediated regulation of mitosis and genome maintenance.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":10},{"id":"GO:0007059","count":10},{"id":"GO:0010458","count":10},{"id":"GO:0000086","count":10},{"id":"GO:0016032","count":10}]},{"hash":"1785968970945737438","title":"mRNA processing and translational regulation","description":"The cluster centers on post-transcriptional mRNA maturation steps\u2014from export and splicing to poly(A) tail regulation and stability\u2014coupled with control of translation initiation. The presence of IRES/viral translation terms reinforces translational regulation, while spliceosome/processome terms reflect upstream mRNA processing; an incidental blastocyst term is likely unrelated.","confidence":"High","size":10,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0010610","count":1}]},{"hash":"126765678751393374","title":"Spliceosome and RNA processing","description":"This cluster is dominated by GO terms tied to mRNA splicing via the spliceosome and related RNA processing steps (splicing regulation, snRNP assembly, and mRNA decapping/deadenylation, plus tRNA processing). The strongest signals are spliceosome-mediated RNA maturation activities, with some accompanying nuclear processes that fit within a nuclear RNA metabolism theme.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0000381","count":5},{"id":"GO:0051170","count":5},{"id":"GO:0009414","count":5},{"id":"GO:0070317","count":5}]},{"hash":"836868823073718602","title":"Unknown","description":"There are no GO terms or top terms provided for this cluster, so there is no clear shared function to define a label. The minimal edge count and lack of triangles also offer little functional signal, supporting an Unknown assignment.","confidence":"","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"2184407578156082436","title":"Neural development and actin cytoskeleton dynamics","description":"The top terms strongly point to neural development (brain and spinal cord) and actin cytoskeleton remodeling via Arp2/3 complex-mediated nucleation, with accompanying signals related to cell proliferation and GTPase activity. While several chromatin modification and rRNA maturation terms appear, the dominant theme ties neural development to cytoskeletal dynamics, suggesting a cluster of proteins involved in neural tissue development with actin remodeling. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034314","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0016575","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1191025121361285823","title":"Proteoglycan glycosylation and neural development","description":"GO terms point to proteoglycan biosynthesis (chondroitin sulfate and dermatan sulfate) and glycosylation processes, with additional links to neural development (neuronal stem cell maintenance, cortical neuron migration) and leukocyte migration. This suggests a cohesive theme centered on proteoglycan/glycan biosynthesis and function in the extracellular matrix that influences neural development and immune cell trafficking.","confidence":"Medium","size":10,"edges":12,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0050650","count":2},{"id":"GO:0050651","count":2},{"id":"GO:0036071","count":2},{"id":"GO:0002361","count":2}]},{"hash":"319782031853927758","title":"Redox Regulation of Spermatogenesis","description":"The proteins are enriched for redox-related processes (removal of superoxide radicals, hydrogen peroxide response, cellular redox homeostasis, oxidant detoxification, peptidyl-cysteine oxidation) and male germline development (spermatogenesis, male gonad development, regulation of male germ cell proliferation), suggesting a module where redox control intersects with spermatogenesis and germ cell maturation. The presence of I-kappaB phosphorylation hints at redox-responsive signaling (e.g., NF-kB) contributing to these processes, supporting a cohesive label focused on redox regulation of male germline development.","confidence":"High","size":10,"edges":42,"triangles":98,"max_degree":9,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0019430","count":5},{"id":"GO:0007283","count":5},{"id":"GO:0070301","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0022417","count":5}]},{"hash":"722181581299380487","title":"Fucosylation-driven glycosylation in neural-immune regulation","description":"Based on the top GO terms, the cluster centers on glycosylation, particularly fucose-containing glycan biosynthesis and protein glycosylation (N-glycan fucosylation, Lewis A epitope biosynthesis). There are concurrent neural development and immune processes (synaptic potentiation, neuronal migration, regulatory T cell differentiation, leukocyte migration), suggesting glycans and fucose modifications modulate both neural signaling and immune cell behavior. This points to a cohesive theme around glycosylation-driven regulation across neural and immune contexts.","confidence":"Medium","size":10,"edges":12,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1900273","count":2},{"id":"GO:0036071","count":2},{"id":"GO:0002361","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0002522","count":2}]},{"hash":"871352251554093686","title":"Unknown","description":"The terms span host entry, immune signaling, development (organs, heart, thyroid response), and neural junction components, with no single unifying function tying the proteins together; plus there are no edges, suggesting no cohesive module. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0002175","count":2}]},{"hash":"901387266127921093","title":"Unknown","description":"The Top Terms are highly diverse, spanning potassium transport, telomere maintenance, muscle stretch response, fat cell differentiation, RNA processing, cell migration, and immune signaling. There is no single coherent biological process or pathway that ties these GO terms together for this cluster, suggesting mixed functions or annotation noise. Therefore no specific intuitive label can reliably capture a common theme.","confidence":"","size":10,"edges":20,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0032212","count":2}]},{"hash":"1795304854900630228","title":"Unknown","description":"The GO terms are highly diverse, including lipid metabolism (triglyceride homeostasis, glycolipid biosynthesis) and leptin signaling, but also heart development, muscle satellite cell proliferation, transcription, antibiotic response/biosynthesis, and neuron adhesion. There isn\u2019t a single coherent function uniting these terms, so a concise, interpretable cluster label isn\u2019t evident.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070328","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0014842","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0044320","count":2}]},{"hash":"1001542321668312660","title":"T cell signaling and immune regulation","description":"This cluster is dominated by GO terms tied to adaptive immune signaling, especially T cell receptor signaling and CD8+ T cell proliferation. It also includes regulatory terms for innate signaling (negative regulation of TLR9) and cross-talk with broader signaling pathways. While there are some developmental pathway terms present (nervous system/kidney development, Slit/Robo and Smoothened signaling), the strongest and most coherent signal is T cell\u2013related immune activation, justifying the label.","confidence":"Medium","size":10,"edges":28,"triangles":42,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":8},{"id":"GO:0048671","count":6},{"id":"GO:0034164","count":6},{"id":"GO:0060116","count":6},{"id":"GO:0007399","count":6}]},{"hash":"1127407014678441216","title":"DNA Replication and Telomere Maintenance","description":"This cluster centers on DNA replication and telomere maintenance, with terms like replication fork progression and reversal, RNA primer removal in mitotic replication, DNA strand elongation during mitosis, and telomere maintenance via telomerase. The co-occurrence of DNA recombination and mitochondrial-related maintenance hints at broad genome integrity roles during replication, making this a coherent replication/teleomere stability module.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032211","count":2},{"id":"GO:1903469","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0000723","count":2},{"id":"GO:0071932","count":2}]},{"hash":"1557820365596112690","title":"Amino acid and lipid metabolism with vitamin biosynthesis","description":"This cluster is dominated by metabolic processes across amino acid and lipid pathways and vitamin biosynthesis. Several GO terms point to catabolic pathways for amino acids (L-valine, phenylacetate) and to fatty acid beta-oxidation, while vitamin biosynthesis terms cover menaquinone and phylloquinone production; antibiotic biosynthetic process also appears, suggesting secondary metabolism. A couple of terms touch on nutrient stress responses and mitophagy, but the strongest shared signal is core metabolism and biosynthesis, which supports labeling this cluster as a metabolic module rather than a signaling or transport module.","confidence":"Medium","size":10,"edges":9,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0010124","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0006635","count":3}]},{"hash":"1212880826109398964","title":"Pol II transcription and translation machinery","description":"Top GO terms cluster around transcription initiation by RNA polymerase II and RNA processing, and prominently include translation and mitochondrial translation as well as a diphthamide modification of a translation factor, suggesting a cohesive theme from transcription to translation. Some terms appear ancillary to core gene-expression processes, but the primary signal ties transcription initiation to translation mechanisms.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042795","count":2},{"id":"GO:0006367","count":2},{"id":"GO:0032543","count":1},{"id":"GO:0000388","count":1},{"id":"GO:0017183","count":1}]},{"hash":"355122719750477004","title":"Chromatin modification and mitotic chromosome segregation","description":"This cluster is dominated by GO terms tied to chromatin regulation (histone acetylation and CENP-A\u2013containing chromatin assembly) and mitosis-related processes (microtubule-based movement), suggesting a shared theme of chromatin remodeling during cell division and chromosome segregation. Some terms like rRNA maturation and signaling-related processes are present but appear less central to the core theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043981","count":6},{"id":"GO:0043982","count":6},{"id":"GO:0043966","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0000466","count":5}]},{"hash":"1918343563859501125","title":"ECM Remodeling and Tissue Morphogenesis","description":"The cluster is dominated by GO terms for collagen fibril organization and catabolic processes, cuticle development linked to collagen, and various tissue morphogenesis events (skin and oviduct). This points to extracellular matrix remodeling and developmental tissue formation as the core theme, with supporting signals related to adhesion and signaling pathways. The presence of oxidative stress detection and signaling terms aligns with cellular responses during remodeling, but the primary signal remains ECM-driven morphogenesis.","confidence":"High","size":10,"edges":21,"triangles":15,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070994","count":4},{"id":"GO:0010743","count":4},{"id":"GO:0043589","count":4},{"id":"GO:0070208","count":4},{"id":"GO:0030199","count":4}]},{"hash":"1444658870922226071","title":"Unknown","description":"The GO terms span neural development, innervation, kidney and epithelial processes, signaling pathway regulation, smooth muscle contraction, and even a bacterial biosynthetic process, suggesting no single cohesive function for the cluster. The lack of inter-protein edges supports this by implying no strong functional linkage among members.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":5},{"id":"GO:0060384","count":5},{"id":"GO:0032836","count":5},{"id":"GO:0061580","count":5},{"id":"GO:0040037","count":5}]},{"hash":"871297423538470575","title":"Vertebrate embryonic morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes in vertebrates, including heart morphogenesis, hindbrain and inner ear morphogenesis, forelimb morphogenesis, and retinoic acid receptor signaling, which is pivotal for embryonic patterning. While some metabolism-related terms appear, the dominant signal is embryonic development and morphogenesis.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048384","count":10},{"id":"GO:0019285","count":10},{"id":"GO:0003007","count":10},{"id":"GO:0035115","count":10},{"id":"GO:0010133","count":10}]},{"hash":"894670161638314936","title":"Developmental vesicle trafficking and autophagy","description":"The cluster shows strong signals for endomembrane transport between the ER and Golgi and endosome-to-Golgi pathways, plus autophagy, indicating a core role in vesicle trafficking and organelle maintenance. Development-related terms like dendrite development and skeletal system development suggest these trafficking processes are relevant in developmental contexts, possibly with links to signaling (e.g., PCP/Wnt) and GTPase regulation. Overall, the proteins likely function together in the endomembrane system with developmental implications.","confidence":"Medium","size":10,"edges":12,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016358","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0045212","count":2},{"id":"GO:0034498","count":2}]},{"hash":"1789975084363621479","title":"Microvilli and Epithelial Morphogenesis","description":"The top GO terms cluster around microvillus assembly/organization and epithelial tissue morphogenesis (microvillus assembly, follicle cell microvillus organization, adherens junction regulation, plasma membrane localization, organ morphogenesis). This suggests a cohesive theme of epithelial surface architecture and developmental shaping, with signaling responses (cAMP, thyroid hormone) providing regulatory context. Some terms are more peripheral (LDL clearance, antibacterial peptide regulation) but do not override the main epithelial-morphogenesis pattern.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071320","count":4},{"id":"GO:0002814","count":4},{"id":"GO:0030033","count":3},{"id":"GO:0032529","count":3},{"id":"GO:1903392","count":3}]},{"hash":"1667793071232350206","title":"Multi-tissue Development and Actin Cytoskeleton","description":"This cluster\u2019s top GO terms repeatedly point to development across multiple tissues (ear, neuron, muscle, bone, vagina) and to actin cytoskeleton organization/remodeling, with some apoptotic and growth signaling terms. The unifying theme appears to be developmental programs coupled with cytoskeletal dynamics, rather than a single tissue-specific function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0007527","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0018107","count":2},{"id":"GO:0043583","count":2}]},{"hash":"282365978081667973","title":"Melanocyte Development & Neural Crest Migration","description":"Most terms point to pigment cell biology and neural crest derivatives: melanocyte differentiation and migration, and neural crest cell migration, suggesting a coherent program of melanocyte development from neural crest lineage. Some immune-related terms appear, but they seem peripheral to the core theme of pigment cell development and neural crest migration.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030318","count":3},{"id":"GO:0097067","count":3},{"id":"GO:0032762","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0036486","count":3}]},{"hash":"1694848821464787481","title":"Neural Vision and Cocaine-Response Signaling","description":"This cluster centers on neural signaling related to vision (visual learning and perception) and dopaminergic transmission, with terms like behavioral response to cocaine and ERK signaling, suggesting reward-associated neural processing. While a few terms (macrophage chemotaxis, heart development) are less connected, the dominant theme is sensory/visual processing and dopaminergic reward signaling, supporting the chosen label.","confidence":"Medium","size":10,"edges":16,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":10},{"id":"GO:0007601","count":9},{"id":"GO:0010759","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0070374","count":9}]},{"hash":"1331710778157025860","title":"Axon guidance and neural crest migration","description":"This cluster is dominated by terms related to axon extension, axon guidance, neuron projection, and neural crest cell migration (semaphorin-plexin signaling, axonal fasciculation, Purkinje layer development). While a heart development term appears, the strongest signal is neuronal pathfinding and neural crest\u2013driven migration, suggesting a cohesive theme of axon guidance during neural development.","confidence":"High","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0021637","count":2},{"id":"GO:0097490","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0090036","count":2}]},{"hash":"2239859520622456610","title":"IGF receptor and PI signaling components","description":"This cluster\u2019s GO terms center on growth-factor receptor signaling (IGF pathway), phosphatidylinositol-mediated signaling, and IP3 biosynthesis, suggesting involvement in receptor-initiated phosphoinositide signaling. While several terms touch on immune signaling and cell-cycle processes, the common theme is signaling cascades driven by PI pathways and growth factor receptors.","confidence":"Medium","size":10,"edges":10,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0000086","count":1},{"id":"GO:0003073","count":1},{"id":"GO:0050859","count":1}]},{"hash":"1923862999815786706","title":"Membrane ion transport and cyclic nucleotide signaling","description":"These proteins cluster around membrane-associated processes: sodium ion import and potassium ion transport, and signaling through cAMP and cGMP, including regulation of guanylyl cyclase pathways. Developmental and skin terms appear but the dominant theme ties to ion transport coupled with cyclic nucleotide signaling, suggesting a membrane signaling module with developmental/sensory context.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0098719","count":5},{"id":"GO:0043588","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0071320","count":4}]},{"hash":"653841078036087972","title":"Plant arabinogalactan protein glycosylation","description":"The top GO terms point to glycosylation and biosynthesis of plant cell-surface glycans, notably arabinogalactan proteins (AGPs) and related hydroxyproline O-glycosylation pathways (poly-N-acetyllactosamine, Lewis A). Several terms tie to plant epidermal development and cell-wall\u2013associated processes (root hair formation, seed coat mucilage biosynthesis, maintenance of polarity in follicular epithelium\u2013like structures). Together these suggest a cohesive theme of plant AGP metabolism and glycosylation shaping cell-surface properties and development.","confidence":"High","size":10,"edges":12,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030311","count":4},{"id":"GO:0007299","count":4},{"id":"GO:0080147","count":4},{"id":"GO:0010493","count":4},{"id":"GO:0042248","count":4}]},{"hash":"1923999792729890376","title":"RNA processing and developmental regulation","description":"Based on the GO terms, the cluster includes RNA processing and transcriptional regulation (spliceosome splicing, ribosomal subunit export, regulation of Pol II DNA binding) along with several development-related processes (pancreatic cell development, cartilage morphogenesis, left-right pattern formation), suggesting a theme of gene expression control tied to development rather than a single metabolic pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0019391","count":1},{"id":"GO:0000272","count":1},{"id":"GO:0005990","count":1},{"id":"GO:0000398","count":1}]},{"hash":"1169423255465856688","title":"Mitochondrial Metabolite Transport and Fission","description":"The top GO terms indicate transport of various metabolites and ions (ADP, phosphate, CoA, TPP, Mg, Fe) across the mitochondrial membrane, along with nucleotides import into mitochondria and processes related to mitochondrial membrane fission/localization. This combination points to a cluster of proteins involved in mitochondrial transport activities and membrane remodeling/fission, making this label both specific and representative.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":4},{"id":"GO:0070542","count":4},{"id":"GO:1990519","count":4},{"id":"GO:0035435","count":4},{"id":"GO:1990616","count":4}]},{"hash":"64967472526002536","title":"Neural development and synapse assembly","description":"This cluster shows neural developmental and synaptic activity signals, highlighted by corpus callosum development and positive regulation of synapse assembly, along with dopamine-related neuronal responses. While immune-related terms (defense against bacteria, dsRNA, LPS) appear, the strongest, most cohesive signal centers on neural development and synapse organization, suggesting a neural-structural function with gene regulation underpinning these processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0022038","count":3},{"id":"GO:0033160","count":3}]},{"hash":"1716165224090605208","title":"Unknown","description":"This cluster has no GO terms listed to define a shared function, so it\u2019s not possible to assign a meaningful label beyond Unknown. The proteins show some network structure, but without enrichment signals or common GO terms, a reliable characterization cannot be inferred.","confidence":"","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"1096733841098891945","title":"Rap GTPase Signaling and Endosome Trafficking","description":"The GO terms center on Rap-mediated signal transduction and positive regulation of GTPase activity, along with protein localization to endosomes, suggesting a core theme of intracellular signaling governed by small GTPases and vesicle trafficking. Additional terms touch on neuronal signaling (dopamine uptake, dendrite development), junction assembly, and broader signaling pathways (TORC2, androgen signaling), which, while diverse, can be linked to regulated trafficking and signaling processes in cells. This supports a cohesive but broad function label rather than a single highly specific process.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051586","count":2},{"id":"GO:0036010","count":2},{"id":"GO:1903434","count":2}]},{"hash":"2204948876766046622","title":"Membrane Receptor Signaling and Transport","description":"These proteins cluster around membrane-localized signaling pathways (integrin, Wnt, interferon, M-CSF, angiotensin) and multiple membrane transport processes (antimonite/arsenite, pyruvate, organic anions). The shared theme appears to be cell-surface signaling coupled with transport, suggesting a set of membrane proteins that coordinate growth, immune responses, and metabolism.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001558","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0015699","count":2},{"id":"GO:0015700","count":2},{"id":"GO:0006849","count":2}]},{"hash":"467068193163663520","title":"Ceramide transport and glycosphingolipid metabolism","description":"This cluster centers on sphingolipid handling, with GO terms highlighting ceramide transport (ER to Golgi), glycosphingolipid metabolic processes, and related lipid transport. While a few terms touch on glycosylation and signaling, the core theme appears to be ceramide/sphingolipid trafficking and metabolism in the secretory pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046329","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0072488","count":1}]},{"hash":"261857513357047058","title":"Vertebrate embryonic neural and muscular development","description":"The terms cluster around embryonic development of the nervous system and muscle/axial structures (somite, myotome, axis specification) with specific brain and heart-related structures mentioned (midbrain, globus pallidus, AV node, oculomotor nerve) and peripheral nervous system neuron development. This points to a cohesive theme of vertebrate neural and muscular/structural formation during early development.","confidence":"High","size":9,"edges":12,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032330","count":3},{"id":"GO:0048935","count":3},{"id":"GO:0021759","count":3},{"id":"GO:0061055","count":3},{"id":"GO:0001757","count":3}]},{"hash":"512659096486912268","title":"Neuronal differentiation and secretory signaling","description":"This cluster combines neural development signals (Purkinje cell differentiation, medial motor column neuron differentiation, ectoderm formation) with processes tied to secretion/exocytosis and cytoskeletal regulation (platelet aggregation, exocytosis, actin filament depolymerization), and modulated by hormonal pathways (thyroid hormone response, glucocorticoid signaling), suggesting a theme of neural development coordinated with secretory and hormone-responsive signaling.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070527","count":6},{"id":"GO:0006887","count":5},{"id":"GO:0030835","count":5},{"id":"GO:0097067","count":5},{"id":"GO:0048936","count":5}]},{"hash":"1426881499214027623","title":"Neural development and glial signaling","description":"This cluster is driven by neural-related terms: astrocyte activation, myelination in the peripheral nervous system, and regulation of presynaptic calcium, pointing to neural development and glial signaling. Additional terms on developmental processes (blastocyst development, adenohypophysis morphogenesis) and proliferation regulation suggest broader developmental signaling; a few outliers like karyogamy may reflect noise. Overall, the theme centers on nervous system development and glial function.","confidence":"Medium","size":9,"edges":30,"triangles":50,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000742","count":9},{"id":"GO:0048143","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0001824","count":5},{"id":"GO:0048855","count":5}]},{"hash":"1368353333877983373","title":"ECM-Integrin Signaling and Neural Guidance","description":"The cluster is driven by themes of extracellular matrix components and adhesion signaling (collagen fibril organization, integrin signaling) together with neural development features (anterior/posterior axon guidance, synapse assembly). These shared GO terms suggest a cohesive role in ECM-mediated neural connectivity, with a few outliers that may reflect multifunctional proteins. ","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0033564","count":1},{"id":"GO:0002448","count":1}]},{"hash":"1136150638001630296","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for translation and ribosome biogenesis/assembly (GO:0006412, GO:0042273, GO:0042254, GO:0042256) and rRNA processing (GO:0006364, GO:0000447, GO:0016236), plus related ribosomal functions like cytosolic ribosome assembly and mitochondrial translation termination. These collectively point to a core theme of ribosome production and protein synthesis, with a few peripheral terms reflecting broader cellular processes.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042273","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0046677","count":2}]},{"hash":"2154707654449018856","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006293","count":2},{"id":"GO:0006294","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0006295","count":2},{"id":"GO:0006296","count":2}]},{"hash":"382822450273509594","title":"DNA Replication and Telomere Maintenance","description":"The cluster predominately features GO terms tied to DNA replication, telomere maintenance, replication fork progression and reversal, and RNA primer removal in mitotic replication, suggesting a cohesive set of proteins involved in genome integrity during replication, especially at telomeres.","confidence":"High","size":9,"edges":11,"triangles":7,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032211","count":5},{"id":"GO:1903469","count":5},{"id":"GO:0006310","count":5},{"id":"GO:0000723","count":5},{"id":"GO:0071932","count":5}]},{"hash":"512483391177781569","title":"Neural Development and Connectivity","description":"The top GO terms cluster around nervous system development and neuron-specific functions, including nervous system development, CNS development, neuron cell-cell adhesion, and clustering of voltage-gated potassium channels, pointing to neural formation, connectivity, and excitability. Some terms (spermatid development and immune regulation) are outliers, but the dominant signal supports a neural development/connectivity theme.","confidence":"Medium","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0007286","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0007417","count":2}]},{"hash":"518785023879924194","title":"Cytoskeletal dynamics and cell polarity regulation","description":"The top terms point to Rho GTPase signaling and actin organization (regulation of Rho protein signal transduction, positive regulation of GTPase activity, actin filament organization) and to cell shape/polarity control, with membrane remodeling suggested by plasma membrane tubulation. Although some heterochromatin-related terms appear, the dominant signal is actin cytoskeleton remodeling governed by Rho/GTPases, consistent with cytoskeletal dynamics and polarity maintenance.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0097320","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0006348","count":2}]},{"hash":"1379895626101302755","title":"Unknown","description":"The GO terms span metabolism (glucose response), exocytosis and signaling (calcium-dependent exocytosis, PI3K activity, Rho signaling), ion transport (potassium), immune/ RNA sensing (dsRNA response), growth and development (pseudohyphal growth, nervous system and heart development), and sensory perception, with no single cohesive function tying all proteins together. ","confidence":"","size":9,"edges":13,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071333","count":7},{"id":"GO:0045956","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0006813","count":7},{"id":"GO:0043330","count":7}]},{"hash":"2062383488887316005","title":"Neural development and synapse formation","description":"This cluster is dominated by neural development and synaptic organization terms, such as corpus callosum development, axonogenesis, and positive regulation of synapse assembly, indicating involvement in neuron growth and synaptic wiring. Potassium ion transport and cellular response to dopamine point to neuronal signaling and excitability, reinforcing a neural function theme; several immune-related terms appear but are less central to the core pattern here.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":6},{"id":"GO:0022038","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0043330","count":5},{"id":"GO:1903351","count":5}]},{"hash":"609235512106334450","title":"Nuclear RNA processing and surveillance","description":"Most of the top GO terms point to nuclear RNA metabolism and quality control, including nuclear mRNA and snRNA catabolic processes, nuclear mRNA surveillance, and post-transcriptional tethering of RNA Pol II to DNA at the nuclear periphery. There are also terms related to broader nuclear regulation (e.g., dosage compensation). A couple of outlier terms (telomeric D-loop disassembly, plastid DNA replication) may reflect annotation noise or dual-targeting, but the dominant signal is clearly RNA processing and surveillance in the nucleus.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061820","count":3},{"id":"GO:0033259","count":2},{"id":"GO:0098530","count":2},{"id":"GO:1902466","count":2},{"id":"GO:0040009","count":2}]},{"hash":"1699379826402150242","title":"Mitochondrial lipid remodeling and energy metabolism","description":"This cluster\u2019s top GO terms are dominated by lipid biosynthesis and lipid remodeling (phosphatidylcholine remodeling, cardiolipin remodeling, ether lipid biosynthesis, CDP-diacylglycerol biosynthesis, triglyceride biosynthesis, cutin biosynthesis) along with mitochondrial ATP synthesis, pointing to a theme of mitochondrial lipid metabolism linked to energy production. The presence of platelet activating factor biosynthesis and interleukin-2 production suggests lipid-mediated signaling roles as well. Taken together, the proteins appear to function in mitochondria-associated lipid remodeling and energy metabolism rather than a single signaling pathway or developmental process alone.","confidence":"Medium","size":9,"edges":15,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021587","count":4},{"id":"GO:0006663","count":4},{"id":"GO:0042775","count":4},{"id":"GO:0010143","count":4},{"id":"GO:0036151","count":4}]},{"hash":"528532097165986288","title":"Ubiquitin-regulated Wnt signaling (PCP)","description":"The top GO terms point strongly to protein deubiquitination and regulation of (canonical) Wnt signaling, including the planar cell polarity pathway, suggesting a cluster of proteins that modulate Wnt signaling through ubiquitin-related mechanisms. Some terms about ubiquitin ligase activity in cell cycle regulation and distant notes on stress or immune responses appear as secondary connections, but the core theme is ubiquitin-mediated control of Wnt/PCP signaling.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:0060071","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051437","count":6},{"id":"GO:0002862","count":6}]},{"hash":"742278654518500171","title":"Pituitary-Neural Development","description":"This cluster is dominated by GO terms related to pituitary gland development, multicellular organism development, neuron maturation, neural precursor cell proliferation, and hormone biosynthesis, pointing to coordinated neuroendocrine differentiation and neural development. While some terms like lipopolysaccharide response and tRNA modification appear, the strongest signals center on pituitary and neural development and hormone production, suggesting a cohesive developmental module rather than immune or metabolic specificity. ","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0032496","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1832518986282878247","title":"Mitochondrial Function and Lipid Signaling","description":"The top GO terms cluster around mitochondria (mitochondrion inheritance, cardiolipin metabolism) and lipid/membrane processes (cholesterol biosynthesis regulation, membrane raft localization) with associated signaling (PKC signaling) and some broad cell-process terms, suggesting a theme of mitochondria-linked lipid signaling rather than a single precise pathway.","confidence":"Medium","size":9,"edges":23,"triangles":35,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":8},{"id":"GO:0072249","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0045541","count":7},{"id":"GO:0032623","count":7}]},{"hash":"687460594684127872","title":"Germline Transcriptional Regulation","description":"The top GO terms are dominated by transcription-related processes (DNA-templated transcription, regulation of transcription by RNA Pol II, and positive regulation of DNA binding), with a germline context suggested by spermatogenesis and male gonad development. Some oxidative-stress\u2013related terms (removal of superoxide radicals, cellular response to hydrogen peroxide) may reflect stress-responsive transcription in germ cells. Overall, the cluster centers on transcriptional control in a germline setting, justifying this label.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0030091","count":1},{"id":"GO:0019430","count":1}]},{"hash":"2117945865019893184","title":"Unknown","description":"The GO terms are diverse (ubiquitination, neurotransmitter transport, a mostly obsolete topoisomerase regulation term, and protein homooligomerization) with no clear common function or pathway connecting them. The cluster also has a minimal edge count and no triangles, indicating a loose collection rather than a cohesive module. ","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0006836","count":1},{"id":"GO:2000372","count":1},{"id":"GO:0051260","count":1}]},{"hash":"1226767190910907824","title":"Transcriptional Regulation and Cell Cycle Control","description":"The top terms emphasize regulation of transcription (RNA Pol II and DNA-templated transcription), cell cycle control, and apoptosis, with additional signals related to Wnt signaling and development. This suggests proteins that broadly govern gene expression, cell proliferation, and survival decisions during development, rather than a single enzymatic function. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0090263","count":2},{"id":"GO:0043523","count":2},{"id":"GO:0060712","count":2},{"id":"GO:0007058","count":2}]},{"hash":"2142961265945561372","title":"Developmental transcriptional regulators","description":"GO terms point to neural and broad embryonic development (brain and nervous system, neural crest, oligodendrocyte differentiation) and to transcriptional regulation. The common thread is proteins coordinating gene expression during development, especially neural lineages. Hence Developmental transcriptional regulators","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007286","count":2}]},{"hash":"426965238522706624","title":"RNA Polymerase\u2013Associated Transcription Machinery","description":"Most terms cluster around transcription by RNA polymerases I\u2013III, including Pol II transcription, preinitiation complex assembly, transcription elongation fidelity, RNA-templated transcription, and Pol III\u2013driven tRNA transcription, with notes on mRNA export regulation and Pol I termination. While chlorophyll biosynthesis appears as a minor outlier, the dominant theme is proteins involved in transcription initiation, elongation, and RNA processing, suggesting this cluster represents transcription machinery components. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0001193","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0051123","count":1}]},{"hash":"2054453834958538304","title":"PARP-Mediated PARylation and DNA Damage Response","description":"Top terms point to PARylation (poly-ADP-ribosylation) and its ties to the DNA damage response (p53-mediated signaling). The explicit PAR-related GO terms suggest the cluster groups PARP family\u2013related activities, with some developmental GO terms possibly indicating broader functional associations.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990966","count":2},{"id":"GO:0070212","count":2},{"id":"GO:2001170","count":2},{"id":"GO:0006471","count":2},{"id":"GO:0051103","count":2}]},{"hash":"1967256942925601835","title":"Cytoskeleton remodeling and chromatin assembly","description":"The top GO terms point to actin nucleation and microtubule-based movement (cytoskeletal dynamics) together with CENP-A\u2013containing chromatin assembly (chromatin organization), plus regulation of GTPase activity that often links signaling to the cytoskeleton. Although a couple terms seem development-focused, the core pattern favors a label capturing both cytoskeleton remodeling and chromatin dynamics. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0021510","count":2}]},{"hash":"268065734407614079","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0039651","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0034415","count":1}]},{"hash":"1913469365000311073","title":"Developmental morphogenesis and tissue organization","description":"Developmental and structural themes emerge from the GO terms: various morphogenesis and organ/tissue development processes (egg chamber growth, oocyte axis specification, salivary gland branching, skeletal muscle regeneration, myelination) combined with cytoskeletal and basement membrane organization (microtubule anchoring, basement membrane organization) and regulation of key signaling pathways (MAPK, PI3K/AKT). Together, these suggest a cluster related to how tissues develop and maintain architecture through coordinated signaling and cytoskeletal dynamics.","confidence":"Medium","size":9,"edges":16,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007314","count":1},{"id":"GO:0007295","count":1},{"id":"GO:0033292","count":1},{"id":"GO:0051898","count":1},{"id":"GO:0060445","count":1}]},{"hash":"484589156856320290","title":"Rab GTPase\u2013driven vesicle trafficking and Golgi transport","description":"This cluster is dominated by terms for small GTPase\u2013mediated signaling, endocytic recycling, retrograde transport from endosomes to the Golgi, and Golgi localization, suggesting a core theme of vesicle trafficking and Golgi dynamics. Additional terms linking migration and morphogenesis (Wnt signaling, tangential migration, branching morphogenesis) likely reflect how intracellular trafficking supports neuronal development, while autophagy and mechanical stimulus terms indicate broader cytoskeletal and organelle remodeling connected to trafficking.","confidence":"High","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0090263","count":3},{"id":"GO:0022028","count":3},{"id":"GO:2000172","count":3},{"id":"GO:1902902","count":3}]},{"hash":"242311131636907829","title":"Xylose and arabinose sugar catabolism","description":"This cluster\u2019s top GO terms are dominated by catabolic processes for pentose and sugar acids, especially D-xylose and D-arabinose, feeding into D-xylulose-5-phosphate and related intermediates. Several terms describe arabinose/xylulose/D-gluconate/xylose metabolism, suggesting a cohesive theme of carbohydrate catabolism and pentose phosphate pathway\u2013adjacent flux. A couple of outliers (tRNA wobble thiolation and nicotinate nucleotide salvage) are present but do not redefine the overall functional signal. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019358","count":2},{"id":"GO:0002143","count":2},{"id":"GO:0019301","count":2},{"id":"GO:0019569","count":2},{"id":"GO:0046167","count":2}]},{"hash":"940763660606606000","title":"Cyclic nucleotide signaling (cAMP/cGMP)","description":"The top GO terms are dominated by cGMP biosynthetic process and cAMP biosynthetic process, along with intracellular signal transduction and signaling responses (forskolin, blue light, hypoxia). This suggests the proteins participate in cyclic nucleotide\u2013mediated signaling and its downstream transcriptional regulation, despite no direct interactions shown among them in this cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006182","count":7},{"id":"GO:0006355","count":7},{"id":"GO:0030828","count":7},{"id":"GO:1900194","count":7},{"id":"GO:0009785","count":7}]},{"hash":"2281195476350956771","title":"Unknown","description":"The GO terms are mixed: histone modification and chromatin-related terms appear alongside spindle assembly, spermatid differentiation, and immune-tolerance terms, with several marked obsolete. This lack of a consistent, unifying function across the cluster makes it impossible to assign a specific, representative name.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901674","count":3},{"id":"GO:2000410","count":3},{"id":"GO:0080182","count":3},{"id":"GO:1901536","count":3},{"id":"GO:0051225","count":3}]},{"hash":"2290073397822424315","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034247","count":1},{"id":"GO:0097011","count":1},{"id":"GO:0003342","count":1},{"id":"GO:0044344","count":1},{"id":"GO:0002181","count":1}]},{"hash":"1470178713577093108","title":"Ubiquitin-Dependent DNA Repair and Proteostasis","description":"This cluster is dominated by GO terms linking ubiquitin-proteasome\u2013mediated protein quality control with DNA damage tolerance and repair (including error-free and error-prone translesion synthesis, and various ubiquitin linkages). While some terms are obsolete or tangential, the strongest signals connect ubiquitination to genome maintenance and proteostasis.","confidence":"High","size":8,"edges":18,"triangles":15,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042275","count":2},{"id":"GO:0071629","count":2},{"id":"GO:0044314","count":2},{"id":"GO:0035519","count":2},{"id":"GO:0009737","count":2}]},{"hash":"1047103080322947979","title":"Immune Regulation and TNF-NF-\u03baB Signaling","description":"This cluster centers on immune processes: innate immune response, T cell homeostasis and negative/positive regulation of T helper differentiation, lymph node development, and TNF-mediated signaling, including components related to NF-\u03baB activity. Additional terms like response to vitamin D, ubiquitin-dependent proteolysis, and microtubule localization support a broader immune signaling and intracellular regulation theme. Overall, the proteins appear to participate in immune regulation and inflammatory signaling, especially relating to T cells and TNF/NF-\u03baB pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0035372","count":4},{"id":"GO:0050999","count":3},{"id":"GO:0045623","count":3},{"id":"GO:1903265","count":3},{"id":"GO:0048535","count":3}]},{"hash":"62655082589772805","title":"Neural and Muscle Development with Gene Regulation","description":"This cluster clusters proteins involved in skeletal muscle fiber development and brain region development (substantia nigra), with accompanying signals for nitric-oxide synthase regulation and overall gene expression control via chromatin modification (histone acetylation). Despite a few outliers (aging, meiotic movement) the core theme ties development in neural/muscular tissues to transcriptional regulation.","confidence":"Medium","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0051000","count":3},{"id":"GO:0002121","count":3},{"id":"GO:0043983","count":3}]},{"hash":"1207806456130938982","title":"Neuroinflammatory signaling and glial-neural regulation","description":"The terms point to innate immune and cytokine processes (NLRP3 inflammasome assembly, IL-18, IL-2, necroptosis regulation) alongside neural-context processes (glial differentiation, neuromuscular junction regulation) and cellular remodeling (ER organization, microtubule dynamics, cell-cycle regulation), suggesting a theme of neuroimmune signaling coupled with neural remodeling.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0007029","count":2},{"id":"GO:0008582","count":2},{"id":"GO:0045687","count":2}]},{"hash":"882792303266530182","title":"Nuclear Import Machinery and Meiotic Chromosome Dynamics","description":"The GO terms cluster around nuclear transport (NLS-bearing protein import into nucleus, ribosomal protein import, nuclear pore complex assembly) and meiotic chromosome dynamics (centromeric cohesion, spindle elongation), suggesting these proteins function in nucleus import with roles in meiotic chromosome organization.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0042176","count":5},{"id":"GO:0006610","count":5},{"id":"GO:0000060","count":5}]},{"hash":"1111751927493639444","title":"Neuromuscular development and differentiation","description":"The top GO terms are dominated by muscle-related processes (skeletal muscle fiber adaptation, myoblast differentiation) as well as neural development (neurogenesis, nervous system development, myelination) and neuronal transport, suggesting the proteins collectively contribute to neuromuscular development and maturation. A few cell cycle terms appear but do not define the core theme, so the cluster best fits neuromuscular development and differentiation.","confidence":"Medium","size":8,"edges":14,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043503","count":3},{"id":"GO:0032933","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0022008","count":3}]},{"hash":"1719224353742403243","title":"Cross-tissue signaling regulation","description":"The cluster includes GO terms from immune T cell receptor signaling, insulin receptor signaling, endothelial barrier formation, and VEGF signaling, plus regulation of p38 MAPK, cell proliferation, axon regeneration, and neural differentiation. The common theme is regulation of signaling pathways across multiple tissues and contexts (immune, metabolic, vascular, neural). Therefore the label reflects a broad, cross-tissue signaling regulation role.","confidence":"Medium","size":8,"edges":7,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0090557","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0030948","count":4}]},{"hash":"2185039342560133638","title":"Chromatin assembly and mitotic spindle dynamics","description":"This cluster is driven by terms related to centromere-associated chromatin assembly (CENP-A), histone acetylation, and microtubule-based movement, all pointing to chromosome organization during cell division and spindle function. While other terms touch on development and signaling, the core theme centers on chromatin architecture coordinating with mitotic machinery.","confidence":"High","size":8,"edges":19,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0043981","count":2}]},{"hash":"572935904840286202","title":"Unknown","description":"Insufficient functional signal: there are no top GO terms to link the proteins, so I can't derive a coherent shared function for this cluster; the 7 edges suggest possible interactions but without annotation the label must remain Unknown.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"1607062381036736744","title":"Embryonic Organ Morphogenesis","description":"The terms point to development and morphogenesis across multiple embryonic tissues (heart, eye, placenta, cranial skeleton, habenula, prostate, etc.), with macrophage differentiation and estrogen signaling reflecting broader developmental regulation. This suggests a cluster of proteins involved in general embryonic organ formation rather than a single tissue-specific function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021986","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0060527","count":3},{"id":"GO:0003148","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1688552375360569495","title":"Ion and small-molecule transporter cluster","description":"This cluster is dominated by GO terms for transmembrane transport of ions (sodium, potassium, phosphate) and small molecules (nitrite, nitrate, nitrate assimilation), plus a vesicular neurotransmitter loading term and other transporter-associated processes. The shared theme is membrane transport capability across diverse substrates, suggesting a cohesive group of transporter proteins with broad substrate specificity.","confidence":"High","size":8,"edges":14,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3}]},{"hash":"196337733390892027","title":"RNA processing and translation regulation","description":"This cluster centers on RNA metabolism and control of protein synthesis: mRNA export, splicing, processome assembly, poly(A) tail regulation and shortening, translational initiation regulation, and mRNA stability in stress, with ancillary references to viral translation. A single blastocyst formation term is likely incidental. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0010610","count":1}]},{"hash":"193540459640314135","title":"ER-Golgi Vesicle Transport & ER Retention","description":"This cluster is dominated by GO terms for vesicle trafficking between the ER and Golgi, including ER to Golgi transport, retrograde Golgi-to-ER transport, and ER lumen protein retention, with an additional signal of membrane localization toward the plasma membrane (positive regulation of protein localization to plasma membrane) and acetylcholine receptor clustering at skeletal muscle membranes. While a few unrelated regulatory terms appear, the core theme centers on intracellular trafficking and localization of proteins.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071340","count":1},{"id":"GO:0090004","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0006890","count":1}]},{"hash":"733065117069281025","title":"Peroxisomal photorespiration","description":"The top GO terms cluster around photorespiration and peroxisomal carbon metabolism (photorespiration, glycolate catabolic process, fatty acid alpha-oxidation, oxidative photosynthetic carbon pathway), suggesting proteins involved in peroxisomal processing of glycolate/glyoxylate and related redox reactions. A few terms related to ammonia assimilation or isoprenoid biosynthesis appear as peripheral annotations and are less directly connected.","confidence":"Medium","size":8,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009853","count":5},{"id":"GO:0018924","count":5},{"id":"GO:0008299","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0080114","count":5}]},{"hash":"225081598655223946","title":"Renal Transport and Excretion","description":"Based on GO terms such as renal protein absorption, nephrocyte filtration, excretion, and cobalamin transport, the cluster appears aligned with kidney-related transport and homeostasis. Other terms like magnesium ion homeostasis and Golgi to plasma membrane transport are broader but can relate to cellular processing and ion balance that support renal function; a few items (cardiac signaling, osmotic-stress apoptosis) are less directly connected, but do not undermine the overarching renal theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097017","count":1},{"id":"GO:0043001","count":1},{"id":"GO:0015889","count":1},{"id":"GO:0007588","count":1},{"id":"GO:0097206","count":1}]},{"hash":"1027179670851909312","title":"Chromatin Assembly and Remodeling","description":"This cluster shows strong representation of chromatin-related processes: nucleosome assembly, DNA replication-dependent chromatin assembly, transcription initiation-coupled chromatin remodeling, and heterochromatin formation, suggesting a core role in chromatin organization and genome stability; additional links to telomere maintenance and a minor link to DNA repair support this theme.","confidence":"High","size":8,"edges":17,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0051290","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0045815","count":2}]},{"hash":"1063911782489227094","title":"MAPK and PI Signaling Driving Proliferation","description":"The terms cluster around positive regulation of signaling pathways (GTPase activity, ERK/MAPK cascade) and phosphoinositide signaling (PI and IP3 biosynthesis), coupled with processes like cell population proliferation and heart development. This points to a common theme of signaling cascades promoting growth and development, including neuronal signaling (dopamine uptake) and cardiovascular development, with a few outliers such as a cell wall macromolecule related term that is less integrated. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051586","count":3},{"id":"GO:0010513","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1297665905420041447","title":"Mitochondrial energy metabolism and vesicle trafficking","description":"GO terms show strong representation of NAD+ biosynthesis and mitochondrial electron transport (NADH to ubiquinone), indicating energy metabolism. There is also consistent representation of vesicle trafficking processes (synaptic vesicle budding from presynaptic endocytic zone membrane; Golgi to vacuole transport; Golgi inheritance; retrograde vesicle transport from Golgi to ER), suggesting membrane trafficking activities. Some immune/stress responses (response to xenobiotic, lipopolysaccharide, virus) appear but are less central. The combination points to proteins involved in sustaining energy production while coordinating vesicle transport, possibly in neuronal or secretory contexts related to locomotion.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009435","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0016185","count":2}]},{"hash":"1783958379413876795","title":"Organogenesis and developmental signaling","description":"This cluster centers on developmental processes and organ formation, highlighted by terms like metanephros morphogenesis, endodermal fate commitment, cranial skeletal system development, and maintenance of organ identity, as well as Wnt signaling involvement. Additional terms point to related cellular processes (GTPase activity regulation, vesicle trafficking) that commonly accompany morphogenesis. Some terms (e.g., chitin-based larval cuticle pattern formation) may reflect broader or species-specific roles but do not override the prevailing developmental theme.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0071255","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0003338","count":8},{"id":"GO:0001711","count":8},{"id":"GO:0035293","count":8}]},{"hash":"2132089364702391404","title":"Collagen-driven ECM remodeling and morphogenesis","description":"The shared GO terms cluster around collagen-related processes: collagen fibril organization and collagen catabolic process, skin morphogenesis, cuticle development involving collagen, and oviduct morphogenesis, all pointing to extracellular matrix (ECM) organization and connective-tissue/morphogenetic remodeling. Additional terms about protein heterotrimerization and cell adhesion molecule production support a structural and developmental ECM theme, while oxidative stress detection and foam cell differentiation suggest ancillary signaling or immune-context roles. Overall, this set best represents collagen- and ECM-centered tissue morphogenesis and remodeling.","confidence":"Medium","size":8,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070994","count":2},{"id":"GO:0010743","count":2},{"id":"GO:0043589","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0030199","count":2}]},{"hash":"1389224883063174414","title":"Amino acid metabolism","description":"Most of the top GO terms describe amino acid biosynthesis and catabolism (lysine, glutamate, aspartate, alanine) and related central carbon metabolism, suggesting this cluster centers on amino acid metabolism. A few terms point to broader metabolic and regulatory processes, but the dominant theme is amino acid metabolism.","confidence":"High","size":8,"edges":22,"triangles":35,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":4},{"id":"GO:0033512","count":4},{"id":"GO:0006107","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0019551","count":3}]},{"hash":"195995293638480328","title":"Multi-tissue Differentiation and Development","description":"The GO terms show differentiation across multiple tissues (Leydig cells, mammary alveolus, lung epithelium, neurons) alongside general transcription and cell-cycle activity, plus signaling inputs from Wnt and TLR9, and cell polarity maintenance. This pattern suggests a broad developmental differentiation program rather than a single specific function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033327","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0060749","count":2}]},{"hash":"974802494162129504","title":"Endomembrane Vesicle Trafficking","description":"GO terms here cluster around vesicle trafficking within the endomembrane system, including ER-Golgi transport, Golgi-to-endosome transport, endocytosis, and endosome localization, with occasional signaling inputs (Rab-related and GTPase regulation) that modulate these trafficking processes. This combination points to a coherent theme of vesicle movement and cargo routing between organelles, rather than a single enzyme activity. High","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035646","count":2},{"id":"GO:0006623","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1819992414047933010","title":"Fucosylation and Glycoprotein Biosynthesis","description":"Top GO terms cluster around glycosylation and fucose metabolism, including N-glycan fucosylation, protein glycosylation, GPI anchor biosynthesis, Lewis a epitope biosynthesis, and L-fucose catabolic process. This suggests a shared function in glycoprotein maturation and surface decoration with fucose residues. Some terms relate to immune or neural development and pollen germination, which could reflect broader roles of glycosylation or annotation noise. Several terms are obsolete, slightly dampening the signal. Overall, the cluster is best explained by glycosylation/fucose biology, with a Medium level of confidence.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0036071","count":1},{"id":"GO:0002361","count":1},{"id":"GO:0006486","count":1},{"id":"GO:0002522","count":1},{"id":"GO:0021799","count":1}]},{"hash":"478637038773161386","title":"Axon Guidance and Cranial Nerve Development","description":"The terms cluster around neural development and axon pathfinding, with multiple entries about trigeminal and facial nerve structure, branchiomotor neuron axon guidance, and semaphorin-plexin signaling. Additional entries on integrin signaling and VEGF signaling support signaling and remodeling during nerve development. A few terms (like molting-related collagen) may be less directly related, but the dominant theme is axon guidance and cranial nerve morphogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021637","count":3},{"id":"GO:0060666","count":3},{"id":"GO:0018996","count":3},{"id":"GO:1902287","count":3},{"id":"GO:0021612","count":3}]},{"hash":"1240574935324065902","title":"Epidermal differentiation and skin barrier formation","description":"This cluster is mainly driven by epidermal-related terms: keratinization, skin barrier establishment, and hair follicle morphogenesis, with lens fiber development also pointing to ectodermal derivatives. The presence of a few unrelated terms (cardiac, hepatic, mitochondrial regulation) appears as noise, so the strongest cohesive theme is epidermal differentiation and barrier formation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":1},{"id":"GO:0061436","count":1},{"id":"GO:0090201","count":1},{"id":"GO:0097284","count":1},{"id":"GO:0055015","count":1}]},{"hash":"624606726187986401","title":"Neuronal development and transcription regulation","description":"The cluster shows enrichment for DNA-templated transcription and neural development terms (brain and spinal cord), plus microtubule-based movement and histone acetylation, suggesting a set of proteins involved in transcriptional control during neural development and related cellular transport; some terms are obsolete, but the core theme remains neurodevelopmental gene regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0070493","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0021510","count":2}]},{"hash":"229598075796518953","title":"Ubiquitin-Mediated DNA Repair and Protein Quality Control","description":"Proteins in this cluster are annotated with ubiquitination processes (K27- and K29-linked), cytoplasmic protein quality control by the ubiquitin-proteasome system, and DNA damage response pathways (error-free postreplication repair and translesion synthesis). This points to a cohesive role in maintaining genome integrity and protein homeostasis via ubiquitin signaling, with a few peripheral terms likely reflecting broader or cross-species annotations.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042275","count":7},{"id":"GO:0071629","count":7},{"id":"GO:0044314","count":7},{"id":"GO:0035519","count":7},{"id":"GO:0009737","count":7}]},{"hash":"191173582082678089","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"This cluster centers on ubiquitin-mediated protein degradation linked to cell-cycle control, especially SCF-dependent ubiquitination and G2/M transition; these processes point to regulation of mitosis via targeted proteolysis. Some developmental terms appear, but the core signal is proteolysis coordinating mitotic progression.","confidence":"High","size":7,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000086","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070979","count":2}]},{"hash":"790856918640711011","title":"Unknown","description":"The top GO terms span diverse processes\u2014from developmental signals (fat cell differentiation, cardiac muscle proliferation, placenta development, retinoic acid response) to core cellular activities (DNA replication, proteasome assembly, protein homooligomerization) and signaling (p38 MAPK cascade). With only a single edge and no clear cohesive theme, there isn\u2019t a consistent function tying these proteins together, so a specific, intuitive label isn\u2019t supported.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0051260","count":2},{"id":"GO:0050966","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1701642455571913860","title":"Transcription Regulation and ER Trafficking","description":"This cluster mainly features GO terms tied to gene expression control and chromatin state (e.g., regulation of DNA-templated transcription and histone H4 acetylation) and to protein handling/ER lumen retention, suggesting a group of nuclear regulators with links to protein trafficking. Some immune and development terms appear, but they are likely incidental, so the core signal is transcriptional regulation with ER-associated processes.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070231","count":1},{"id":"GO:0002369","count":1},{"id":"GO:0010204","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006621","count":1}]},{"hash":"1775660939210732621","title":"Neural development and gene expression regulation","description":"These proteins show recurring neural terms, notably substantia nigra development and inter-male aggressive behavior, plus positive regulation of gene expression, suggesting a focus on neuronal development and transcriptional control. While other terms touch on general cellular processes, the neural-related terms are most representative of the cluster\u2019s function.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002121","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0043983","count":5},{"id":"GO:0010628","count":5},{"id":"GO:0043981","count":5}]},{"hash":"115918882173622429","title":"DNA replication and chromatin remodeling","description":"The top GO terms cluster around nuclear DNA metabolism and chromatin control, including DNA replication, recombination, chromatin remodeling, transcription termination by RNA Pol I, rRNA maturation, and DNA repair pathways. This indicates a cohesive theme of genome maintenance and chromatin dynamics in the nucleus, with a few developmental terms likely representing broader annotations or context rather than core cluster function.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0048701","count":7},{"id":"GO:0000466","count":6},{"id":"GO:0045003","count":6},{"id":"GO:0071894","count":6}]},{"hash":"1510755326082432171","title":"Stress-Activated Apoptosis and Immune Signaling","description":"These proteins cluster around intrinsic apoptotic signaling and broad cellular stress responses (osmotic stress, hypoxia, oxidative stress, metal ion exposure) plus immune-related processes (T cell homeostasis, hemocyte development) and DNA damage response. The shared themes point to a function in stress-induced cell fate decisions aligned with immune signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008627","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0007516","count":1},{"id":"GO:0034612","count":1}]},{"hash":"1434178085083001583","title":"Chromatin assembly and DNA replication","description":"The top GO terms cluster around chromatin organization and maintenance (nucleosome assembly, heterochromatin formation) together with DNA replication and repair (DNA-templated replication, replication-dependent chromatin assembly, DNA repair). This points to proteins involved in organizing chromatin structure during genome replication and maintenance, with some related transcriptional regulation as a secondary connection. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0035551","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0030466","count":1},{"id":"GO:0034396","count":1}]},{"hash":"214573180955761056","title":"mRNA Processing and Splicing","description":"The terms cluster around mRNA maturation\u2014splicing via the spliceosome, polyadenylation, and export from the nucleus\u2014plus regulation of translation initiation and mRNA stability in response to stress.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:1900363","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0034462","count":3}]},{"hash":"1902968803968510995","title":"Developmental Signaling in Muscle, Heart, and Nervous System","description":"This cluster is enriched for terms tied to development and differentiation (myoblast fusion, heart development) alongside major signaling pathways (Hippo, GTPase activity, MAPKK, NF-kappaB) and neural plasticity (long-term potentiation). The common thread appears to be signaling processes coordinating development and functional regulation across muscle, heart, and nervous tissue, rather than a single shared function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000186","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0007520","count":2},{"id":"GO:0060291","count":2}]},{"hash":"660977044227454892","title":"Neurodevelopment and cell cycle regulation","description":"The top GO terms combine neural development (cerebellar cortex development, cranial skeleton morphogenesis, retinoic acid response) with core cell cycle processes (DNA replication, G1/S transition), suggesting the cluster links developmental signaling with cell cycle control. While there are supplementary signals for proteostasis and apoptosis, the dominant pattern is development-related events intertwined with cell cycle progression.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0021695","count":3},{"id":"GO:0032436","count":3},{"id":"GO:0051973","count":3}]},{"hash":"1716474286457079756","title":"RNA processing and export regulation","description":"The cluster's GO terms cluster around RNA maturation and processing (polyadenylation, splicing), transcriptional regulation by RNA Pol II, and mRNA export, with additional links to translation regulation and stress-responsive mRNA stability. This points to a coherent theme of RNA metabolism and gene-expression control rather than a single enzyme function.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0000122","count":2},{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1}]},{"hash":"222755876723199545","title":"T cell signaling and cytotoxic regulation","description":"The cluster is dominated by GO terms on immune modulation: both positive (CD8+ T cell proliferation, granzyme B production) and negative (T cell receptor signaling, interferon-\u03b1 production, TLR9 signaling). While a couple of terms touch megakaryocyte or kidney development, the coherent theme is regulation of T cell activity and cytotoxic function, suggesting a compact immune-regulatory cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000566","count":5},{"id":"GO:0061000","count":5},{"id":"GO:0048671","count":5},{"id":"GO:0034164","count":5},{"id":"GO:0035855","count":5}]},{"hash":"2159853227281950164","title":"Dopaminergic Sensory Perception and Signaling","description":"This cluster centers on neural sensory processes (visual perception, pain perception, dopaminergic synaptic transmission) and behavior in response to stimuli (cocaine), along with shared intracellular signaling components (protein phosphorylation, ERK1/2 cascade, prostaglandin response). The combination points to neuronal sensory signaling and dopamine-related pathways as the core theme, with a few outlier terms that may reflect broader GO annotations. Overall, a coherent neural signaling cluster is suggested.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0006468","count":3},{"id":"GO:0010759","count":3},{"id":"GO:0007507","count":3}]},{"hash":"649003968732959939","title":"Ribosome Translation and Fidelity","description":"This cluster centers on the core translation machinery: multiple terms for translation, maintenance and positive regulation of translational fidelity, translational termination, and ribosomal large subunit assembly, plus protein oligomerization consistent with ribosome complexes. A minority signal includes response to antibiotic and DNA-templated transcription, but the dominant theme is ribosome function and translational accuracy.","confidence":"High","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:1990145","count":2},{"id":"GO:0045903","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006415","count":2}]},{"hash":"655629571130595039","title":"Amino acid and central metabolism biosynthesis","description":"This cluster is dominated by biosynthetic processes for amino acids (aspartate, lysine, threonine, glutamate) and cofactors/heme precursors (biotin, protoporphyrinogen IX), along with core metabolic pathways like the TCA cycle and oxaloacetate metabolism. Although some GO terms are obsolete, the overall theme points to biosynthesis of amino acids and other metabolites coupled to central carbon metabolism. There is a distant tie to plant defense signaling (salicylic-acid\u2013mediated systemic resistance), suggesting metabolic reprogramming under stress, but the core signal remains biosynthesis and metabolism.","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":4},{"id":"GO:0009102","count":3},{"id":"GO:0019518","count":3},{"id":"GO:0006782","count":3},{"id":"GO:0097327","count":2}]},{"hash":"2148658286203371645","title":"Capsular and LPS polysaccharide biosynthesis","description":"The cluster is dominated by sugar-nucleotide and polysaccharide biosynthesis terms (GDP-mannose, UDP-xylose, UDP-galactose, galactose metabolism, colanic acid), plus ADP-L-glycero-beta-D-manno-heptose biosynthesis, indicating a common role in assembling cell surface polysaccharides such as capsules and LPS.","confidence":"High","size":7,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045226","count":2},{"id":"GO:0019673","count":2},{"id":"GO:0033320","count":2},{"id":"GO:0006541","count":2}]},{"hash":"1892426117068396473","title":"ECM remodeling and cell adhesion signaling","description":"This cluster centers on interactions with the extracellular matrix and related signaling: integrin-mediated signaling, calcium-independent cell-matrix adhesion, extracellular matrix remodeling via metalloproteinases and hyaluronan metabolism, and processes like cellular extravasation. ERK cascade regulation ties these adhesion/remodeling events to downstream signaling; a few terms touch neuronal regeneration or locomotion, but the dominant theme is ECM remodeling and cell adhesion/migration.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0030212","count":4},{"id":"GO:1905050","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0035641","count":3}]},{"hash":"2185009512098923291","title":"Oxidative stress and inflammatory signaling with lipid metabolism","description":"Top GO terms show responses to hydrogen peroxide and inflammatory cytokines (IL-1, TNF), along with lipid transport and fatty acid beta-oxidation, suggesting a coordinated stress/inflammatory response linked with lipid metabolism. The synapse assembly term also hints at a neuronal context or remodeling during inflammation, supporting a theme of stress- and inflammation-driven cellular adaptation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0042989","count":2},{"id":"GO:0071347","count":2},{"id":"GO:0071356","count":2},{"id":"GO:0007416","count":2}]},{"hash":"1193316238204005676","title":"Vesicle trafficking and membrane signaling","description":"Based on theGO terms, the cluster is dominated by vesicle transport and membrane-related processes: endosome to lysosome transport, plasma membrane tubulation, phosphatidylinositol-mediated signaling, and GTPase activity regulation, plus connections to autophagy (Cvt pathway) and ciliogenesis. The bone development terms appear less related and may reflect annotation noise. Overall, the theme coherently centers on vesicle trafficking and membrane signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060378","count":2},{"id":"GO:0043547","count":1},{"id":"GO:0097320","count":1},{"id":"GO:0032005","count":1},{"id":"GO:0048015","count":1}]},{"hash":"52104184193555850","title":"Transcription Regulation and Proteostasis","description":"The cluster shows enrichment for transcription-related GO terms (DNA-templated transcription; regulation of DNA binding; negative regulation of RNA Pol II region DNA binding) suggesting a role in gene expression control. It also features protein quality control and redox-related terms (protein folding in ER; protein repair; cellular redox homeostasis; oxidant detoxification; a post-translational modification\u2014peptidyl-proline hydroxylation). Together, these point to a link between transcription regulation and proteostasis/stress response, with a stray viral process term likely incidental. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0030091","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0033158","count":1},{"id":"GO:0098869","count":1}]},{"hash":"66102208601459033","title":"Unknown","description":"The top GO terms span development, immune/ stress responses, signaling regulation, metabolism, and cell cycle with no single cohesive process linking them, and there are no edges among the proteins, so no clear shared function emerges.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055059","count":7},{"id":"GO:0046661","count":7},{"id":"GO:0035457","count":7},{"id":"GO:0070301","count":7},{"id":"GO:1903646","count":7}]},{"hash":"2290982677553188609","title":"Cardiac ion homeostasis and electrophysiology","description":"The top GO terms cluster around cardiac muscle stress responses, potassium ion transport and regulation of potassium channels, resting membrane potential, and Purkinje-to-ventricular signaling, pointing to a cohesive theme of cardiac electrophysiology and ion homeostasis. Some terms (ossification and osmotic-stress signaling) appear as outliers, but the dominant pattern supports ion handling and cardiac signaling.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":5},{"id":"GO:0071805","count":5},{"id":"GO:1902259","count":4},{"id":"GO:0008627","count":4},{"id":"GO:0010961","count":4}]},{"hash":"1052811406598444799","title":"Unknown","description":"The top terms span ribosome maturation, chromatin assembly, cytoskeletal dynamics, signaling, and development, with no clear shared function tying all seven proteins. The diversity (including obsolete terms) and lack of a cohesive theme suggest the cluster is not functionally cohesive, so an Unknown label is appropriate.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0000466","count":7},{"id":"GO:0070208","count":7},{"id":"GO:0043981","count":7},{"id":"GO:0021510","count":7}]},{"hash":"1155547987251347594","title":"Mitotic DNA Replication Initiation Complex","description":"The top GO terms cluster around initiation and assembly of the DNA replication machinery (e.g., GINS complex assembly, replication initiation, preinitiation complex assembly) with a clear emphasis on mitotic DNA replication, suggesting these proteins function together to start DNA synthesis during cell division.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0071165","count":1},{"id":"GO:1902975","count":1},{"id":"GO:1902983","count":1},{"id":"GO:0006270","count":1}]},{"hash":"1643563051785075659","title":"Rap signaling and endosome localization","description":"This cluster centers on Rap-mediated signal transduction and endosomal localization, with supporting terms tied to synaptic signaling (dopamine uptake), trafficking-related regulation (endosome and secretory pathway), and broader signaling pathway activity (TORC2, receptor signaling). The mix suggests a theme around signaling cascades intertwined with intracellular trafficking and membrane dynamics, particularly in neuronal contexts, rather than a single, tightly defined process.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":2},{"id":"GO:0051586","count":2},{"id":"GO:0036010","count":2},{"id":"GO:1903434","count":2},{"id":"GO:0060047","count":2}]},{"hash":"1438368133704028991","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms are dominated by transmembrane transport into and out of the mitochondrion (phosphate ion, ADP, pyrimidine nucleotides, coenzyme A, thiamine pyrophosphate, iron, magnesium, etc.), plus related mitochondrial localization/fission hints. This pattern strongly points to a cluster of mitochondrial carrier proteins mediating metabolite and cofactor transport across the mitochondrial membrane, rather than cytosolic or membrane-anchored processes.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":4},{"id":"GO:0015866","count":3},{"id":"GO:0070542","count":3},{"id":"GO:1990519","count":3},{"id":"GO:1990616","count":3}]},{"hash":"814795379044287109","title":"Immune Activation and Inflammatory Signaling","description":"The top GO terms cluster around immune system processes: GM-CSF production, mast cell degranulation, monocyte chemotaxis, T cell proliferation, hypersensitivity, and endothelial adhesion, all pointing to leukocyte activation and inflammatory signaling. A couple of terms touch nervous system development or host-symbiont interactions, but the dominant pattern is immune response modulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045425","count":1},{"id":"GO:0097151","count":1},{"id":"GO:0043303","count":1},{"id":"GO:0090673","count":1},{"id":"GO:0001798","count":1}]},{"hash":"112898958547850958","title":"Mitochondrial nucleotide and cofactor transport","description":"The set of GO terms centers on transport of nucleotides and cofactors across the mitochondrial membrane (ADP, pyrimidine nucleotides, CoA, thiamine pyrophosphate, phosphate, magnesium, iron), pointing to a coherent mitochondrial metabolite exchange/metabolism function. Some terms about fatty acid response and IGF stimulus may reflect broader metabolic regulation, but the core signal is mitochondrial transport and cofactor/nucleotide handling.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990314","count":5},{"id":"GO:0015866","count":4},{"id":"GO:0070542","count":4},{"id":"GO:1990519","count":4},{"id":"GO:0035435","count":4}]},{"hash":"1184677192826192830","title":"Meiosis and DNA Repair in Germ Cells","description":"A module focused on meiotic progression and homologous recombination in germ cells is supported by terms for oocyte maturation, meiotic spindle assembly, maintenance of sister chromatid cohesion, DSB localization and repair, and strand invasion, with a potential noise term for plastid DNA replication.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044655","count":1},{"id":"GO:0040038","count":1},{"id":"GO:0090306","count":1},{"id":"GO:0001556","count":1},{"id":"GO:0034184","count":1}]},{"hash":"145434837857249604","title":"Inflammatory signaling and stress responses","description":"Proteins in this cluster are enriched for immune/inflammatory responses (LPS, TNF), NF-kB regulation, apoptosis signaling, and cellular stress responses (DNA damage, oxidative stress), suggesting a module coordinating inflammation, cell fate decisions, and stress responses.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030889","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0097192","count":2}]},{"hash":"1343146767976207556","title":"Developmental Regulation with Xenobiotic Response","description":"The top GO terms point to broad developmental processes (retina development, multicellular organism development, gastrulation, growth control) while also including proteostasis and stress-related terms (ubiquitin-dependent protein catabolic process, ERAD) and xenobiotic response, suggesting a cluster centered on developmental regulation with ancillary proteostasis and detoxification functions.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0030433","count":2}]},{"hash":"182423177421254995","title":"Cell signaling and apoptosis pathways","description":"Proteins in this cluster are enriched for several signaling pathways (Wnt, NF-\u03baB, JNK, TNF) and apoptosis execution, with additional associations to development and estrogen-related and translation processes. The unifying theme is signaling networks that govern cell fate and stress responses, rather than a single specific process.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0046328","count":2}]},{"hash":"994153075025898521","title":"Unknown","description":"The top GO terms are diverse\u2014ranging from somitogenesis and nervous system/nerve barrier organization to muscle calcium regulation, osmotic stress response, and even a post-translational acetylation term\u2014showing no single cohesive function or pathway across the proteins. With no shared theme and no edges tying the terms together, a specific label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001756","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0098779","count":2},{"id":"GO:0071470","count":2},{"id":"GO:0021629","count":2}]},{"hash":"1281607885646751752","title":"Cytoskeleton\u2013membrane trafficking in development","description":"The terms point to cytoskeletal organization and membrane trafficking, with microvillus assembly, stereocilium organization, and microtubule-based movement suggesting cytoskeletal dynamics, plus exocytosis and membrane tubulation regulation indicating trafficking. Developmental context appears via spinal cord development and endothelial cell migration, consistent with remodeling of the cytoskeleton during morphogenesis. A loosely related sterol biosynthesis term may influence membrane composition, but the core signal is cytoskeleton-driven organization and trafficking in development.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903526","count":1},{"id":"GO:0030033","count":1},{"id":"GO:0060088","count":1},{"id":"GO:0021510","count":1},{"id":"GO:0016126","count":1}]},{"hash":"640745085412370179","title":"Proteostasis and trafficking","description":"The top GO terms point to protein turnover and quality control (proteasome assembly, ubiquitin-dependent degradation, unfolded protein response) and to membrane-associated trafficking (receptor internalization). While there are plant- or lineage-specific terms (chlorophyll biosynthesis, stamen formation) that appear as outliers, the core theme across the cluster is proteostasis coupled with cellular trafficking. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":3},{"id":"GO:0048455","count":3},{"id":"GO:0043248","count":3},{"id":"GO:0006511","count":3},{"id":"GO:0006821","count":3}]},{"hash":"85256919906382554","title":"Developmental transcriptional regulation","description":"The terms center on RNA polymerase II\u2013driven transcription and a range of developmental processes (floor plate, somitogenesis, amacrine cell differentiation, lung vasculature), implying proteins that regulate gene expression during development across tissues rather than a single pathway. Some non-developmental terms appear peripherally, but the core theme is development-related transcriptional control.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0033504","count":5},{"id":"GO:0001756","count":5},{"id":"GO:0035881","count":5},{"id":"GO:0060426","count":5}]},{"hash":"1284890809142832282","title":"Epidermal and Neural Differentiation","description":"A core mix of skin development terms (keratinocyte differentiation, keratinization, skin development) alongside neural development terms (substantia nigra development, neuron migration) suggests proteins involved in broader differentiation programs spanning epidermal and neural lineages, with some regulatory signaling elements (nuclear export, kinase activity regulation). The theme is developmental/differentiation processes across tissues rather than a single tissue pathway, though skin-related processes appear prominent.","confidence":"Medium","size":6,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0048167","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1645707654755758345","title":"Nuclear RNA Processing and Genome Maintenance","description":"The top GO terms cluster around nuclear RNA metabolism and surveillance (regulatory ncRNA-mediated gene silencing, mRNA splicing regulation, nonsense-mediated decay, transcription termination) as well as rRNA maturation, RNA turnover, and chromatin-related processes, plus DNA damage response and recombination (UV protection, DSB repair via SDSA, DNA recombination). Taken together, these terms point to a module of proteins involved in RNA maturation/quality control within the nucleus and maintenance of genome integrity, rather than a single strictly defined pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0000466","count":2},{"id":"GO:0009650","count":2},{"id":"GO:0045003","count":2}]},{"hash":"1778491376267665165","title":"Dendrite Morphogenesis and Receptor Recycling","description":"The top terms point to neuronal dendrite development (positive regulation of dendrite morphogenesis) and receptor recycling, supported by actin filament dynamics and ER-to-Golgi vesicle transport, plus proteasome assembly\u2014all suggesting coordinated cytoskeletal remodeling, trafficking, and protein turnover in neurons. While some terms are obsolete, the recurring theme centers on neuronal morphology and intracellular trafficking.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0043486","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0001921","count":2}]},{"hash":"50545493278335769","title":"RNA processing and translation control","description":"This cluster centers on RNA metabolism and gene-expression regulation: splicing via the spliceosome, mRNA export, stress-related mRNA stability, and regulation of translation initiation, with a hint of ribosome biogenesis from small-subunit processome assembly. A few outliers (nucleosome disassembly, blastocyst formation) do not fit, but the dominant theme is RNA processing and control of translation. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":2},{"id":"GO:0006337","count":2},{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1961626220438508998","title":"Ribosome Biogenesis and Translation Regulation","description":"Dominant terms are translation and ribosome biogenesis, plus SSU-rRNA maturation, pointing to proteins involved in assembling ribosomes and initiating protein synthesis, with some RNA processing links. Overall, the cluster centers on ribosome assembly and translation control.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000462","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006378","count":1},{"id":"GO:0006417","count":1}]},{"hash":"1814576976785197218","title":"DNA replication and telomere maintenance","description":"The terms center on DNA replication processes (RNA primer removal in mitotic replication, replication fork reversal, fork progression, strand elongation) and genome maintenance functions (telomere maintenance via telomerase, mitochondrial DNA repair). Together they suggest a cluster of proteins involved in preserving genome integrity during replication, including telomere dynamics and mitochondrial genome maintenance, rather than a single specific pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032211","count":1},{"id":"GO:1903469","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0000723","count":1},{"id":"GO:0071932","count":1}]},{"hash":"1768557639281421591","title":"Unknown","description":"The listed terms are scattered across distinct processes (ER targeting, ubiquitination, neurotransmitter transport) with several obsolete entries, and there are no interactions among the proteins. This lack of a cohesive shared function makes it not possible to assign a clear, representative label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006465","count":1},{"id":"GO:0045047","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0006836","count":1},{"id":"GO:2000372","count":1}]},{"hash":"2193657074836827170","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0031145","count":4},{"id":"GO:0040020","count":4},{"id":"GO:1904263","count":4}]},{"hash":"1832681747094935684","title":"Neural development and synapse formation","description":"The terms center on nervous system development, neurogenesis, and regulation of synapse assembly, with supporting signals from axon guidance (Roundabout) and Hedgehog (Smoothened) pathways, plus cell-adhesion involvement in synapse formation. A single outlier term about symbiont entry exists but does not define the cluster's main theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0035385","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007422","count":2}]},{"hash":"104640103429960246","title":"Transcription Initiation and Chromatin Regulation","description":"The cluster\u2019s GO terms are dominated by transcriptional regulation by RNA polymerase II, transcription initiation (preinitiation complex assembly, DNA-templated transcription), and chromatin modification (histone acetylation/deubiquitination). There are also signals for cell cycle progression (G1/S transition) and telomere maintenance, suggesting a nuclear regulatory module. A couple of terms like cell wall mannoprotein biosynthesis and multicellular organism growth appear peripheral. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":1},{"id":"GO:0000032","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0000722","count":1},{"id":"GO:0006351","count":1}]},{"hash":"2021924095823790152","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0000398","count":2},{"id":"GO:2001162","count":2},{"id":"GO:0000472","count":2}]},{"hash":"1497846274012962998","title":"Neural axon guidance and regeneration","description":"This cluster is dominated by GO terms related to neural development, especially axon guidance (retinal ganglion axon guidance) and peripheral nervous system axon regeneration, including regulation of axon extension. It also includes adhesion-related terms (cell-matrix and homophilic cell-cell adhesion, hemidesmosome assembly), which support neural wiring and regeneration processes. BMP signaling regulation and VEGF pathway modulation further fit into neural development contexts. Confidence: High","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007161","count":3},{"id":"GO:0030513","count":2},{"id":"GO:0014012","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0048692","count":2}]},{"hash":"676599974768429224","title":"RNA Processing (miRNA/siRNA)","description":"The top GO terms include miRNA processing and lsiRNA processing, which strongly point to RNA processing as the core function of this cluster. The other terms are disparate (oxidation-reduction, development, vesicle transport) and there are no edges connecting proteins, suggesting a loose grouping around RNA processing rather than a single cohesive pathway. So the most representative label is RNA Processing, focused on miRNA/siRNA maturation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0010599","count":1},{"id":"GO:0090419","count":1},{"id":"GO:1990705","count":1},{"id":"GO:0009190","count":1}]},{"hash":"2031713746987290952","title":"GPCR Endocytosis and Vesicle Trafficking","description":"The cluster is best described by processes related to receptor internalization and vesicle trafficking: GPCR internalization (G protein-coupled receptor internalization), clathrin-dependent endocytosis, Golgi-to-lysosome transport, and intracellular protein transport, all supported by regulation of GTPase activity and phosphorylation. These terms point to a cohesive theme of GPCR turnover and endocytic trafficking, with phosphorylation acting as a common regulatory mechanism. Some terms (e.g., antibiotic response, methionine salvage) appear incidental and may reflect broader or species-specific annotations. ","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0009088","count":2}]},{"hash":"450590528311193821","title":"Mitochondrial Translation and Respiration","description":"The top GO terms cluster around mitochondrial gene expression: tRNA aminoacylation and translation within mitochondria, plus components of the respiratory electron transport chain, suggesting a coherent module for mitochondrial protein synthesis and energy production. Some outliers (e.g., embryonic development) are incidental annotations, but the dominant signal is mitochondrial function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000105","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0070159","count":1},{"id":"GO:0001701","count":1}]},{"hash":"1511860653278308571","title":"Glycosaminoglycan Proteoglycan Biosynthesis & Metabolism","description":"The top GO terms are dominated by heparan sulfate/heparin proteoglycan biosynthetic processes, with N-acetylglucosamine metabolism also involved, pointing to a core theme of glycosaminoglycan synthesis. Additional terms like xenobiotic and bile acid metabolism suggest broader metabolic roles that intersect carbohydrate processing and extracellular matrix biology. Collectively, these signals best support a label centered on proteoglycan biosynthesis with metabolic context.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":1},{"id":"GO:0030573","count":1},{"id":"GO:0048702","count":1},{"id":"GO:0006584","count":1},{"id":"GO:0015012","count":1}]},{"hash":"2165563818484541233","title":"RNA processing and translation regulation","description":"The terms show mRNA polyadenylation regulation, mRNA export, spliceosome assembly, regulation of translational initiation, regulation of mRNA stability under stress, and viral translation initiation/termination, plus related ribosome biogenesis (small-subunit processome). This points to a functional group of proteins involved in RNA processing and controlling translation, including responses to stress and viral contexts.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0010610","count":2}]},{"hash":"1109823189687526948","title":"DNA Transposition and Integration Proteins","description":"The top GO terms cluster around DNA transposition and DNA integration, with DNA-templated transcription also present, suggesting proteins involved in moving and integrating DNA elements (transposase-like activity) and related transcriptional roles. The additional development-related terms appear incidental rather than defining the cluster\u2019s core function.","confidence":"Medium","size":6,"edges":12,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":6},{"id":"GO:0015074","count":6},{"id":"GO:0006351","count":2},{"id":"GO:0045918","count":1},{"id":"GO:0002088","count":1}]},{"hash":"1932305923515832675","title":"Unknown","description":"Reason: The listed GO terms span diverse processes\u2014metabolism (glycolysis, amino acid catabolism, nitrate assimilation), immune cell differentiation, mRNA splicing, cytolysis, and xenobiotic response\u2014without a unifying function for the cluster. Therefore a single descriptive label isn't reliably representative.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046886","count":1},{"id":"GO:0030851","count":1},{"id":"GO:0000380","count":1},{"id":"GO:0045654","count":1},{"id":"GO:0006562","count":1}]},{"hash":"1267121444977830962","title":"Chromatin organization and nucleosome dynamics","description":"Most top GO terms point to chromatin-related processes: nucleosome assembly, histone modifications (H3-K4 and K27 trimethylation), establishment of protein localization to chromatin, and heterochromatin organization. While a couple metabolic terms appear, the dominant signal across the cluster is chromatin remodeling and nucleosome dynamics, suggesting a shared role in genome organization. ","confidence":"Medium","size":6,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0097298","count":1},{"id":"GO:0071169","count":1},{"id":"GO:0098532","count":1}]},{"hash":"1657978456562187819","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0046328","count":2}]},{"hash":"384144807715665523","title":"Proteostasis via ubiquitin-proteasome degradation","description":"This cluster is driven by terms related to ubiquitin-dependent protein handling, including the ubiquitin-dependent ERAD pathway, ubiquitin-dependent protein catabolic process, and proteasome assembly, all pointing to protein quality control and turnover. While some terms reflect unrelated processes, the strongest cohesive theme centers on proteostasis and proteasome-mediated degradation, which justifies this label. ","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0007596","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0015995","count":1}]},{"hash":"1954922608948533477","title":"DNA Repair and Oxidative Stress Response","description":"The cluster is enriched in DNA repair terms (DNA recombination, base-excision repair) and oxidative-stress related terms (cellular response to hydrogen peroxide, cell redox homeostasis), suggesting a core theme of maintaining genome integrity under oxidative stress; other GO terms appear more peripheral. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0070301","count":2},{"id":"GO:2000466","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0006284","count":2}]},{"hash":"290427882712103462","title":"DNA repair and iron homeostasis under stress","description":"The top GO terms point to double-strand break repair via homologous recombination and chromosome condensation as central themes, with supporting signals from iron ion transport and detoxification, and a general stress response. This suggests the proteins may function in DNA repair under conditions of iron-related oxidative stress, where iron homeostasis and genome maintenance are interlinked. The combination of HR repair and iron metabolism signals provides a cohesive, but specific, functional theme for the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":2},{"id":"GO:1904231","count":1},{"id":"GO:1904234","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0033214","count":1}]},{"hash":"1710397992066238101","title":"Neuro-immune signaling and migration","description":"This cluster shows innate immune signaling (MyD88-dependent TLR pathway; innate immune response) alongside neural development/migration (tangential migration to the olfactory bulb; branching morphogenesis of a nerve) and cytoskeletal remodeling (actin filament severing). The combination suggests proteins functioning at neuro-immune interfaces, coordinating immune signaling with neuronal development and cytoskeletal changes during migration. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002755","count":3},{"id":"GO:0022028","count":3},{"id":"GO:0051014","count":3},{"id":"GO:2000172","count":3},{"id":"GO:0043029","count":3}]},{"hash":"1843872994585177640","title":"Synaptic vesicle fusion and receptor trafficking","description":"The top GO terms cluster around neuronal communication: exocytic insertion of neurotransmitter receptors at the postsynaptic membrane, synaptic vesicle fusion at the presynaptic active zone, vesicle priming and spontaneous neurotransmitter release, and protein localization to the plasma membrane. While a couple of terms like cornified envelope assembly and immunoglobulin production appear as outliers (likely noise), the core theme is synaptic vesicle exocytosis and receptor trafficking.","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098967","count":4},{"id":"GO:0051024","count":4},{"id":"GO:2000463","count":4},{"id":"GO:1903422","count":4},{"id":"GO:2000010","count":4}]},{"hash":"1762857063359608175","title":"Transmembrane transporters (ions & metabolites)","description":"The GO terms point to a broad set of transport activities across membranes for diverse substrates\u2014vitamins, xenobiotics, various ions (Na+, K+, phosphate), nitrite, fucose, and even neurotransmitter loading into vesicles. This pattern indicates a cluster of membrane transporter proteins with a common function of transmembrane transport, rather than a single specific pathway. The presence of multiple substrate classes supports a generalized transporter theme with a plausible link to vesicular neurotransmitter handling.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0098700","count":5},{"id":"GO:1900754","count":5},{"id":"GO:0035435","count":5}]},{"hash":"36531653033164331","title":"Mitochondrial apoptotic signaling and ER stress response","description":"The cluster's terms cluster around mitochondria-driven apoptosis and cellular stress responses: intrinsic apoptotic signaling, MOMP, oxidative stress (hydrogen peroxide), and PERK-mediated unfolded protein response, with mitochondrial fusion also related to stress-related mitochondrial dynamics. Some terms (melanocyte differentiation, prolactin response, B cell apoptotic signaling) are peripheral but do not override the core theme of mitochondria-centered apoptotic and ER stress pathways.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030318","count":1},{"id":"GO:1990646","count":1},{"id":"GO:1903378","count":1},{"id":"GO:0008630","count":1},{"id":"GO:1990117","count":1}]},{"hash":"775916797928780592","title":"Cardiac Ion Transport and Calcium Signaling","description":"Most GO terms center on ion transport and calcium-dependent regulation of cardiac muscle: potassium ion import and homeostasis, maintenance of transmembrane electrochemical gradients, and regulation or relaxation of cardiac muscle contraction by calcium signaling. These themes point to proteins that modulate ionic gradients and calcium-driven cardiac function. A single term about glial blood-brain barrier establishment is less aligned with the core theme and may reflect broader membrane transport roles.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055119","count":2},{"id":"GO:0060857","count":2},{"id":"GO:0010248","count":2},{"id":"GO:1903281","count":2},{"id":"GO:1903288","count":2}]},{"hash":"2213419957981032060","title":"Complement activation and leukocyte-platelet interactions","description":"The GO terms cluster around immune adhesion (leukocyte tethering/rolling), platelet activation, and complement pathways (classical and lectin), with regulatory and signaling terms (e.g., PKC signaling). This points to a coherent theme of immune\u2013coagulation crosstalk and inflammatory signaling, rather than unrelated developmental roles, despite a couple of outlier terms. Confidence reflects a solid link to complement-immune-platelet functions, albeit the small cluster size adds some uncertainty.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0007399","count":2}]},{"hash":"1011361314245609716","title":"NFAT signaling in development","description":"Top GO terms point to a calcium-dependent calcineurin-NFAT signaling axis involved in immune regulation (T cell cytotoxicity) and broad tissue development (nerve myelination, vascular branching). Although other terms are more general (cell cycle) or obscure, the presence of calcineurin-NFAT and development-related processes suggests a theme around NFAT-mediated signaling guiding tissue development.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022011","count":5},{"id":"GO:0030847","count":5},{"id":"GO:0033173","count":5},{"id":"GO:0051343","count":5},{"id":"GO:0001915","count":5}]},{"hash":"67981698822493777","title":"Oocyte maturation and meiotic spindle assembly","description":"Based on the GO terms, the cluster is driven by oocyte maturation (GO:0001556) and spindle assembly in female meiosis I (GO:0007057), with supporting signals from microtubule polymerization (GO:0046785) and ubiquitin-proteasome\u2013related protein turnover (GO:0031146, GO:0051436). These collectively point to meiotic progression in oocytes and cytoskeletal dynamics, more than to general neural development or catabolic processes. Some neural development terms appear, but the core theme is meiosis/oocyte maturation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046785","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0001556","count":2},{"id":"GO:0008285","count":2}]},{"hash":"550254820682423358","title":"Nuclear chromatin assembly and RNA processing","description":"The top GO terms cluster around CENP-A containing chromatin assembly and rRNA maturation (nuclear processes), with supporting hints from histone modification and ubiquitin-proteasome-dependent protein turnover. While there are outliers related to immune response and development, the dominant themes point to nuclear chromatin regulation and RNA processing rather than extracellular signaling. ","confidence":"Low","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0008284","count":2}]},{"hash":"1753114353569451695","title":"Chromatin assembly and histone modification","description":"The cluster prominently features chromatin-related processes: CENP-A containing chromatin assembly, positive regulation of histone H3-K27 methylation, and histone acetylation, suggesting involvement in chromatin structure and epigenetic regulation. Other terms touch on RNA maturation, microtubule movement, and vesicle trafficking, but the chromatin-focused terms appear central, supporting a label around chromatin dynamics.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":2},{"id":"GO:0043547","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0043981","count":1}]},{"hash":"403031775683236069","title":"Mitotic and Ciliary Processes","description":"This cluster is driven by strong signals for mitotic cell cycle and cell division, with a clear connection to cilium assembly, suggesting a focus on cell proliferation and ciliogenesis. Additional enrichment in ubiquitin-dependent proteolysis, Ran signaling, receptor recycling, and sensory-related terms like visual perception fits the broader theme of cell-cycle\u2013linked trafficking and ciliary function. Some terms (innate immune response) are less central but may reflect broader cellular stress or ciliary-associated roles in sensory cells. Overall, the dominant pattern links mitosis with ciliogenesis.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0060271","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1896338290645301371","title":"Redox Homeostasis and Oxidative Stress","description":"The top GO terms cluster around redox biology: cellular redox homeostasis, cellular response to oxidative stress, oxidant detoxification, and protein deglutathionylation, plus an oxidation-reduction process term. This points to proteins involved in managing cellular redox balance and detoxification of reactive species. A few other terms (nucleotide biosynthesis, cation stress, RNA Pol II regulation, sodium transporter regulation, neural crest migration) are less related and likely reflect annotation breadth or pleiotropy, but do not undermine the redox-focused theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0080058","count":2},{"id":"GO:0009263","count":2}]},{"hash":"1962283944052413516","title":"Embryonic Development and Organogenesis","description":"The top GO terms are all related to development, including pancreatic cell development, cartilage morphogenesis, left/right pattern formation, heart-associated EMT in endocardial cushion formation, endocrine system development, placental/trophoblast differentiation, and cerebellar cortex development, suggesting a broad theme of embryonic development and organogenesis rather than a single specific function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0035270","count":1}]},{"hash":"163476316075743304","title":"Leukocyte adhesion and coagulation regulation","description":"Top GO terms point to coordinated immune cell recruitment and clotting control, including leukocyte tethering/rolling, platelet activation regulation, complement regulation, and fibrinolysis inhibition, plus cell\u2013cell adhesion. This suggests a theme of inflammation-related adhesion and hemostasis modulation rather than a single narrow function.","confidence":"Medium","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":1},{"id":"GO:0045959","count":1},{"id":"GO:0050901","count":1},{"id":"GO:0090036","count":1},{"id":"GO:0034392","count":1}]},{"hash":"20086315268224363","title":"Unknown","description":"The listed GO terms are highly diverse, covering meiosis spindle localization, brain development, opsonization, endosome transport, phagosome neutralization, calcium signaling, morphogenesis like dorsal closure, microvillus assembly/organization, and cytokinesis membrane addition. There is no clear, shared function or pathway unifying these proteins, suggesting the cluster lacks a coherent theme. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051295","count":1},{"id":"GO:0021592","count":1},{"id":"GO:1903028","count":1},{"id":"GO:0061502","count":1},{"id":"GO:0044655","count":1}]},{"hash":"1059669325987815293","title":"ER Stress and Unfolded Protein Response","description":"This cluster centers on cellular stress handling and protein quality control, with multiple GO terms tied to the unfolded protein response and ER stress (e.g., cellular response to unfolded protein, response to ER stress, and regulation of oxidative-stress\u2013related apoptotic signaling). While a few terms (like karyogamy and morphine response) seem peripheral, the core signals point to ER stress and protein folding pathways. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":2},{"id":"GO:1903382","count":1},{"id":"GO:0000742","count":1},{"id":"GO:0000902","count":1},{"id":"GO:0034620","count":1}]},{"hash":"797513579655470649","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0032543","count":1},{"id":"GO:0006415","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0044344","count":1}]},{"hash":"1762159612023485516","title":"Ubiquitin-dependent protein degradation","description":"The top GO terms center on ubiquitination and protein catabolic processes, including ubiquitin-dependent protein catabolic process, polyubiquitination, and specific linkages (K6- and K48-linked), plus autoubiquitination. This points to a core function in tagging proteins for degradation and regulating signaling pathways (TNF signaling), chromatin turnover, necroptosis, and cell cycle processes, justifying a label of ubiquitin-mediated protein turnover.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903265","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0051865","count":2}]},{"hash":"515925282463597705","title":"Ubiquitin-regulated DNA repair and cell cycle control","description":"The GO terms cluster around ubiquitin-mediated regulation (SCF complex assembly; ubiquitin-dependent ERAD) together with DNA damage response and repair (nucleotide-excision repair, damage detection) and cell-cycle related processes (meiosis chromatid segregation; apoptosis regulation; stress signaling via JNK). This points to a cohesive theme where protein turnover and degradation interfaces with genome maintenance and cell-cycle control, despite the absence of observed interactions in the network data.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0010265","count":1},{"id":"GO:1901253","count":1}]},{"hash":"595198931354304573","title":"Chromosome condensation and chromatin regulation","description":"The top GO terms cluster around chromatin organization, DNA topology and replication, mitotic chromosome condensation, transcription regulation/elongation by RNA Pol II, and embryonic cleavage, indicating a group of nuclear proteins that coordinate chromosome structure and gene expression during cell cycle and early development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040016","count":1},{"id":"GO:0006333","count":1},{"id":"GO:0006265","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0007097","count":1}]},{"hash":"1689109640495002424","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle","description":"The cluster is enriched for ubiquitin-related processes (ERAD, protein catabolic process, polyubiquitination) and cell cycle terms (mitotic cell cycle, cell division), suggesting a theme of ubiquitin-mediated proteolysis coordinating cell-cycle progression; some secondary terms (DNA repair, antiviral defense) may reflect broader ubiquitin signaling roles.","confidence":"High","size":5,"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:0000209","count":3},{"id":"GO:0000724","count":2},{"id":"GO:0045842","count":2}]},{"hash":"2035222900492155791","title":"Immune Signaling and Extrinsic Apoptosis Regulation","description":"These proteins appear to modulate several core signaling pathways (ERK/MAPK, PI3K/AKT, TOR) and immune functions (negative regulation of T cell activation and inflammatory response), along with components of extrinsic apoptotic signaling via death receptors. The common thread is immune-related signaling regulation linked to apoptosis, suggesting a cluster centered on immune signaling and extrinsic apoptosis control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":1},{"id":"GO:0043552","count":1},{"id":"GO:0032007","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0050868","count":1}]},{"hash":"149674762219080994","title":"Purine and Pyrimidine Salvage","description":"A cluster of proteins involved in salvage and interconversion of nucleotides: inosine and guanosine salvage, cytidine and uridine catabolism, purine nucleoside catabolic processes, and nucleobase interconversion, which tie together nucleotide recycling rather than signaling pathways. The single apoptotic term is likely incidental and does not define the cluster's main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006190","count":3},{"id":"GO:0034356","count":3},{"id":"GO:0006218","count":3},{"id":"GO:0006152","count":3},{"id":"GO:0006179","count":3}]},{"hash":"1608490780044445249","title":"Dopaminergic Signaling and Drug Response","description":"GO terms point to neural signaling, especially dopaminergic synaptic transmission, visual perception/learning, and behavioral/drug responses (morphine, cocaine), supported by ERK/MAPK signaling and prostaglandin-related responses. While a few terms (macrophage chemotaxis, heart development) are outliers, the core theme is neuronal communication and drug-response pathways.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0010759","count":3}]},{"hash":"1202366715577381477","title":"Developmental Processes","description":"The top GO terms are dominated by developmental signals across tissues (thymus, placenta, cerebellar cortex), suggesting the proteins are linked to organ development. Additional terms related to regulated protein turnover and programmed cell death imply remodeling during development, with cadmium response and mast cell cytokine production reflecting broader stress/immune signaling that can intersect with development in certain contexts.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048538","count":5},{"id":"GO:0001890","count":5},{"id":"GO:0000187","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0021695","count":4}]},{"hash":"349045207842565151","title":"Cardiac and vascular development","description":"This cluster is anchored by terms on heart morphogenesis (cardiac right atrium morphogenesis, Notch signaling in heart field) and blood vessel maturation, with supporting limb development signals, suggesting a focus on cardiovascular development and related morphogenetic processes, despite some broader developmental/regulatory terms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":3},{"id":"GO:0003270","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0010751","count":2},{"id":"GO:0001970","count":2}]},{"hash":"2029766688940446792","title":"Unknown","description":"There are no top GO terms and no interactions among the five proteins, making it impossible to identify a unifying function. Without shared annotations or network connections, I cannot assign a meaningful cluster label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1900927111817557156","title":"RNA processing and translation regulation","description":"The terms cluster around RNA maturation and handling\u2014mRNA polyadenylation regulation, mRNA export, splicing, and regulation of translational initiation and mRNA stability under stress\u2014along with ribosome-associated processes (small-subunit processome) and viral translation initiation. This suggests a group of proteins tied to RNA metabolism and control of translation rather than a single narrow function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0010610","count":1}]},{"hash":"1250082476037406379","title":"RNA Pol III\u2013driven tRNA transcription","description":"The top GO terms are centered on transcription by RNA polymerase III, specifically tRNA transcription and initiation at Pol III promoters, suggesting these proteins function together in Pol III transcription. The interferon-beta production term aligns with Pol III\u2013mediated immune signaling, reinforcing a cohesively tied Pol III\u2013tRNA transcription theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006359","count":1},{"id":"GO:0032728","count":1},{"id":"GO:0006384","count":1},{"id":"GO:0042797","count":1}]},{"hash":"1015857848065761818","title":"Neural signaling and development regulators","description":"The top GO terms point to regulation of signaling pathways (NF-kappaB, ERK cascade, phosphorylation) and nervous system processes (nervous system development, axon extension). While a few terms touch on immune-related processes or cytoskeletal regulation, the dominant theme among the terms is modulation of signaling with a bias toward neural development, suggesting this cluster comprises regulatory proteins involved in neural signaling and growth. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:0031647","count":2},{"id":"GO:0043366","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1786386916671213393","title":"Unknown","description":"The GO terms here span very different processes (blood coagulation; chlorophyll biosynthesis; stamen formation; dendrite regeneration; proteasome assembly; ubiquitin-dependent protein catabolic process; cell-matrix adhesion). There isn't a single shared function or pathway tying these proteins together. Only a couple of terms hint at proteostasis, but the rest suggest unrelated roles, so I cannot assign a coherent label beyond Unknown.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":1},{"id":"GO:0070208","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0048455","count":1}]},{"hash":"658877074693277242","title":"Neural development and axon guidance","description":"The top GO terms center on central nervous system development, trigeminal nerve organization, and axon guidance, with an additional note on voltage-gated potassium channel clustering, which aligns with neuronal differentiation and connectivity. This suggests the cluster represents neural development and neuronal excitability rather than a broad, unrelated mix of functions.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":1},{"id":"GO:1902378","count":1},{"id":"GO:0021637","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0007417","count":1}]},{"hash":"1770669656249188563","title":"Amino acid and tetrapyrrole biosynthesis","description":"The GO terms are dominated by biosynthetic processes for amino acids (lysine, arginine, beta-alanine), cofactors (biotin), and tetrapyrroles (protoporphyrinogen IX, chlorophyll), suggesting a set of proteins involved in these central metabolic pathways. While a few outliers touch on catabolism or behavioral responses, the overall theme points to metabolism-related enzymes across amino-acid and porphyrin-derived biosynthesis.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":1},{"id":"GO:0042450","count":1},{"id":"GO:0009447","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0010121","count":1}]},{"hash":"1548730150529561714","title":"Inflammation and ECM remodeling","description":"The GO terms point to immune signaling (positive regulation of chemokine production, production of inflammatory mediators, oxidative stress detection) and extracellular matrix remodeling (collagen fibril organization and catabolic processes, skin morphogenesis, macrophage-related foam cell differentiation). A couple of metabolic terms are peripheral, but the strong core signals reflect inflammation-driven tissue remodeling. ","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0090197","count":1},{"id":"GO:0002532","count":1},{"id":"GO:0070994","count":1}]},{"hash":"1083278983600726578","title":"Bacterial LPS and exopolysaccharide biosynthesis","description":"The top GO terms are dominated by biosynthesis of bacterial surface polysaccharides, including GDP-mannose and ADP-heptose pathways feeding into lipopolysaccharide core and O-antigen synthesis, colanic acid production, and related sugar metabolism such as galactose. This pattern points to a cluster of proteins involved in constructing cell envelope polysaccharides rather than central metabolism. Occasional plant-derived metabolite terms (anthocyanin/phenylpropanoid biosynthesis) may reflect annotation noise or cross-terms, but the core signal clearly indicates LPS- and exopolysaccharide biosynthesis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019673","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0009242","count":2},{"id":"GO:0009718","count":2}]},{"hash":"26660715998692604","title":"Membrane Transporters for Small Molecules","description":"The top GO terms are dominated by transmembrane transport of various metabolites (pantothenate, biotin, glucose, myo-inositol) and ion export, suggesting a cluster of small-molecule transporter proteins. Some plant/fungal cell wall terms appear, likely due to annotation noise or multifunctionality, but the prevailing signal is membrane transport.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015887","count":1},{"id":"GO:0015878","count":1},{"id":"GO:1904659","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0015798","count":1}]},{"hash":"1542749966134033941","title":"Developmental signaling and tissue morphogenesis","description":"The top GO terms point to developmental processes across multiple organs (kidney tubule development, heart field/endocardial differentiation, ciliary body morphogenesis) with signaling pathways like Notch and Wnt and cell adhesion, suggesting a theme of organogenesis and tissue morphogenesis. Some terms (immune-related, extracellular matrix) may reflect broader roles, but the core pattern is developmental signaling guiding tissue formation.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0072070","count":4},{"id":"GO:0072017","count":4},{"id":"GO:0003270","count":4},{"id":"GO:0044332","count":4}]},{"hash":"472875225841569520","title":"Peptide and polyamine acetylation","description":"Top terms are dominated by acetylation processes (peptidyl-N-terminus, N6-lysine, spermidine/spermine, histone acetylation), suggesting a cluster centered on acetyltransferase activities modifying peptides and polyamines. A few other terms (glucosamine metabolic process, regulation of leaf formation) are minor in comparison.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":5},{"id":"GO:0017196","count":4},{"id":"GO:0032918","count":4},{"id":"GO:0006041","count":4},{"id":"GO:0032919","count":4}]},{"hash":"1739025294782431979","title":"Growth Hormone Signaling and Organ Development","description":"The terms emphasize growth hormone-related processes (somatotropin secreting cell development, growth hormone secretion) alongside development of multiple organs (bone/osteoblasts, heart, lung, synapse formation, neuron migration), suggesting a broad GH-regulated developmental theme rather than a single pathway. With only a few terms and no network edges, this serves as a high-level, representative label rather than a pinpoint mechanism.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060133","count":1},{"id":"GO:0002076","count":1},{"id":"GO:2001223","count":1},{"id":"GO:0060347","count":1},{"id":"GO:0045777","count":1}]},{"hash":"2141247613610800643","title":"Ubiquitin-Dependent Proteostasis and Mitophagy","description":"The top GO terms point to mitophagy (autophagy of mitochondrion) and ubiquitin-driven protein degradation (ERAD and ubiquitin-dependent proteolysis), suggesting a cohesive cluster centered on cellular protein quality control and mitochondrial turnover. Other terms present (splicing, transcription regulation, CNS morphogenesis) appear less central and may reflect secondary associations or multifunctionality rather than the cluster\u2019s core function.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0039536","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0006355","count":1}]},{"hash":"110913835259867002","title":"Ubiquitin-Mediated Signaling and Degradation","description":"This cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent protein catabolism (autoubiquitination, ubiquitin-dependent degradation, and K63-linked ubiquitination), pointing to components of the ubiquitin-proteasome system. The presence of terms linked to JNK cascade regulation and TNF signaling indicates involvement in ubiquitin-regulated signaling pathways, with an additional term touching vesicle transport that can reflect trafficking roles of ubiquitin-related processes. Overall, the proteins likely function in ubiquitin-mediated regulation of degradation and signaling, with some connection to vesicle trafficking.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1441875566463095656","title":"RNA processing and translation regulation","description":"This cluster centers on mRNA maturation processes (export from the nucleus, spliceosome assembly, poly(A) tail regulation and mRNA stability) and controls on translation initiation (including IRES-dependent initiation), suggesting proteins involved in RNA processing followed by translation regulation rather than a single downstream pathway.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0010610","count":2}]},{"hash":"948583859589289965","title":"Development, Chromatin Assembly, and Cytoskeleton","description":"Top terms are dominated by multicellular development and tissue-specific development (spinal cord, seminiferous tubule), along with chromatin assembly (CENP-A containing) and microtubule-based movement, pointing to a cluster of proteins involved in development with links to chromatin organization and cytoskeletal dynamics. While there is an rRNA maturation term present, the overall theme centers on developmental processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0043981","count":2}]},{"hash":"1856037890005412347","title":"DNA damage response and ubiquitin signaling","description":"This cluster centers on DNA repair processes (nucleotide-excision repair) and stress-response signaling (JNK cascade, TNF signaling), together with regulation of ubiquitin-mediated processes (SCF complex assembly) and apoptosis. These together suggest a cohesive theme of DNA damage response linked to ubiquitin-dependent regulation and cell fate decisions.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0010265","count":1},{"id":"GO:1901253","count":1}]},{"hash":"2218996402362524279","title":"Lipid biosynthesis and remodeling","description":"This cluster is characterized by GO terms centered on lipid production and membrane lipid remodeling, including phosphatidylcholine and ether lipid biosynthesis, cardiolipin remodeling, CDP-diacylglycerol biosynthesis, and triglyceride biosynthesis, with an additional note of mitochondrial involvement via ETC-related processes. Some terms like cerebellum morphogenesis and IL-2 production are outliers, but the dominant signal points to lipid metabolism and membrane maintenance.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021587","count":1},{"id":"GO:0006663","count":1},{"id":"GO:0042775","count":1},{"id":"GO:0010143","count":1},{"id":"GO:0036151","count":1}]},{"hash":"1930834467324324482","title":"Cell Stress Response and Protein Refolding","description":"The GO terms point to stress-related cellular responses (ischemia, cadmium exposure, ROS regulation) and proteostasis (protein refolding/chaperone activity), with a hint of inflammatory signaling (IL-6). This suggests the proteins act together in managing stress and maintaining protein homeostasis under adverse conditions.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033198","count":4},{"id":"GO:2000778","count":4},{"id":"GO:1901998","count":4},{"id":"GO:0051973","count":4},{"id":"GO:0002931","count":4}]},{"hash":"554179649378509960","title":"Embryonic neural and tissue differentiation","description":"The top GO terms point to development and differentiation across multiple tissues (pancreas, brain regions, spinal cord, skeletal muscle) and transcriptional regulation, suggesting a coordinated embryonic differentiation program with prominent neural components. The presence of neuron- and glia-related fate specifications alongside organogenesis terms supports a broad developmental theme rather than a single tissue-specific function.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031018","count":3},{"id":"GO:0021892","count":2},{"id":"GO:0021530","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0021520","count":2}]},{"hash":"1986798384142720292","title":"Unknown","description":"The top GO terms span neural development, behavior, chromatin modification, gene regulation, aging, meiosis, phagocytosis, and cytokinesis, with no single shared function linking all four proteins.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002121","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0043983","count":2},{"id":"GO:0010628","count":2},{"id":"GO:0043981","count":2}]},{"hash":"1542699930702124825","title":"Bacterial transport and stress responses","description":"The GO terms point to membrane transport of amino acids, ions, and peptides (cysteine, cobalt, glycine betaine, amino acids, oligopeptide export, Type I secretion), along with stress-related responses (SOS response, mercury, antibiotic). Together this suggests a cluster focused on transport/secretion coupled with stress adaptation typical of bacteria; the mitochondrion-related term is an outlier but does not negate the overall theme.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042883","count":4},{"id":"GO:0009432","count":4},{"id":"GO:0010949","count":4},{"id":"GO:0006824","count":4},{"id":"GO:0046689","count":4}]},{"hash":"2135808776988759348","title":"Endosome/MVB trafficking and exosomal secretion","description":"Based on the top GO terms, several entries point to endosomal trafficking and vesicle maturation: early endosome to late endosome transport; exosomal secretion; and MVB sorting to the vacuole. This suggests a shared function in vesicle trafficking and secretion via the MVB/exosome pathway. The remaining terms appear unrelated to this theme (photomorphogenesis, replication termination, karyogamy, NOS regulation), likely reflecting annotation noise or multi-functional proteins.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009640","count":1},{"id":"GO:0050999","count":1},{"id":"GO:0071171","count":1},{"id":"GO:0040022","count":1},{"id":"GO:1902979","count":1}]},{"hash":"348010396521152246","title":"Nuclear RNA Export and Ribosome Trafficking","description":"This cluster is dominated by GO terms for exporting RNA and ribosomal subunits from the nucleus (mRNA export, tRNA re-export, ribosomal large/small subunit export) and tRNA processing, pointing to a shared role in RNA handling and ribosome biogenesis. A few terms such as neuron-neuron synaptic transmission and phototaxis appear, but the strongest signal is nuclear export/processing of RNA and ribosomal components, suggesting a function in RNA trafficking and ribosome assembly rather than signaling pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0007270","count":4},{"id":"GO:0071528","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0000055","count":4}]},{"hash":"1210653270963472336","title":"Ribosome biogenesis and translation","description":"The terms point to ribosome assembly and function: widespread translation-related processes (initiation, translation, termination) and maturation of rRNA components (SSU/LSU, 5.8S from tricistronic transcripts), plus RNA surveillance pathways (no-go and non-stop decay) that quality-control mRNA. This coherence suggests a cluster tightly linked to ribosome biogenesis and translation machinery.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070481","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0035167","count":1},{"id":"GO:0006415","count":1}]},{"hash":"1252022043034338788","title":"Spliceosome-Mediated RNA Processing","description":"The top GO terms are dominated by mRNA splicing via spliceosome and regulation of splicing, plus regulatory ncRNA-mediated gene silencing, which together pinpoint RNA processing and splicing regulation as the shared theme. Additional terms touch on broader RNA maturation and transcription-related steps, supporting a general RNA-processing cluster despite a few outliers. Overall, naming it around spliceosome-driven RNA processing best reflects the central function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0000466","count":1}]},{"hash":"2038926262554523803","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0097309","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0039694","count":1},{"id":"GO:0002181","count":1}]},{"hash":"1959571390605750717","title":"Muscle Contraction and Ion Transport","description":"The top GO terms cluster around skeletal and cardiac muscle function (t-tubule organization; fast-twitch muscle contraction; regulation of heart contraction) and transmembrane ion transport (cation transport and electrochemical gradient maintenance), suggesting a role in excitation-contraction coupling and ion homeostasis. A few terms (serine biosynthesis, pheromone response, otolith mineralization) appear less connected and may reflect background annotations for the proteins.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033292","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0010248","count":1},{"id":"GO:0099132","count":1},{"id":"GO:0006564","count":1}]},{"hash":"338046529136291368","title":"Translational Regulation and Elongation","description":"The GO terms cluster around protein synthesis: translation, initiation, and elongation, including frameshifting and hypusine biosynthesis (a key modification for eIF5A in elongation). This points to a functional group involved in controlling translation rather than a specific metabolic pathway. A few other terms (DNA repair) appear but do not dominate the cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045905","count":1},{"id":"GO:1903272","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0008612","count":1},{"id":"GO:0034050","count":1}]},{"hash":"1823927455771803539","title":"Neuronal signaling and endosomal trafficking","description":"The top GO terms cluster around regulation of signaling pathways (PKA, Rap, TORC2), synaptic/neurotransmitter-related processes (dopamine uptake, dendrite development), and intracellular trafficking (endosome localization, secretory pathway regulation). This suggests a group of proteins that modulate neuronal signaling and associated trafficking rather than a single, cohesive pathway, hence a label centered on neuronal signaling and endosomal trafficking. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010738","count":3},{"id":"GO:0032486","count":2},{"id":"GO:0051586","count":2},{"id":"GO:0036010","count":2},{"id":"GO:1903434","count":2}]},{"hash":"1800616686582030719","title":"Membrane Ion Transport and Gradient Maintenance","description":"This cluster is dominated by GO terms about transmembrane transport and homeostasis of ions, especially potassium and other monoatomic cations, and maintaining the electrochemical gradient across membranes. While there are a few metabolic terms present, the strongest signal ties to ion transport and membrane potential maintenance.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":3},{"id":"GO:0010248","count":3},{"id":"GO:0006564","count":3},{"id":"GO:0031448","count":3},{"id":"GO:0099132","count":3}]},{"hash":"1518601869210289057","title":"Autophagy Regulation in Amino Acid Starvation","description":"This set of proteins is dominated by GO terms for cellular response to amino acid starvation and regulation of autophagosome assembly, with supporting signals for endosome trafficking and small GTPase signaling, indicating a shared role in nutrient-stress\u2013driven autophagy and vesicle dynamics.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":2},{"id":"GO:0045792","count":2},{"id":"GO:1903833","count":2},{"id":"GO:2000785","count":2},{"id":"GO:0032486","count":1}]},{"hash":"2065919157745390549","title":"Unknown","description":"There are only four proteins with no GO terms and no interactions reported, so no shared function or pathway can be inferred from the data provided.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2205427036254112031","title":"Unknown","description":"The GO terms are highly diverse, including stress responses (psychosocial, unfolded protein, cadmium, nitroglycerin), transcription-related processes, and even obsolete annotations, with no single clear functional theme uniting the proteins. This breadth suggests annotation noise rather than a coherent, specific cluster function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990911","count":1},{"id":"GO:0034620","count":1},{"id":"GO:0061408","count":1},{"id":"GO:0006351","count":1},{"id":"GO:2001033","count":1}]},{"hash":"1349542758474894047","title":"Nuclear RNA Processing and Cell Cycle Regulation","description":"The GO terms cluster around RNA processing (miRNA processing; cap1 mRNA methylation), nucleolar protein localization, and regulation of DNA replication and telomere maintenance, pointing to a theme of nuclear RNA biology tied to cell cycle control and genome maintenance. Some terms about vesicle transport and tissue development appear as noise but do not override the core signal of RNA maturation and replication control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0097309","count":1},{"id":"GO:0090419","count":1},{"id":"GO:1990705","count":1},{"id":"GO:0009190","count":1}]},{"hash":"67344384205638766","title":"Ubiquitin-like protein modification","description":"This cluster is dominated by GO terms for protein sumoylation (SUMO), ufmylation, and urmylation, indicating ubiquitin-like post-translational modifications. The presence of three related terms strongly points to a core theme of UBL modification, with other terms (transcription/cell cycle regulation, signaling, tRNA modification, autophagy, metabolism) likely representing ancillary or broader roles. ","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:1990592","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0051726","count":2},{"id":"GO:0034126","count":2}]},{"hash":"1647621238561293501","title":"RNA processing and translation regulation under stress","description":"The four proteins cluster around RNA maturation and gene expression control, with GO terms for alternative mRNA splicing, mRNA export, small-subunit processome assembly, and regulation of translational initiation. Stress-related terms (response to cold, regulation of mRNA stability in response to stress) reinforce a theme of RNA processing and translation control during stress. Although some terms are obsolete, the remaining terms point to RNA processing/biogenesis and its impact on translation. Edges are absent, but the GO pattern supports a coherent functional theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0000380","count":2},{"id":"GO:0009409","count":2},{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1}]},{"hash":"1522099771868644198","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034247","count":1},{"id":"GO:0097011","count":1},{"id":"GO:0003342","count":1},{"id":"GO:0044344","count":1},{"id":"GO:0002181","count":1}]},{"hash":"267135588180706478","title":"Unknown","description":"There are no GO terms or interactions linking these proteins, so a common function cannot be inferred from the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"837597651872385955","title":"Unknown","description":"The GO terms in this cluster cover both metabolic catabolic processes (glycolysis, amino acid catabolism, nitrate assimilation) and diverse regulatory/immune and differentiation processes, with no clear shared function tying all proteins together, so a single coherent label isn't warranted.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032496","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0046886","count":2},{"id":"GO:0030851","count":2}]},{"hash":"2169907430111064663","title":"Neuroimmune development and signaling","description":"The cluster\u2019s top GO terms are dominated by nervous system development and neuron-related functions (central nervous system development, neuron cell-cell adhesion, clustering of voltage-gated potassium channels), suggesting a neuronal identity and connectivity. The same proteins also link to immune signaling pathways (T cell receptor signaling, interleukin-27 signaling) and processes like apoptotic cell clearance and regulation of cytotoxicity, indicating potential cross-talk between nervous and immune systems. Together, these terms point to a cluster involved in neuroimmune regulation during CNS development.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":4},{"id":"GO:0007417","count":4},{"id":"GO:0043277","count":4},{"id":"GO:1901491","count":4},{"id":"GO:0001915","count":4}]},{"hash":"337260626822819655","title":"Regulatory signaling and vesicle trafficking","description":"The GO terms are a mix of signaling pathway regulation (Rap signaling, Wnt signaling, axon extension, dopamine uptake) and vesicle/trafficking related processes (phagosome acidification, vesicle size regulation, ribosomal subunit export). This suggests proteins that modulate signaling pathways and vesicular dynamics rather than a single precise function, so a broad label focused on signaling regulation and vesicle trafficking is appropriate.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071338","count":1},{"id":"GO:0032486","count":1},{"id":"GO:0045773","count":1},{"id":"GO:0000056","count":1},{"id":"GO:0000055","count":1}]},{"hash":"1298088457463153058","title":"DNA replication and telomere maintenance","description":"The proteins cluster around GO terms tied to telomere maintenance and DNA replication, including telomerase-related regulation, replication fork dynamics (reversal and progression), and mitotic DNA synthesis/repair, with some mitochondrial genome maintenance terms showing incidental reference. The dominant theme is genome stability during replication and telomere maintenance.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032211","count":2},{"id":"GO:1903469","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0000723","count":2},{"id":"GO:0071932","count":2}]},{"hash":"1441396659505190843","title":"Unknown","description":"TheGO terms are highly heterogeneous, spanning podocyte development, ERAD, cholesterol biosynthesis, IL-2 production, adhesion molecule production, PKC signaling, membrane rafts, cardiolipin metabolism, and mitochondrial inheritance. There is no clear, cohesive functional theme linking all proteins, and several terms are obsolete; thus a specific, reliable cluster label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072249","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0045541","count":1},{"id":"GO:0032623","count":1},{"id":"GO:0060355","count":1}]},{"hash":"1347652176676534867","title":"Neuroimmune signaling and CNS development","description":"The cluster shows a mix of neuronal development terms (CNS development, neuron adhesion, potassium channel clustering) and immune signaling/regulation terms (T cell signaling, negative regulation of cytotoxicity, IL-27 signaling, apoptotic cell clearance). This suggests proteins involved in neuroimmune cross-talk and CNS development rather than a single pure pathway.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0043277","count":3},{"id":"GO:1901491","count":3},{"id":"GO:0001915","count":3}]},{"hash":"267368284170438419","title":"Unknown","description":"The terms span distinct biological areas: ethanolamine and porphyrin/cobalamin biosynthesis on one hand, and neuron projection development or bone resorption on the other, with no shared process or interactions evident (no edges). This scatter prevents a cohesive, specific label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006580","count":1},{"id":"GO:0006779","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0045453","count":1}]},{"hash":"297581374150604280","title":"Ubiquitin-mediated protein quality control","description":"The top GO terms converge on ubiquitin-proteasome\u2013dependent processes, notably nuclear protein quality control and ERAD, suggesting a proteostasis-focused cluster. Additional terms around protein export regulation and post-translational targeting to membranes reinforce a theme of cellular protein handling and degradation pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0071630","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1880300243206580517","title":"Death receptor\u2013mediated extrinsic apoptosis","description":"This cluster is driven by GO terms centering on extrinsic apoptotic signaling via death domain receptors and related pathways, including signaling without ligand and linkages to mitochondrial cytochrome c release, suggesting cross-talk between extrinsic and intrinsic apoptosis. Some listed terms appear obsolete or less related, but the dominant signal points to receptor-mediated apoptotic signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008625","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0097192","count":2},{"id":"GO:2000327","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1425295821492694195","title":"TLR signaling and inflammasome activation","description":"The proteins show enrichment for innate immune pathways: MyD88-dependent and -independent TLR signaling, response to exogenous dsRNA, NLRP3 inflammasome assembly, and cytokine production (e.g., IL-8), plus dendritic cell cytokine regulation and autophagy. This suggests a cohesive theme of innate immune activation and inflammatory signaling, with a few additional terms related to neurodevelopment or cell cycle as secondary associations. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":3},{"id":"GO:0043330","count":2},{"id":"GO:0002756","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0016239","count":2}]},{"hash":"1014059084991823524","title":"P450-Mediated Steroid and Xenobiotic Metabolism","description":"The GO terms point to steroid hormone metabolism (progesterone, aldosterone-related regulation, mammary/prostate development) and xenobiotic detoxification (dioxin and carbazole catabolic processes; omega-hydroxylase P450 pathway), suggesting a common role for cytochrome P450 enzymes in hormone processing and xenobiotic clearance, with a few ancillary immune/tissue hints.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042448","count":1},{"id":"GO:0002017","count":1},{"id":"GO:0019341","count":1},{"id":"GO:0009624","count":1},{"id":"GO:0046232","count":1}]},{"hash":"1305738545277028386","title":"DNA Repair and Genome Maintenance","description":"These four proteins cluster around DNA damage response and genome maintenance: nonhomologous end joining, DNA recombination, and telomere maintenance are prominent, indicating a core theme of genome stability. Some terms related to brain development and neuron guidance appear but are likely secondary annotations or pleiotropic effects; the dominant signal is DNA repair pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006303","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0060218","count":1},{"id":"GO:0008045","count":1},{"id":"GO:0000723","count":1}]},{"hash":"599230665418775389","title":"N-terminal and polyamine acetylation","description":"The GO terms are dominated by acetylation-related processes, including N-terminal peptidyl-methionine/glutamic acid/serine acetylation, spermidine/spermine acetylation, and histone H4 acetylation, with only a few outliers mentioning sporulation or leaf formation. This points to a cluster centered on acetylation modifications and polyamine metabolism, rather than a single specific signaling pathway.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017196","count":1},{"id":"GO:0032918","count":1},{"id":"GO:0006041","count":1},{"id":"GO:0032919","count":1},{"id":"GO:0018002","count":1}]},{"hash":"898436647543678959","title":"TLR signaling and cytokine production","description":"These terms consistently point to Toll-like receptor signaling and regulation of proinflammatory cytokines (IL-6, IL-8, IL-17), including MyD88-dependent/independent pathways and dsRNA response, implicating innate immune signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042511","count":1},{"id":"GO:0043330","count":1},{"id":"GO:0032757","count":1},{"id":"GO:0032740","count":1},{"id":"GO:0034145","count":1}]},{"hash":"1782915911426744500","title":"Innate immune signaling and inflammation regulation","description":"This cluster\u2019s terms are dominated by innate immune pathways and inflammatory control: both MyD88-dependent and -independent TLR signaling, response to dsRNA, positive regulation of the NLRP3 inflammasome, and IL-8 production, all pointing to regulation of innate immune sensing and inflammatory responses. A few terms touch on autophagy and hormone signaling, but the predominant theme ties to pathogen recognition and inflammatory signaling rather than a single metabolic or developmental process.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032350","count":1},{"id":"GO:0043330","count":1},{"id":"GO:0032962","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0002755","count":1}]},{"hash":"272775052124074070","title":"Aggresome formation and proteasomal degradation","description":"The cluster centers on proteostasis: aggresome assembly, aggrephagy, and proteasomal degradation, with supporting links to ER-associated degradation and general protein processing (deglycosylation, tail-anchored ER insertion). Some terms appear obsolete or tangential (histone methylation regulation, MyD88/TLR signaling), but the dominant theme is cellular protein quality control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051572","count":3},{"id":"GO:0071816","count":3},{"id":"GO:1902283","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0006517","count":3}]},{"hash":"1716707261311968296","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0050999","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0061158","count":1}]},{"hash":"506435510153494959","title":"Immune signaling and ubiquitination regulation","description":"The top GO terms cluster around T and B cell homeostasis, innate and antiviral immune responses, and regulation of key signaling pathways (NF-kappaB and JNK), along with ubiquitination processes (K63-linked) and NOS activity. This pattern points to a cohesive module that coordinates adaptive and innate immune signaling with post-translational modification via ubiquitination. The absence of network edges but consistency in immune-related GO terms supports a focused immune regulation function for this cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0046007","count":3}]},{"hash":"2253931946077432176","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0034121","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0046328","count":1},{"id":"GO:0070534","count":1}]},{"hash":"1299794049375046216","title":"Embryonic and Tissue Morphogenesis","description":"The top GO terms span developmental processes across tissues\u2014mammary gland differentiation and duct morphogenesis, endothelial migration and blood circulation, blastocyst development, lymphoid progenitor differentiation, somatic stem cell maintenance, and neural development\u2014pointing to a broad theme of developmental differentiation and morphogenesis rather than a single specific pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060644","count":1},{"id":"GO:0097011","count":1},{"id":"GO:0008015","count":1},{"id":"GO:0001824","count":1},{"id":"GO:0002320","count":1}]},{"hash":"1944703054144568587","title":"Protein folding and stress response","description":"The GO terms cluster around protein refolding and chaperone-related folding (GO:0042026, GO:0051086) alongside multiple stress-related responses (cadmium, ischemia, and ROS regulation), indicating a group of proteins involved in handling misfolded proteins under cellular stress. Some terms are broad or obsolete, but the core theme appears to be chaperone-assisted protein folding during stress.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033198","count":3},{"id":"GO:2000778","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0002931","count":3}]},{"hash":"1463672468035404177","title":"Fungal cell wall polysaccharide biosynthesis","description":"The top GO terms cluster around cell wall biogenesis/organization and biosynthesis of polysaccharides, including fungal-type cell wall biogenesis, extracellular polysaccharide and sugar-nucleotide biosynthesis (UDP-N-acetylglucosamine, GDP-mannose). This points to a shared function in constructing and remodeling fungal cell wall components, with a possible link to antibiotic response under stress. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0008360","count":1},{"id":"GO:0006048","count":1},{"id":"GO:0045226","count":1},{"id":"GO:0009298","count":1}]},{"hash":"400980655861997789","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006015","count":2},{"id":"GO:0006168","count":2},{"id":"GO:0046110","count":2},{"id":"GO:0007595","count":2}]},{"hash":"2072966502137479638","title":"Nuclear RNA Processing & Splicing","description":"These proteins are primarily annotated with GO terms related to RNA processing in the nucleus, including tRNA processing, spliceosomal snRNP and spliceosome complex assembly, and nuclear mRNA decapping, and they also localize to the nucleus. While a few terms reference broader processes (e.g., abscisic acid response, hair cycle), the dominant theme is RNA maturation and splicing machinery in the nucleus. Confidence: Medium","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0051170","count":1},{"id":"GO:0009414","count":1},{"id":"GO:0070317","count":1},{"id":"GO:1990141","count":1}]},{"hash":"1295172983763149551","title":"DNA Damage Repair and Genome Maintenance","description":"The terms include DNA replication, DNA damage signaling, BER, NER, translesion synthesis (both error-prone and error-free), HR regulation, and telomere maintenance via telomerase, all centering on genome integrity. This coherence suggests a cluster of DNA damage response and repair factors.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031571","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0007004","count":1},{"id":"GO:0042276","count":1},{"id":"GO:0006260","count":1}]},{"hash":"425911913457607680","title":"Unknown","description":"The GO terms span diverse processes: teichoic acid and terpenoid/isoprenoid biosynthesis suggest metabolism typical of bacteria, while protein O-linked glycosylation, and DNA damage\u2013related responses (base-excision repair, nucleotide-excision repair, inflammatory response, and apoptotic signaling) imply stress or damage responses. The lack of a single cohesive function or pathway linking these terms for the three proteins leads to an Unknown designation.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019350","count":1},{"id":"GO:0019288","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0016114","count":1},{"id":"GO:0008630","count":1}]},{"hash":"1390525248003860861","title":"Unknown","description":"The top GO terms cover very different biological contexts (blood coagulation, chlorophyll biosynthesis, stamen formation, dendrite regeneration) plus proteostasis-related terms (proteasome assembly, ubiquitin-dependent protein degradation). With no edges and no clear shared function, there isn\u2019t a cohesive theme tying these proteins together.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":1},{"id":"GO:0070208","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0048455","count":1}]},{"hash":"2198198883517999877","title":"Embryonic organogenesis","description":"The GO terms are dominated by embryonic development of multiple organs and tissues (kidney ureteric bud, pancreas, hypothalamus, pituitary, inner ear, digestive tract, spinal cord interneurons, neural crest). This points to a broad theme of organogenesis during embryogenesis rather than a single, specific pathway. The occasional regulatory term (negative regulation of transcription) does not override the overall developmental theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090190","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0021521","count":2}]},{"hash":"186931798222865289","title":"Nuclear gene expression and mitosis","description":"The dominant terms point to DNA-templated transcription and the mitotic cell cycle, with strong supporting signals from mRNA splicing and spliceosome assembly, indicating coordinated nuclear gene expression and RNA processing during cell division. Other terms are minor or ancillary (protein repair, DNA-binding regulation, etc.), but they don\u2019t override the main theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0030091","count":1}]},{"hash":"2061081841772693102","title":"Cell Signaling and Activation","description":"The terms cluster around various signaling processes\u2014angiotensin signaling in heart, Wnt signaling, GTPase activity regulation, nitric oxide synthase regulation, interferon signaling\u2014and immune-related regulation of T helper cell differentiation. With diverse contexts, there isn\u2019t a single pathway; the common thread is regulation of cellular signaling and activation across systems. Hence a concise label 'Cell Signaling and Activation'.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086098","count":1},{"id":"GO:0043547","count":1},{"id":"GO:1904424","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0097320","count":1}]},{"hash":"1425173795235495903","title":"Unknown","description":"The terms are highly diverse, spanning metabolism, membrane transport, signaling, and muscle-related processes, with no clear shared pathway or cohesive function linking all proteins. The lack of edges reinforces the absence of a single representative theme.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:0033292","count":1},{"id":"GO:1905123","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0010248","count":1}]},{"hash":"16003775430166894","title":"Unknown","description":"The GO terms span several distinct processes (Rap signaling, dopamine uptake, endosome localization, secretory pathway regulation, heart contraction, junction assembly, TORC2 signaling, dendrite development, androgen signaling, mitochondrial fission). There isn\u2019t a single unifying function linking these proteins, and the network is minimally connected (one edge, no triangles), suggesting a heterogeneous set rather than a cohesive module.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":2},{"id":"GO:0051586","count":2},{"id":"GO:0036010","count":2},{"id":"GO:1903434","count":2},{"id":"GO:0060047","count":2}]},{"hash":"640135603315566467","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903265","count":1},{"id":"GO:0010586","count":1},{"id":"GO:0018032","count":1},{"id":"GO:0007014","count":1},{"id":"GO:1902187","count":1}]},{"hash":"2025771835559036216","title":"Cytoskeleton and cell division regulation","description":"The top terms point to cytoskeletal remodeling (actin/microtubule), spindle and actomyosin ring localization, ER polarization, and mitochondrial fission, indicating proteins in this cluster coordinate cytoskeletal dynamics with organelle positioning during cell division.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":1},{"id":"GO:0051295","count":1},{"id":"GO:0035372","count":1},{"id":"GO:0090140","count":1},{"id":"GO:0051639","count":1}]},{"hash":"167872457712035204","title":"Mitotic cell division with vesicle trafficking","description":"The GO terms indicate a strong signal for mitosis-related processes (mitotic spindle assembly, mitotic cell cycle, cell division) alongside vesicle trafficking between the ER and Golgi (COPII budding, Golgi-to-ER transport). This pattern suggests a cluster of proteins coordinating cell division with membrane trafficking, rather than immune or neural functions. Some terms like brain development or T cell signaling appear less central given the limited protein set.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1342155488307813692","title":"Unknown","description":"The top GO terms span immune defense, transcription, development (brain and skeletal), cell cycle, and stress responses with no single unifying function, suggesting a mixed or non-specific set rather than a cohesive cluster function.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001501","count":2}]},{"hash":"553045748933031156","title":"RNA metabolism and DNA damage response","description":"The top terms are dominated by RNA processing and transcription regulation (splicing, RNA Pol II+ regulation, RNAP I termination), with supporting links to rRNA maturation and chromatin-related processes. There are also genome maintenance signals (UV protection, double-strand break repair) and related chromatin/spindle roles, suggesting a cluster centered on RNA metabolism intertwined with genome integrity rather than a single pathway.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0000466","count":1},{"id":"GO:0009650","count":1},{"id":"GO:0045003","count":1}]},{"hash":"1206420633875726706","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0009561","count":1},{"id":"GO:0000447","count":1}]},{"hash":"69243768796729753","title":"Developmental Regulation and Organogenesis","description":"The top terms point to broad and organ-specific development (brain, gonad, pituitary, heart) and multicellular organism development, coupled with negative regulation of transcription, indicating a role in coordinating gene expression during development and organogenesis. Some terms appear anomalous or obsolete, but the prevailing theme is developmental regulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051572","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2260629359536319974","title":"Unknown","description":"The GO terms are highly diverse (chromatin assembly, rRNA processing, microtubule movement, GTPase regulation, phosphorylation, and development signals) with no single dominant function, making it unclear how these proteins form a cohesive biological theme. Therefore, a confident, specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000466","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0043981","count":1}]},{"hash":"1807071522359107081","title":"Unknown","description":"The top GO terms are scattered across distinct biological areas (GTPase signaling, rRNA maturation, cell proliferation, protein heterotrimerization, histone acetylation, viral translation, spinal cord development, tyrosine phosphorylation, CENP-A chromatin assembly, and microtubule movement). With no connecting pathway or shared function and no edges among the proteins, there is no cohesive theme to label the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0043981","count":1}]},{"hash":"927558742922883510","title":"Brain and endocrine development","description":"The top GO terms point to developmental processes across the nervous system and endocrine organs (substantia nigra development, adenohypophysis morphogenesis, multicellular organism development, blastocyst development), with supporting signals like angiogenesis and exocytosis regulation, plus astrocyte activation. Although there are no direct interactions among proteins in the cluster, the shared theme is development of brain and endocrine tissues with related signaling. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045921","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0051412","count":2}]},{"hash":"120138960859422852","title":"RNA Processing and Translational Regulation","description":"Most terms cluster around post-transcriptional mRNA processing (splicing, export, polyadenylation regulation, stability) and control of translation (initiation, viral IRES), plus a hint of ribosome biogenesis (small-subunit processome), pointing to a shared theme of RNA maturation and protein synthesis regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0010610","count":1}]},{"hash":"586986527750523250","title":"Growth factor-driven tissue remodeling","description":"The GO terms cluster around tissue remodeling activities (remodeling, coagulation/fibrinolysis) and growth factor signaling (HGF response, regulation of MAPK cascade), with related anti-apoptotic and anti-inflammatory modulation. This suggests proteins involved in remodeling and signaling during wound healing or development, rather than a single narrow pathway. The small cluster size and diverse terms still point to a common theme of growth-factor\u2013mediated tissue remodeling contexts.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033601","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0090201","count":1},{"id":"GO:0042730","count":1},{"id":"GO:0048771","count":1}]},{"hash":"251226033122052836","title":"Hematopoietic cell differentiation","description":"The top GO terms highlight differentiation of blood lineages (granulocytes, megakaryocytes, erythrocytes) along with immune-related responses (lipopolysaccharide, xenobiotic stimulus) and signaling/regulatory processes, suggesting a hematopoietic differentiation theme. Some terms are broader regulatory processes, but the lineage differentiation terms provide the strongest cohesive signal for this cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0046886","count":2},{"id":"GO:0030851","count":2},{"id":"GO:0000380","count":2}]},{"hash":"1256987917770626894","title":"Neurodevelopment and Somite-Muscle Formation","description":"The GO terms point to coordinated development of the nervous system (neuronal and midbrain development, oculomotor nerve formation, AV node development) along with somite- and muscle-related processes (somite specification, myotome development, axis specification, globus pallidus development). This suggests the proteins function together in early patterning that links neural and musculoskeletal development, justifying a combined label.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032330","count":2},{"id":"GO:0048935","count":2},{"id":"GO:0021759","count":2},{"id":"GO:0061055","count":2},{"id":"GO:0001757","count":2}]},{"hash":"1556876970109965485","title":"Triglyceride Catabolism and Lipid Remodeling","description":"The cluster's top GO terms are dominated by triglyceride and phospholipid catabolic processes (triglyceride catabolic process, triglyceride mobilization, phosphatidylcholine/phosphatidylethanolamine catabolic processes, triglyceride acyl-chain remodeling), indicating a shared function in lipid metabolism and remodeling. A few terms related to neuronal or developmental processes (cochlea development, inhibitory postsynaptic potential) or signaling regulation (negative regulation of PKA activity) appear, but they are likely ancillary or context-specific. Overall, the clearest common theme is triglyceride lipid catabolism, so this label captures the main function represented. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":1},{"id":"GO:0034638","count":1},{"id":"GO:0046338","count":1},{"id":"GO:0010898","count":1},{"id":"GO:0036153","count":1}]},{"hash":"916250138279011894","title":"Lipid and carbohydrate metabolism","description":"The top GO terms point to metabolism of lipids (prostaglandin and fatty acid biosynthesis, retinoic acid) and small carbohydrates (D-xylulose-5-phosphate and sorbitol catabolic processes), suggesting the proteins in this cluster are involved in broad metabolic pathways related to lipids and carbohydrates. Some signaling or physiological regulation terms appear as secondary associations but do not dominate the set, so a metabolism-focused label seems most representative.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006693","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1901159","count":1},{"id":"GO:0045777","count":1},{"id":"GO:0019595","count":1}]},{"hash":"946923538618299775","title":"Unknown","description":"The top GO terms are a mix of polyhydroxybutyrate biosynthesis, various obsolete histone acetylation and transcription regulation terms, plus some germline development and proliferation terms. This scattered mix, with several obsolete annotations, offers no cohesive functional theme to name the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042619","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0043983","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0061408","count":1}]},{"hash":"374696459969185252","title":"Unknown","description":"The GO terms here are a mix of carbohydrate metabolism (galactose, GDP-mannose), cofactor biosynthesis (tetrahydrobiopterin), and steroid hormone biosynthesis/metabolism (estrogen, androgen, glucocorticoid), plus a regulatory term and an antibiotic response term. With no cohesive functional theme linking all terms and edges being zero, there isn\u2019t a clear, shared biological function to label this cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006012","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0019673","count":1},{"id":"GO:0006703","count":1}]},{"hash":"1754115036635466798","title":"Neuronal signaling and trafficking","description":"This cluster centers on neuronal-specific signaling pathways and intracellular trafficking, with terms pointing to Rap-mediated GTPase signaling, regulation of GTPase activity, dendrite development, and dopamine uptake in synapses. Endosome localization and TORC2 signaling further support a theme of cytoskeletal dynamics and membrane trafficking relevant to neurons. Some terms (like heart contraction) are broader in scope but can reflect shared signaling networks. Overall, the set suggests coordinated neuronal signaling and intracellular transport rather than a single enzyme complex. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021799","count":2},{"id":"GO:0032486","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0051586","count":1},{"id":"GO:0036010","count":1}]},{"hash":"1454942416362794559","title":"Membrane Signaling and GTPase Regulation","description":"This cluster centers on signaling pathways and membrane dynamics, with terms pointing to regulation of GTPase activity, IP3 production (PLC pathway), and pathways like Wnt and interferon signaling, plus plasma membrane tubulation and cell activation. The common theme appears to be membrane-associated signal transduction and modulation of small GTPases.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":1},{"id":"GO:0086098","count":1},{"id":"GO:0043547","count":1},{"id":"GO:1904424","count":1},{"id":"GO:0090263","count":1}]},{"hash":"2038389064368245989","title":"Neuronal axon guidance and nerve development","description":"The terms are dominated by axon guidance, nerve formation/organization, and related neural development processes (e.g., retinal ganglion cell axon guidance, facial/trigeminal/vestibulocochlear nerve structural organization, axonogenesis, and dendrite development), with additional context on dopaminergic signaling. This\u96c6\u4e2d theme suggests the proteins function together in neural pathfinding and formation rather than in a non-neural process.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902378","count":1},{"id":"GO:0031290","count":1},{"id":"GO:0021611","count":1},{"id":"GO:0021637","count":1},{"id":"GO:0016358","count":1}]},{"hash":"546534649829322667","title":"Intrinsic Apoptosis and Oxidative Stress Response","description":"Based on the most represented GO terms, the proteins appear linked to apoptotic signaling and responses to oxidative or xenobiotic stress, including intrinsic apoptotic pathways, DNA fragmentation, and hydrogen peroxide response. While a few terms reflect developmental or obscure annotations, the overall pattern points to a cluster of apoptosis-related stress responses.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042542","count":2},{"id":"GO:2001269","count":2},{"id":"GO:0016485","count":2},{"id":"GO:0008627","count":2},{"id":"GO:0006309","count":2}]},{"hash":"549887032231603283","title":"Ubiquitin-mediated antiviral innate immunity","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic process and innate antiviral defense (innate immune response and defense response to virus), suggesting proteins that regulate antiviral signaling via ubiquitin-proteasome pathways. A few terms relate to cell cycle and development, but the dominant theme is ubiquitin-mediated regulation of antiviral immunity, justifying the label. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0031571","count":1},{"id":"GO:1903378","count":1}]},{"hash":"1597508899148041848","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The top GO terms are dominated by heparin proteoglycan biosynthetic process and heparan sulfate proteoglycan biosynthetic process, complemented by related sulfation and N-acetylglucosamine metabolism terms, indicating a clear focus on the synthesis and modification of proteoglycans and glycosaminoglycans in the extracellular matrix.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":3},{"id":"GO:0030573","count":3},{"id":"GO:0048702","count":3},{"id":"GO:0006584","count":3},{"id":"GO:0015012","count":3}]},{"hash":"1160048881053749074","title":"Sensory perception and neural development","description":"This cluster includes GO terms tied to sensory perception (light stimulus; auditory stereocilium organization) and neural development (dendrite development; convergent extension in neural plate elongation), along with related cellular structures such as microvilli and polarity. The combination suggests proteins involved in sensory cell differentiation/structure and neuronal growth, rather than a single, narrow pathway. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":2},{"id":"GO:0022007","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0051612","count":1},{"id":"GO:0050953","count":1}]},{"hash":"1682203824758382137","title":"ECM remodeling and signaling","description":"This cluster centers on extracellular matrix-related processes (collagen fibril organization and catabolic process) and skin morphogenesis, paired with general cell surface receptor signaling and PKA activity regulation. Some terms point to neuronal functions (synapse assembly, response to cocaine), but the strongest common theme appears to be extracellular matrix remodeling with concurrent signaling roles. Confidence: Medium.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":1},{"id":"GO:0007166","count":1},{"id":"GO:0042220","count":1},{"id":"GO:0070994","count":1},{"id":"GO:0010743","count":1}]},{"hash":"2092060369296021531","title":"Neuronal signaling and dendrite development","description":"Dominant neural signaling and development terms\u2014receptor clustering, regulation of serotonin uptake, sensory perception of light, and dendrite development (plus neural plate elongation)\u2014suggest a neural-focused cluster. Immune-related terms are present but less central, implying a primary theme of neural signaling and morphogenesis rather than a single immune function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":2},{"id":"GO:2000821","count":2},{"id":"GO:0022007","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0051612","count":1}]}]