[{"hash":"788707893650635621","title":"Neuronal development and synaptic vesicle regulation","description":"The terms cluster around nervous system development, dendritic spine formation, vesicle docking and size regulation, and maintenance of cell polarity, all of which point to neuronal differentiation and synaptic maturation. Some terms related to bone, epidermis, and angiogenesis appear, but the dominant signal is neural development and synaptic vesicle processes.","confidence":"Medium","size":29,"edges":96,"triangles":123,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006904","count":11},{"id":"GO:0043524","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0032729","count":11},{"id":"GO:0043931","count":11}]},{"hash":"1234899465803345227","title":"Nerve development and myelination","description":"The cluster\u2019s top GO terms point strongly to nervous system maturation, with specific emphasis on paranode localization in axons and myelination, suggesting roles in nerve insulation and axon maintenance. PI3K signaling and actin cytoskeleton reorganization are common in neurite outgrowth and myelin formation, supporting a neural development/differentiation theme; while terms like lens fiber differentiation and skeletal development appear, they seem less central than the neural signals. Overall, the dominant theme is neural development with myelination.","confidence":"High","size":29,"edges":173,"triangles":373,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":9},{"id":"GO:0043552","count":8},{"id":"GO:2000249","count":8},{"id":"GO:0070306","count":8},{"id":"GO:0001501","count":8}]},{"hash":"749287779118562968","title":"Developmental transcription and Rho signaling","description":"The cluster shows enrichment for DNA-templated transcription and histone modification, coupled with positive regulation of GTPase activity and negative regulation of Rho signaling, plus developmental terms (forebrain development, keratinocyte differentiation) and mechanotransduction. This suggests a group of proteins involved in regulating gene expression during development while coordinating cytoskeletal signaling and response to mechanical cues, with apoptosis and lipid signaling also represented. Therefore a label focusing on developmental transcription and Rho-mediated signaling seems representative.","confidence":"Medium","size":29,"edges":33,"triangles":6,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0043966","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0030900","count":4},{"id":"GO:0030216","count":4}]},{"hash":"131785233140492943","title":"Amino acid metabolism and related signaling","description":"The cluster is dominated by amino acid catabolic/biosynthetic terms (L-alanine, L-proline, GABA, putrescine, lysine, heme) and includes signaling/transcription terms (response to cAMP, Notch signaling, DNA-templated transcription), suggesting a metabolic cluster with regulatory links rather than a single precise function.","confidence":"Medium","size":29,"edges":355,"triangles":2644,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051591","count":12},{"id":"GO:0007219","count":11},{"id":"GO:0097053","count":11},{"id":"GO:0042853","count":11},{"id":"GO:0055129","count":7}]},{"hash":"994347628598560508","title":"Skeletal muscle and craniofacial morphogenesis regulators","description":"The top GO terms cluster around muscle differentiation (positive regulation of skeletal muscle cell differentiation, myoblast differentiation, skeletal muscle cell differentiation) and craniofacial development (cartilage morphogenesis, roof of mouth development, outflow tract morphogenesis), with concurrent enrichment for transcriptional regulation (DNA-templated transcription, transcription by RNA polymerase II). This suggests a cohesive module of transcriptional regulators coordinating muscle differentiation with craniofacial morphogenesis.","confidence":"High","size":29,"edges":347,"triangles":2435,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0060536","count":14},{"id":"GO:0060021","count":12},{"id":"GO:2001016","count":12},{"id":"GO:0045663","count":11}]},{"hash":"2035300894140664085","title":"Telomere maintenance regulation and telomeric chromatin localization","description":"This cluster\u2019s top GO terms are dominated by telomere-related processes: negative regulation of telomere maintenance via telomere lengthening, regulation of telomeric DNA binding, and protein localization to the telomeric region, which together suggest a focus on telomere maintenance and telomere-associated chromatin dynamics. Additional terms related to mitotic processes (spindle assembly) and ADP-ribosylation (PARP-related) appear, indicating possible links to DNA damage response during cell division, while a peripheral inclusion of signaling terms (Wnt pathway) may reflect broader regulatory context. Overall, the most coherent theme is telomere maintenance and telomeric chromatin regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904743","count":4},{"id":"GO:0051225","count":4},{"id":"GO:1904357","count":4},{"id":"GO:1904908","count":4},{"id":"GO:0016055","count":4}]},{"hash":"893434135185366483","title":"Wnt-Rho signaling, neuronal development, and synaptic plasticity","description":"The cluster is dominated by terms linking Wnt signaling, Rho-mediated signaling control, and p53-related apoptotic pathways, with additional emphasis on synaptic remodeling (AMPA receptor clustering) and long-term synaptic depression. The mix suggests a functional module where developmental signaling (Wnt, Rho regulation) interfaces with neuronal development and activity-dependent synaptic plasticity, even though a few terms are obsolete or less directly connected (e.g., optic nerve morphogenesis and cloacal septation). Overall, these proteins likely participate in signaling networks that govern neural development and synaptic connectivity, justifying a label around Wnt-Rho signaling and synaptic plasticity.","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0035024","count":4},{"id":"GO:0042771","count":4},{"id":"GO:0032088","count":4},{"id":"GO:1904717","count":3}]},{"hash":"1569618582269008189","title":"Neural Development and Synaptic Regulation","description":"This cluster shows strong signals for neural development and neuronal plasticity (substantia nigra development; regulation of synaptic plasticity), complemented by gene regulation and stress- or xenobiotic-response processes. While there are also terms tied to muscle regeneration and other tissues, the dominant theme is neural development and synaptic function, justifying the label. ","confidence":"Medium","size":29,"edges":209,"triangles":703,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0006479","count":4},{"id":"GO:0051412","count":4},{"id":"GO:0043388","count":4}]},{"hash":"1359520440085979233","title":"Neural Development and Synapse Assembly","description":"The top GO terms cluster around nervous system development (including peripheral nervous system), neuronal migration and chemotaxis, and synapse assembly, with additional links to BMP signaling and cell\u2013cell adhesion, all pointing to roles in neural differentiation, network formation, and connectivity. A few terms related to neutrophil processes appear but do not dominate the theme; overall the cluster represents neural development and synaptic organization.","confidence":"High","size":29,"edges":43,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0030513","count":5},{"id":"GO:0007156","count":5}]},{"hash":"1939795552018909981","title":"Genome maintenance and cellular stress response","description":"The cluster includes base-excision repair, redox homeostasis, and xenobiotic response terms, along with regulation of mRNA stability and cell-cycle progression, which together point to roles in genome integrity maintenance and general stress adaptation. Some terms (corneocyte development, obsolete GO terms) add context but do not negate the core theme.","confidence":"High","size":29,"edges":177,"triangles":507,"max_degree":26,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":8},{"id":"GO:0046856","count":8},{"id":"GO:0045454","count":7},{"id":"GO:0043488","count":7},{"id":"GO:0080111","count":7}]},{"hash":"1261322895670540704","title":"GPCR signaling and developmental differentiation","description":"This cluster centers on signal transduction and its impact on cell fate, with terms like intracellular signal transduction, positive regulation of GTPase activity, peptidyl-threonine phosphorylation, and desensitization of GPCR signaling, plus differentiation-related terms such as intramembranous ossification, regulation of chondrocyte development, and fat cell differentiation. Visual perception and tRNA methylation appear less core but may reflect broader cellular contexts; overall, the data point to signaling-modulated development across skeletal, sensory, and neuroendocrine lineages.","confidence":"Medium","size":29,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0035556","count":2}]},{"hash":"1133710785168757324","title":"Ubiquitin-mediated immune signaling","description":"This cluster is dominated by ubiquitination-related terms (autoubiquitination, polyubiquitination, K63- and K6-linked ubiquitination) and regulation of immune pathways (TNF-mediated signaling, Toll-like receptor signaling). Additional terms on histone turnover and cell-cycle regulation suggest involvement in ubiquitin-dependent proteolysis and signaling that ties protein degradation to immune and chromatin dynamics.","confidence":"High","size":29,"edges":24,"triangles":11,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":15},{"id":"GO:1903265","count":14},{"id":"GO:0042787","count":14},{"id":"GO:0043066","count":13},{"id":"GO:0070534","count":13}]},{"hash":"1794746698342951578","title":"Unknown","description":"The top GO terms span heart development, cardiac regulation, fat differentiation, GPCR desensitization, synaptic plasticity, visual perception, LPS signaling, TNF production, and calcium-dependent exocytosis, showing no single cohesive function or pathway; thus no clear cluster theme can be assigned.","confidence":"","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0018107","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0002029","count":3},{"id":"GO:0031914","count":3}]},{"hash":"1745709245404071681","title":"Mitochondrial electron transport and ATP synthesis","description":"Dominant GO terms point to energy production via mitochondrial respiration: proton transmembrane transport, ATP synthesis coupled electron transport, and mitochondrial electron transport from ubiquinol to cytochrome c. Some terms like photosynthesis and nitrogen fixation may reflect broad annotations or cross-species references, but the core signal is mitochondrial oxidative phosphorylation. ","confidence":"High","size":29,"edges":385,"triangles":3164,"max_degree":28,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:1902600","count":8},{"id":"GO:0042773","count":6},{"id":"GO:0006122","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0019684","count":4}]},{"hash":"285583365820170479","title":"Bacterial Cofactor and Heme Biosynthesis","description":"This cluster is dominated by GO terms for biosynthesis of essential cofactors and prosthetic groups, including PQQ, lipoate, menaquinone, and protoporphyrinogen IX (heme precursor). The presence of leucyl- and methionyl-tRNA aminoacylation terms also appears, suggesting a link to translation machinery; however, the strongest cohesive signal is COFACTORS and heme-related biosynthesis in bacteria. ","confidence":"Medium","size":29,"edges":23,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0018189","count":5},{"id":"GO:0006429","count":5},{"id":"GO:0006431","count":5},{"id":"GO:0019475","count":4},{"id":"GO:0009249","count":4}]},{"hash":"1285948588299725482","title":"Embryonic development and organogenesis","description":"This cluster is dominated by GO terms describing placental/trophoblast differentiation, EMT in heart cushion formation, left-right patterning, cartilage morphogenesis, and endocrine organ development, all pointing to early embryonic tissue formation and organogenesis. A few regulatory terms (splicing and transcription initiation) appear as general expression control but do not override the developmental theme.","confidence":"High","size":29,"edges":16,"triangles":20,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":29},{"id":"GO:0060707","count":29},{"id":"GO:0060536","count":29},{"id":"GO:0035270","count":29},{"id":"GO:0003198","count":29}]},{"hash":"1476500864451795758","title":"Cardiac and neural development with calcium signaling","description":"The top GO terms cluster around heart development, cardiac muscle growth, calcium-mediated signaling, and neuron differentiation, suggesting a shared developmental program linking cardiac and neural lineages with calcium signaling pathways. Some terms (e.g., neutrophil chemotaxis, middle ear morphogenesis) are peripheral or noisy, but the core theme points to cardiac/neural development and calcium signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":4},{"id":"GO:0010460","count":4},{"id":"GO:0061051","count":4},{"id":"GO:0030182","count":4},{"id":"GO:0014065","count":4}]},{"hash":"934079287926157186","title":"Synaptic organization and neuronal development","description":"This cluster is dominated by GO terms tied to synapse formation and function (protein localization to synapse, receptor clustering, long-term synaptic depression) and ear-related development (cochlea morphogenesis, paranodal junction maintenance). Additional terms about adherens junction localization and Wnt signaling regulation fit into neural connectivity and tissue patterning. A few outliers like carnitine transport or proliferation regulation exist but do not override the main neuronal/synaptic theme.","confidence":"High","size":29,"edges":402,"triangles":3548,"max_degree":28,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035418","count":20},{"id":"GO:0090103","count":20},{"id":"GO:0071896","count":20},{"id":"GO:0008285","count":20},{"id":"GO:0060292","count":20}]},{"hash":"2065928862786831879","title":"Integrin signaling and actin protrusion assembly","description":"The terms show strong enrichment for integrin activation and integrin-mediated signaling, along with actin-based structures such as filopodia, podosomes, and microvilli, and Rho-regulated actin remodeling. This points to a cohesive theme of adhesion-related cytoskeletal dynamics and protrusive structures, with supporting signals like TGF-beta response. Overall, it represents integrin-coupled cytoskeletal remodeling and protrusion assembly.","confidence":"High","size":29,"edges":23,"triangles":5,"max_degree":11,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":23},{"id":"GO:0046847","count":21},{"id":"GO:0033623","count":20},{"id":"GO:0033622","count":20},{"id":"GO:0030033","count":19}]},{"hash":"1687136479747632405","title":"Female germline development and meiosis regulation","description":"The top GO terms cluster around oogenesis, female germ-line stem cell maintenance, germ cell migration, and chromosome segregation during meiosis, indicating a coherent focus on female germline development and meiotic control. The presence of post-transcriptional regulation terms (mRNA deadenylation/translation repression) aligns with germline-specific gene expression control, while extrinsic apoptotic signaling and synaptic regulation terms are less central but not mutually exclusive. Overall, the dominant germline and meiosis-related themes support this label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097191","count":2},{"id":"GO:0048792","count":1},{"id":"GO:1900153","count":1},{"id":"GO:0016321","count":1},{"id":"GO:0008354","count":1}]},{"hash":"1225457263750678625","title":"Neuroendocrine signaling and metabolic regulation","description":"The terms cluster around neural signaling (transmission of nerve impulse, GPCR signaling) and neuropeptide secretion (epinephrine, somatostatin), plus physiological regulation of feeding behavior, blood pressure, and glucose homeostasis, indicating a neuroendocrine control module for metabolism and energy balance.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":2},{"id":"GO:0008343","count":2},{"id":"GO:0009267","count":2},{"id":"GO:0001678","count":2},{"id":"GO:0032812","count":2}]},{"hash":"769064981760110248","title":"Stress-Responsive Cytoskeletal Remodeling and Apoptosis","description":"These proteins flag a module centered on cellular stress signaling, with strong emphasis on actin cytoskeleton reorganization and stress-fiber assembly, alongside apoptotic pathways and responses to lipopolysaccharide and glucocorticoids. The combination suggests a coherent theme where stress cues trigger cytoskeletal remodeling and influence cell fate via apoptotic signaling, potentially coordinated with membrane localization and transcriptional regulation. Overall, it points to stress-induced cytoskeletal dynamics linked to survival/death decisions.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0031532","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0090002","count":2}]},{"hash":"2052046545589260439","title":"Unknown","description":"There are no GO terms or functional signals provided for this cluster, and the interaction graph has no edges or triangles, offering no shared functional theme. Even though ReCIPE re-added 20 proteins, this does not establish a cohesive function for the cluster. ","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"209551703777133991","title":"Embryonic and organ development","description":"The proteins show enrichment for neural crest migration, vasculogenesis, forebrain development, lung alveolus development, uterus development, and digestive tract development, among others. This pattern points to a broad involvement in developmental processes and organogenesis rather than a tissue-specific function, suggesting a cohesive theme of embryonic development and morphogenesis across multiple lineages.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001755","count":6},{"id":"GO:0003257","count":6},{"id":"GO:0001570","count":6},{"id":"GO:0045736","count":5},{"id":"GO:0030900","count":5}]},{"hash":"1469812804396982068","title":"Actin cytoskeleton dynamics and cell motility","description":"The cluster is dominated by GO terms related to actin cytoskeleton remodeling and motility, including microspike assembly, actomyosin structure organization, and regulation of Rho signaling, with additional signals for endocytosis (pinocytosis). While transcription-related terms appear, the strongest and most frequent signals point to cytoskeletal dynamics and cellular movement as the core function. This makes the label a concise, representative summary of the cluster\u2019s biology.","confidence":"High","size":29,"edges":9,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048549","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0030035","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":3}]},{"hash":"547602738375920276","title":"Chromatin organization and transcription during development","description":"This cluster is dominated by nuclear/chromatin-related GO terms (nucleosome assembly, DNA-templated transcription, mRNA splicing, establishment of protein localization to chromatin) alongside development-associated terms (nervous system development, myeloid progenitor differentiation, male gonad development). The common thread appears to be chromatin-based regulation of gene expression in developmental contexts, with additional genome maintenance terms (telomere-related) supporting the chromatin/genome integrity theme.","confidence":"Medium","size":29,"edges":92,"triangles":134,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0002318","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1011458287205903106","title":"Neural Development and Axon Guidance","description":"This cluster is dominated by GO terms related to nervous system development and neural wiring, including branchiomotor neuron axon guidance, trigeminal nerve structural organization, sympathetic nervous system development, and broader multicellular organism development with transcriptional regulation. While there are a few outliers (brown fat differentiation, endothelial morphogenesis), the common theme centers on neural development and axon guidance processes.","confidence":"Medium","size":29,"edges":14,"triangles":5,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050873","count":7},{"id":"GO:0021785","count":6},{"id":"GO:0006351","count":6},{"id":"GO:1900220","count":6},{"id":"GO:0021637","count":6}]},{"hash":"1739162452173379120","title":"Ubiquitin-Dependent Signaling Regulators","description":"The cluster is dominated by terms for ubiquitin-dependent protein catabolic processes and autoubiquitination, indicating a core role in protein turnover. It also features regulation of JNK cascades and NF-\u03baB\u2013related events (I\u03baB phosphorylation, NIK activation), suggesting a coordinated module where ubiquitination modulates key inflammatory and stress-response signaling pathways. Some terms relate to chromatin modification and V(D)J recombination, but the prevailing signal points to ubiquitin-mediated regulation of signaling and degradation.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0046328","count":12},{"id":"GO:0051865","count":12},{"id":"GO:1903762","count":10},{"id":"GO:0033151","count":9}]},{"hash":"1776250531966207565","title":"Adipogenesis and Skeletal Development with Telomere Maintenance","description":"This cluster centers on fat cell differentiation and skeletal system development, with supporting signals for DNA-templated transcription and regulation of telomere maintenance. The dominant theme appears to be mesenchymal differentiation toward adipose and skeletal lineages, with telomere maintenance acting as a general cellular stability mechanism; some terms (apoptosis, hormone response) seem peripheral to this core theme. Confidence: Medium","confidence":"","size":28,"edges":34,"triangles":6,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0045444","count":6},{"id":"GO:2001275","count":6},{"id":"GO:1904355","count":6},{"id":"GO:0032212","count":6}]},{"hash":"68489334209434631","title":"Exocytosis and exocyst-mediated vesicle tethering","description":"The top GO terms point to vesicle tethering during exocytosis, Golgi-to-plasma membrane transport, and exocyst assembly/localization, indicating a coherent exocytic/vesicle-trafficking theme. The presence of acrosome assembly and spermatid nucleus elongation further suggests a specialized exocytic process in sperm development, all consistent with an exocyst-centered vesicle trafficking cluster.","confidence":"High","size":28,"edges":349,"triangles":2651,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0090522","count":7},{"id":"GO:0006893","count":7},{"id":"GO:0006887","count":6},{"id":"GO:0051601","count":5},{"id":"GO:0032258","count":4}]},{"hash":"739553147571331905","title":"Immune cell migration and actin dynamics","description":"The cluster centers on actin-driven movement (lamellipodium assembly, actin cytoskeleton organization, cell migration) and immune signaling processes (IL-4 production, IL-7 response, B cell maturation, NK T cell differentiation), with Rac-regulated signaling linking cytoskeletal remodeling to immune pathways; together these suggest a module of leukocyte motility coupled with immune signaling.","confidence":"High","size":28,"edges":367,"triangles":3007,"max_degree":27,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":24},{"id":"GO:0030036","count":24},{"id":"GO:0016477","count":24},{"id":"GO:0032287","count":22},{"id":"GO:0032633","count":22}]},{"hash":"1286765038038139407","title":"Embryonic development and organ morphogenesis","description":"The top GO terms show broad developmental and morphogenetic processes across many tissues (hindlimb, eye, pancreas, gonads, placenta, habenula, prostate) plus DNA-templated transcription, suggesting a general developmental/regulatory program rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":97,"triangles":141,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0035116","count":9},{"id":"GO:0060527","count":9},{"id":"GO:0008584","count":9},{"id":"GO:0048048","count":9}]},{"hash":"219673445046125327","title":"Muscle Development and Protein Turnover","description":"The cluster is enriched for skeletal muscle fiber development and multicellular organism development, implying a role in muscle differentiation. The presence of GO terms for transcription (DNA-templated transcription) and translation initiation, alongside ubiquitin-dependent proteolysis and ERAD-related processes, suggests coordinated regulation of gene expression with protein synthesis and degradation, i.e., protein quality control during muscle development. Overall, the proteins likely participate in muscle formation coupled with proteostasis mechanisms.","confidence":"Medium","size":28,"edges":185,"triangles":452,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0007568","count":3}]},{"hash":"624496728507378135","title":"RNA processing and post-transcriptional regulation","description":"The cluster is dominated by mRNA maturation and regulation terms (polyadenylation, spliceosome-mediated splicing and alternative splicing, splice site recognition, processome assembly) plus regulation of mRNA stability and translational initiation, indicating a cohesive RNA-level processing and post-transcriptional control function.","confidence":"High","size":28,"edges":187,"triangles":657,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":26},{"id":"GO:0010610","count":26},{"id":"GO:0048025","count":25},{"id":"GO:0006376","count":25},{"id":"GO:0000380","count":25}]},{"hash":"2072680208619707802","title":"Broad Substrate Catabolism with Axon Morphogenesis","description":"This cluster is enriched for catabolic processes affecting diverse substrates (N-acetylneuraminate, chitin, carbohydrates, urea, adenine, cytosine). The presence of GO terms on regulation of axon extension and cell shape suggests a potential link to cellular remodeling, possibly in neuronal contexts. Therefore the label highlights the dominant metabolic catabolism with a nod to morphology regulation.","confidence":"Medium","size":28,"edges":105,"triangles":180,"max_degree":15,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0019262","count":6},{"id":"GO:0008360","count":5},{"id":"GO:0006032","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0043419","count":4}]},{"hash":"985493531142663539","title":"Neural development and synaptic signaling","description":"This cluster's top GO terms point to neural development and signaling: anterograde synaptic vesicle transport, negative regulation of neuroblast proliferation, and stem cell maintenance suggest neural progenitor dynamics; activation of protein kinase activity and transcription-related terms indicate signaling and transcriptional control, while lysosome localization and RNA polymerase components reflect general cellular regulation. Taken together, the proteins likely function in neural development and synaptic signaling with coordinated transcriptional regulation.","confidence":"Medium","size":28,"edges":230,"triangles":929,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":3},{"id":"GO:0007406","count":3},{"id":"GO:0032147","count":3},{"id":"GO:0019827","count":2},{"id":"GO:0032418","count":2}]},{"hash":"376624980174896491","title":"Virus-host interaction and replication cycle","description":"The cluster\u2019s top GO terms center on viral processes (viral process, entry, ESCRT-mediated budding, replication, latency, release) and host manipulation (apoptosis, Notch signaling modulation, suppression of host gene expression). This points to proteins involved in the viral life cycle and the virus\u2019s control over host pathways, including entry, replication, budding, and latency, with some host apoptotic responses. Confidence reflects a coherent virus\u2013host interaction theme.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045746","count":4},{"id":"GO:1902231","count":3},{"id":"GO:0039657","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0046718","count":3}]},{"hash":"1189915133665913218","title":"Multisystem Signaling","description":"The cluster\u2019s top GO terms center on signaling processes across diverse contexts: IGF receptor signaling, angiogenesis, interleukin-1 signaling, B cell differentiation, reproductive signaling (acrosome reaction, meiosis activation), neural communication (chemical synaptic transmission), and sensory perception (bitter taste). This points to general roles in signal transduction across multiple tissues rather than a single, cohesive pathway.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000344","count":2},{"id":"GO:0007268","count":2},{"id":"GO:1900122","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0060466","count":2}]},{"hash":"1658084208916164364","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":121,"triangles":159,"max_degree":19,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0046632","count":2},{"id":"GO:0016973","count":2}]},{"hash":"926815116009835585","title":"Organogenesis and angiogenesis signaling","description":"Developmental processes across multiple organs are prominent: heart and nervous system development, visual perception (eye/retina), and angiogenesis, complemented by enriched signaling activities in ERK cascades, GTPase regulation, and PI3K pathways. This suggests a cohesive theme of organogenesis and vascular/neural development driven by key signaling circuits.","confidence":"High","size":28,"edges":58,"triangles":41,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0007507","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0007275","count":8},{"id":"GO:0001525","count":8}]},{"hash":"169276279524468497","title":"Small-molecule biosynthesis and catabolism","description":"Top GO terms cluster around biosynthesis of vitamins/quinones (menaquinone, phylloquinone, biotin), antibiotic biosynthesis, and catabolic pathways for valine, phenylacetate, and fatty acids, indicating a general theme of small-molecule metabolism. A couple of cardiac development/conduction terms seem to be outliers. Confidence: Medium","confidence":"","size":28,"edges":205,"triangles":641,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0009234","count":6},{"id":"GO:0006574","count":6},{"id":"GO:0042372","count":5},{"id":"GO:0010124","count":5}]},{"hash":"1415174966081086680","title":"LPS and UDP-sugar biosynthesis","description":"This cluster is enriched for lipopolysaccharide biosynthetic terms, including core region synthesis, and related carbohydrate metabolism through UDP-glucose and UDP-N-acetylglucosamine pathways, suggesting roles in assembling LPS and glycan components. Dephosphorylation and calcium homeostasis terms appear, but the dominant signal is LPS/glycan biosynthesis. These co-occurring functions point to a cohesive theme around lipid A-core polysaccharide assembly and nucleotide-sugar\u2013mediated biosynthesis.","confidence":"High","size":28,"edges":143,"triangles":341,"max_degree":20,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009103","count":11},{"id":"GO:0009244","count":9},{"id":"GO:0016311","count":7},{"id":"GO:0005978","count":7},{"id":"GO:0006011","count":7}]},{"hash":"326165171730276022","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent protein degradation (SCF-dependent proteasomal ubiquitin-dependent catabolic processes, general ubiquitin-dependent proteolysis, ERAD-associated pathways) and cell cycle control (mitotic G1 DNA damage checkpoint signaling, cell division, regulation of cell proliferation). Additional terms point to regulation of protein polyubiquitination and circadian rhythm, which are often linked to timed proteostasis and coordinated cell cycle progression. Together, these proteins likely function in proteolysis-driven regulation of the cell cycle and circadian timing.","confidence":"High","size":28,"edges":37,"triangles":30,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0031571","count":5},{"id":"GO:1902916","count":5},{"id":"GO:0008285","count":4}]},{"hash":"271982800252681727","title":"Mitotic cell division and growth signaling","description":"This cluster is dominated by GO terms tied to the mitotic cell cycle and cell division (mitotic cycle, spindle orientation, sister chromatid segregation, division), with additional signals of growth and protein synthesis regulation (positive regulation of TORC1 signaling, formation of translation preinitiation complex). These together suggest a cohesive theme around mitosis coupled with growth-related translation initiation, even though a few terms (like spinal cord development) are outliers. Overall, the set points to a mitosis-centric cluster with growth signaling features.","confidence":"High","size":28,"edges":55,"triangles":19,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0000132","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000070","count":4}]},{"hash":"2296126059809444457","title":"Developmental signaling and ECM adhesion","description":"The top GO terms cluster around organism development (forebrain, skeletal system, cartilage), cell-matrix adhesion and integrin signaling, and neural connectivity processes (fasciculation, synapse assembly). This points to a coherent module of tissue morphogenesis where extracellular matrix interactions and developmental signaling drive neural and skeletal patterning. A minor term related to muramyl dipeptide response appears incidental to the core theme. ","confidence":"High","size":28,"edges":235,"triangles":1034,"max_degree":23,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007275","count":23},{"id":"GO:0032495","count":22},{"id":"GO:0071372","count":22},{"id":"GO:0007160","count":22},{"id":"GO:0030900","count":22}]},{"hash":"1772535832501036551","title":"T cell activation and leukocyte trafficking","description":"This cluster centers on T cell signaling and activation (gamma-delta T cell activation, T cell costimulation), immunological synapse regulation, cytokine production (IL-10), phagocytosis recognition, and leukocyte extravasation. Integrin signaling and calcium transport support adhesion and activation, aligning these proteins with immune cell communication and migration. The nerve impulse term is less dominant, likely reflecting shared signaling machinery rather than neuronal function.","confidence":"High","size":28,"edges":37,"triangles":16,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019226","count":6},{"id":"GO:2001046","count":5},{"id":"GO:0070588","count":5},{"id":"GO:2000521","count":5},{"id":"GO:0046629","count":5}]},{"hash":"1278900478827569140","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006388","count":2},{"id":"GO:0006303","count":1},{"id":"GO:0003338","count":1},{"id":"GO:0034965","count":1},{"id":"GO:0000447","count":1}]},{"hash":"1868729279748973001","title":"Sphingolipid and Mycolic Acid Biosynthesis","description":"This cluster is dominated by lipid biosynthesis terms, notably sphingolipid biosynthesis (sphingolipid biosynthetic process, 3-keto-sphinganine metabolism) and mycolic acid biosynthesis, along with fatty acid elongation and very long-chain fatty acid biosynthesis, suggesting a cohesive role in complex lipid assembly and cell envelope construction typical of actinobacteria. Some terms like retinal metabolism or estrogen biosynthesis may be less related or annotation noise, but they do not override the lipid-focused pattern.","confidence":"Medium","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":28},{"id":"GO:0055114","count":28},{"id":"GO:0006666","count":28},{"id":"GO:0030497","count":28},{"id":"GO:0017000","count":28}]},{"hash":"1335844769542471847","title":"Neuronal ubiquitin-mediated protein homeostasis","description":"The top GO terms point to ubiquitin-related deubiquitination activities (K11- and K48-linked, monoubiquitinated protein deubiquitination), along with apoptosis, myelination, and neural-associated behaviors, suggesting a shared theme of protein quality control and turnover in neurons. The absence of edges doesn\u2019t negate this coherence, but the mix of direct proteostasis terms with neuronal/behavioral terms supports a focused label on neuronal ubiquitin-mediated proteostasis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0033138","count":3},{"id":"GO:0042552","count":2},{"id":"GO:0060013","count":2},{"id":"GO:0035520","count":2}]},{"hash":"1602000466505746204","title":"Aromatic compound catabolism and detoxification","description":"This cluster is enriched for catabolic processes of aromatic and other xenobiotic compounds (beta-ketoadipate pathway, 3-phenylpropionate, stilbene, alkaloid metabolism) and oxidative detoxification, suggesting a cohesive module for degradation of aromatic/secondary metabolites and associated redox handling. Some terms like triglyceride or uracil catabolism are less aligned, but the dominant signal points to aromatic compound degradation and detoxification.","confidence":"Medium","size":28,"edges":138,"triangles":269,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0019433","count":22},{"id":"GO:0042952","count":18},{"id":"GO:0055114","count":18},{"id":"GO:0017000","count":18},{"id":"GO:0019380","count":17}]},{"hash":"82727141713158037","title":"Antigen presentation and T cell activation","description":"This cluster centers on defense against bacteria with strong signals for antigen processing/presentation via MHC I and II, phagocytosis, and T cell\u2013mediated responses (including IL-17 production and CD8 regulation), indicating a cohesive module of antigen presentation and adaptive immune activation; some iron transport terms may reflect nutritional immunity components, but the overarching theme is adaptive immune activation.","confidence":"High","size":28,"edges":342,"triangles":2463,"max_degree":27,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050829","count":28},{"id":"GO:1904283","count":28},{"id":"GO:0006910","count":28},{"id":"GO:0002503","count":28},{"id":"GO:0098711","count":28}]},{"hash":"158222270350032146","title":"Intracellular trafficking and organelle homeostasis","description":"The top GO terms cluster around intracellular protein routing and organelle maintenance\u2014Golgi and protein localization, lysosomal membrane organization, and ER stress response\u2014suggesting a shared theme of cellular organization and trafficking. While there are neural-development terms present, the core signal points to intracellular trafficking and organelle function rather than a single tissue-specific process.","confidence":"Medium","size":28,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":1},{"id":"GO:0000042","count":1},{"id":"GO:0051519","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0090162","count":1}]},{"hash":"2038380873320323099","title":"Muscle contraction and sarcomere regulation","description":"This cluster centers on sarcomere organization, muscle filament sliding, and regulation of both striated and smooth muscle contraction, along with fiber-type switching and contraction speed control, indicating a cohesive theme of contractile apparatus organization and contraction regulation across muscle types.","confidence":"High","size":28,"edges":13,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":5},{"id":"GO:0030049","count":4},{"id":"GO:0006942","count":4},{"id":"GO:0014883","count":4},{"id":"GO:0006940","count":4}]},{"hash":"1835036197414314113","title":"Organelle proton transport and vacuolar trafficking","description":"The dominant GO terms cluster around proton transmembrane transport, vacuolar acidification, vacuole organization, and protein targeting to the vacuole, suggesting a cohesive role in organelle ion homeostasis and vacuolar trafficking. Additional hints about mitochondrial respiration and cytochrome c regulation reflect a broader link to energy metabolism. ","confidence":"Medium","size":28,"edges":157,"triangles":442,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":5},{"id":"GO:0042777","count":5},{"id":"GO:0006814","count":4},{"id":"GO:0007035","count":4},{"id":"GO:0015991","count":4}]},{"hash":"1639591879474992175","title":"Lipid biosynthesis and remodeling","description":"This cluster is dominated by GO terms tied to lipid creation and remodeling, including triglyceride biosynthesis, ether lipid biosynthesis, CDP-diacylglycerol biosynthesis, phosphatidylcholine acyl-chain remodeling, platelet activating factor biosynthesis, and cutin biosynthesis. These points suggest a shared function in glycerolipid/phospholipid metabolism and membrane lipid production. A few immune-related terms (IL-2 production, regulation of T cell death) appear but are secondary to the lipid-centric theme.","confidence":"High","size":28,"edges":318,"triangles":2068,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":24},{"id":"GO:0008611","count":19},{"id":"GO:0016024","count":19},{"id":"GO:0070970","count":19},{"id":"GO:0021587","count":19}]},{"hash":"2198986688460866321","title":"Integument Development and ECM Signaling","description":"The GO terms highlight skin and cuticle development, along with collagen/ECM\u2013related signaling and cell adhesion processes, pointing to a cohesive theme of integument formation and extracellular matrix\u2013mediated communication. Additional terms like endodermal differentiation and lymphangiogenesis reflect broader developmental roles but do not outweigh the core integument/ECM signal pattern.","confidence":"High","size":28,"edges":36,"triangles":6,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043588","count":9},{"id":"GO:0042338","count":7},{"id":"GO:2000584","count":7},{"id":"GO:0071230","count":7},{"id":"GO:0035987","count":7}]},{"hash":"1513977608186909425","title":"Spliceosome-Mediated mRNA Splicing and Translational Regulation","description":"This cluster is dominated by GO terms for spliceosome assembly, alternative mRNA splicing, splice site recognition, and other RNA processing steps, with additional terms tied to translational initiation and IRES-dependent translation, suggesting a core function in mRNA processing with linked translation control.","confidence":"High","size":28,"edges":268,"triangles":1425,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":27},{"id":"GO:0000380","count":27},{"id":"GO:0006376","count":27},{"id":"GO:0034462","count":27},{"id":"GO:0075522","count":27}]},{"hash":"1064081615777786054","title":"Angiogenesis and neuronal development with endosomal transport","description":"This cluster is enriched for terms across vascular development (angiogenesis), multicellular growth, and neural/synaptic processes (synaptic transmission and vesicle transport), along with endosomal trafficking and cell junction organization, pointing to a coordinated developmental program linking blood vessel formation, neural signaling, and intracellular transport.","confidence":"Medium","size":28,"edges":348,"triangles":2624,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0001525","count":12},{"id":"GO:0007258","count":12},{"id":"GO:0000187","count":12},{"id":"GO:0035264","count":11},{"id":"GO:0006911","count":9}]},{"hash":"920284865735688443","title":"Unknown","description":"Top terms span very diverse biological themes (neural tube patterning, protoxylem development, metanephric kidney development, polyspermy prevention, sperm binding to zona pellucida, insulin processing, phenylalanine catabolism, copper starvation, proteolysis, cellular response to heparin) with no clear single function tying the cluster together.","confidence":"","size":28,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071504","count":4},{"id":"GO:0021904","count":3},{"id":"GO:0030070","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0006508","count":3}]},{"hash":"1869267194688684319","title":"TLR-driven innate immune signaling","description":"This cluster is enriched for toll-like receptor pathways (TLR8/9 signaling), detection of lipopolysaccharide, and defense responses to Gram-negative bacteria, pointing to innate immune recognition and response. Additional terms related to chemotaxis, endothelial migration, and synapse assembly suggest broader signaling and inflammatory processes that can accompany immunity. The brassinosteroid detection term appears as an outlier, possibly annotation noise. Overall, the core theme is innate immune signaling and pathogen detection.","confidence":"Medium","size":28,"edges":155,"triangles":351,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":28},{"id":"GO:0050829","count":28},{"id":"GO:0050929","count":28},{"id":"GO:0034162","count":28},{"id":"GO:0032497","count":28}]},{"hash":"2063004478242245299","title":"Embryonic morphogenesis and RA signaling","description":"These proteins cluster around embryonic development and organ morphogenesis across multiple tissues (eye, hindlimb, placenta, gonads, prostate, outflow tract) with roles in differentiation, alongside retinoic acid receptor signaling and transcriptional regulation. The combination suggests a RA-regulated transcriptional program guiding embryonic tissue patterning and morphogenesis.","confidence":"High","size":28,"edges":254,"triangles":1351,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":14},{"id":"GO:0060509","count":12},{"id":"GO:0048384","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0035116","count":12}]},{"hash":"1175964602731477474","title":"Neurovascular development and barrier formation","description":"The terms point to CNS-focused development (myelination, substantia nigra development, synaptic plasticity) and barrier biology (endothelial barrier, tight junctions, transcytosis, membrane raft polarization). This combination suggests proteins coordinating neural maturation with neurovascular/blood\u2013brain barrier functions.","confidence":"Medium","size":28,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0070830","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0034115","count":3},{"id":"GO:0061028","count":3}]},{"hash":"1009579984717552668","title":"MAPK signaling in growth and development","description":"The cluster is dominated by MAPK-related terms: p38MAPK cascade, ERK1/ERK2 cascade, and cellular responses to PMA and GM-CSF, together with growth and development terms like budding apical bud growth, multicellular organism development, and mitotic cell cycle, suggesting a cohesive theme around MAPK-mediated signaling driving growth and development. Some related terms about membrane targeting and tight junction assembly fit with signaling coordinating cell organization.","confidence":"High","size":27,"edges":70,"triangles":118,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007118","count":17},{"id":"GO:1904628","count":16},{"id":"GO:0038066","count":16},{"id":"GO:0097011","count":16},{"id":"GO:0070371","count":16}]},{"hash":"2044800670922051334","title":"Developmental transcriptional regulation and cell-cycle control","description":"This cluster is dominated by terms tied to developmental processes (multicellular organism development, forebrain and skeletal system development) alongside core gene-expression and cell-cycle processes (DNA-templated transcription, mRNA processing, mitotic cell cycle). The convergence on transcriptional regulation during development and proliferation suggests a cohesive functional theme, with some peripheral stress-related terms likely representing broader regulatory roles or cross-talk. ","confidence":"High","size":27,"edges":118,"triangles":174,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0006349","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5}]},{"hash":"1619539180257619720","title":"GTPase-regulated vesicle trafficking","description":"The top GO terms point to regulation of GTPase activity (Rab, Rho), Rab signaling, and SNARE complex regulation, all of which tie directly to vesicle trafficking and membrane fusion. This suggests the cluster mainly comprises proteins involved in controlling trafficking through small GTPases. Some mRNA processing/stability and poly-ADP-ribosylation terms appear as auxiliary functions, but the central theme is vesicle trafficking regulation via GTPases.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0035544","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0070212","count":3},{"id":"GO:0032483","count":3}]},{"hash":"1847857842958063166","title":"DNA replication and cell cycle with chromatin regulation","description":"This cluster centers on core DNA replication and cell-cycle processes (DNA replication, centrosome cycle, spindle assembly) and is complemented by transcription control and chromatin-related activities (termination of Pol II transcription, transcription start site regulation, ncRNA-mediated silencing, histone modification). The combination suggests a cohesive theme around genome maintenance, chromosome segregation, and chromatin-assisted transcription, justifying a label that captures both replication/cycle and chromatin/transcription regulation. ","confidence":"Medium","size":27,"edges":239,"triangles":1067,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0007098","count":6},{"id":"GO:0000463","count":5},{"id":"GO:0001178","count":5}]},{"hash":"1431305178147444534","title":"Central metabolism and redox stress response","description":"The cluster is dominated by core metabolic processes (glycolysis, 2-oxoglutarate metabolism, TCA cycle) and amino acid catabolism (leucine), with additional links to redox homeostasis, heme biosynthesis, and detoxification. This combination points to a cohesive theme of energy metabolism coupled to oxidative stress management, with apoptosis and developmental terms likely reflecting broader stress-responsive roles.","confidence":"High","size":27,"edges":176,"triangles":504,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":7},{"id":"GO:0006103","count":7},{"id":"GO:0006099","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0045454","count":6}]},{"hash":"1612549300437276858","title":"Developmental signaling and cell migration","description":"Cluster centers on developmental processes and signaling that control cell movement and tissue formation (nervous system development, neural tube closure, muscle development; insulin/PI3K signaling; endothelial chemotaxis). The mixture of developmental and migration-related GO terms suggests a cohesive theme of signaling governing development and morphogenesis rather than a single enzymatic function.","confidence":"Medium","size":27,"edges":50,"triangles":13,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0008286","count":9},{"id":"GO:0014068","count":8},{"id":"GO:2001028","count":7},{"id":"GO:0001843","count":7}]},{"hash":"552533656608352409","title":"Chromatin organization and epigenetic transcription regulation","description":"The cluster shows enrichment for chromatin-related terms (nucleosome assembly, rDNA heterochromatin formation) and transcription control (DNA-templated transcription, negative regulation of transcription by RNA polymerase II). Epigenetic processes are highlighted by DNA methylation regulation and histone methylation/acetylation, with signals of chromatin dynamics during the cell cycle (mitotic DNA replication checkpoint signaling). Collectively, these terms point to a cohesive role in chromatin remodeling and epigenetic control of gene expression.","confidence":"High","size":27,"edges":273,"triangles":1464,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006334","count":6},{"id":"GO:0010216","count":5},{"id":"GO:0016032","count":4},{"id":"GO:0006351","count":4}]},{"hash":"577164407996233168","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":341,"triangles":2693,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045190","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0000462","count":4},{"id":"GO:0000472","count":4}]},{"hash":"1748712759081243735","title":"CNS Neuron Development and Morphogenesis","description":"The cluster is enriched with GO terms tied to neuronal growth and morphology, including positive regulation of axon extension, dendrite morphogenesis, CNS neuron development, and neuron projection development, indicating a set of proteins involved in shaping neuronal processes. The presence of microtubule bundle formation and regulation of calcium-mediated signaling suggests coordinated cytoskeletal remodeling and signaling required for neurite outgrowth and neuronal maturation. Some terms related to mitochondrial dynamics and neurofibrillary tangles hint at broader neuronal energy regulation and pathology, but the dominant theme is development and morphogenesis of CNS neurons.","confidence":"High","size":27,"edges":313,"triangles":2129,"max_degree":26,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045773","count":6},{"id":"GO:0048813","count":6},{"id":"GO:0021954","count":6},{"id":"GO:0050848","count":5},{"id":"GO:1901216","count":5}]},{"hash":"1747514651749336243","title":"Purkinje Neuron Golgi and Endosomal Trafficking","description":"The cluster centers on vesicle trafficking processes associated with the Golgi and endosomes in neurons, including retrograde Golgi\u2013ER transport, endocytosis, endosome-to-Golgi transport, and Golgi localization/inheritance, plus a cerebellar-specific maturation term (Purkinje cell layer maturation). This suggests a coherent theme of intracellular trafficking in Purkinje neurons during cerebellar development and function.","confidence":"High","size":27,"edges":209,"triangles":962,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":10},{"id":"GO:0006890","count":9},{"id":"GO:0009615","count":9},{"id":"GO:0016185","count":9},{"id":"GO:0006897","count":9}]},{"hash":"1375612051306907881","title":"Rho\u2013Actin Signaling and Neuronal Plasticity","description":"Proteins in this cluster are enriched for actin cytoskeleton remodeling and Rho-mediated signaling, with links to neuronal signaling and plasticity (synaptic plasticity regulation, morphine response) and core pathways such as PI3K and NF-\u03baB. The presence of apoptosis-related signaling hints at broader cell fate signaling but does not outweigh the dominant theme of cytoskeletal dynamics and signaling relevant to neural plasticity.","confidence":"Medium","size":27,"edges":120,"triangles":211,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0007266","count":3},{"id":"GO:0000722","count":3},{"id":"GO:0060396","count":2},{"id":"GO:0031914","count":2}]},{"hash":"1185114303747175387","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0060271","count":2},{"id":"GO:1901639","count":1},{"id":"GO:0006382","count":1}]},{"hash":"2110449911848528895","title":"Retinoid and Vitamin Metabolism","description":"This cluster is strongly linked to retinal and retinol metabolic processes, which points to retinoid (vitamin A) metabolism as the core theme. Additional GO terms indicate broader vitamin/cofactor and general metabolic pathways (glutathione and pyridoxal biosynthesis, bile acid catabolism), suggesting a metabolism-centered group with retinoid metabolism as the dominant signal. The calcium signaling and smooth muscle regulation terms are less central but may reflect downstream effects in metabolically active tissues.","confidence":"Medium","size":27,"edges":200,"triangles":890,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":14},{"id":"GO:0042572","count":14},{"id":"GO:0055114","count":13},{"id":"GO:0071277","count":12},{"id":"GO:0030573","count":11}]},{"hash":"1251445709319088654","title":"Dermal, mammary, and muscular development with endothelial regulation","description":"The top GO terms cluster around tissue development: skin (dermal) development, embryonic digestive tract development, mammary gland alveolus development, and myoblast differentiation, indicating coordinated epithelial/muscle tissue formation. Additional terms reflect vascular context (regulation of endothelial barrier) and signaling processes (nitric oxide biosynthesis, apoptotic signaling), suggesting accompanying endothelial and signaling modulation during morphogenesis. Overall, the proteins appear to participate in broad developmental programs across skin, mammary/muscle tissues, and vascular interfaces, rather than a single narrow function.","confidence":"Medium","size":27,"edges":164,"triangles":577,"max_degree":24,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0043588","count":14},{"id":"GO:0071230","count":14},{"id":"GO:0048566","count":14},{"id":"GO:0060749","count":12},{"id":"GO:0045429","count":12}]},{"hash":"2139365869796591250","title":"Synaptic and Cardiac Signaling","description":"Top GO terms point to neural communication and auditory perception (sensory perception of sound; chemical synaptic transmission; cell communication by chemical coupling) as well as cardiac electrophysiology (regulation of heart rate by cardiac conduction; ventricular cardiac muscle cell action potential). Together these indicate a cluster of proteins involved in intercellular signaling and electrical signaling in neural and cardiac tissues. The remaining terms (trophoblast differentiation, pregnancy, dexamethasone response, caudal fin morphogenesis) may reflect broader developmental or species-specific roles that are less central to the core signaling theme.","confidence":"Medium","size":27,"edges":196,"triangles":772,"max_degree":24,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0007605","count":13},{"id":"GO:0010643","count":12},{"id":"GO:0007268","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0014717","count":12}]},{"hash":"2107329871598835680","title":"Immune activation and cell trafficking","description":"Based on the top GO terms, the cluster is enriched for innate immune response, Fc-epsilon receptor signaling, gamma-delta T cell activation, monocyte extravasation, and immunological synapse organization (including negative regulation). These collectively point to immune signaling and trafficking of immune cells; a few terms (palmitoylation, vacuole fusion, sebaceous gland development) are less central and could reflect broader cellular processes, but the dominant theme is immune cell activation and movement.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018230","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0048733","count":3},{"id":"GO:0038095","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1898444583601125991","title":"Developmental transcription and mitotic regulators","description":"This cluster is dominated by GO terms related to organismal development (multicellular development, skeletal system development, spinal cord development) and core gene expression processes (DNA-templated transcription), as well as cell division (mitotic cell cycle, mitotic spindle assembly). The presence of positive regulation of GTPase activity suggests regulatory signaling linked to cytoskeletal dynamics during development and mitosis. An outlier term about defense against Gram-positive bacteria exists, but the prevailing theme points to proteins coordinating development with transcriptional control and cell division. ","confidence":"Medium","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006349","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0090307","count":5}]},{"hash":"478469449051001183","title":"Immune and Endothelial Differentiation Regulators","description":"The top GO terms point to differentiation and development across multiple tissues, notably immune-related differentiation (immunoglobulin production, plasma cell differentiation) and vascular lineages (endothelial morphogenesis, regulation of angiogenesis, endothelial proliferation). Additional terms for tendon and neuron development, often with regulatory roles, further support a theme of broad differentiation programs and their modulation rather than a single, isolated pathway. While the proteins don\u2019t form a tightly connected network, the cluster collectively reflects regulators of differentiation across immune and vascular contexts. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001886","count":2},{"id":"GO:0007585","count":2},{"id":"GO:0002377","count":2},{"id":"GO:2001238","count":2},{"id":"GO:0042985","count":2}]},{"hash":"2181645717678135938","title":"Spliceosome-Mediated Splicing Regulation","description":"The majority of the top GO terms pertain to mRNA processing and spliceosome-related events (negative regulation of mRNA splicing via spliceosome, mRNA splice site recognition, alternative mRNA splicing via spliceosome, and small-subunit processome assembly), suggesting the cluster centers on RNA splicing control. A few terms (intracellular signaling, fat cell differentiation, phenazine biosynthetic process) appear as outliers, but do not override the core theme.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0060394","count":2},{"id":"GO:0002047","count":2},{"id":"GO:0007605","count":1}]},{"hash":"883791184784749865","title":"Neural adhesion, synapse formation, and axon regeneration","description":"This cluster is dominated by GO terms tied to neuron cell-cell adhesion, nervous system development, and positive regulation of synapse assembly, with specific references to peripheral nervous system axon regeneration and homophilic adhesion. While there are ancillary terms about extracellular matrix organization and signaling pathways (collagen fibril organization, Wnt-related signaling), the core function appears to be neural connectivity and repair. ","confidence":"High","size":27,"edges":5,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007158","count":14},{"id":"GO:0007399","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0001525","count":13},{"id":"GO:0007156","count":13}]},{"hash":"1039685029852132164","title":"Protein acetylation and chromatin modification","description":"This set is dominated by acetylation-related GO terms (peptidyl-lysine N6-acetylation, N-terminal acetylation, histone acetylation, propionylation) and includes acetyltransferase involvement in melatonin biosynthesis and chromatin-associated processes like sister chromatid cohesion. The unifying theme appears to be protein acetylation and chromatin regulation.","confidence":"High","size":27,"edges":176,"triangles":551,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":14},{"id":"GO:0018003","count":14},{"id":"GO:0032919","count":13},{"id":"GO:0030187","count":13},{"id":"GO:0071962","count":13}]},{"hash":"1534913643074386626","title":"Neuropeptide GPCR Signaling and Feeding Regulation","description":"The cluster is dominated by neuropeptide signaling and GPCR-mediated signaling linked to feeding behavior (neuropeptide signaling pathway, GPCR signaling), with ERK cascade regulation supporting this signaling axis; a few terms hint at circadian/temperature modulation, but feeding-related terms are most representative.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":3},{"id":"GO:0010579","count":2},{"id":"GO:0070374","count":2},{"id":"GO:1900036","count":1},{"id":"GO:0008343","count":1}]},{"hash":"244275448230307430","title":"Angiogenesis and vascular development","description":"Most terms point to blood vessel formation and endothelial proliferation (angiogenesis, endothelial proliferation) and extracellular matrix remodeling (collagen fibril organization). Supporting signals include ERK cascade activation and Hedgehog/Smoothened signaling, which are involved in developmental patterning and vascular development. The combination suggests a cluster of proteins coordinating angiogenesis and vascular/matrix development, with related developmental signaling involvement.","confidence":"High","size":27,"edges":110,"triangles":133,"max_degree":16,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0001938","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0007224","count":3}]},{"hash":"1887533146244466883","title":"Behavioral and Hormonal Stimulus Responses","description":"These terms cluster around nervous-system\u2013driven behaviors and hormone-mediated signaling: locomotory exploration, startle, and pain-related responses suggest behavioral modulation, while cAMP biosynthesis and negative regulation of epinephrine secretion point to signaling and endocrine control. The inclusion of cellular responses to cocaine supports neuromodulatory stimulus responses. Some terms (gastric emptying, lung development) are broader physiological processes and less tightly tied, but they can be linked to systemic hormonal signaling. Overall, the cluster seems to reflect behavioral responses coupled with hormonal signaling rather than a single pathway, so a Medium confidence label is appropriate.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":2},{"id":"GO:0048265","count":1},{"id":"GO:0006171","count":1},{"id":"GO:0007565","count":1},{"id":"GO:0035483","count":1}]},{"hash":"2071311931569138015","title":"Embryonic organogenesis and patterning","description":"The cluster\u2019s top GO terms cluster around embryonic development and tissue morphogenesis\u2014placental differentiation, heart and cartilage morphogenesis, endocrine system development, EMT in heart formation, left-right patterning, and related organogenesis processes\u2014suggesting a coherent theme of embryonic development and organ formation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4}]},{"hash":"943187934672826319","title":"Immune synapse formation and cell adhesion","description":"The top GO terms point to cell\u2013cell adhesion and immune signaling (heterophilic adhesion, actin cytoskeleton regulation by adhesion) with related modulation of cytotoxic lymphocyte activity and macrophage activation. Beyond that, there are terms tying to immune cell communication and a synapse-like assembly theme, suggesting proteins involved in forming/ modulating immune interfaces and cytoskeletal rearrangements. Overall, this cluster represents immune-cell adhesion and signaling at contact sites, i.e., an immune synapse\u2013like module.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051963","count":23},{"id":"GO:0046718","count":23},{"id":"GO:0043318","count":22},{"id":"GO:0043031","count":22},{"id":"GO:0007157","count":22}]},{"hash":"1418642004632107351","title":"Neuronal signaling and cytoskeletal dynamics","description":"The top GO terms are dominated by neuronal/synaptic processes (synapse maturation, regulation of dopamine receptor signaling, cellular response to electrical stimulus) and cytoskeletal/ membrane organization (regulation of cell shape, filopodium assembly, protein localization to plasma membrane). A minority of terms relate to cell cycle checkpoints, indicating some heterogeneity, but the dominant theme is neuronal signaling coupled with cytoskeletal regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0060074","count":3},{"id":"GO:0051491","count":3},{"id":"GO:0007194","count":3},{"id":"GO:0060160","count":3}]},{"hash":"1833804791992297233","title":"Axon guidance and neural development","description":"The top GO terms center on axon pathfinding and neural development, including branchiomotor and sympathetic neuron guidance, trigeminal nerve organization, semaphorin-plexin signaling, neural crest migration, axon extension, synapse assembly, and dendrite self-avoidance, indicating a cohesive cluster of proteins involved in neuronal wiring and nervous system formation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0021785","count":5},{"id":"GO:0097490","count":5},{"id":"GO:0021637","count":5},{"id":"GO:0048846","count":5},{"id":"GO:0097491","count":5}]},{"hash":"335420236192744659","title":"DNA Repair and UV Response","description":"Proteins in this cluster are enriched for nucleotide-excision repair, transcription-coupled repair, and pyrimidine dimer repair, all tied to responding to UV-induced DNA damage. While other terms touch on transcription regulation or development, the strongest common thread is DNA repair in response to UV exposure, justifying this label as representative.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":2},{"id":"GO:0006283","count":1},{"id":"GO:0010224","count":1},{"id":"GO:0061178","count":1},{"id":"GO:1901666","count":1}]},{"hash":"167957422729536429","title":"Intracellular vesicle trafficking and autophagy","description":"The top GO terms point to membrane trafficking steps (plasma membrane to endosome transport, intra-Golgi transport, COPII coating) and organelle assembly (melanosome), plus autophagy. Also, several terms describe negative regulation of signaling and localization to the cell surface, consistent with regulators of trafficking that modulate signaling pathways. Together, these terms suggest a cohesive theme of vesicle transport and autophagic processes.","confidence":"High","size":27,"edges":46,"triangles":16,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":3},{"id":"GO:0032088","count":2},{"id":"GO:2000009","count":2},{"id":"GO:1902306","count":2},{"id":"GO:1902072","count":2}]},{"hash":"931555012973838701","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The top GO terms cluster around actin cytoskeleton organization, lamellipodium/filopodium assembly, and processes that promote fibroblast migration and substrate spreading, pointing to actin-driven remodeling and motility as the unifying theme. Some terms touch neuronal functions (GABAergic transmission, auditory perception), which may reflect tissue-specific roles, but the dominant signal is cytoskeletal dynamics guiding cell movement.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":8},{"id":"GO:0051146","count":8},{"id":"GO:0051932","count":7},{"id":"GO:0030036","count":7},{"id":"GO:0007605","count":7}]},{"hash":"1804918845333853848","title":"Neural development and synapse organization","description":"This cluster is enriched for nervous system development, positive regulation of synapse assembly, retina homeostasis, and clustering of voltage-gated sodium channels, pointing to neural connectivity and synaptic organization. The presence of immune and bone-related terms suggests some pleiotropy, but the dominant theme centers on neural development and synaptic assembly.","confidence":"Medium","size":27,"edges":39,"triangles":42,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":12},{"id":"GO:0051965","count":10},{"id":"GO:0001895","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0045162","count":9}]},{"hash":"1891488599414987797","title":"Synaptic spine morphogenesis and actin remodeling","description":"The cluster is enriched for GO terms about actin filament organization and branching, dendritic spine morphogenesis, and long-term synaptic depression, all pointing to actin-driven remodeling at neuronal synapses. Rho signaling regulation and tyrosine phosphorylation further support pathways that control cytoskeletal dynamics and synaptic plasticity. While some terms touch membrane dynamics and signaling in other contexts, the strongest, most coherent theme is actin-mediated spine development and synaptic strength changes.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":25},{"id":"GO:0060292","count":23},{"id":"GO:0007015","count":23},{"id":"GO:0060997","count":23},{"id":"GO:0050731","count":23}]},{"hash":"1033425128443092542","title":"ER Tubular Network Formation and Maintenance","description":"The cluster is enriched for GO terms describing ER tubular network formation, membrane organization, and maintenance, pointing to a common role in ER remodeling; additional terms about steroid biosynthesis, fatty acid metabolism, and neural development suggest broader cellular context.","confidence":"High","size":27,"edges":24,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071787","count":3},{"id":"GO:0071391","count":3},{"id":"GO:0032000","count":2},{"id":"GO:1990809","count":2},{"id":"GO:2000172","count":2}]},{"hash":"1891185921897068209","title":"Synaptic signaling and membrane remodeling","description":"This cluster combines neuronal communication terms (nerve impulse transmission, excitatory postsynaptic potential, calcium transmembrane transport) with membrane/cytoskeletal dynamics (bleb assembly, membrane raft assembly, actin-mediated contraction, endosome transport, membrane hyperpolarization), pointing to proteins involved in synaptic signaling and active membrane remodeling at or near synapses.","confidence":"High","size":27,"edges":14,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032060","count":7},{"id":"GO:0070588","count":7},{"id":"GO:0019226","count":6},{"id":"GO:0045022","count":6},{"id":"GO:0060079","count":6}]},{"hash":"2190229227171758940","title":"Calcium signaling and sensory perception","description":"This cluster is dominated by terms related to calcium-dependent signaling (calcineurin-NFAT regulation, store-operated calcium channels, intracellular calcium signaling) and sensory functions (photoreceptor maintenance, visual perception), suggesting a cohesive theme around calcium-mediated signaling in sensory cells. Additional terms about ion transport and membrane-associated biosynthesis are consistent with a signaling-ready, membrane-anchored context, supporting the calcium-sensing framework. Overall, the connection to calcium signaling with sensory processes is clear, though a few outliers exist. ","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051533","count":3},{"id":"GO:0035988","count":3},{"id":"GO:0035584","count":3},{"id":"GO:0032237","count":3},{"id":"GO:1902476","count":3}]},{"hash":"704624649724804428","title":"GPCR-AC/cAMP signaling and cardiovascular regulation","description":"The cluster is enriched for GO terms involving adenylate cyclase activation via GPCR signaling, activation of adenylate cyclase, heart contraction and blood pressure regulation, hormone secretion, and smooth muscle activity, indicating a cohesive GPCR-driven cAMP signaling module linked to cardiovascular and hormonal regulation.","confidence":"High","size":27,"edges":61,"triangles":50,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":27},{"id":"GO:0022900","count":27},{"id":"GO:0007190","count":27},{"id":"GO:0045777","count":27},{"id":"GO:0014827","count":26}]},{"hash":"164240588676564815","title":"Ubiquitin-Proteasome Proteostasis via ERAD","description":"The cluster is strongly characterized by terms tied to ubiquitin-mediated degradation, notably aggresome assembly, ubiquitin-dependent ERAD, and autoubiquitination, pointing to protein quality control and ER-associated degradation as the core function of the protein set. While some other terms touch on metabolism or epigenetic regulation (and are labeled obsolete), the dominant signal is proteostasis via the ubiquitin-proteasome system and ERAD pathways.","confidence":"High","size":26,"edges":260,"triangles":1467,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010216","count":16},{"id":"GO:0070842","count":16},{"id":"GO:0030433","count":16},{"id":"GO:0051865","count":16},{"id":"GO:1904378","count":15}]},{"hash":"563579072648057947","title":"Neuronal Synaptic Plasticity Regulation","description":"The top GO terms cluster around modulation of synaptic function and signaling, especially dopamine secretion regulation and long-term/short-term synaptic plasticity. This points to a theme of neuronal signaling regulation and plasticity, with a few ancillary terms likely reflecting multifunctional proteins or annotation noise. ","confidence":"High","size":26,"edges":13,"triangles":0,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0014059","count":26},{"id":"GO:0060291","count":26},{"id":"GO:0043314","count":25},{"id":"GO:2000238","count":25},{"id":"GO:0060304","count":25}]},{"hash":"1518026551475721224","title":"Synapse Localization and Axon Extension","description":"This cluster is dominated by GO terms linking proteins to synapse localization and axon outgrowth, suggesting a neuronal development/connectivity theme. While some terms touch on other processes (cell cycle, apoptosis), the strongest signal aligns with synaptic targeting and axon extension.","confidence":"Medium","size":26,"edges":310,"triangles":2273,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":26},{"id":"GO:0006349","count":26},{"id":"GO:0060484","count":26},{"id":"GO:1903343","count":26},{"id":"GO:2001033","count":26}]},{"hash":"625129086255481910","title":"Xenobiotic and small-molecule metabolism","description":"The set is dominated by GO terms for xenobiotic metabolism (including bile acids, catecholamines, ethanol, and flavonoids) and related modifications like sulfation, pointing to detoxification and processing of endogenous and exogenous small molecules. Some terms refer to glycosaminoglycan biosynthesis and proteoglycan modifications (obsolete GO terms), but the strongest recurring theme across the cluster is metabolism of diverse small molecules and xenobiotics.","confidence":"Medium","size":26,"edges":208,"triangles":950,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":24},{"id":"GO:0015015","count":24},{"id":"GO:0030573","count":21},{"id":"GO:0006584","count":21},{"id":"GO:0006477","count":21}]},{"hash":"382804020974690312","title":"Follicle Epithelium Polarity and ECM Glycosylation","description":"The top GO terms point to insect ovarian follicle epithelium development, with emphasis on follicle cell adhesion and maintenance of polarity, alongside extracellular matrix\u2013related glycosylation processes (proteoglycan biosynthesis and O-linked glycosylation). While a few plant cell wall terms appear, the strongest signal is epithelial organization and ECM glycosylation in follicle cells, suggesting a role in epithelial polarity and matrix modification.","confidence":"High","size":26,"edges":307,"triangles":2227,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0001744","count":8},{"id":"GO:0007299","count":8},{"id":"GO:0042248","count":8},{"id":"GO:0071555","count":8}]},{"hash":"316034930456135362","title":"Neural development and axon guidance","description":"The cluster is dominated by GO terms tied to neural development and axon pathfinding, such as retinal ganglion cell axon guidance, fasciculation of sensory neuron axons, substrate adhesion-dependent cell spreading, and cell migration involved in sprouting angiogenesis. Additional terms like multicellular organism development and signaling pathways (PI3K-AKT) support developmental remodeling and neural connectivity, with broader references to inflammatory responses. Taken together, the core theme is neural development and axon guidance, with related vascular remodeling context.","confidence":"High","size":26,"edges":231,"triangles":1347,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":16},{"id":"GO:0071260","count":13},{"id":"GO:0031290","count":13},{"id":"GO:0034446","count":13},{"id":"GO:0097155","count":13}]},{"hash":"1023631567669600446","title":"Notch signaling and cell fate specification","description":"The top GO terms cluster around Notch signaling and diverse cell-lineage differentiation (neural, pancreatic, mast cell, myoblast, hemangioblast, chromaffin, cardiac/vascular), with transcription by RNA Pol II indicating shared transcriptional regulation underlying these differentiation programs; together they point to a Notch-driven cell fate specification network.","confidence":"High","size":26,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":8},{"id":"GO:0021520","count":8},{"id":"GO:0006366","count":7},{"id":"GO:0061106","count":6},{"id":"GO:0003329","count":6}]},{"hash":"12189344983795025","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051301","count":3},{"id":"GO:1901639","count":2},{"id":"GO:0006382","count":2},{"id":"GO:0046709","count":2}]},{"hash":"1849946802151075730","title":"Developmental Metabolism","description":"This cluster is dominated by metabolism-related GO terms (glutamine, nucleoside, AMP, hypoxanthine, urate biosynthesis, and phosphorylation), complemented by development-related terms (nervous system development, bone development, and animal organ regeneration). The co-occurrence suggests a group of proteins involved in biosynthetic pathways that supply the resources and signaling needed for growth and tissue formation. The presence of a fungal-type cell wall organization term may reflect cross-species annotation artifacts, but does not override the predominant metabolic-and-development theme. ","confidence":"Medium","size":26,"edges":250,"triangles":1515,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006541","count":6},{"id":"GO:0031505","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0031100","count":5},{"id":"GO:0009116","count":5}]},{"hash":"1974168686498275164","title":"Pollen exine formation and anther dehiscence","description":"This cluster centers on pollen development, with GO terms for anther dehiscence and pollen exine formation. The protein N-linked glycosylation term suggests secreted glycoproteins involved in pollen wall assembly, while the multiple nucleotide-sugar catabolic processes (UDP, GDP, ADP, CDP) likely provide substrates for glycosylation and polysaccharide synthesis in the pollen wall. Together, these terms point to coordinated processes of pollen wall construction and timely release from the anther.","confidence":"High","size":26,"edges":120,"triangles":332,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":10},{"id":"GO:0009901","count":9},{"id":"GO:0010584","count":9},{"id":"GO:0071405","count":9},{"id":"GO:0006256","count":9}]},{"hash":"1604677039775756107","title":"Multisystem Cell Differentiation","description":"The top GO terms all point to development and differentiation across a variety of tissues (stomach neuroendocrine cells, pancreatic PP cells, mast cells, myoblasts, hemangioblast lineage, cardiac/vascular smooth muscle, adrenal chromaffin cells, heart valve proliferation, retina, renal fibroblasts). There isn\u2019t a single pathway or tissue focus, but a shared theme of lineage specification across multiple organ systems, indicating broad developmental differentiation rather than a specific function.","confidence":"Medium","size":26,"edges":321,"triangles":2510,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061106","count":26},{"id":"GO:0003329","count":26},{"id":"GO:0060375","count":26},{"id":"GO:1901741","count":26},{"id":"GO:0060217","count":26}]},{"hash":"306097088017794934","title":"Cardiac muscle development","description":"These proteins are enriched for GO terms related to heart contraction and muscle development (heart, cardiac muscle tissue development, muscle organ/cell development, vascular smooth muscle development) and even swim bladder inflation in fish, pointing to a role in cardiac/skeletal muscle formation and function. The presence of intracellular transport terms (ER to Golgi vesicle-mediated transport, protein transport, retrograde endosome-to-Golgi transport) suggests these proteins also participate in muscle cell protein processing and trafficking, a common supporting process for muscle tissue assembly and maintenance. Overall this cluster corresponds to Cardiac muscle development.","confidence":"High","size":26,"edges":49,"triangles":22,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0060047","count":5},{"id":"GO:0048747","count":4},{"id":"GO:0007517","count":4},{"id":"GO:0097084","count":4},{"id":"GO:0048798","count":4}]},{"hash":"2194990187627464379","title":"Vesicle trafficking and protein processing","description":"This cluster is dominated by GO terms related to intracellular transport and membrane trafficking, including ER\u2013Golgi and Golgi\u2013ER vesicle transport, endocytosis, and endosome-to-melanosome movement, plus regulation of protein catabolic processes and protein heterooligomerization. These together point to a cohesive theme of vesicle trafficking and protein maturation/assembly, with some developmental terms likely reflecting broader roles in context. Confidence: High","confidence":"","size":26,"edges":275,"triangles":1637,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042176","count":17},{"id":"GO:0006890","count":17},{"id":"GO:0000060","count":17},{"id":"GO:0006897","count":15},{"id":"GO:0035646","count":15}]},{"hash":"1800876342063674768","title":"MAPK signaling inhibition and cell cycle control","description":"The cluster is dominated by terms that regulate MAPK/ERK signaling (peptidyl-tyrosine dephosphorylation, ERK cascade), along with negative regulation of T cell receptor signaling. It also includes cell cycle\u2013related processes (mitotic checks, chromatid biorientation) and related pathways like vascular permeability, suggesting a cohesive module of signaling inhibition tied to cell cycle progression rather than a single pathway. Confidence: High","confidence":"","size":26,"edges":276,"triangles":1705,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":24},{"id":"GO:0050860","count":23},{"id":"GO:0070373","count":23},{"id":"GO:0000200","count":23},{"id":"GO:0007049","count":21}]},{"hash":"2281155542323156874","title":"Ubiquitin-Proteasome Proteolysis","description":"This cluster is strongly enriched for ubiquitin-dependent protein catabolic process and proteasome assembly, pointing to a core role in protein turnover and proteostasis. Other terms reflect broader regulatory roles of proteostasis components in transcription and signaling, and even development, which can be connected to degradation-mediated control of these processes. Overall, the dominant theme is protein degradation via the ubiquitin-proteasome system.","confidence":"High","size":26,"edges":255,"triangles":1332,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0048455","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0043248","count":4},{"id":"GO:0015995","count":3},{"id":"GO:0048747","count":3}]},{"hash":"155657363224993228","title":"Mitotic spindle and cytokinesis machinery","description":"Top terms cluster around mitosis, spindle assembly, and cytokinesis, indicating these proteins participate in cell division and microtubule-based processes. The neuron migration term likely reflects shared cytoskeletal dynamics rather than a separate function, but the dominant theme is mitotic spindle organization and cytokinesis.","confidence":"High","size":26,"edges":68,"triangles":33,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0007020","count":4},{"id":"GO:0001764","count":4},{"id":"GO:1903087","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1579634102246710549","title":"Mammary Gland Development and Transcription Regulation","description":"The cluster combines strong signals for transcriptional regulation (DNA-templated transcription, transcription regulation) with cell cycle and meiosis processes, plus lactation- and mammary gland development-associated terms. The presence of insulin/leptin signaling links to metabolic regulation, which often accompanies lactation and mammary development. Taken together, this suggests a theme of transcription control and cell-cycle coordination in mammary development and lactation contexts.","confidence":"Medium","size":26,"edges":116,"triangles":204,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0046626","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0060749","count":4},{"id":"GO:0007595","count":4}]},{"hash":"311667138930413954","title":"RNA processing and translation regulation","description":"Dominated by RNA modification and processing terms (pseudouridylation of rRNA/snRNA, snoRNP assembly, splicing regulation) and translation (translation, selenocysteine incorporation), with some signaling pathway regulators (JNK/p38) that often influence translation. This points to a cluster of proteins involved in RNA maturation and control of protein synthesis.","confidence":"Medium","size":26,"edges":46,"triangles":15,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0031120","count":2},{"id":"GO:1904571","count":2},{"id":"GO:0048025","count":2},{"id":"GO:0046330","count":2}]},{"hash":"548181831064238953","title":"Bone and cartilage development with ECM remodeling","description":"This cluster centers on skeletal tissue formation and extracellular matrix turnover: bone trabecula formation, growth plate cartilage development, and collagen/ECM disassembly. Amelogenesis adds a related mineralized-tissue theme, while wound healing and immune response align with tissue remodeling and repair. Overall, the dominant theme is bone/cartilage development coupled with ECM remodeling.","confidence":"High","size":26,"edges":130,"triangles":288,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0045919","count":3},{"id":"GO:0097186","count":3},{"id":"GO:0003417","count":3},{"id":"GO:0097150","count":3},{"id":"GO:0035987","count":3}]},{"hash":"1676875234951927680","title":"Developmental morphogenesis and skeletal growth","description":"The top GO terms cluster around developmental control of growth and tissue morphogenesis, including osteoblast differentiation and chondrocyte proliferation (bone/cartilage), face morphogenesis, and atrial septum morphogenesis, with regulatory signaling (negative regulation of IGF signaling and BMP signaling) and cell-matrix adhesion. Although a membrane attack complex activation term appears, the dominant theme is coordinated growth and morphogenesis during development, especially in skeletal tissues. ","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001558","count":10},{"id":"GO:0043569","count":10},{"id":"GO:0001649","count":8},{"id":"GO:0044342","count":8},{"id":"GO:0030514","count":7}]},{"hash":"213361953884117829","title":"Coagulation and Extracellular Matrix Remodeling","description":"The top GO terms cluster around blood coagulation, fibrinolysis, and plasminogen activation regulation, together with extracellular matrix (ECM) constituent secretion, adhesion, and ossification. This points to a cohesive module of proteolytic and ECM remodeling activities linked to hemostasis, tissue remodeling, and bone maturation. While neural-related terms appear (sensory perception of sound, glutamamatergic transmission, locomotion), they are less dominant, so the central theme is coagulation and ECM/bone remodeling.","confidence":"Medium","size":26,"edges":60,"triangles":31,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":8},{"id":"GO:0003331","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0043931","count":5}]},{"hash":"1765229762288963174","title":"Olfactory and endothelial morphogenesis with proteoglycan metabolism","description":"The top GO terms cluster around developmental morphogenesis, notably olfactory nerve formation and olfactory placode morphogenesis, as well as endothelial morphogenesis and regulation of endothelial proliferation, with additional proteoglycan-related metabolism (dermatan sulfate and heparin proteoglycans). This points to a shared theme of tissue development and ECM remodeling, particularly in olfactory and vascular contexts, guided by proteoglycan metabolism.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021628","count":3},{"id":"GO:0071699","count":3},{"id":"GO:0001886","count":2},{"id":"GO:0002377","count":2},{"id":"GO:0001937","count":2}]},{"hash":"694126695639216255","title":"Unknown","description":"The top GO terms show diverse processes: cytoskeletal organization and mitosis (mitotic contractile ring, centrosome localization), signaling pathway regulation (Ras, PKA, VEGF), vesicle/secretory granule localization, development, and even reproductive-related binding. There is no single cohesive function emerging, so a specific, representative label cannot be confidently assigned.","confidence":"","size":26,"edges":50,"triangles":31,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:1903477","count":1},{"id":"GO:0097332","count":1},{"id":"GO:0021678","count":1},{"id":"GO:0007118","count":1},{"id":"GO:2000480","count":1}]},{"hash":"224836113829018348","title":"ER Protein Folding and Quality Control","description":"Cluster centers on protein folding/maturation in the endoplasmic reticulum, including ER targeting and chaperone-assisted refolding, with redox homeostasis; i.e., ER protein folding and quality control.","confidence":"High","size":26,"edges":283,"triangles":1804,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097428","count":23},{"id":"GO:0032781","count":23},{"id":"GO:0051259","count":23},{"id":"GO:0031204","count":23},{"id":"GO:0070389","count":23}]},{"hash":"798625607844986659","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":180,"triangles":613,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0031120","count":2},{"id":"GO:0090669","count":2},{"id":"GO:1990481","count":2},{"id":"GO:0000495","count":2}]},{"hash":"810280741165744476","title":"Immune cell adhesion and synapse regulation","description":"This cluster is dominated by GO terms for cell-cell adhesion (homophilic and heterophilic) and immune synapse processes, including regulation of immunological synapse formation, actin cytoskeleton remodeling linked to adhesion, and suppression of cytotoxic functions in T and NK cells. Together these suggest a theme of immune cell communication at contact points and control of cytotoxic signaling, with some hints from symbiont-entry terms that may reflect adhesion-related entry mechanisms. Overall, the pattern supports a coherent label around immune synapse formation and adhesion regulation.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":14},{"id":"GO:0043318","count":13},{"id":"GO:0043031","count":13},{"id":"GO:0051963","count":13},{"id":"GO:0007157","count":13}]},{"hash":"2002750814160603716","title":"Autophagy-Linked Cellular Stress Response","description":"This cluster centers on cellular stress responses (UV exposure, oxidative stress, ethanol exposure, DNA damage from methyl methanesulfonate) and autophagy-related processes (positive regulation of autophagy and autophagic cell death). While there are some tissue- and migration-related terms, the dominant theme is autophagy regulation in response to stress, suggesting a cohesive autophagy-mediated stress response module.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034644","count":1},{"id":"GO:0001894","count":1},{"id":"GO:0072703","count":1},{"id":"GO:0048102","count":1},{"id":"GO:0010508","count":1}]},{"hash":"2115631372501382120","title":"Neural development and axon guidance","description":"This cluster is enriched for terms on branchiomotor neuron axon guidance, trigeminal and sympathetic nerve development, and related signaling pathways (FGF/MAPKKK), pointing to a cohesive theme of neuronal development and axon pathfinding.","confidence":"High","size":26,"edges":50,"triangles":24,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021785","count":26},{"id":"GO:0090080","count":26},{"id":"GO:0090272","count":26},{"id":"GO:0060484","count":26},{"id":"GO:2000830","count":26}]},{"hash":"2066916997312121876","title":"Unknown","description":"This cluster\u2019s top GO terms span divergent processes (bone differentiation, post-translational modification, oxidative stress response, nitrogen fixation, proteolysis, sebaceous gland development, DNA replication, centrosome localization, nuclear envelope organization, and meiosis), with no clear shared function or pathway, and no network connectivity to tie them together, suggesting a heterogeneous set rather than a coherent cluster.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":3},{"id":"GO:0051725","count":2},{"id":"GO:0071451","count":2},{"id":"GO:0009399","count":2},{"id":"GO:0006508","count":2}]},{"hash":"1956934509336337386","title":"Neurodevelopment and organogenesis","description":"The top GO terms point to development across multiple tissues\u2014neural aspects (inner ear, cerebellum, spinal cord neuron migration and fate specification, oligodendrocyte development) plus diverse organogenesis (pancreas, bronchioles, palate, ureteric bud branching). This suggests a cluster of proteins involved in developmental processes, with a strong emphasis on nervous system development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048839","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0021549","count":8},{"id":"GO:0001764","count":8},{"id":"GO:0060435","count":8}]},{"hash":"1455755343653720189","title":"Mesenchymal development and cell adhesion","description":"The cluster is dominated by GO terms for cell-cell adhesion (heterophilic and homophilic) and skeletal/mesenchymal development (skeletal system development, lung-associated mesenchyme development). These features point to proteins involved in mesenchymal tissue formation and cell adhesion, with supportive signals from FGF/MAPK-related pathways and regeneration-related processes.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0001501","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0090080","count":8},{"id":"GO:0090272","count":8}]},{"hash":"1173239372252443686","title":"Innate immune recognition of bacterial components","description":"Most terms point to detection of bacterial components (LPS, lipoprotein), Gram-negative defense, and TLR9 signaling, indicating a cluster centered on innate immune sensing and antimicrobial defense. Additional terms reflect downstream inflammation and tissue responses (endothelial migration, synapse assembly, pain), which can be consequences of immune activation. The brassinosteroid detection term appears unrelated and may be annotation noise. Overall, the common theme is pattern-recognition-based bacterial sensing and defense.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009729","count":2},{"id":"GO:0050929","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0032497","count":2}]},{"hash":"1378073911573458049","title":"Dopaminergic signaling and neuronal development","description":"The cluster centers on brain development and dopaminergic signaling, with terms like brain development and adenylate cyclase-activating dopamine receptor signaling, plus G-protein coupled signaling components. Interneuronal migration and cytoskeletal polarity point to neuronal morphogenesis, while cellular responses to electrical stimulus relate to neuronal excitability. Some terms (e.g., hepatocyte apoptotic process) may be less directly related, but the dominant pattern ties to neuronal development and dopamine-mediated signaling.","confidence":"High","size":26,"edges":172,"triangles":738,"max_degree":18,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007420","count":17},{"id":"GO:0031584","count":17},{"id":"GO:0043950","count":17},{"id":"GO:0007191","count":17},{"id":"GO:0031684","count":17}]},{"hash":"341855131968532014","title":"Stress-Response and Tissue Remodeling","description":"Based on the top GO terms, this cluster centers on responses to external stressors (lipopolysaccharide exposure, immobilization, xenobiotic stimulus, defense against fungus) and processes related to tissue repair and remodeling (wound healing, focal adhesion assembly), with supporting signals from apoptosis and muscle-related functions (cardiac muscle contraction, cGMP signaling). The mix suggests a cohesive theme of stress response coupled with tissue remodeling across cells/tissues, rather than a single, narrow function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0007586","count":3},{"id":"GO:0035902","count":3},{"id":"GO:0051894","count":2},{"id":"GO:0050832","count":2}]},{"hash":"1799317134641648746","title":"GPCR Signaling in Development and Sensory Pathways","description":"This cluster centers on G protein-coupled receptor (GPCR) signaling and its regulation, including desensitization, tachykinin and acetylcholine receptor pathways, and core intracellular signal transduction. Developmental terms like pharyngeal system development and left-right symmetry determination suggest GPCR-driven signaling roles in organogenesis and patterning. The presence of terms for visual perception and cardiac muscle contraction reflects GPCR signaling outputs in sensory and cardiac contexts, pointing to a cohesive theme of GPCR-mediated signaling across development, sensory biology, and heart function.","confidence":"High","size":26,"edges":19,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060037","count":3},{"id":"GO:0007368","count":3},{"id":"GO:0035556","count":2},{"id":"GO:0018107","count":2}]},{"hash":"681447817929045928","title":"Embryonic cartilage and limb morphogenesis","description":"The top GO terms point to developmental tissue formation, especially cartilage condensation and limb development, with supporting signals from smooth muscle migration and general morphogenesis. While placental differentiation appears, the strongest and most coherent theme is embryonic morphogenesis centered on cartilage formation and limb patterning, aided by cell growth regulation and signaling organization. Therefore, the label reflects the core function of the cluster as cartilage/limb developmental morphogenesis.","confidence":"High","size":26,"edges":293,"triangles":1986,"max_degree":25,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0014909","count":12},{"id":"GO:0001558","count":10},{"id":"GO:0001502","count":10},{"id":"GO:0043113","count":10},{"id":"GO:0019800","count":9}]},{"hash":"1150776399247145153","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryogenesis and tissue morphogenesis, including placenta/trophoblast differentiation, EMT in endocardial cushion formation, cartilage morphogenesis, left-right patterning, and endocrine organ development. This suggests a cohesive theme of developmental differentiation across multiple organs and lineages, rather than a single specific pathway.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060806","count":11},{"id":"GO:0060707","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0035270","count":11}]},{"hash":"1670382418201298568","title":"Rac/Rho-GTPase\u2013Mediated Actin Remodeling","description":"The cluster is enriched for lamellipodium assembly and actin organization, with regulation of Rac and Rho signaling and small GTPases, plus adhesion and spreading. Developmental terms (heart, myelin, dendritic spine morphogenesis) reflect actin-driven morphogenesis in diverse tissues, so the unifying theme is Rac/Rho-mediated actin dynamics across development and neural contexts.","confidence":"High","size":26,"edges":210,"triangles":917,"max_degree":24,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":18},{"id":"GO:0030036","count":17},{"id":"GO:0035020","count":16},{"id":"GO:0008286","count":16},{"id":"GO:0007264","count":16}]},{"hash":"1234840783163899446","title":"T cell signaling and inflammatory response","description":"The top GO terms show clear emphasis on T cell activity (proliferation, homeostasis) and inflammatory signaling (IL-6 production, defense against Gram-positive bacteria). Supporting terms about membrane remodeling (ectodomain proteolysis, phospholipid scrambling, calcium import) and signaling pathways (extrinsic apoptosis) suggest coordinated cell-surface and intracellular communication during immune activation. Additional terms related to platelet serotonin release and neuromuscular junction development may reflect broader immune\u2013neural interactions accompanying inflammatory responses. Overall, the cluster centers on T cell\u2013driven immune signaling and inflammation.","confidence":"High","size":26,"edges":148,"triangles":419,"max_degree":22,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0042098","count":11},{"id":"GO:0043029","count":10},{"id":"GO:0006509","count":10},{"id":"GO:0032755","count":10},{"id":"GO:0050830","count":10}]},{"hash":"1455941431799012783","title":"Cell differentiation and tissue development","description":"The cluster centers on differentiation-related processes, with terms like erythrocyte differentiation, retina development, and neuroblast differentiation, plus related responses (glucocorticoid and folic acid). While there are some obsolete or miscellaneous metabolic terms, the strongest signal is cell fate specification across tissues, supporting a label focused on development and differentiation.","confidence":"Medium","size":26,"edges":98,"triangles":188,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030218","count":8},{"id":"GO:0055072","count":8},{"id":"GO:0060041","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0001844","count":3}]},{"hash":"2202206727509638800","title":"Embryonic morphogenesis and axon guidance","description":"The terms point to developmental processes: gastrulation-related epiboly, heart tube left/right patterning, endodermal differentiation, and axon guidance/extension, coupled with adhesion structures like hemidesmosomes and receptor clustering. The presence of neuronal axon fasciculation and acetylcholine receptor signaling supports a theme of neural connectivity during embryogenesis, making a label focused on development and neural pathfinding appropriate.","confidence":"High","size":26,"edges":148,"triangles":596,"max_degree":17,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043113","count":20},{"id":"GO:0035987","count":19},{"id":"GO:0034446","count":19},{"id":"GO:0031581","count":18},{"id":"GO:0055113","count":18}]},{"hash":"1814432143894061513","title":"Mitochondrial energy transport and insulin signaling","description":"This cluster is dominated by GO terms related to mitochondrial energy processes (ADP/ATP transport, ATP transmembrane transport, phosphate transport, malate-aspartate shuttle) and insulin-related responses (cellular and negative regulation of insulin secretion in response to glucose), suggesting a cohesive theme around mitochondrial energy metabolism linked to insulin signaling.","confidence":"High","size":26,"edges":314,"triangles":2382,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0061179","count":26},{"id":"GO:0090149","count":25},{"id":"GO:0097274","count":25},{"id":"GO:0015866","count":25},{"id":"GO:0007565","count":25}]},{"hash":"1385654743476709086","title":"Neuromuscular development and movement","description":"The cluster centers on motor neuron development and the neuromuscular system, as shown by terms such as somatic motor neuron differentiation, neuromuscular process controlling posture, and musculoskeletal movement. Additional terms point to neuron\u2013glia interactions (glutamate reuptake, negative regulation of Schwann cell migration) and extracellular matrix remodeling (collagen biosynthetic process), all relevant to nerve function and muscle innervation. Lipid signaling (ceramide biosynthetic process) and protein turnover (protein catabolic process) may support membrane dynamics and tissue remodeling in neuromuscular contexts. A fungal-origin response term likely reflects a broader stress response but is less central to the core theme. Overall, the functions converge on development and execution of the neuromuscular system, hence the label.","confidence":"Medium","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0046513","count":6},{"id":"GO:0002238","count":6},{"id":"GO:0021523","count":6},{"id":"GO:0032964","count":6},{"id":"GO:0051935","count":6}]},{"hash":"2016787830508488859","title":"Xenobiotic detoxification and metabolism","description":"The top GO terms are dominated by catabolic and metabolic processing of diverse xenobiotics (carbazole, isoquinoline alkaloids, dibenzo-p-dioxin, insecticides) with accompanying chemical-stress responses (ozone, cesium ion, vitamin D) and methylation. This pattern suggests a cluster of proteins involved in detoxification and xenobiotic metabolism, rather than a single, narrow function. Confidence: High","confidence":"","size":26,"edges":165,"triangles":574,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":26},{"id":"GO:0034653","count":26},{"id":"GO:0033076","count":26},{"id":"GO:0010164","count":26},{"id":"GO:0032259","count":26}]},{"hash":"494428714138989764","title":"Sensory Perception and Calcium Signaling","description":"The top GO terms center on sensing environmental stimuli (temperature, mechanical/touch, chemical/pain) and responding via calcium signaling, with some developmental terms (skin development, cerebellum maturation) that broaden the context. While there are also electrophysiology-related terms related to membrane depolarization in cardiac tissues, the dominant theme is sensory signal transduction coupled to calcium dynamics. ","confidence":"Medium","size":26,"edges":26,"triangles":19,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043588","count":25},{"id":"GO:0050960","count":25},{"id":"GO:0051592","count":24},{"id":"GO:0034465","count":24},{"id":"GO:0060083","count":24}]},{"hash":"1288026597302285846","title":"Insect larval ectoderm and neural development","description":"The top GO terms cluster around ectoderm development, neural plate formation, and chitin-based larval cuticle patterning, indicating roles in insect larval ectoderm differentiation and early neural development. Supporting terms on cell migration and growth reflect broader developmental processes coordinating tissue formation, while proteasome assembly aligns with protein turnover during development.","confidence":"High","size":25,"edges":119,"triangles":199,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":8},{"id":"GO:0008285","count":5},{"id":"GO:0035293","count":5},{"id":"GO:0007398","count":5},{"id":"GO:0071260","count":4}]},{"hash":"474386764477743459","title":"Tight Junction Dynamics and Cell Migration","description":"The top GO terms point to tight junction assembly between cells (bicellular tight junctions), along with cell migration, suggesting a focus on epithelial junction remodeling and movement. Supporting terms include vesicle trafficking and membrane targeting, apoptosis and proliferation regulation, and pathways like Wnt signaling and cadmium response, which together imply coordinated control of adhesion, junction integrity, and cellular stress responses rather than a single isolated process.","confidence":"Medium","size":25,"edges":54,"triangles":23,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000011","count":5},{"id":"GO:0007118","count":4},{"id":"GO:0090314","count":4},{"id":"GO:2000810","count":4},{"id":"GO:0008285","count":4}]},{"hash":"1957870258750230969","title":"Developmental signaling and differentiation regulation","description":"These proteins are enriched for GO terms related to tissue differentiation (skeletal muscle differentiation; CNS development) and broad regulation of signaling pathways (negative regulation of Wnt, activin, and PI3K/AKT signaling; regulation of nuclear export). The mix suggests a cluster of factors that modulate developmental processes by tuning signaling rather than executing a single pathway, justifying a label focusing on developmental signaling and differentiation regulation.","confidence":"Medium","size":25,"edges":217,"triangles":1004,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035914","count":10},{"id":"GO:0007417","count":9},{"id":"GO:0046827","count":9},{"id":"GO:0051898","count":8},{"id":"GO:0060250","count":8}]},{"hash":"924118007938781695","title":"Developmental signaling and morphogenesis","description":"The set includes phosphatidylinositol signaling and PI biosynthesis, FGFR-MAPK signaling, actin cytoskeleton remodeling, and morphogenesis events (neural plate morphogenesis, odontogenesis, lung mesenchyme development) plus keratinocyte migration. Together these point to signaling-driven tissue development and cytoskeletal remodeling as a unifying theme, with some peripheral terms that are less central to this cluster. ","confidence":"High","size":25,"edges":186,"triangles":766,"max_degree":23,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0031532","count":23},{"id":"GO:0048015","count":23},{"id":"GO:0042475","count":23},{"id":"GO:0051549","count":23},{"id":"GO:0001839","count":23}]},{"hash":"545232687132492345","title":"Wnt-Rho/Rac Signaling and Cytoskeleton Regulation","description":"The cluster centers on signaling pathways (Wnt, Rac/Rho, GPCR) and cytoskeletal control (stress fiber assembly, spindle assembly), with supporting roles in endothelial morphogenesis and neurotransmitter release. This suggests proteins coordinating signal transduction with cytoskeletal remodeling across developmental, vascular, and neural contexts, justifying a label focused on signaling-cytoskeleton regulation in development.","confidence":"High","size":25,"edges":129,"triangles":432,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035021","count":11},{"id":"GO:0007205","count":11},{"id":"GO:0016055","count":11},{"id":"GO:0007269","count":11},{"id":"GO:0006915","count":10}]},{"hash":"371105519540920821","title":"Morphogenesis and transcriptional regulation","description":"The cluster centers on developmental morphogenesis terms (epidermis, smooth muscle; post-anal tail morphogenesis; skeletal muscle-related processes) and transcriptional control/epigenetic regulation (RNA Pol II transcription, negative regulation of transcription, CpG island\u2013related methylation), with some signaling context (GM-CSF) and neuromuscular junction clustering, suggesting a theme of developmental shape formation linked to transcriptional regulation.","confidence":"Medium","size":25,"edges":102,"triangles":213,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043066","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0097011","count":6},{"id":"GO:0071340","count":6},{"id":"GO:0048730","count":6}]},{"hash":"284065316074394147","title":"Interferon-Responsive Antiviral Innate Immunity","description":"The cluster\u2019s top GO terms strongly point to antiviral defense and interferon signaling, including cellular response to type I interferon, innate immune response, dsRNA response, and regulation of defense against viruses. While additional terms touch on reproductive development and plant cytokinin signaling, the dominant signal is interferon-driven innate antiviral processes, suggesting a cohesive theme around antiviral immunity with some annotation noise. ","confidence":"Medium","size":25,"edges":86,"triangles":117,"max_degree":17,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":12},{"id":"GO:0071357","count":12},{"id":"GO:0006463","count":11},{"id":"GO:0030850","count":11},{"id":"GO:0046661","count":11}]},{"hash":"1993746255560222720","title":"Neural development and axon growth regulation","description":"The cluster is dominated by nervous system development, positive regulation of axon extension, and axonogenesis terms, with Wnt signaling and Rab-mediated signaling supporting neuronal connectivity and growth. While there are general growth-related terms (cell cycle, ribosome export), the core pattern points to neuronal development and axon growth control.","confidence":"High","size":25,"edges":220,"triangles":1094,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":17},{"id":"GO:0045773","count":17},{"id":"GO:0007399","count":17},{"id":"GO:0043149","count":17},{"id":"GO:0060070","count":17}]},{"hash":"2145047245502660081","title":"MVB Sorting and Mitosis Regulation","description":"The prominent GO terms point to ubiquitin-dependent and -independent protein degradation via the multivesicular body (MVB) pathway, MVB assembly and intralumenal vesicle formation, and membrane fission, together with mitosis-related processes (regulation of spindle assembly, metaphase chromosome alignment) and nuclear membrane reassembly. This suggests a functional theme where vesicle trafficking and protein turnover via the MVB pathway intersect with mitotic membrane dynamics and chromosome segregation.","confidence":"High","size":25,"edges":145,"triangles":471,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043162","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0090611","count":7},{"id":"GO:1901673","count":7}]},{"hash":"518247137891773479","title":"Cochlear synapse formation and actin remodeling","description":"This cluster repeatedly shows terms tied to cochlear development and auditory function (cochlea morphogenesis, sensory perception of sound) along with synapse localization/receptor clustering, and strong signals for actin cytoskeleton organization and Rho/GTPase\u2013mediated signaling, indicating a coordinated program of synapse maturation and cytoskeletal remodeling in the cochlea. The inclusion of adherens junction localization and dephosphorylation suggests coordinated signaling and adhesion dynamics during this process.","confidence":"High","size":25,"edges":244,"triangles":1337,"max_degree":24,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0043113","count":17},{"id":"GO:0090630","count":17},{"id":"GO:0030036","count":17},{"id":"GO:0006470","count":17},{"id":"GO:0007605","count":17}]},{"hash":"642243292211462863","title":"T Cell Activation and Inflammatory Signaling","description":"Centered on T cell activation and immune-stress signaling, including TCR-mediated activation, JNK pathway regulation, thrombin receptor signaling, and related inflammatory pathways; accompanying terms on trafficking and barrier formation reflect the immune response context.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0097049","count":2},{"id":"GO:0006924","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0090557","count":2}]},{"hash":"1324991173095149614","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":227,"triangles":1098,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":6},{"id":"GO:0006120","count":6},{"id":"GO:0000961","count":3},{"id":"GO:0016554","count":3},{"id":"GO:1900865","count":3}]},{"hash":"633372952609664287","title":"Muscle development and cytoskeletal remodeling","description":"Top GO terms point to muscle formation (skeletal muscle fiber development; heart development) and actin cytoskeleton dynamics (regulation of Rho signaling; ARP2/3-mediated actin nucleation) with cytokinesis, indicating a muscle- and cytoskeleton-focused functional theme. Additional processes related to vesicle trafficking (Golgi organization; Golgi to lysosome transport) support a broader view of coordinated cellular remodeling during development.","confidence":"High","size":25,"edges":197,"triangles":812,"max_degree":24,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0032465","count":4},{"id":"GO:2000601","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0007507","count":3}]},{"hash":"80325086428612251","title":"Neurodevelopmental mitosis and trafficking","description":"This cluster shows strong emphasis on neural development terms (spinal cord development, neural tube closure, forebrain development) alongside cell division processes (cell division, mitotic spindle orientation, CENP-A chromatin assembly) and ER-to-Golgi vesicle transport. The combination suggests proteins involved in neurodevelopment that are coordinated with cell cycle control and intracellular trafficking, with neurodevelopment being the dominant theme but not excluding mitosis/trafficking roles.","confidence":"Medium","size":25,"edges":8,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0051260","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0001843","count":5}]},{"hash":"1655393887021487201","title":"NF-kB\u2013driven innate immune signaling","description":"This cluster is dominated by canonical NF-kB signaling terms, responses to lipopolysaccharide and IL-1, and innate immune processes, with protein ubiquitination as a regulatory link. The inclusion of T cell receptor signaling and cell cycle regulation suggests broader inflammatory regulatory roles beyond NF-kB alone.","confidence":"High","size":25,"edges":229,"triangles":1161,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":7},{"id":"GO:0007249","count":7},{"id":"GO:0071222","count":6},{"id":"GO:0070498","count":6},{"id":"GO:0000209","count":5}]},{"hash":"1168598232457881516","title":"Developmental Transcription Regulation","description":"The cluster is enriched for DNA-templated transcription and regulation of transcription initiation, combined with many GO terms pointing to development across diverse tissues (heart, gonad, eye, hindlimb, trachea cartilage, Harderian gland, etc.). This pattern suggests proteins that coordinate developmental programs through transcriptional control rather than tissue-specific processes, supporting a label of developmental transcription regulation.","confidence":"High","size":25,"edges":14,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0007507","count":9},{"id":"GO:2000020","count":8},{"id":"GO:0017055","count":8},{"id":"GO:0070384","count":8}]},{"hash":"1690188276280155778","title":"ECM remodeling, angiogenesis, and coagulation regulation","description":"The dominant GO terms indicate collagen fibril organization, proteolysis/fibrinolysis, vascular smooth muscle proliferation, angiogenesis, and regulation of platelet aggregation and plasminogen activation, all pointing to extracellular matrix remodeling that supports blood vessel formation and coagulation control. The memory term appears incidental and does not define the main function of the cluster.","confidence":"High","size":25,"edges":189,"triangles":650,"max_degree":22,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030199","count":9},{"id":"GO:0006508","count":6},{"id":"GO:0071260","count":6},{"id":"GO:1904707","count":6},{"id":"GO:0090331","count":6}]},{"hash":"1721608075177215316","title":"Cytoskeletal Remodeling and Cell Migration","description":"These proteins are enriched for GO terms tied to actin cytoskeleton organization, regulation of Rho and GTPase signaling, and processes like phagocytosis, cell migration, and endothelial lumen formation, indicating a functional cluster centered on cytoskeletal remodeling and motility driven by Rho GTPases.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035024","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0006911","count":3},{"id":"GO:0030036","count":3}]},{"hash":"2081068551314997102","title":"Chromatin regulation and RNA processing regulators","description":"The top GO terms center on histone modification (even if obsolete) and deubiquitination across several lysine linkages, plus mRNA processing, which together point to nuclear regulation of gene expression via chromatin state and RNA maturation. While some terms relate to ion transport or sensory processes, the strongest signals are in chromatin modification and post-translational control, suggesting this cluster mainly reflects regulators of transcriptional regulation and RNA processing.","confidence":"Medium","size":25,"edges":31,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0098532","count":3},{"id":"GO:0035871","count":2},{"id":"GO:0071108","count":2}]},{"hash":"2134487265005148267","title":"Integrin signaling and cell migration","description":"The cluster centers on adhesion and signaling pathways that drive movement and development: substrate adhesion-dependent spreading, integrin signaling, PDGF response, germ cell and fibroblast migration, endothelial proliferation, receptor clustering, and multicellular development. This combination points to a cohesive module coordinating ECM interactions, signal transduction, and migratory/differentiation processes.","confidence":"High","size":25,"edges":248,"triangles":1385,"max_degree":23,"top_function":"wound healing","top_go_terms":[{"id":"GO:0034446","count":8},{"id":"GO:0008584","count":8},{"id":"GO:0007229","count":6},{"id":"GO:0036120","count":6},{"id":"GO:0008354","count":6}]},{"hash":"1824076377497082046","title":"Developmental transcriptional regulation and morphogenesis","description":"The cluster shows strong enrichment for transcription-related GO terms (RNA polymerase II transcription, regulation of gene expression, negative regulation of transcription) along with multiple organ and sensory system development terms (cochlea morphogenesis, trigeminal nerve development, sensory system development, hindlimb morphogenesis, bronchiole development, palate development, pancreas development). This suggests a set of genes coordinating transcriptional control during broad developmental morphogenesis across tissues.","confidence":"High","size":25,"edges":60,"triangles":57,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0023019","count":16},{"id":"GO:0000122","count":16},{"id":"GO:0031018","count":16},{"id":"GO:0090103","count":15}]},{"hash":"303776369330116035","title":"Immune Regulation and Apoptosis in Development","description":"The top terms cluster around immune signaling and apoptosis (NF-kappaB regulation, negative regulation of T/B cell proliferation, extrinsic apoptotic pathway, response to LPS), with additional developmental context terms (heart development, embryonic syncytial blastoderm) and a sensory perception term. This suggests a core theme of immune modulation and programmed cell death during development, hence the label.","confidence":"Medium","size":25,"edges":245,"triangles":1341,"max_degree":24,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051092","count":22},{"id":"GO:0046007","count":17},{"id":"GO:0035234","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0097192","count":16}]},{"hash":"1583320645254725632","title":"Innate immune signaling and inflammatory regulation","description":"This cluster centers on innate immune response and inflammation, with associated cell surface receptor signaling and regulatory controls over apoptosis and gene expression, suggesting a cohesive immune signaling module rather than a single metabolic function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":1},{"id":"GO:0090238","count":1},{"id":"GO:0007166","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0071157","count":1}]},{"hash":"2131346285776212953","title":"Developmental cell adhesion and morphogenesis","description":"The GO terms cluster around heterophilic cell-cell adhesion, cell migration in heart development, ossification, neuroligin clustering and synapse assembly, and various morphogenesis processes (lung, bone, epithelial polarity). This points to a cohesive theme of adhesion-mediated signaling guiding tissue and neural development, so a label centered on developmental adhesion and morphogenesis is appropriate.","confidence":"High","size":25,"edges":3,"triangles":1,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0003273","count":14},{"id":"GO:0043931","count":14},{"id":"GO:0097118","count":13},{"id":"GO:0051965","count":13}]},{"hash":"1900820070313595361","title":"AMPA-regulated Glutamatergic Synaptic Regulation","description":"The top GO terms point to regulation of AMPA receptor activity and glutamatergic synaptic transmission, including short-term synaptic plasticity, indicating these proteins function as modulators of excitatory synaptic signaling at glutamatergic synapses. Some outlier terms (peptidoglycan/viral-related) appear incidental, but the dominant theme is synaptic regulation at excitatory synapses.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000311","count":4},{"id":"GO:0019226","count":3},{"id":"GO:0009253","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0016998","count":3}]},{"hash":"569112207780106971","title":"Immune signaling and apoptosis","description":"Enriched terms point to immune signaling (B cell receptor pathway, NF-kappaB regulation), apoptosis (death-inducing signaling complex), and myeloid differentiation, with PI3K signaling and cytoskeleton remodeling supporting immune cell activation. Some terms are obsolete or less related, so it's a reasonable but not perfect fit.","confidence":"Medium","size":25,"edges":31,"triangles":11,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":18},{"id":"GO:0043552","count":16},{"id":"GO:0071550","count":16},{"id":"GO:0020021","count":16},{"id":"GO:0001501","count":16}]},{"hash":"2182583031523258271","title":"Neuronal Synaptic Plasticity and Stress Response","description":"The top GO terms cluster around synaptic function and plasticity (long-term potentiation; regulation of synaptic plasticity; protein localization to synapse) and responses to metabolic and stress cues (cellular response to glucose, response to muscle activity, cadmium ion) as well as innate immune response. This pattern suggests a neural signaling module that integrates activity-related signaling with stress and immune cues; the mitotic cell cycle term is less specific but may reflect developmental or glial proliferation contexts. ","confidence":"Medium","size":25,"edges":22,"triangles":2,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":23},{"id":"GO:0071276","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0090314","count":15},{"id":"GO:0060291","count":15}]},{"hash":"1944819303460249470","title":"Embryogenesis and organogenesis","description":"These proteins are annotated with a range of developmental processes\u2014placental and trophoblast differentiation, heart cushion formation, pancreas development, cartilage morphogenesis, and left-right patterning\u2014pointing to embryonic development and organ formation as the common theme, rather than a single molecular function.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0003198","count":1}]},{"hash":"1231192724871270288","title":"Oocyte Meiosis and Centrosome Regulation","description":"The top GO terms cluster around meiotic nuclear division, oocyte differentiation, single fertilization, and centrosome/centriole duplication, pointing to meiosis-driven oocyte maturation and centrosome dynamics as the common theme across the proteins.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":1},{"id":"GO:0009303","count":1},{"id":"GO:1902751","count":1},{"id":"GO:1900264","count":1},{"id":"GO:0046599","count":1}]},{"hash":"2134021040539724835","title":"DNA Replication and Cell Cycle Under Stress","description":"The cluster's prominent GO terms center on DNA replication, DNA-templated transcription, and mitotic cell cycle, suggesting a core link to DNA metabolism and division. Cadmium ion response and apoptotic process indicate stress-related regulation, with innate immune response and synapse localization as possible secondary overlaps. Overall, this cluster seems to group proteins involved in DNA replication/cell cycle with stress and apoptosis responses.","confidence":"Medium","size":25,"edges":22,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":23},{"id":"GO:0000278","count":23},{"id":"GO:0006351","count":23},{"id":"GO:0006915","count":23},{"id":"GO:0045087","count":23}]},{"hash":"874270043475984442","title":"Cytoskeletal dynamics and Rho-GTPase signaling regulators","description":"The cluster is dominated by GO terms for regulation of Rho protein signal transduction and GTPase activity, pointing to control of actin cytoskeleton dynamics and nuclear movement along microfilaments. Additional terms about synaptic vesicle priming, glutamatergic transmission, and regulation of synaptic plasticity suggest a neuronal context where cytoskeletal remodeling interfaces with synaptic signaling. Together, these signals indicate a core theme of Rho-GTPase\u2013driven cytoskeletal regulation with roles in synaptic function, hence the label.","confidence":"High","size":25,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0043087","count":7},{"id":"GO:0006355","count":5},{"id":"GO:0031022","count":5},{"id":"GO:0090286","count":5}]},{"hash":"1831965768307751649","title":"Brain development and sensory organ morphogenesis","description":"Most GO terms point to neural development and sensory organ formation, such as metencephalon and facial nucleus development, cochlea morphogenesis, and regulation of short-term neuronal synaptic plasticity. A few terms touch on broader signaling (JNK pathway) or non-brain organ development (metanephros/ureteric bud), but the dominant theme is brain development and sensory organ morphogenesis.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046329","count":3},{"id":"GO:0048172","count":2},{"id":"GO:0021723","count":2},{"id":"GO:0022037","count":2},{"id":"GO:0090103","count":2}]},{"hash":"2261938057817974261","title":"Nuclear genome maintenance and RNA processing","description":"This cluster centers on DNA replication, recombination, and DNA integration, with supporting RNA processing (spliceosome-mediated splicing) and chromatin-related activities (poly-ADP-ribosylation and histone methylation). The presence of spindle assembly further ties to chromosome dynamics during cell division, suggesting a unified theme of genome maintenance and expression processing.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051225","count":4},{"id":"GO:0070212","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0098532","count":3}]},{"hash":"1202411375203227272","title":"Systemic Hormone, Contraction, and Immune Regulation","description":"This cluster centers on regulatory signaling across endocrine/hormonal secretion, muscle contraction (intestine smooth muscle and heart), and immune/vascular functions (IL-1\u03b2 production regulation, neutrophil killing, endothelial barrier, morphine response, and neurotrophic factor production). The diverse but overlapping themes point to broad systemic regulation rather than a single tissue-specific function, supporting a label of systemic regulatory signaling.","confidence":"Medium","size":25,"edges":120,"triangles":196,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":23},{"id":"GO:0070963","count":23},{"id":"GO:0046879","count":23},{"id":"GO:0001997","count":23},{"id":"GO:0071417","count":23}]},{"hash":"1351702140661820009","title":"Auditory mechanosensation and vestibular function","description":"The cluster\u2019s top GO terms point to auditory and mechanosensory roles\u2014auditory receptor cell development, detection of mechanical stimuli for sound perception, and vestibular reflex\u2014suggesting a coherent group of proteins involved in hearing and balance. Other terms appear peripheral or obsolete, but do not override the dominant mechanosensory theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060117","count":2},{"id":"GO:1902041","count":2},{"id":"GO:1903169","count":2},{"id":"GO:0055069","count":2},{"id":"GO:0050910","count":2}]},{"hash":"1668500740843364055","title":"Hormone- and signal-regulated muscle and vascular function","description":"This cluster centers on physiological regulation through signaling molecules affecting muscle contraction (intestinal smooth muscle, heart contraction modulation by epinephrine/norepinephrine) and vascular function (endothelial barrier), along with hormone secretion and immune/neural signaling (IL-1\u03b2 production, neutrophil killing, morphine response). The common theme is systemic signaling that modulates tissue-level functions across muscle, vascular, and immune/neural contexts, rather than a single highly specific pathway.","confidence":"Medium","size":25,"edges":17,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":25},{"id":"GO:0070963","count":25},{"id":"GO:0046879","count":25},{"id":"GO:0001997","count":25},{"id":"GO:0071417","count":25}]},{"hash":"1507622619945045833","title":"Collagen-ECM Signaling and Development","description":"This cluster emphasizes collagen/ECM-related processes (cuticle development involving collagen; collagen-activated signaling; cell adhesion molecule production) along with several developmental terms (endodermal differentiation, lymphangiogenesis) and even immune signaling (complement activation, lectin pathway). The recurring theme across GO terms is extracellular matrix\u2013mediated signaling that can influence tissue development and morphogenesis; other terms may reflect peripheral or context-specific roles, but the collagen/ECM axis ties them together.","confidence":"Medium","size":25,"edges":6,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042338","count":25},{"id":"GO:2000584","count":25},{"id":"GO:0071230","count":25},{"id":"GO:0035987","count":25},{"id":"GO:0060355","count":25}]},{"hash":"791065667593028829","title":"Amino acid catabolism and gluconeogenesis regulation","description":"The cluster centers on amino acid catabolism (leucine, valine) and related energy pathways (carnitine metabolism, gluconeogenesis regulation), with liver development and post-embryonic development supporting a liver-focused metabolic theme; a few outliers (e.g., dibenzothiophene catabolism) are less informative but do not override the overall signal.","confidence":"Medium","size":24,"edges":181,"triangles":757,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0001889","count":9},{"id":"GO:0042594","count":9},{"id":"GO:0006552","count":9},{"id":"GO:0009409","count":9}]},{"hash":"1050271337490102851","title":"Developmental signaling and RNA processing","description":"The cluster is enriched for development-related terms (insulin receptor signaling pathway; in utero embryonic development; multicellular organism development) and RNA processing/translation control (alternative splicing via spliceosome, translation reinitiation, formation of translation preinitiation complex, mRNA polyadenylation). The presence of hypoxia and toxic substance responses adds a stress-adaptation angle during development, while molybdenum cofactor biosynthesis hints at metabolic support. Overall, the proteins point to coordination of growth signaling with post-transcriptional regulation in developmental contexts.","confidence":"Medium","size":24,"edges":22,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0001701","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1863336082498286737","title":"GTPase Signaling and Cytoskeletal Transport","description":"The cluster is dominated by GO terms for positive/activated GTPase activity, coupled with microtubule-based movement and endosome-to-lysosome transport, indicating a core theme of GTPase-regulated signaling linked to cytoskeletal dynamics and vesicular trafficking. Other terms about transcription or development may reflect multifunctionality but are less central to the core pattern. Overall, the salient connection is GTPase regulation with cytoskeletal/trafficking processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0090630","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":5}]},{"hash":"2266176780487333866","title":"Actin cytoskeleton remodeling and cell migration","description":"The top GO terms center on actin cytoskeleton dynamics (lamellipodium/microspike assembly, cytoskeleton reorganization) and regulation of Rho signaling, together with processes affecting cell movement and vascular/immune contexts (neutrophil degranulation, extravasation, heart development). This points to a cohesive theme of regulated actin remodeling guiding cell migration and tissue remodeling.","confidence":"High","size":24,"edges":10,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0043314","count":6},{"id":"GO:0030032","count":6},{"id":"GO:0030035","count":6},{"id":"GO:0060313","count":6}]},{"hash":"141306984470017612","title":"DNA replication and repair","description":"The cluster is dominated by GO terms about DNA replication and its components (primer synthesis, unwinding, replication regulation), along with DNA damage response (SOS) and double-strand break repair. Additional terms touch on RNA processing and protein regulation, but the strongest pattern ties to genome duplication, maintenance, and repair pathways, including viral genome replication as a related replication process. This supports labeling as DNA replication and repair.","confidence":"High","size":24,"edges":272,"triangles":1939,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0009432","count":12},{"id":"GO:0019079","count":11},{"id":"GO:0006268","count":10},{"id":"GO:0000209","count":9}]},{"hash":"1257236404247647771","title":"Developmental transcriptional regulators","description":"These terms point to proteins that regulate gene expression during development across tissues (heart, brain, germ line) and modulate signaling; the common thread is transcriptional control in developmental contexts. Therefore \"Developmental transcriptional regulators\" best captures the cluster.","confidence":"Medium","size":24,"edges":61,"triangles":19,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006469","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0014068","count":4}]},{"hash":"1041168709317794088","title":"Developmental signaling and cell polarity","description":"The top GO terms point to developmental processes (cochlea morphogenesis, heart development) and cell polarity (planar cell polarity pathway), complemented by signaling (Rap signaling, GTPase regulation) and cytoskeletal/cytoplasm organization (centrosome and cytoplasm-related terms). While a few entries are obsolete, the prevailing theme ties proteins to development, signaling, and morphogenesis.","confidence":"Medium","size":24,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":3},{"id":"GO:0032486","count":3},{"id":"GO:1900477","count":3},{"id":"GO:0007028","count":2},{"id":"GO:0090179","count":2}]},{"hash":"1575725573157841776","title":"Transmembrane transporters for ions and metabolites","description":"The cluster is dominated by transmembrane transport GO terms, including fructose, bicarbonate, oxalate, sulfate, and aspartate transport, as well as related processes like intracellular pH regulation. This points to a core function as membrane transport proteins moving ions and small metabolites across membranes; some terms reflect physiological contexts (gastric acid secretion, sperm capacitation) where such transporters operate, but the unifying theme is transport activity across membranes. ","confidence":"High","size":24,"edges":62,"triangles":94,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007605","count":9},{"id":"GO:0048240","count":8},{"id":"GO:0030435","count":7},{"id":"GO:0019532","count":7},{"id":"GO:0001696","count":7}]},{"hash":"2051837041269753821","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster is dominated by GO terms related to mRNA splicing and spliceosome function (regulation and alternative splicing via spliceosome, splice site recognition, and processome assembly), indicating a cohesive theme of RNA processing and splicing control. Although there are a few related RNA-centric terms (e.g., regulatory ncRNA silencing and IRES-dependent translation), the strongest signal is splicing and spliceosome\u2013mediated processing of mRNA.","confidence":"High","size":24,"edges":271,"triangles":1920,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0000380","count":13},{"id":"GO:0006378","count":13},{"id":"GO:1901407","count":13}]},{"hash":"2158259441843038301","title":"Arabinogalactan Protein (AGP) Biosynthesis","description":"The cluster is dominated by GO terms tied to arabinogalactan proteins (AGPs) and related hydroxyproline-rich glycoprotein glycosylation pathways, including arabinogalactan protein metabolic process and O-linked glycosylation via hydroxyproline, as well as poly-N-acetyllactosamine biosynthesis. Several terms reference plant developmental processes where AGPs play key roles, such as root hair cell development and seed coat mucilage formation, with additional connectivity to cell adhesion and polarity. Together these suggest a cohesive theme around AGP glycosylation and function in development.","confidence":"High","size":24,"edges":264,"triangles":1801,"max_degree":23,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0075015","count":11},{"id":"GO:0010493","count":10},{"id":"GO:0007299","count":10},{"id":"GO:0080147","count":10},{"id":"GO:0042248","count":10}]},{"hash":"313260106597240095","title":"GPI-anchor and lipid biosynthesis","description":"The top GO terms point strongly to membrane-related biosynthesis: GPI anchor biosynthetic process and phospholipid biosynthetic process, which indicate proteins involved in attaching to membranes and generating membrane lipids. Obsolete terms about glycosylation and oligosaccharide intermediates also align with lipid-anchored or membrane-associated biosynthetic pathways. Together these suggest a cohesive theme around membrane lipid formation and protein anchoring to the membrane, with osmotic stress responses likely reflecting membrane remodeling. ","confidence":"Medium","size":24,"edges":40,"triangles":28,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009414","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0001701","count":5},{"id":"GO:0097502","count":5},{"id":"GO:0007631","count":5}]},{"hash":"1511219458281021803","title":"Zinc-regulated development and cell adhesion","description":"Top GO terms indicate a cohesive theme around cell-cell adhesion (homophilic and heterophilic), glomerular basement membrane development, and limb development, with negative regulation of angiogenesis, alongside zinc metabolism (zinc import across plasma membrane, intracellular zinc ion homeostasis) and response to zinc ion starvation. This suggests a cluster where zinc status modulates developmental adhesion processes and vascular development, potentially influencing basement membrane formation and limb/angiogenesis programs.","confidence":"Medium","size":24,"edges":6,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032836","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0044749","count":4}]},{"hash":"684248155813593675","title":"Ubiquitin-Mediated Proteostasis and Cell Cycle Control","description":"The top GO terms center on ubiquitin-related processes\u2014protein ubiquitination, the ubiquitin-dependent ERAD pathway, and autoubiquitination\u2014tied to cell cycle (including mitotic cell cycle) regulation. Translation and GTPase activity regulation appear as supporting processes, suggesting coordination of protein synthesis and signaling during division, with apoptotic processes in hepatocytes and myeloid cells reflecting stress responses linked to ubiquitin quality control. Overall, the cluster seems to represent ubiquitin-driven proteostasis coupled to cell cycle progression.","confidence":"High","size":24,"edges":54,"triangles":30,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0007049","count":6},{"id":"GO:0006412","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":6}]},{"hash":"59241099459091171","title":"Mitochondrial-apoptotic signaling","description":"The cluster is dominated by terms related to apoptosis, including apoptotic process, cytochrome c release from mitochondria, and apoptotic DNA fragmentation. The presence of intralumenal vesicle formation and positive regulation of GTPase activity could reflect linked vesicle trafficking and signaling changes that accompany apoptotic execution, while stilbenoid response hints at stress-induced apoptotic pathways. Together these indicate a cohesive mitochondrial-mediated apoptosis cluster.","confidence":"High","size":24,"edges":199,"triangles":961,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0043547","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0090200","count":3},{"id":"GO:0070676","count":3}]},{"hash":"965188348321724052","title":"Actin cytoskeleton remodeling and cell migration","description":"This cluster shows multiple GO terms tied to actin cytoskeleton dynamics, including regulation of actin cytoskeleton organization, podosome assembly, GTPase activity regulation, and cell migration, indicating a cohesive theme of cytoskeletal remodeling and motility; a few terms (transcription regulation, viral process) are likely ancillary.","confidence":"High","size":24,"edges":149,"triangles":374,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0010610","count":3}]},{"hash":"590720800533477593","title":"Mitochondrial Translation and Ribosome Biogenesis","description":"The cluster is enriched for mitochondrial-specific processes: mitochondrial translation, maturation of LSU rRNA, ribosomal large subunit biogenesis, and assembly of mitochondrial respiratory complexes, suggesting proteins involved in mitochondrial gene expression and ribosome assembly that support mitochondrial protein synthesis and respiration.","confidence":"High","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0006120","count":3},{"id":"GO:0000463","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0032543","count":2}]},{"hash":"1278284558962330472","title":"Neuronal development and synaptic plasticity","description":"The top GO terms cluster around neural development and function: axonogenesis, regulation of neuronal synaptic plasticity, long-term synaptic potentiation, astrocyte differentiation, and regulation of voltage-gated calcium channel activity, with NF-kappaB signaling also linked to neuronal processes. These together point to a coordinated role in neural development, synaptic formation, and plasticity, rather than muscle or generic stress responses (though methylmercury response is noted). Overall, the cluster seems defined by neuronal differentiation and synaptic regulation.","confidence":"High","size":24,"edges":11,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008360","count":6},{"id":"GO:0007409","count":6},{"id":"GO:0048168","count":6},{"id":"GO:0048708","count":6},{"id":"GO:1901387","count":6}]},{"hash":"1201638307412107137","title":"Unknown","description":"The top GO terms are diverse, spanning heart and placenta development, several signaling pathways (Rho, JNK), prostaglandin response, ion transport, myelin maintenance, and cytokine production. There is no single dominant function or pathway that unifies the proteins, so a coherent, specific label is not supported.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0001893","count":4},{"id":"GO:0035023","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0010765","count":4}]},{"hash":"2145470975628503213","title":"Organogenesis and vascular morphogenesis","description":"The enrichment across lymph vessel morphogenesis, metanephric tubule/duct development, sprouting angiogenesis, and musculoskeletal and reproductive organ development suggests a broad organogenesis/morphogenesis program rather than a single tissue-specific function.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0072237","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0072177","count":3}]},{"hash":"1152013660432814171","title":"Vitamin and Metabolite Biosynthesis","description":"This cluster is enriched for multiple biosynthetic processes (cobalamin, biotin, heme, antibiotic biosynthesis) and related metabolic steps, with occasional transcription/mitochondrial translation terms, suggesting proteins involved in vitamin and metabolite production rather than a single pathway.","confidence":"Medium","size":24,"edges":163,"triangles":589,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0032543","count":3},{"id":"GO:0055114","count":3}]},{"hash":"502062049376841563","title":"Lipid and Steroid Biosynthesis","description":"The top GO terms are dominated by lipid-related biosynthetic processes: fatty acid elongation, very long-chain fatty acid biosynthesis, sphingolipid biosynthesis, mycolic acid biosynthesis, and 3-keto-sphinganine metabolism, plus estrogen biosynthesis and retinal metabolism. These together point to a cohesive theme of lipid metabolism and the production of lipid-derived molecules (steroids, retinoids, sphingolipids) as the core function of this cluster, with antibiotic biosynthesis likely reflecting similar polyketide/lipid-like pathways; occasional tissue-development terms may reflect lipid roles in membranes and organ development. Confidence: High.","confidence":"","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":24},{"id":"GO:0055114","count":24},{"id":"GO:0006666","count":24},{"id":"GO:0030497","count":24},{"id":"GO:0017000","count":24}]},{"hash":"102829758495933555","title":"Collagen Fibril Organization and Immune Development","description":"Based on the top GO terms, the cluster centers on extracellular matrix organization (collagen fibril organization) and inflammatory/innate immune processes (innate immune response, inflammatory response, complement activation). It also includes tissue development signals (hair follicle development, Sertoli cell development) and modulation of growth signals (negative regulation of VEGF signaling), suggesting a cohesive theme of ECM-associated immune interactions during tissue development.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0006954","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0001942","count":4}]},{"hash":"871256883819686078","title":"Innate immune activation and inflammation","description":"The top GO terms cluster around core immune defense and inflammatory processes: phagocytosis recognition, complement activation (lectin pathway), Fc-gamma receptor signaling, lipid mediator production (arachidonate secretion), platelet activation, and responses to fungal components. Lymphatic vessel morphogenesis points to immune cell trafficking, while other terms reflect host defense and stress responses. Together these terms depict a cohesive innate immune and inflammatory signaling theme, justifying a focused label.","confidence":"High","size":24,"edges":21,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":24},{"id":"GO:0006910","count":24},{"id":"GO:0071226","count":24},{"id":"GO:0036303","count":24},{"id":"GO:0060355","count":24}]},{"hash":"1437448216700722668","title":"Chromatin Remodeling and Transcription Regulation","description":"These terms cluster around chromatin dynamics and transcription control: nucleosome mobilization, histone modifications (H3-K14 acetylation, H2B ubiquitination), regulation of nucleosome density, and termination/start-site regulation for RNA polymerases I and II. The common theme is chromatin state modulating transcription across multiple RNA polymerases, with some signals touching on stem cell differentiation as a broader context. Confidence reflects the cohesive link to chromatin-mediated transcription regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":2},{"id":"GO:0006363","count":2},{"id":"GO:2000104","count":2},{"id":"GO:0071441","count":2},{"id":"GO:0071894","count":2}]},{"hash":"935896596065701808","title":"Cellular stress response and autophagy regulation","description":"These terms cluster around cellular stress responses (UV, hydroperoxide, ethanol, MMS) and autophagy regulation (positive regulation of autophagy and autophagic cell death), with some relation to tissue homeostasis and migration. The common theme is stress-induced cellular remodeling and autophagy-related survival/death pathways, though osteoblast differentiation appears less connected. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034644","count":1},{"id":"GO:0001894","count":1},{"id":"GO:0072703","count":1},{"id":"GO:0048102","count":1},{"id":"GO:0010508","count":1}]},{"hash":"1352713936007503519","title":"Neural development and cell cycle control","description":"This cluster combines GO terms related to neuronal development and synapse formation (cell migration, positive regulation of synapse assembly, axon regeneration) with broad cell biology processes (negative regulation of cell proliferation, regulation of the cell cycle, apoptosis), plus microtubule dynamics and Wnt signaling. Together, they point to coordinated regulation of neural growth/survival and cell cycle control, though the set spans multiple related themes. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0030178","count":2},{"id":"GO:0007050","count":2}]},{"hash":"421344998830741191","title":"Dopaminergic neurotransmission regulation","description":"The GO terms cluster around regulation of dopamine signaling and secretion (regulation of dopamine signaling pathway; regulation of dopamine secretion), neurotransmitter release, and synaptic vesicle transport, with related terms for dendrite morphogenesis and actin cytoskeleton reorganization\u2014collectively indicating neuronal synapse regulation. Despite 0 edges, the common theme across terms is neuronal signaling and synaptic regulation rather than a single enzyme or pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":1},{"id":"GO:0032091","count":1},{"id":"GO:0060159","count":1},{"id":"GO:0043506","count":1},{"id":"GO:0014059","count":1}]},{"hash":"569212812571737077","title":"Membrane trafficking and signaling","description":"The terms cluster around membrane-related processes: fusion events (virus-host fusion, vacuole fusion), lipid modification (palmitoylation), and signaling regulation (calcineurin-NFAT pathway). Several entries touch neural functions (excitatory postsynaptic potential, visual perception), suggesting membrane dynamics and signaling in neural contexts, while others point to broader trafficking and activity at membranes (viral life cycle, sebaceous gland development). Overall, a unifying theme is membrane trafficking combined with signaling and regulation across systems.","confidence":"Medium","size":24,"edges":43,"triangles":27,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051534","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0019064","count":2}]},{"hash":"1970653355042725389","title":"Unknown","description":"The GO terms are scattered across diverse processes, including DNA damage response and repair, cellular responses to UV and ionizing radiation, spermatogenesis, lactation, and differentiation of airway cells, with no clear, single functional theme uniting the cluster. This makes a cohesive, specific label unreliable.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0034644","count":1},{"id":"GO:0070318","count":1},{"id":"GO:0000077","count":1},{"id":"GO:0000725","count":1}]},{"hash":"1673204179906998352","title":"Chondrogenesis and cartilage development","description":"The cluster\u2019s GO terms center on cartilage-related processes: chondrocyte proliferation, cartilage condensation, and regulation of BMP signaling, along with cell-matrix adhesion and lung development, which together point to mesenchymal chondrogenesis and extracellular matrix remodeling required for cartilage formation. Negative regulation of angiogenesis and other growth-related terms also fit the characteristic avascular cartilage environment. Overall, the dominant theme is cartilage development and chondrogenesis.","confidence":"High","size":24,"edges":183,"triangles":844,"max_degree":22,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0001558","count":17},{"id":"GO:0007596","count":17},{"id":"GO:0030514","count":15},{"id":"GO:0010751","count":15},{"id":"GO:0035988","count":14}]},{"hash":"1790762971611112425","title":"Mitochondrial protein import and respiration","description":"This cluster centers on mitochondria, with multiple GO terms pointing to protein import into the mitochondrial matrix, insertion into the inner membrane, and assembly of the respiratory chain (notably Complex IV), as well as proton motive force-driven ATP synthesis and mitophagy. The convergence on import, assembly, and energy production supports a cohesive mitochondrial-function label.","confidence":"High","size":24,"edges":262,"triangles":1747,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":5},{"id":"GO:0033617","count":4},{"id":"GO:0030150","count":4},{"id":"GO:0045039","count":4},{"id":"GO:0015991","count":2}]},{"hash":"1291049346193236791","title":"FGF-MAPK Signaling in Organogenesis","description":"This cluster centers on GO terms for positive regulation of ERK/MAPK cascades and MAPKKK cascades driven by FGFR signaling, indicating a primary role of FGF-triggered MAPK signaling in organogenesis. Associated terms include lung development and mesenchymal-epithelial branching morphogenesis, suggesting involvement in organ morphogenesis beyond a single tissue. Phosphatidylinositol phosphate biosynthesis adds a signaling context that often intersects with MAPK pathways. Confidence reflects a coherent focal theme across these terms.","confidence":"High","size":24,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0007026","count":4},{"id":"GO:0090080","count":3},{"id":"GO:0046854","count":3},{"id":"GO:0060484","count":3}]},{"hash":"1495025122789053749","title":"Lipid and steroid biosynthesis","description":"This cluster features multiple lipid biosynthetic processes (fatty acids, sphingolipids, very long-chain fatty acids, mycolic acids) and steroid-related metabolism (estrogen biosynthesis), with retinal metabolism also tied to lipid pathways, indicating a cohesive lipid/steroid biosynthesis theme.","confidence":"High","size":24,"edges":148,"triangles":432,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042574","count":5},{"id":"GO:0006666","count":5},{"id":"GO:0030497","count":5},{"id":"GO:0017000","count":5}]},{"hash":"1337522213836709432","title":"Embryonic and placental development regulation","description":"The top GO terms are dominated by embryonic development and tissue morphogenesis (placental/ trophoblast differentiation, cartilage morphogenesis, EMT in heart development, left-right patterning, endocrine system development, pancreatic cell development). Although sulfate assimilation appears, the overall signal points to regulatory roles in embryogenesis and organ formation, especially placenta-related processes. This makes \"Embryonic and placental development regulation\" a concise, representative label. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":2},{"id":"GO:0040037","count":2},{"id":"GO:0008637","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1}]},{"hash":"1298770347640120302","title":"Membrane adhesion and immune-angiogenic signaling","description":"Reason: The prominent GO terms cluster around cell adhesion (heterophilic adhesion, integrin activation), endothelial cell migration and sprouting angiogenesis, and immune signaling (complement receptor signaling, T cell homeostasis, extrinsic apoptotic signaling). A couple of terms like photosynthesis and thyroid hormone generation seem outliers, likely annotation noise, but the dominant pattern points to membrane-associated adhesion and signaling relevant to vascular and immune contexts.","confidence":"Medium","size":24,"edges":75,"triangles":82,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0090050","count":3},{"id":"GO:2001241","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0006590","count":3},{"id":"GO:1990034","count":3}]},{"hash":"43519351750528396","title":"JAK-STAT-driven T cell cytokine signaling","description":"The cluster centers on signaling events that activate STATs (tyrosine phosphorylation, autophosphorylation) and drive cytokine-mediated responses in T cells, including TH2 cytokine production, IL-27 signaling, T cell receptor signaling, and prolactin signaling. This points to a common theme of JAK-STAT\u2013dependent immune signaling, with connected processes such as angiogenesis and CNS development representing downstream roles of these pathways. ","confidence":"High","size":24,"edges":80,"triangles":95,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":15},{"id":"GO:0035745","count":14},{"id":"GO:0070106","count":14},{"id":"GO:0038161","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1608642068710655283","title":"Adaptive Immunity Activation and Antigen Presentation","description":"This cluster is dominated by GO terms tied to adaptive immune functions: T cell costimulation, cytokine production (including IL-10), antigen processing and MHC II\u2013restricted antigen presentation, and B cell activation, indicating coordinated T/B cell\u2013mediated immune responses. A few terms touch on development or epithelial maintenance, but the strongest signal centers on immune signaling and antigen presentation, justifying a label around adaptive immunity and antigen presentation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001181","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0002374","count":3},{"id":"GO:0002588","count":3},{"id":"GO:0071224","count":3}]},{"hash":"877182997872258529","title":"Immune Regulation and Cell Adhesion Signaling","description":"The top GO terms are dominated by negative regulation of immune effector functions (cytotoxic T cell degranulation, macrophage activation, NK cell cytotoxicity) and by cell\u2013cell adhesion and actin cytoskeleton regulation linked to adhesion, including AV node adhesion. Additional terms point to development-related adhesion and signaling in lung mesenchyme and neuronal axon guidance, which can be tied to adhesion-mediated communication. This combination suggests a cluster centered on controlling immune activity through cell\u2013cell adhesion and related signaling pathways, with some developmental context.","confidence":"Medium","size":24,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":21},{"id":"GO:0043031","count":21},{"id":"GO:0007157","count":21},{"id":"GO:0086072","count":21},{"id":"GO:0090138","count":21}]},{"hash":"331164296122194261","title":"Developmental morphogenesis and signaling","description":"This cluster is dominated by GO terms tied to developmental processes and morphogenesis, including branching morphogenesis (salivary glands, lung mesenchyme), neuron axon guidance, and signaling pathway regulation (FGF signaling and MAPKKK cascades). While a few terms touch on immune regulation, the strongest and most frequent themes center on developmental signaling and tissue patterning, making this label representative of the cluster\u2019s function.","confidence":"High","size":24,"edges":270,"triangles":1901,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021785","count":24},{"id":"GO:0090080","count":24},{"id":"GO:0090272","count":24},{"id":"GO:0060484","count":24},{"id":"GO:2000830","count":24}]},{"hash":"2124929314033591877","title":"Axon Growth and Myelination","description":"This cluster is dominated by GO terms tied to neural development, including axon extension during regeneration, branchiomotor neuron axon guidance, and myelination, with supporting signaling through FGF/MAPK pathways and cell\u2013cell adhesion, suggesting a coherent theme of neuronal growth and myelination processes.","confidence":"High","size":24,"edges":9,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048691","count":22},{"id":"GO:0014068","count":22},{"id":"GO:0042552","count":22},{"id":"GO:0007157","count":21},{"id":"GO:0021785","count":20}]},{"hash":"1670964175227956762","title":"ER Protein Folding and Redox Homeostasis","description":"The terms cluster around ER-associated protein folding and quality control (protein folding in ER, ER stress response), redox homeostasis and oxidant detoxification, and a collagen-related prolyl hydroxylation activity in the ER\u2014together with transcriptional regulation during stress. This supports a cohesive module of ER function and redox regulation with transcriptional responses.","confidence":"High","size":24,"edges":190,"triangles":782,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":18},{"id":"GO:0018401","count":13},{"id":"GO:0098869","count":13},{"id":"GO:0043388","count":12},{"id":"GO:0034975","count":12}]},{"hash":"614544947347169329","title":"Neural and sensory organ development","description":"The cluster is dominated by GO terms for neural and sensory organ development, including brain development, metencephalon and facial nucleus development, and cochlea morphogenesis, pointing to a cohesive theme of neural/sensory organ morphogenesis during embryogenesis. Some terms touch other organs, but the neural/sensory signal is strongest.","confidence":"High","size":24,"edges":179,"triangles":688,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":21},{"id":"GO:0060065","count":21},{"id":"GO:0021723","count":20},{"id":"GO:0022037","count":20},{"id":"GO:0090103","count":20}]},{"hash":"1423821578285166501","title":"Neuronal signaling and synaptic vesicle release","description":"This cluster centers on GO terms tied to neuronal signaling and synaptic function, including phosphatidylinositol-mediated signaling, regulation of synaptic vesicle exocytosis, and neurotransmitter secretion, along with calcium-responsive processes and brain development, indicating a set of proteins involved in synaptic transmission and neurodevelopment.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048015","count":23},{"id":"GO:2000300","count":23},{"id":"GO:0043065","count":23},{"id":"GO:0007269","count":23},{"id":"GO:0010796","count":23}]},{"hash":"785781176453394207","title":"Vertebrate somite and axis morphogenesis","description":"The top terms cluster around vertebrate embryonic development focused on somite formation and axis patterning (somite specification, rostral/caudal axis specification, left/right symmetry), plus skeletal outcomes (bone morphogenesis, ossification, tail morphogenesis) and Notch signaling, which together point to axial patterning and skeletal development. An outlier term and lack of interactions don't undermine the overall theme of somite/axis-driven morphogenesis. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044324","count":1},{"id":"GO:0060037","count":1},{"id":"GO:0001503","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0001757","count":1}]},{"hash":"1605654320850982024","title":"Mitochondrial dynamics and lipid regulation","description":"The top GO terms emphasize mitochondrial processes (positive regulation of mtDNA replication, stress-induced mitochondrial fusion, and mitochondrial membrane potential) alongside lipid metabolism pathways (SREBP signaling and regulation of cholesterol biosynthesis). While some terms touch on cell adhesion, the strongest signals center on mitochondrial function and lipid homeostasis, justifying a label focused on these themes.","confidence":"High","size":24,"edges":261,"triangles":1726,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0001302","count":8},{"id":"GO:2000049","count":7},{"id":"GO:0090297","count":7},{"id":"GO:0032933","count":7}]},{"hash":"1681682084583535201","title":"Cell cycle regulation and DNA damage tolerance","description":"This cluster\u2019s top GO terms center on the centrosome cycle, regulation of the cell cycle, and translesion synthesis, which together point to proteins involved in controlling cell division and tolerating DNA damage. The combination suggests a cohesive theme around cell cycle progression and DNA repair/lesion-bypass mechanisms, despite the sparse edge/connectivity data. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":1},{"id":"GO:0019985","count":1},{"id":"GO:0051726","count":1}]},{"hash":"1494803960767546508","title":"Unknown","description":"The terms span disparate regulatory and signaling processes (vitamin D response, salicylic acid signaling, chemokine production, pain detection, mRNA stability, ubiquitination, adipocyte differentiation, etc.) with no clear, cohesive function dominating the cluster. There is no consistent pathway or mechanism tying the proteins together, so a specific functional label isn\u2019t supported.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":11},{"id":"GO:0000083","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0098907","count":9},{"id":"GO:2000031","count":8}]},{"hash":"1738100136155887338","title":"Vascular and organ morphogenesis signaling","description":"Proteins in this cluster are enriched for vascular development (vasculogenesis, angiogenesis), organogenesis and branching morphogenesis (lung mesenchyme, salivary gland branching, organ induction), and signaling pathways (FGFR/MAPK). The common theme is developmental processes governing tissue patterning, vessel formation, and organ morphogenesis.","confidence":"High","size":24,"edges":142,"triangles":382,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001214","count":4},{"id":"GO:0045663","count":4},{"id":"GO:0019226","count":3},{"id":"GO:0090080","count":3},{"id":"GO:0060484","count":3}]},{"hash":"1086185853356382969","title":"Adrenergic Cardiovascular Signaling","description":"This cluster is driven by GO terms pointing to GPCR signaling that activates adenylate cyclase, adrenergic control of heart contraction and blood pressure, and smooth muscle effects, including epinephrine/norepinephrine\u2013mediated regulation. While energy metabolism and inflammatory signaling appear, the strongest theme is catecholamine- and GPCR-driven regulation of cardiovascular function, with components affecting heart force, vascular tone, and related hormonal outputs.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":24},{"id":"GO:0022900","count":24},{"id":"GO:0045777","count":24},{"id":"GO:0035025","count":20},{"id":"GO:0014827","count":17}]},{"hash":"998009715621563278","title":"Amino acid and glucose transport with glycosylation","description":"The cluster prominently features GO terms tied to transport of amino acids (L-cystine, basic amino acids) and D-glucose, plus dolichol-linked oligosaccharide biosynthesis (glycosylation), pointing to roles in membrane transport and protein processing in the secretory pathway. Tissue development terms (spleen, lens) and behavior annotations likely reflect broad expression across tissues rather than core function. Overall, transport and glycosylation form a coherent functional theme for this cluster.","confidence":"Medium","size":24,"edges":159,"triangles":429,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0048536","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0015811","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0080144","count":2}]},{"hash":"686114782016116508","title":"Heart development and cardiac function regulation","description":"The cluster centers on heart development and regulation of heart contraction (including epinephrine/norepinephrine\u2013mediated force), with supporting terms in circadian rhythm, hormone secretion, and smooth muscle-related processes, suggesting a cohesive theme around cardiovascular development and function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":17},{"id":"GO:0042752","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0014827","count":16},{"id":"GO:0070963","count":16}]},{"hash":"2079974444753388519","title":"Neuronal development and synaptic signaling","description":"The dominant GO terms describe neuronal development and synaptic signaling/plasticity, including dendritic spine morphogenesis, neurotrophin TRK and ephrin receptor signaling, Wnt signaling, and long-term potentiation. While one term relates to branching in mammary gland morphogenesis, the overall pattern points to neuron development and synaptic connectivity and modulation. This makes a concise label focusing on neuronal development and synaptic signaling most representative of the cluster.","confidence":"High","size":23,"edges":248,"triangles":1672,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":21},{"id":"GO:0060444","count":21},{"id":"GO:0038083","count":21},{"id":"GO:0048011","count":21},{"id":"GO:0048013","count":21}]},{"hash":"1008775611015718871","title":"Autophagy and Cytoskeletal Regulation in Cell Division","description":"Top terms cluster around macroautophagy and actin cytoskeleton remodeling, both central to cell cycle and division. Additional terms for innate immune response and blastocyst development fit autophagy\u2019s roles in development and immunity, supporting a cohesive theme of autophagy-linked regulation of division and cytoskeleton.","confidence":"High","size":23,"edges":13,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0001824","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0016236","count":3}]},{"hash":"1557607231656542993","title":"Ribosome biogenesis and rRNA maturation","description":"The top GO terms point to ribosomal subunit biogenesis and maturation of both SSU and LSU rRNA, indicating a cluster of proteins involved in ribosome assembly and rRNA processing. Additional terms like transcription initiation and DNA replication are present but appear secondary; the strongest signal centers on ribosome biogenesis and rRNA maturation.","confidence":"High","size":23,"edges":238,"triangles":1486,"max_degree":22,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0042273","count":7},{"id":"GO:0000463","count":7},{"id":"GO:0000184","count":7},{"id":"GO:0000466","count":7},{"id":"GO:0006367","count":6}]},{"hash":"517963277656873607","title":"Neural wiring and ECM remodeling","description":"Based on GO terms, the cluster centers on extracellular matrix organization (collagen fibril organization) and neural connectivity processes\u2014axonal guidance of corticospinal neurons, axonal fasciculation, and positive regulation of synapse assembly\u2014along with a cellular response to mechanical stimuli. These point to coordinated ECM remodeling and neural wiring during CNS development. Additional terms related to innate immunity and cortisol response are present but less defining for the core theme.","confidence":"Medium","size":23,"edges":17,"triangles":2,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0050929","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0051414","count":8}]},{"hash":"321670034038499112","title":"Amino acid transport and metabolism","description":"The top GO terms are dominated by membrane transport of amino acids and related metabolites (methionine, D-serine, polyamines) and an associated L-arginine catabolic process, suggesting a transporter/metabolic module. While nuclear processes like transcription and replication appear among the terms, they are less central to the cluster\u2019s theme; overall, the enrichment points to amino acid transport and metabolism as the defining function.","confidence":"Medium","size":23,"edges":53,"triangles":42,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0044690","count":3}]},{"hash":"545021765172276139","title":"Actin Cytoskeleton Remodeling and Protrusion Formation","description":"It highlights actin cytoskeleton remodeling and protrusion formation (lamellipodium, filopodium, podosome, stress fibers) regulated by Rho and linked to integrin adhesion and centrosome localization, suggesting a cohesive module of cytoskeletal dynamics driving cell motility and structural organization.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0051660","count":3}]},{"hash":"1994596347306876127","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":115,"triangles":265,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":5},{"id":"GO:0018406","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0030728","count":3},{"id":"GO:0070509","count":3}]},{"hash":"1591329020042920095","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":176,"triangles":785,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":15},{"id":"GO:0010610","count":14},{"id":"GO:0042254","count":13},{"id":"GO:0006412","count":12},{"id":"GO:0061481","count":11}]},{"hash":"1317449965572558256","title":"RNA and protein methyltransferases","description":"The cluster is dominated by methylation-related GO terms: rRNA methylation, N-terminal peptidyl-glycine methylation, peptidyl-arginine and peptidyl-lysine dimethylation, RNA guanine-N7 methylation, and 7-methylguanosine mRNA capping. This strongly suggests a group of methyltransferases acting on both RNA and proteins, with ancillary terms related to growth and stress responses. Confidence reflects this clear, cohesive theme.","confidence":"High","size":23,"edges":103,"triangles":167,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":13},{"id":"GO:0018013","count":12},{"id":"GO:0019919","count":12},{"id":"GO:0046690","count":12},{"id":"GO:0009236","count":12}]},{"hash":"2153951767721345011","title":"Neuronal development and vesicle trafficking","description":"This cluster is dominated by GO terms for nervous system development and dendritic spine development, plus vesicle trafficking and cell polarity, indicating a module of neuronal differentiation and synaptic organization that relies on small GTPase\u2013driven trafficking and protein localization.","confidence":"High","size":23,"edges":208,"triangles":1018,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":23},{"id":"GO:0046909","count":23},{"id":"GO:0000055","count":23},{"id":"GO:0007264","count":23},{"id":"GO:0034629","count":23}]},{"hash":"1838836007878896119","title":"Vesicle trafficking and Rab GTPase signaling","description":"These proteins cluster around ER-to-Golgi vesicle transport, Rab/Rap GTPase signaling, and intracellular protein transport, with supporting cues from GTPase activation and cell-cycle\u2013related kinase regulation. The dominant pattern is vesicle trafficking and small GTPase\u2013mediated regulation, justifying this label despite a few outliers. ","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:1902953","count":7},{"id":"GO:0051534","count":7},{"id":"GO:0031578","count":6},{"id":"GO:0090630","count":6},{"id":"GO:0032483","count":6}]},{"hash":"1266452496090733744","title":"Innate immune sensing and antibacterial defense","description":"This cluster shows strong enrichment for innate immune and antibacterial defense functions: TLR9 signaling, detection of LPS, and defense responses to Gram-positive and Gram-negative bacteria, plus cytokine-mediated signaling, with regulatory kinase activity linking these pathways.","confidence":"High","size":23,"edges":100,"triangles":177,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0019221","count":6},{"id":"GO:0009729","count":5}]},{"hash":"345654495924948893","title":"Bacterial lipid metabolism and cofactor biosynthesis","description":"The cluster\u2019s top GO terms cluster around lipid metabolism (long-chain and medium-chain fatty acids, fatty acid import), energy/yield pathways (pyruvate fermentation to acetate), and cofactor/secondary metabolite biosynthesis (menaquinone, siderophore biosynthesis). This combination strongly suggests a prokaryotic metabolic program focused on fatty acid processing and biosynthesis of cofactors with iron-scavenging capabilities. Some terms (seed coat development, IL-8 regulation, bile acid metabolism) appear as outliers or cross-annotations, but they do not override the dominant microbial metabolic theme.","confidence":"High","size":23,"edges":218,"triangles":1190,"max_degree":22,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0045415","count":8},{"id":"GO:0010214","count":7},{"id":"GO:1902987","count":7},{"id":"GO:0001676","count":7},{"id":"GO:0019654","count":7}]},{"hash":"1277529298859965360","title":"Redox metabolism and amino acid biosynthesis","description":"The GO terms show a tight focus on oxidation-reduction processes, the pentose phosphate shunt (NADPH production), and responses to nutrient and hypoxia, plus several amino acid biosynthetic and catabolic pathways (valine, proline, alanine). Taken together, the proteins appear to participate in redox-balanced central metabolism and flexible amino acid metabolism under nutrient or stress conditions, consistent with a single metabolic module rather than distinct signaling or structural functions. The density of interactions (edges/triangles) supports a cohesive metabolic network.","confidence":"High","size":23,"edges":190,"triangles":858,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0007584","count":6},{"id":"GO:0006098","count":6},{"id":"GO:0001666","count":6},{"id":"GO:0009099","count":5}]},{"hash":"1813774719302722717","title":"Circadian Hormone Signaling and Xenobiotic Response","description":"This cluster is enriched for circadian regulation of gene expression and endocrine signaling (circadian regulation, glucocorticoid signaling, thyroid hormone response) and includes responses to xenobiotics and drugs, plus downstream hormone-dependent developmental processes. The common theme appears to be timing-controlled, hormone- and stress-responsive regulation rather than a single structural function, with xenobiotic response as a notable shared aspect.","confidence":"Medium","size":23,"edges":42,"triangles":30,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:2000323","count":23},{"id":"GO:0032922","count":23},{"id":"GO:0009410","count":23},{"id":"GO:2001016","count":23},{"id":"GO:0060713","count":23}]},{"hash":"273738588632182675","title":"Translation and mitochondrial metabolism","description":"The cluster shows strong representation of translation-related GO terms (translation; cytoplasmic translational termination) and RNA modification (tRNA methylation), complemented by mitochondrial metabolism signals (protein lipoylation; glycine cleavage/glycine decarboxylation). Additional terms point to stress and growth regulation (response to copper/xenobiotic; extrinsic apoptosis; VEGF production; cell division). Overall, the dominant theme appears to be translation machinery with links to mitochondrial metabolism and cellular stress responses.","confidence":"Medium","size":23,"edges":97,"triangles":183,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0002184","count":3},{"id":"GO:0009249","count":2},{"id":"GO:0019464","count":2},{"id":"GO:0030488","count":2}]},{"hash":"878704995461296593","title":"Golgi-centered vesicle trafficking","description":"This cluster shows strong representation of GO terms related to vesicle transport involving the Golgi apparatus (ER-to-Golgi, intra-Golgi, Golgi-to-plasma membrane, retrograde endosome-to-Golgi, and Golgi ribbon formation) as well as vesicle fusion events (vacuole fusion, synaptic vesicle exocytosis). Together these terms point to a cohesive group of proteins functioning in Golgi-associated vesicular trafficking and intracellular transport.","confidence":"High","size":23,"edges":193,"triangles":946,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":9},{"id":"GO:0048280","count":8},{"id":"GO:0006891","count":7},{"id":"GO:0090161","count":7},{"id":"GO:0042144","count":7}]},{"hash":"972817337225851900","title":"Immune cell adhesion and T cell activation","description":"The cluster centers on cell\u2013cell adhesion (heterophilic/homophilic) and immune signaling, with terms for innate and adaptive immune responses, complement activation, immunological synapse formation, and regulation of T cell proliferation. This points to proteins involved in immune cell contact and activation, consistent with an adhesion/signaling immune cluster, despite a stray junction term.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0000187","count":6},{"id":"GO:0030913","count":6}]},{"hash":"1925124706458193389","title":"Plant plastid RNA processing and redox metabolism","description":"Several terms point to chloroplast/plastid RNA processing (chloroplast mRNA processing, polycistronic mRNA processing) and plant development (meristem development), with accompanying redox-related activities (response to hydrogen peroxide, ubiquinone biosynthetic process) and protein modification. Together they suggest a plastid-associated gene-expression and redox metabolism cluster in plants.","confidence":"Medium","size":23,"edges":87,"triangles":136,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0080163","count":1},{"id":"GO:0006744","count":1},{"id":"GO:0010239","count":1}]},{"hash":"1627654721256547337","title":"Neural development and synapse formation","description":"This cluster is dominated by GO terms tied to neural development and synapse establishment, including positive regulation of synapse assembly, motor neuron axon fasciculation, optic nerve morphogenesis, and trans-synaptic signaling. These links point to a cohesive theme of neural connectivity and synaptic maturation. The other terms (apoptotic process, DNA replication, immune signaling) may reflect broader cellular states or pleiotropy but do not override the neural focus.","confidence":"Medium","size":23,"edges":231,"triangles":1377,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0021631","count":7},{"id":"GO:0060044","count":7}]},{"hash":"1035195590623255401","title":"GTPase-driven GPCR signaling and cell motility","description":"The cluster is enriched for terms related to positive regulation of GTPase activity, small GTPase\u2013mediated signal transduction, and GPCR signaling, along with processes like cell migration and response to mechanical stimulus. Together these suggest a functional module where GTPase and GPCR signaling regulate cytoskeletal dynamics and movement, with some developmental context (gastrulation, spindle orientation) likely downstream or related to these signaling pathways. Insulin/glucose-related terms appear sparse or obsolete, likely noise. Confidence: Medium","confidence":"","size":23,"edges":30,"triangles":9,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0009409","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007264","count":3},{"id":"GO:2001275","count":3}]},{"hash":"1311054185388683997","title":"RNA and lysine methyltransferases","description":"Most of the top GO terms cluster around methylation activities: peptidyl-lysine methylation (including trimethylation and dimethylation), N-terminal peptidyl-glycine methylation, and rRNA methylation, with rDNA heterochromatin formation also tying to methylation-based chromatin regulation. This suggests the proteins are enriched for methyltransferase functions involved in RNA modification and lysine methylation of proteins, with some ancillary developmental associations. Confidence: High","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018023","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0018013","count":3},{"id":"GO:0018027","count":3}]},{"hash":"2114253255333050164","title":"Innate antiviral signaling and ubiquitination","description":"This cluster is dominated by terms related to antiviral defense and innate immunity (defense response to virus, innate immune response) and K63-linked ubiquitination, suggesting a shared role in ubiquitin-mediated antiviral signaling. There are additional, less dominant terms pointing to cytoskeletal remodeling and nuclear processes (actin filament severing, splicing, transcription regulation), but the core theme centers on innate antiviral defense through ubiquitin signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051014","count":2},{"id":"GO:0051497","count":2}]},{"hash":"2229320711109701595","title":"Complement Activation Pathways","description":"This cluster is dominated by GO terms for the complement system: activation via classical, lectin, and alternative pathways, and membrane attack complex (MAC) activation/regulation. The presence of neutrophil-mediated killing of fungus and MAC-related regulation supports a focus on innate immune defense and inflammatory responses. Additional terms like positive regulation of angiogenesis and in utero embryonic development may reflect broader, pleiotropic roles of complement components. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":18},{"id":"GO:0001867","count":15},{"id":"GO:0045766","count":13},{"id":"GO:0003050","count":12},{"id":"GO:0014068","count":11}]},{"hash":"793401049888340421","title":"Unknown","description":"This cluster's GO terms describe a wide range of developmental and signaling processes across different organisms and tissues (neural differentiation, plant phloem development, insect haltere morphogenesis, immune signaling, and cytoskeletal organization), with no clear shared function or pathway. Because there isn't a cohesive biological theme linking these terms to a single interpretable label, an Unknown classification with None confidence is appropriate.","confidence":"","size":23,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904948","count":9},{"id":"GO:2001046","count":7},{"id":"GO:0050859","count":7},{"id":"GO:0090334","count":7},{"id":"GO:0010088","count":6}]},{"hash":"1704373367583406799","title":"Lipid Droplet Regulation and Triglyceride Metabolism","description":"The cluster centers on lipid droplets, including their organization, triglyceride storage, and regulation of triglyceride synthesis and fatty acid oxidation, indicating a cohesive role in lipid droplet dynamics and triglyceride metabolism.","confidence":"High","size":23,"edges":53,"triangles":44,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:1990044","count":3},{"id":"GO:0010897","count":3},{"id":"GO:0034389","count":3},{"id":"GO:0031999","count":3}]},{"hash":"2084830425695924220","title":"Ubiquitin-Dependent Proteolysis and Proteasome Function","description":"This cluster is dominated by GO terms for proteolysis, ubiquitin-dependent protein catabolic process, and proteasome assembly, indicating a core function in protein turnover and processing. Additional terms such as deglycosylation and cell-cycle regulation reflect related proteostasis and degradation pathways, with a viral-process term that may reflect host\u2013virus interactions affecting these pathways.","confidence":"High","size":23,"edges":68,"triangles":100,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006559","count":7},{"id":"GO:0006508","count":7},{"id":"GO:0033345","count":7},{"id":"GO:0006517","count":7},{"id":"GO:0016032","count":3}]},{"hash":"1993728835565263256","title":"Neurovascular development and immune signaling","description":"The cluster features terms tied to neural development (axonal fasciculation and axon extension), vascular development (angiogenesis) and function (blood pressure regulation, sodium excretion), along with immune-related processes (complement activation, antibiotic response), plus a general regulatory signal (phosphorylation). This suggests proteins that participate in coordinating neural and vascular development with immune signaling, though the mix is broad rather than a single pathway. ","confidence":"Medium","size":23,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0003050","count":5},{"id":"GO:0045766","count":4},{"id":"GO:0007413","count":4}]},{"hash":"786748220831366665","title":"TLR signaling and innate immune activation","description":"The cluster is dominated by Toll-like receptor signaling pathways (TLR2, TLR9, TLR10) with both MyD88-dependent and independent arms, along with defense and inflammatory responses and interferon production, indicating a cohesive innate immune signaling module.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002755","count":19},{"id":"GO:0034166","count":18},{"id":"GO:0050829","count":18},{"id":"GO:0034162","count":18},{"id":"GO:0006954","count":18}]},{"hash":"470356357341603354","title":"Diverse membrane transporters","description":"This cluster is named Diverse membrane transporters because the top GO terms predominantly reflect transmembrane transport across membranes for a wide range of substrates (ions, vitamins, sugars, xenobiotics, metabolites) and related processes, including neurotransmitter loading into synaptic vesicles, suggesting a transporter-centric functional theme.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":18},{"id":"GO:1900754","count":18},{"id":"GO:0006004","count":18},{"id":"GO:0006855","count":18},{"id":"GO:0035461","count":18}]},{"hash":"1651293277738864434","title":"GPCR Signaling and Desensitization","description":"This cluster's GO terms predominantly revolve around G protein-coupled receptor signaling, including intracellular signal transduction, phosphorylation downstream of signaling, and desensitization of GPCR pathways, with tachykinin receptor signaling reinforcing the GPCR theme. Additional terms touch on differentiation and cardiac muscle contraction, suggesting associated signaling roles in muscle and adipose-related processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":1},{"id":"GO:0018107","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0033605","count":1},{"id":"GO:0002029","count":1}]},{"hash":"1271459330348605599","title":"Embryonic organogenesis and neural development","description":"These GO terms cluster around embryonic morphogenesis across multiple organs (ureteric bud, pancreas, cochlea, facial nucleus, metencephalon, neural crest migration, etc.) and nervous system formation. The common theme is coordinated embryonic organogenesis with neural development, rather than a single tissue focus, suggesting these proteins function in broad developmental pathways.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0090190","count":23},{"id":"GO:0048557","count":23},{"id":"GO:0001755","count":23},{"id":"GO:0000122","count":23},{"id":"GO:0031018","count":23}]},{"hash":"653955303874372694","title":"Complement Activation and Coagulation with Tissue Remodeling","description":"The cluster centers on innate immune and hemostatic processes: multiple GO terms for complement activation (classical and lectin pathways), defense against Gram-positive bacteria, blood coagulation, plasminogen activation, and regulation of fibrinogen, plus tissue remodeling. A transcriptional regulation term is present but less related to the core theme, so the main signal ties together complement, coagulation, and remodeling activities.","confidence":"High","size":23,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0043113","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0000122","count":5}]},{"hash":"31552686475177404","title":"Embryonic and organ development","description":"The top GO terms cover a broad range of developmental processes across multiple tissues (gonads, placenta, heart, cartilage, pancreas, phloem), including EMT and patterning, suggesting the cluster is enriched for developmental programs rather than a specific function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"782451973302733697","title":"TLR-Mediated Innate Immunity","description":"The cluster strongly centers on innate immune signaling, with multiple GO terms related to toll-like receptor pathways (TLR8/9), detection of lipopolysaccharide, and defense responses to Gram-negative bacteria. This suggests a cohesive theme of pattern-recognition and immune activation. A few terms touch on neuronal or structural processes (pain response, synapse assembly, mitochondrial depolarization), which may reflect downstream or cross-talk effects, but the core signal is innate immune recognition and response.","confidence":"High","size":23,"edges":235,"triangles":1443,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":23},{"id":"GO:0050929","count":23},{"id":"GO:0050829","count":23},{"id":"GO:0034162","count":23},{"id":"GO:0032497","count":23}]},{"hash":"1493962759542443164","title":"mRNA decay and P-body dynamics","description":"GO terms strongly point to post-transcriptional regulation: P-body assembly and deadenylation/exonucleolytic decay of mRNA, with related RNA turnover processes. While there are mentions of COPII vesicle loading and signaling modulation, the dominant signal is RNA metabolism, supporting this label as representative of the cluster's function. ","confidence":"Medium","size":23,"edges":19,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0044829","count":3},{"id":"GO:0045736","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0031030","count":2}]},{"hash":"291111660282259393","title":"Embryonic Organogenesis","description":"This cluster's GO terms converge on organ development across multiple tissues (brain regions like metencephalon and facial nucleus, cochlea morphogenesis, metanephros/kidney development, heart-related BMP signaling). The lack of a single dominant process suggests a broad theme of embryonic organogenesis rather than a specific pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048792","count":1},{"id":"GO:0070483","count":1},{"id":"GO:0018171","count":1},{"id":"GO:0021723","count":1},{"id":"GO:0022037","count":1}]},{"hash":"1502834713024948015","title":"Mitotic spindle regulation and microtubule dynamics","description":"The major GO terms cluster around mitosis and microtubules: mitotic metaphase chromosome alignment, regulation of mitotic spindle organization, microtubule polymerization and bundle formation, and positive regulation of CDK kinase activity, all pointing to control of cell division and cytoskeletal dynamics. A few terms (response to interleukin-15, cellular responses to cycloheximide) are peripheral, and one term about molybdenum cofactor biosynthesis likely reflects annotation noise. Overall, the cluster most plausibly reflects mitotic spindle function and microtubule dynamics.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007080","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0070672","count":1},{"id":"GO:1904527","count":1},{"id":"GO:0071409","count":1}]},{"hash":"1952208109513880594","title":"Embryonic organogenesis: heart, palate, kidney, gonad","description":"The proteins cluster around developmental morphogenesis across multiple organs, especially heart formation and EMT, with additional signals for palate formation, ureteric bud branching, cloacal septation, and gonad development, indicating a cohesive embryonic organogenesis program.","confidence":"High","size":23,"edges":157,"triangles":554,"max_degree":21,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0001658","count":11},{"id":"GO:0002062","count":11},{"id":"GO:0048146","count":10},{"id":"GO:0060045","count":10}]},{"hash":"1856639626669052607","title":"Transcription Regulation and Development","description":"The proteins cluster around transcriptional control (DNA-templated transcription and negative regulation of transcription by RNA polymerase II) and developmental processes (exocrine pancreas development, multicellular organism development, cell differentiation), indicating a theme of gene expression regulation during development. Some terms are obsolete or peripheral, but the core theme remains coherent.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0010729","count":1},{"id":"GO:0070895","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0046022","count":1}]},{"hash":"1102973095550504624","title":"Adaptive immune signaling and cytotoxic apoptosis","description":"The set is dominated by immune-related terms (adaptive immune response, B cell receptor signaling) and cytotoxic/apoptotic pathways (granzyme-mediated signaling, positive regulation of cytochrome c release), suggesting a functional cluster of immune cells engaging in programmed cell death. Other terms (hypoxia response, CNS development, melanocyte migration) are likely ancillary or pleiotropic annotations, but the core theme centers on immune signaling linked to apoptosis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090200","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0051402","count":2},{"id":"GO:0006919","count":2},{"id":"GO:0007417","count":2}]},{"hash":"906049520768689459","title":"Vertebrate Somite and Bone Morphogenesis","description":"This cluster centers on somite formation, skeletal development, and axial patterning, as indicated by terms for somite specification, pharyngeal system development, ossification, bone morphogenesis, tail morphogenesis, and left/right symmetry determination, with Notch signaling supporting developmental patterning. An outlier term for fatty acid beta-oxidation is present but does not define the cluster\u2019s primary function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044324","count":1},{"id":"GO:0060037","count":1},{"id":"GO:0001503","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0001757","count":1}]},{"hash":"1686069034129125762","title":"Neural crest\u2013driven axon guidance","description":"This cluster centers on neural development focused on axon pathfinding and organization driven by neural crest derivatives, including branchiomotor and cranial nerve axon guidance, sympathetic neuron projections, and semaphorin-plexin signaling. The terms also touch on neural crest migration and CNS development, all pointing to a cohesive theme of axon guidance in cranial/autonomic contexts.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0021785","count":5},{"id":"GO:0021637","count":5},{"id":"GO:1902287","count":5},{"id":"GO:0097490","count":4},{"id":"GO:0036486","count":4}]},{"hash":"812473522516097862","title":"Embryonic organ morphogenesis and signaling regulation","description":"Based on GO terms, the proteins are linked to embryonic development and organogenesis, including hindlimb, palate, ureteric bud morphogenesis, lung mesenchyme, and male gonad development. Several terms point to regulation of signaling pathways relevant to morphogenesis (negative regulation of FGF signaling and Wnt signaling), suggesting these proteins coordinate developmental patterning and organ formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0035116","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0040037","count":5},{"id":"GO:0001658","count":5}]},{"hash":"1135934053981866570","title":"Axon guidance and synapse formation","description":"The top GO terms cluster around neuronal development: axon guidance (ROBO signaling, chemorepulsion), neuron migration, and localization to paranode/juxtaparanode regions, along with cell adhesion and positive regulation of synapse assembly. This combination points to processes that guide axons and establish synaptic connections, rather than unrelated functions.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0002175","count":7},{"id":"GO:0051965","count":6},{"id":"GO:0021836","count":6}]},{"hash":"1671603230362967496","title":"Vesicle trafficking and exocytosis","description":"The proteins cluster around exocytosis and vesicle trafficking: positive regulation of GTPase activity, calcium-dependent exocytosis, synaptic vesicle exocytosis, insulin secretion, and endomembrane remodeling such as intralumenal vesicle formation and membrane tubulation. These terms jointly point to a module of secretion and vesicle dynamics. Occasional cell cycle/apoptosis terms may reflect shared regulatory networks rather than core functions of this cluster.","confidence":"High","size":23,"edges":165,"triangles":637,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0045956","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0070676","count":4},{"id":"GO:0006915","count":4}]},{"hash":"1746239748140023458","title":"Lipid biosynthesis and retinoid/steroid metabolism","description":"The top GO terms cluster around lipid-related processes: retinol and retinal metabolism, fatty acid elongation, very long-chain fatty acid biosynthesis, mycolic acid biosynthesis, and sphinganine metabolism, plus estrogen biosynthesis. This points to a cohesive theme of lipid metabolism with links to retinoid and steroid pathways, with a few peripheral terms (lung development, antibiotic biosynthesis) not altering the core signal.","confidence":"High","size":23,"edges":171,"triangles":664,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042572","count":21},{"id":"GO:0055114","count":20},{"id":"GO:0017000","count":12},{"id":"GO:0042574","count":11},{"id":"GO:0006666","count":11}]},{"hash":"1704426852212327632","title":"Neurodevelopment and Neuronal Signaling","description":"The cluster's most represented GO terms point to nervous system development and function: pyramidal neuron development, Schwann cell development, and excitatory postsynaptic potential indicate neural development and synaptic activity. Multicellular organism development and related signaling terms (GTPase activity regulation, peptidyl-threonine phosphorylation, nuclear import) reflect broader developmental signaling and cell-regulation processes that often coordinate neural formation. The presence of cell cycle\u2013related GO terms (G2/M transition) suggests proliferation during development, while ossification-related terms, though more bone-focused, can appear in broad developmental contexts. Taken together, the terms align most strongly with neurodevelopment and neuronal signaling rather than a purely metabolic or structural function.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0021860","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0043065","count":3}]},{"hash":"39418700570994908","title":"Transmembrane Transporters","description":"The top GO terms cluster around moving substances across membranes\u2014ions, metabolites, vitamins, xenobiotics\u2014and even vesicular neurotransmitter loading, indicating a general membrane transport function for this group.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0098700","count":8},{"id":"GO:1900754","count":8},{"id":"GO:0006004","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0035461","count":8}]},{"hash":"835451143550922301","title":"FGFR Signaling Regulators and Development","description":"The top GO terms center on modulation of FGFR signaling (positive regulation of MAPKKK cascade by FGFR pathway; negative regulation of FGFR production) together with broad developmental themes (lung mesenchyme and skeletal system development) and related regulatory processes (axon regeneration, immune modulation). This points to a cluster of proteins that act as modulators of growth factor signaling and developmental remodeling, rather than a single pathway or direct effector, hence a developmental-signaling regulator theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090080","count":19},{"id":"GO:0090272","count":19},{"id":"GO:0060484","count":19},{"id":"GO:2000830","count":19},{"id":"GO:0043318","count":19}]},{"hash":"579605363076387355","title":"Ribosome biogenesis and translation","description":"This cluster is characterized by strong signals for translation and ribosome biogenesis/assembly, including cytoplasmic and mitochondrial translation, cytosolic ribosome assembly, and LSU maturation. Together these terms point to a core role in ribosome production and function, with some secondary associations to antibiotic response and autophagy that may reflect stress-related cellular processes.","confidence":"High","size":23,"edges":217,"triangles":1197,"max_degree":22,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0042273","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0000027","count":3},{"id":"GO:0000463","count":2}]},{"hash":"1321120662907834892","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The terms cluster around actin nucleation (Arp2/3), Cdc42 signaling, and establishment/maintenance of cell polarity and polarized growth (budding, pseudohyphal growth, membrane remodeling), indicating a cohesive role in cytoskeleton dynamics and morphogenesis. Some peripheral terms (heat response, immune processes) are present but do not define the main theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":1},{"id":"GO:2000601","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0034605","count":1},{"id":"GO:0061246","count":1}]},{"hash":"1509951261772080009","title":"Immune signaling and synapse regulation","description":"The top GO terms cluster around adaptive and innate immune signaling (B cell receptor signaling, immunoglobulin production, dendritic cell differentiation, macrophage activation regulation, T cell degranulation) and regulation of synapse assembly, suggesting a role in immune cell communication and immunological synapses. A neural transmission term is present but appears less central to the cluster\u2019s core theme.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0035584","count":5},{"id":"GO:0019226","count":5},{"id":"GO:0002377","count":4},{"id":"GO:0050853","count":4}]},{"hash":"1418634684841571212","title":"Leukocyte adhesion and migration","description":"The top GO terms cluster around adhesion and signaling (integrin pathways, substrate- and heterotypic cell\u2013cell adhesion), migration and extravasation, and immune activation (T cell activation via antigen presentation). Together these point to a cohesive theme of leukocyte trafficking and cell\u2013cell interactions during immune responses, despite some developmental terms in the mix.","confidence":"High","size":23,"edges":47,"triangles":31,"max_degree":12,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0006929","count":8},{"id":"GO:0035987","count":8},{"id":"GO:0007229","count":8},{"id":"GO:0034113","count":8},{"id":"GO:0045123","count":8}]},{"hash":"1511816171466196678","title":"Neurodevelopment and synaptic maturation","description":"This cluster is dominated by GO terms for central nervous system neuron development, axon extension, dendrite morphogenesis, and glutamatergic synaptic transmission, indicating proteins primarily involved in neuronal differentiation and synapse formation. While there are some cell-cycle related terms, the strongest signals are neural development and synaptic function, suggesting a coherent neurodevelopmental theme across the protein set.","confidence":"High","size":23,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021954","count":9},{"id":"GO:0045773","count":8},{"id":"GO:0048813","count":8},{"id":"GO:0007275","count":6},{"id":"GO:0031571","count":6}]},{"hash":"521143310128453792","title":"Embryonic Development and Tissue Morphogenesis","description":"These terms cluster around embryonic development, tissue differentiation, and organ morphogenesis, covering placental/trophoblast differentiation, cartilage formation, EMT in heart development, endocrine system and pancreas development, and left-right patterning. The unifying theme is embryogenesis and organogenesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":9},{"id":"GO:0060707","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0035270","count":9}]},{"hash":"90530124304087593","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Control","description":"The cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent protein catabolic processes, indicating a proteostasis focus. Numerous terms point to cell cycle regulation, with additional connections to mRNA processing and signaling pathways, suggesting a cohesively regulated proteolysis toolkit that influences cell cycle progression.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0000083","count":6},{"id":"GO:0032088","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0006397","count":5}]},{"hash":"339129874644834876","title":"Vision and light perception","description":"The top terms are centered on vision, with strong representation for visual perception and detection of light stimulus, indicating a cohesive vision-related theme. Some accompanying terms (chloride transport, GPI anchor biosynthesis, cAMP response, thyroid hormone metabolism, otolith development) are peripheral but do not obscure the primary signal of vision-related function. Overall, the core theme is vision and light perception. ","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0050908","count":4},{"id":"GO:0055114","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0030321","count":3}]},{"hash":"25488065367864146","title":"Muscle contraction and immune regulation","description":"The top GO terms center on regulation of muscle function (intestine smooth muscle contraction; heart contraction regulation by epinephrine), hormone secretion, and immune/inflammatory processes (IL-1\u03b2 production, neutrophil-mediated killing, endothelial barrier regulation), indicating a broad, multi-system regulatory theme rather than a single pathway. This justifies a label reflecting combined muscle and immune/hormonal regulation, though the exact protein roles are diverse. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":23},{"id":"GO:0070963","count":23},{"id":"GO:0046879","count":23},{"id":"GO:0001997","count":23},{"id":"GO:0071417","count":23}]},{"hash":"1429999963779718861","title":"Regulated signaling and secretion in cardiovascular and immune systems","description":"The cluster centers on regulatory signaling and secretion processes, with GO terms spanning ERK cascade regulation, phosphatidylinositol biosynthesis regulation, hormone secretion, heart contraction regulation by catecholamines, intestinal smooth muscle contraction, and immune/inflammatory regulation (IL-1\u03b2 production, neutrophil-mediated killing, neurotrophic factor production). This suggests a cohesive theme of signaling and secretory control across cardiovascular, immune, and inflammatory contexts rather than a single protein complex, hence a high-level label like this. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":21},{"id":"GO:0010513","count":20},{"id":"GO:0014827","count":19},{"id":"GO:0070963","count":19},{"id":"GO:0046879","count":19}]},{"hash":"1955833241661451367","title":"DNA Damage Response and Chromatin Repair","description":"The cluster shows strong representation of DNA damage response and repair processes (mitotic G2 checkpoint signaling, regulation of HR and NHEJ, and response to ionizing radiation) plus protein localization to chromatin, suggesting a DDR/chromatin-associated function; developmental terms appear ancillary.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0071168","count":2},{"id":"GO:1905168","count":2}]},{"hash":"2205578008734591197","title":"RNA Pol II Transcription Regulation and Chromatin Dynamics","description":"This cluster is dominated by GO terms for negative regulation of transcription by RNA polymerase II and transcription termination, with additional chromatin-related terms about nucleosome positioning/mobilization; together they point to transcriptional control modulated by chromatin context. Some outliers (light response, heart development) may reflect broader annotation or secondary associations but do not override the primary theme.","confidence":"High","size":22,"edges":149,"triangles":528,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":17},{"id":"GO:0042766","count":9},{"id":"GO:0016584","count":9},{"id":"GO:0060123","count":9},{"id":"GO:0060303","count":9}]},{"hash":"259665656801249625","title":"Kidney ureteric bud branching morphogenesis","description":"This cluster is dominated by branching morphogenesis terms, especially ureteric bud branching in kidney development, with related embryonic morphogenesis terms (endoderm, metanephros, limb morphogenesis, endothelial/fibroblast proliferation). The strong presence of \u201cbranching involved in ureteric bud morphogenesis\u201d and its regulatory counterparts suggests a cohesive kidney-development/morphogenesis theme.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001658","count":22},{"id":"GO:0043552","count":21},{"id":"GO:0007492","count":21},{"id":"GO:0060591","count":21},{"id":"GO:0090190","count":21}]},{"hash":"572482051977978482","title":"Nuclear transport and pore complex assembly","description":"This cluster is enriched for GO terms related to nuclear import (NLS-bearing and ribosomal protein import), nuclear pore complex assembly, and nuclear envelope/membrane dynamics during mitosis and meiosis, plus mRNA transport, indicating a cohesive theme of nuclear transport and pore assembly.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0051292","count":5},{"id":"GO:0033674","count":5},{"id":"GO:0060188","count":4},{"id":"GO:0006607","count":4}]},{"hash":"1019999951495935594","title":"Nervous System and Retina Development","description":"Explanation: The strongest shared themes are retina development in a camera-type eye and nervous system development, pointing to a neural/visual development program. Other terms like carbohydrate metabolism or proteolysis appear peripheral to this core theme, reinforcing a developmental cluster centered on neural and retinal processes.","confidence":"High","size":22,"edges":121,"triangles":267,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0005975","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0006508","count":3}]},{"hash":"297789847178481623","title":"Metabolic and Epigenetic Control of Granulocyte Differentiation","description":"Top GO terms indicate metabolism (folate and thiamine biosynthesis), redox homeostasis, immune activation (response to LPS), and granulocyte differentiation, with supporting signals of chromatin regulation and embryonic development. This suggests a cluster of proteins linking metabolism and redox state to epigenetic regulation that drives granulocyte differentiation. Some terms are obsolete, but the core theme remains metabolic-epigenetic control of immune cell development.","confidence":"Medium","size":22,"edges":91,"triangles":151,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046653","count":19},{"id":"GO:0009228","count":19},{"id":"GO:0055114","count":19},{"id":"GO:0045454","count":18},{"id":"GO:0030851","count":18}]},{"hash":"2009476672824597508","title":"Developmental signaling and tissue differentiation","description":"The cluster shows enrichment across developmental processes in multiple tissues (nervous system development, skeletal muscle and fat cell differentiation, motor neuron axon guidance) and includes signaling pathway terms (growth hormone receptor signaling, B cell receptor signaling) as well as cell-matrix adhesion, suggesting a broad developmental and signaling program spanning several tissues rather than a single pathway.","confidence":"Medium","size":22,"edges":56,"triangles":18,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0060396","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0007519","count":7}]},{"hash":"1195882560118204671","title":"Calcium signaling in neurons and muscle differentiation","description":"The terms cluster around calcium signaling and calcium-dependent processes, including neurotransmitter secretion, synaptic potentiation, and cytosolic calcium release. Also present are muscle differentiation cues (myoblast fusion) and growth signaling (PI signaling, NF-kB). This suggests the proteins share a calcium-centric signaling role that links neural synaptic function with differentiation pathways.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071277","count":13},{"id":"GO:0043065","count":12},{"id":"GO:0048015","count":11},{"id":"GO:0007269","count":11},{"id":"GO:0016540","count":11}]},{"hash":"510369992574797439","title":"Heat and Oxidative Stress Response","description":"This cluster is driven by strong enrichment for GO terms related to responses to heat and hydrogen peroxide, with UV-A response also present, pointing to a common theme of environmental stress response; additional cell cycle and development terms may reflect downstream effects or pleiotropy rather than a unifying function.","confidence":"Medium","size":22,"edges":134,"triangles":462,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009408","count":11},{"id":"GO:0042542","count":11},{"id":"GO:0006463","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0051301","count":10}]},{"hash":"139713111626533616","title":"Cardiac GPCR signaling and contraction regulation","description":"The cluster is enriched for GPCR-related GO terms (tachykinin receptor signaling, GPCR desensitization and internalization, acetylcholine receptor signaling) and for cardiac-specific processes (cardiac muscle contraction, negative regulation of heart force, heart development), pointing to a coherent theme of GPCR-mediated control of heart muscle function.","confidence":"High","size":22,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007217","count":4},{"id":"GO:0002029","count":4},{"id":"GO:0045988","count":4},{"id":"GO:0018107","count":4},{"id":"GO:0007213","count":4}]},{"hash":"1957119982058341079","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":12,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":13},{"id":"GO:0000278","count":13},{"id":"GO:0002098","count":10},{"id":"GO:0060271","count":10},{"id":"GO:0043547","count":10}]},{"hash":"785517599698577745","title":"Spliceosome-Driven mRNA Splicing and Regulation","description":"The terms are dominated by mRNA processing and splicing via the spliceosome, including cis and alternative splicing, and both positive and negative regulation of splicing. Additional terms point to splice-site recognition and small-subunit processome assembly, tying the proteins to spliceosome function and assembly. This strongly supports a cohesive role in mRNA splicing and its regulation.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:0006378","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:1901407","count":8}]},{"hash":"1306241800233646311","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0034477","count":3},{"id":"GO:0030223","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1832036099868607635","title":"Actin Cytoskeleton Organization in Microvilli","description":"The top GO terms cluster around actin cytoskeleton dynamics and organization: regulation of Rho signaling, actin filament/structure assembly (microspikes, microvilli, terminal web), and focal adhesions, with additional context from mitotic actin structures. The presence of intestinal D-glucose absorption and microvillus-length regulation strongly points to epithelial microvilli, while the broader actin-related terms suggest a general actin cytoskeleton theme. This combination supports a label focused on actin organization with a microvilli emphasis.","confidence":"High","size":22,"edges":33,"triangles":10,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0051639","count":5},{"id":"GO:0031532","count":4},{"id":"GO:0001951","count":4},{"id":"GO:0032532","count":4}]},{"hash":"754912077610069186","title":"Telomere maintenance and telomerase regulation","description":"This cluster is dominated by GO terms for regulating telomere maintenance, telomere lengthening, telomere capping, and telomerase-dependent maintenance, with several terms pointing to localization to telomeric regions and protection of chromosome ends. Some related terms like spindle assembly and Wnt signaling appear, but the core theme centers on telomere regulation and telomerase activity.","confidence":"High","size":22,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904743","count":5},{"id":"GO:0051225","count":5},{"id":"GO:1904357","count":5},{"id":"GO:1904908","count":5},{"id":"GO:0016055","count":5}]},{"hash":"256172169621037258","title":"Flavonoid and lignin biosynthesis","description":"The dominant GO terms point to biosynthesis of flavonoids and related phenylpropanoids (anthocyanins, kaempferol, cyanidin, genistein) and lignin, suggesting a shared plant phenylpropanoid pathway. While a few terms (antibiotic metabolism, estrogen catabolic) are less central, the core signal supports flavonoid and lignin production. ","confidence":"High","size":22,"edges":149,"triangles":470,"max_degree":20,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":13},{"id":"GO:0006711","count":10},{"id":"GO:0052697","count":8},{"id":"GO:0033330","count":8},{"id":"GO:0009808","count":8}]},{"hash":"2235941073047330630","title":"Ubiquitin-dependent host immune modulation by symbionts","description":"The cluster is dominated by ubiquitination-related terms (polyubiquitination, ubiquitin-dependent protein catabolic process) and includes immune-related and symbiont-interaction terms (symbiont-mediated perturbation of host ubiquitin-like protein modification; suppression of host adaptive immune response), suggesting a theme of ubiquitin pathways regulating host immunity in the context of symbiosis. Some terms (suberin biosynthesis, SA node regulation) are outliers, but the core signal points to ubiquitin-mediated host\u2013symbiont immune modulation.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000209","count":12},{"id":"GO:0042787","count":10},{"id":"GO:0000083","count":8},{"id":"GO:0098907","count":6},{"id":"GO:0033280","count":6}]},{"hash":"1968521403639177205","title":"Calcium-Dependent Neuronal Signaling and Plasticity","description":"The cluster centers on calcium signaling and neuronal function, with GO terms for phosphatidylinositol signaling, voltage-gated calcium channel activity, and calcineurin-NFAT signaling, plus regulation of neuronal synaptic plasticity and neural development (e.g., substantia nigra development). While a few terms reference other tissues, the dominant theme ties to Ca2+-mediated signaling pathways that govern neuronal signaling and plasticity.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048015","count":11},{"id":"GO:0021762","count":11},{"id":"GO:0001569","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0048741","count":11}]},{"hash":"46240839270790193","title":"Ribosome biogenesis and translation (mitochondrial)","description":"The dominant GO terms are translation, mitochondrial translation, SSU rRNA maturation, and ribosome biogenesis, pointing to a protein set involved in ribosome assembly and protein synthesis in both cytosolic and mitochondrial compartments. Some additional terms (chromatin remodeling and differentiation) exist but with low counts, suggesting secondary roles rather than core function.","confidence":"High","size":22,"edges":120,"triangles":361,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0070126","count":4},{"id":"GO:0000462","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0048096","count":1}]},{"hash":"1779101181370923240","title":"Bone and adipose development with cytoskeletal remodeling","description":"This set is dominated by bone-related terms (osteoblast fate commitment, bone development) and adipose development, with concurrent cytoskeletal remodeling signals (podosome assembly, cleavage furrow formation, GTPase activity regulation) and cell polarity/fusion terms. Together they point to mesenchymal lineage differentiation toward skeletal tissues accompanied by dynamic cytoskeletal and membrane remodeling.","confidence":"Medium","size":22,"edges":204,"triangles":1105,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":16},{"id":"GO:0097320","count":16},{"id":"GO:0036089","count":15},{"id":"GO:0032005","count":15},{"id":"GO:2000769","count":15}]},{"hash":"2048733862894046462","title":"Neuronal development and axonal transport","description":"The cluster\u2019s top GO terms point to neural differentiation and brain region development (cerebellum development, hypothalamus differentiation, ventricular cardiac muscle cell development) alongside neural signaling (neurotrophin TRK receptor signaling) and robust intracellular transport functions (endosome-to-lysosome transport, vesicle transport along microtubules, anterograde axonal transport of mitochondria). This combination supports a theme of proteins involved in neural development coupled with the transport machinery essential for neuronal function.","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0055015","count":3},{"id":"GO:1902857","count":2},{"id":"GO:0098957","count":2},{"id":"GO:0021979","count":2}]},{"hash":"885388550216771255","title":"Apical membrane trafficking and microvilli regulation","description":"The cluster is enriched for intracellular transport and vesicle trafficking terms (plasma membrane to endosome transport, COPII-coated vesicle cargo loading, intracellular protein transport) and for microvilli/brush-border functions (terminal web assembly, regulation of microvillus length, intestinal glucose absorption). This points to coordinated delivery and maintenance of proteins at the apical membrane and the structure of microvilli in polarized epithelial cells, with TNF signaling appearing as a secondary theme. ","confidence":"High","size":22,"edges":194,"triangles":948,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048227","count":4},{"id":"GO:2001269","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0090110","count":4},{"id":"GO:0001951","count":3}]},{"hash":"271979412521680986","title":"Regulated signaling and gene expression","description":"This cluster shows enrichment for regulatory signaling terms (synaptic plasticity regulation, ephrin signaling, Notch signaling, MAPK-related activity) and gene-expression control (mRNA stability), with a peripheral cell-cycle term, suggesting a broad theme of regulated signaling and transcriptional/post-transcriptional control rather than a single specific function.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":3},{"id":"GO:1901187","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0000187","count":2},{"id":"GO:0045746","count":2}]},{"hash":"1040841582326695618","title":"Retroviral entry, replication, and latency","description":"Top terms indicate steps of the retroviral life cycle: host entry, reverse transcription, proviral integration/latency, and virion assembly, with host protein folding and secretion regulation accompanying these processes.","confidence":"High","size":22,"edges":189,"triangles":911,"max_degree":21,"top_function":"protein folding","top_go_terms":[{"id":"GO:0030260","count":21},{"id":"GO:0006457","count":21},{"id":"GO:0006278","count":21},{"id":"GO:0050714","count":21},{"id":"GO:0000413","count":21}]},{"hash":"543464000262841253","title":"Mitotic actin contractile ring assembly","description":"The top GO terms are dominated by mitotic actin filament bundle and contractile ring assembly (GO:1903477/GO:1903478), with supporting links to centrosome maintenance and neuroblast division, all pointing to cytoskeletal organization during mitosis and cytokinesis. While a few terms (bone development, Wnt signaling) are less central, they appear as peripheral associations rather than defining functions of the cluster. Thus, the core theme is actin-based contractile ring assembly in cell division, justifying this label. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903478","count":3},{"id":"GO:1903477","count":3},{"id":"GO:0051661","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0060348","count":3}]},{"hash":"1909542319100641334","title":"Placental and embryonic vascular morphogenesis","description":"The top GO terms point to placental lineages (spongiotrophoblast differentiation, labyrinthine morphogenesis, embryo implantation) and vascular/heart-related development (angiogenesis, outflow tract morphogenesis) within an embryonic context, suggesting a cohesive cluster of proteins involved in placental and embryonic morphogenesis and vascular formation. While there are ancillary terms like innate immune response and transcription regulation, they do not override the central developmental theme. Overall, the data support a coherent placental- and embryo-vascular development cluster.","confidence":"High","size":22,"edges":51,"triangles":61,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060708","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0018003","count":3},{"id":"GO:0003151","count":3},{"id":"GO:0060670","count":3}]},{"hash":"358187565657946301","title":"Neural development and synaptic signaling","description":"The most represented terms are nervous system development, glutamatergic synaptic transmission, and positive regulation of synapse assembly, with supportive terms like homophilic cell-cell adhesion and Rho signaling related to neuronal connectivity. Secondary terms include EMT in heart development and ossification/BMP signaling, suggesting broader developmental signaling context, but the core theme centers on neural development and synaptic communication.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0003198","count":4},{"id":"GO:0035249","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0051965","count":4}]},{"hash":"2043835959501258556","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning pollen germination, lens fiber differentiation, adipose tissue development, pregnancy, basic phosphorylation, and various metabolic salvage pathways, with only a single edge and no cohesive process tying the proteins together. There isn\u2019t a clear, shared biological function to name a specific cluster that accurately represents all members.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009846","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0019358","count":1}]},{"hash":"1895098630413417934","title":"Energy metabolism and redox stress response","description":"This cluster centers on metabolic signaling and redox balance, with GO terms for oxidant detoxification, insulin signaling, hypoxia response, brown fat differentiation, retinol metabolism, and nitrosative stress. While there are outliers like visual perception and platelet aggregation, the dominant theme is energy homeostasis and oxidative stress management across metabolic tissues, which justifies the label.","confidence":"Medium","size":22,"edges":11,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0050873","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0010628","count":3},{"id":"GO:0071456","count":3}]},{"hash":"264315867726233643","title":"Diverse Sugar Catabolic Pathways","description":"These proteins show GO terms across multiple carbohydrate-catabolic processes (inositol, sucrose, ribose, lactose via tagatose-6-phosphate, sulfoquinovose, and glycolysis) as well as nucleotide salvage, suggesting a cluster focused on broad sugar utilization and energy-yielding catabolism rather than a single substrate. ","confidence":"Medium","size":22,"edges":225,"triangles":1427,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0019310","count":3},{"id":"GO:0009744","count":3},{"id":"GO:1902777","count":3},{"id":"GO:0006175","count":3},{"id":"GO:0019512","count":3}]},{"hash":"2271311133536891215","title":"Signaling, transcription, and protein turnover regulation","description":"The cluster includes terms for GTPase signaling, TGF-beta response, tyrosine phosphorylation, transcription, ubiquitin-proteasome\u2013dependent degradation, and cytoskeletal regulation, suggesting a module that links signaling pathways to transcriptional control and protein turnover. Some developmental terms are present but overall it reflects coordinated regulation of signaling, gene expression, and proteostasis.","confidence":"Medium","size":22,"edges":61,"triangles":86,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0071560","count":6},{"id":"GO:0050731","count":6},{"id":"GO:0060770","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1812866475896170013","title":"Pollen tube growth and glycosylation metabolism","description":"The terms are dominated by pollen-related processes (pollen tube growth, pollen germination) and by glycan/glycosphingolipid metabolism (N-glycan processing, glycosylceramide metabolism, sialylation, oligosaccharide metabolism). This points to a cohesive module where glycosylation and membrane lipid remodeling support pollen development and tube formation, even though a few terms are more general or mammalian-oriented. Confidence: High","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060124","count":3},{"id":"GO:1990743","count":3},{"id":"GO:0001574","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006491","count":3}]},{"hash":"1693761973276076274","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1901639","count":3},{"id":"GO:0006382","count":3},{"id":"GO:0046709","count":3},{"id":"GO:0009240","count":3},{"id":"GO:0006203","count":3}]},{"hash":"1649727021703998973","title":"Receptor signaling and endocytic trafficking","description":"This cluster centers on GO terms tied to cell surface receptor signaling and multiple facets of endocytosis and lysosomal/vesicular transport: receptor internalization, endosome to melanosome transport, lysosome localization, LDL particle response, and integrin-mediated signaling. The mix suggests proteins collaborating in receptor-mediated uptake and downstream signaling with vesicular trafficking to lysosome-related compartments, alongside adhesion/motility themes. Thus, a label focusing on receptor signaling coupled with endocytic/trafficking processes best captures the shared function.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":5},{"id":"GO:0061462","count":4},{"id":"GO:2000680","count":3},{"id":"GO:2000145","count":3},{"id":"GO:0007166","count":3}]},{"hash":"1926812676644200191","title":"Endosome\u2013Lysosome Trafficking and Autophagy Regulation","description":"The cluster centers on endosomal-lysosomal transport and autophagy maturation (lysosome localization, Rab/Rap signaling, late endosome to Golgi, endosome transport, plus/minus autophagosome maturation), with notable links to inflammatory signaling (IL-1\u03b2 production, pyroptosis). This suggests a cohesive role in vesicle trafficking and autophagy regulation within immune responses.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0050718","count":2},{"id":"GO:0070269","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0032418","count":2}]},{"hash":"1315119712354542664","title":"Sulfur amino acid metabolism and H2S biosynthesis","description":"The top GO terms cluster around hydrogen sulfide production, transsulfuration, and cysteine/homocysteine metabolism, indicating a cohesive theme in sulfur amino acid metabolism and hydrogen sulfide biosynthesis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":1},{"id":"GO:0043418","count":1},{"id":"GO:0042866","count":1},{"id":"GO:0070179","count":1},{"id":"GO:0006535","count":1}]},{"hash":"1039972819958839121","title":"Embryonic development and organogenesis","description":"Top GO terms indicate broad involvement in embryonic tissue differentiation and organ formation, including palate, muscle, cartilage development, EMT in heart cushion formation, left-right patterning, endocrine and pancreatic development, and placenta-related differentiation. This suggests the proteins act in general embryonic development rather than a single tissue-focused pathway.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4}]},{"hash":"2030741997474133878","title":"Embryonic morphogenesis and vascular development","description":"This cluster centers on developmental processes and tissue remodeling, including cardiac and palatal morphogenesis, glomerular/vascular formation, smooth muscle cell migration, and cell-matrix adhesion, with involvement of PI3K/AKT signaling. These terms together suggest a cohesive theme of organogenesis and blood vessel development, despite some broader terms like FSH response that may reflect tissue-specific contexts. Confidence: Medium","confidence":"","size":22,"edges":27,"triangles":18,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071372","count":18},{"id":"GO:0044332","count":17},{"id":"GO:0007161","count":17},{"id":"GO:0051897","count":17},{"id":"GO:0014909","count":17}]},{"hash":"2205119308713341337","title":"Cardiac development and conduction","description":"The top GO terms cluster around heart-related processes: outflow tract morphogenesis and multicellular organism development indicate cardiac development, while regulation of atrial cardiac muscle and AV node cell action potentials point to cardiac electrophysiology. Calcium handling terms (detection of calcium ion, calcium transporter activity) further support a role in cardiac excitation-contraction coupling. Some terms like visual perception or skin development appear ancillary, but the dominant signal is heart development and electrical conduction.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0003151","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0071313","count":2}]},{"hash":"1514970969094671243","title":"Developmental cell adhesion and signaling","description":"The cluster centers on processes tied to how cells adhere to each other and communicate to drive development and tissue organization. Frequent terms include positive regulation of synapse assembly, homophilic cell-cell adhesion, BMP signaling regulation, cell polarity and shape regulation, and processes like angiogenesis and bud growth, all pointing to adhesion-mediated signaling guiding morphogenesis. A broad but coherent developmental theme fits best, rather than a single specific pathway.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0001525","count":2},{"id":"GO:0030513","count":2},{"id":"GO:0007118","count":2}]},{"hash":"1901509982714408544","title":"Cytoskeleton Dynamics and Membrane Trafficking","description":"The top GO terms point to cytoskeletal remodeling (actin organization, mitotic spindle assembly, chromosome alignment) and small GTPase signaling, with additional membrane-related processes (ER-to-Golgi ceramide transport, sterol biosynthesis) and vascular permeability regulation. This suggests a coherent theme of cytoskeleton-guided membrane trafficking and signaling rather than unrelated functions. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035621","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0051310","count":3},{"id":"GO:0043314","count":2},{"id":"GO:0060268","count":2}]},{"hash":"110068924543096398","title":"Neuroendocrine GPCR Signaling and Hormone Secretion","description":"The dominant terms point to GPCR-mediated neural signaling and hormone release (epinephrine, somatostatin), with functional outputs in blood pressure, feeding behavior, and metabolic regulation, suggesting a cohesive neuroendocrine signaling cluster.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":2},{"id":"GO:0008343","count":2},{"id":"GO:0009267","count":2},{"id":"GO:0001678","count":2},{"id":"GO:0032812","count":2}]},{"hash":"232729737638343127","title":"RNA processing and stress-response regulators","description":"The top GO terms center on RNA metabolism (no-go decay and spliceosomal snRNP assembly), with additional terms pointing to cellular stress responses (ethanol, MMS, hydroperoxide) and regulatory signaling (cytokine, EMT, FGFs). This suggests a cluster of proteins tied to RNA processing that is modulated in stress and signaling contexts, justifying a name around RNA processing with stress regulation. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070966","count":1},{"id":"GO:1904780","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0071361","count":1},{"id":"GO:0072703","count":1}]},{"hash":"727051952435558123","title":"Plasma membrane transporters","description":"The cluster is characterized by GO terms focused on transmembrane movement of diverse substrates across the plasma membrane, including ions (calcium, magnesium), amino acids, sugars (glucose, fucose), sialic acid, and xenobiotics, with an additional vesicle-related process. This suggests a group of transporter proteins acting across membranes rather than a single metabolic pathway. ","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":6},{"id":"GO:0032973","count":6},{"id":"GO:0015739","count":6},{"id":"GO:1904659","count":5},{"id":"GO:0002377","count":5}]},{"hash":"2212967149489295027","title":"RNA processing and post-translational modification cluster","description":"The top GO terms cluster around RNA processing (mRNA splicing, polyadenylation, and miRNA-mediated silencing) and protein modification (sumoylation and ubiquitination), with supportive signals from cell cycle and apoptosis processes, suggesting a theme of gene-expression control coupled to protein regulation. ","confidence":"High","size":22,"edges":121,"triangles":391,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0016925","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0001825","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0035278","count":5}]},{"hash":"893465185693821044","title":"Immune cell adhesion and synapse regulation","description":"The top GO terms cluster around immune cell interactions, including cell\u2013cell adhesion, immunological synapse formation, and regulation of cytotoxic activities (T cells, NK cells, macrophages). Terms like heterophilic adhesion, regulation of actin cytoskeleton via adhesion, and gamma-delta T cell activation point to immune synapse dynamics and signaling between immune cells, with a few peripheral terms such as symbiont entry into host cells that do not override the core theme.","confidence":"High","size":22,"edges":139,"triangles":377,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":20},{"id":"GO:0043031","count":20},{"id":"GO:0051963","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0046718","count":20}]},{"hash":"93615555027379826","title":"Heart development and electrophysiology","description":"The cluster\u2019s strongest signals are GO terms related to heart formation and electrical activity: regulation of SA node cell action potential and outflow tract morphogenesis, which point to cardiac development and cardiac electrophysiology as the core theme. Other terms like calcium transporter regulation, iron-sulfur cluster assembly, transcription, and ubiquitination appear as broader cellular processes accompanying these heart-related functions, but the cardiac signals are most prominent.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":2},{"id":"GO:0016226","count":2},{"id":"GO:0010951","count":2},{"id":"GO:0050965","count":2},{"id":"GO:0006954","count":2}]},{"hash":"1867012953716528029","title":"Lipid Metabolism and Lipid-Driven Gland Differentiation","description":"This cluster is dominated by GO terms related to lipid metabolism and lipid-rich tissues: sphingolipid and fatty acid biosynthesis, response to fatty acids, and cholesterol-related processes, alongside differentiation of lipid-rich tissues such as sebaceous and white adipose (gland-related) tissues, and myelin maintenance in the CNS. The common theme appears to be lipid metabolism shaping both neural and gland/tissue differentiation.","confidence":"High","size":22,"edges":226,"triangles":1446,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006675","count":12},{"id":"GO:0032286","count":12},{"id":"GO:0001949","count":12},{"id":"GO:0010205","count":11},{"id":"GO:1903699","count":11}]},{"hash":"490747553914721887","title":"Phospholipid biosynthesis and translocation","description":"The cluster is dominated by GO terms for biosynthesis of major phospholipids (phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine) and related translocation/transport processes, plus responses to phospholipids and lipid-related signaling (platelet activating factor). These point to a cohesive theme of membrane lipid production and redistribution, with some peripheral notes on cell cycle regulation and metal transport that are less central. High","confidence":"","size":22,"edges":122,"triangles":382,"max_degree":18,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0010512","count":5},{"id":"GO:1905711","count":5},{"id":"GO:0070317","count":5},{"id":"GO:0006646","count":5},{"id":"GO:0006655","count":5}]},{"hash":"1873960420829978527","title":"Cholinergic Neural Signaling and Motor Control","description":"The strongest cluster signal centers on nervous system function: locomotory behavior, cholinergic synaptic transmission, and neuromuscular processes controlling posture, indicating proteins involved in cholinergic signaling and motor regulation. While some terms point to broader cellular pathways (EGFR signaling, cytochrome c release, DNA binding), they are secondary to the core neural/motor theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":4},{"id":"GO:0007271","count":3},{"id":"GO:0050884","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0045742","count":2}]},{"hash":"680257730327558390","title":"Neurovascular Development and Myelination","description":"The terms converge on neural maturation and brain barrier biology: myelination, substantia nigra development, and regulation of neuronal plasticity, together with endothelial barrier establishment, tight junction assembly, and transcytosis. Membrane raft polarization and PKC signaling regulation support membrane organization and signaling in neural/vascular contexts. Overall, the cluster reflects coordinated neurodevelopment with neurovascular barrier dynamics, justifying the label.","confidence":"High","size":22,"edges":69,"triangles":58,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0070830","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0034115","count":3},{"id":"GO:0061028","count":3}]},{"hash":"79303879966508847","title":"Steroid and lipid biosynthesis across kingdoms","description":"The GO terms cluster around lipid- and steroid-related metabolism: fatty acid elongation, dolichol-linked oligosaccharide biosynthesis (lipid carriers), wax biosynthesis, brassinosteroid biosynthesis (plant steroids), and animal steroid biosynthesis (androgen, testosterone, progesterone). The presence of myelination ties to lipid-rich membranes, while trichome-related terms reflect plant cuticle lipids. Together these terms suggest a cross-kingdom theme of lipid metabolism and hormone biosynthesis rather than a single organism-specific process.","confidence":"Medium","size":22,"edges":226,"triangles":1445,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:0010025","count":2},{"id":"GO:0010091","count":2},{"id":"GO:0006702","count":2},{"id":"GO:0042448","count":2}]},{"hash":"439024705191376562","title":"Xenobiotic Metabolism and Detoxification","description":"This cluster is dominated by GO terms for metabolic and catabolic processing of xenobiotics and environmental chemicals (carbazole, isoquinoline alkaloids, dibenzo-p-dioxin, insecticides) as well as responses to environmental stimuli (ozone, cesium ion, vitamin D). The inclusion of methylation and immune-related regulation hints at downstream regulatory and signaling aspects tied to chemical exposure. Together, these terms point to detoxification/biotransformation of xenobiotics as the core function represented by the cluster.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":22},{"id":"GO:0034653","count":22},{"id":"GO:0033076","count":22},{"id":"GO:0010164","count":22},{"id":"GO:0032259","count":22}]},{"hash":"1621869732840400363","title":"Mitochondrial Transport and Energy Metabolism","description":"This cluster is driven by mitochondrial-centric terms: membrane fission, ADP/ATP transmembrane transport, malate-aspartate shuttle, phosphate ion transport, and general mitochondrial energy production, plus links to insulin response and metabolic regulation. Together they point to a cohesive role in mitochondrial energy metabolism and metabolite exchange.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":22},{"id":"GO:0097274","count":22},{"id":"GO:0015866","count":22},{"id":"GO:0007565","count":22},{"id":"GO:1990544","count":22}]},{"hash":"2041939489105954653","title":"Alternative Splicing Regulation and mRNA Processing","description":"The top GO terms are dominated by spliceosome-related processes (alternative splicing via spliceosome, regulation of alternative splicing, splicing site recognition, small-subunit processome assembly) and mRNA processing/regulation (polyadenylation, regulation of mRNA stability in response to stress). This suggests the cluster groups proteins involved in RNA processing with a focus on splicing regulation and post-transcriptional control; the IRES-dependent translation term appears ancillary to the core splicing theme.","confidence":"High","size":22,"edges":132,"triangles":403,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":16},{"id":"GO:0000380","count":16},{"id":"GO:0006378","count":16},{"id":"GO:0000381","count":16},{"id":"GO:0010610","count":16}]},{"hash":"2203748321981818265","title":"Cardiovascular and smooth muscle signaling","description":"Based on the top GO terms, the cluster centers on intestinal smooth muscle contraction and heart contraction regulation by epinephrine/norepinephrine, with associated hormone secretion and related signaling. While immune and endothelial-related terms appear as well, the strongest recurring theme is muscle contractility and hormone-mediated signaling in cardiovascular/smooth muscle contexts, suggesting a module in smooth muscle physiology and related pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":22},{"id":"GO:0070963","count":22},{"id":"GO:0046879","count":22},{"id":"GO:0001997","count":22},{"id":"GO:0071417","count":22}]},{"hash":"1372076438281123554","title":"Cell-cycle chromatin dynamics and TORC1 signaling","description":"The cluster includes GO terms tied to chromatin assembly during DNA replication, mitotic nuclear membrane reassembly, meiotic spindle elongation, and centromeric cohesion, indicating coordinated chromatin remodeling across cell-cycle stages. Additional terms highlight growth-related signaling (TORC1) and transcription regulation, plus phosphorylation and lipid signaling components, suggesting a broader theme of integrating chromatin-associated processes with cell-cycle progression and growth signaling.","confidence":"Medium","size":21,"edges":87,"triangles":268,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007084","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0051232","count":2},{"id":"GO:0045945","count":2}]},{"hash":"1793515221325459839","title":"Cell signaling and motility","description":"The terms point to multiple signaling pathways (insulin receptor, Wnt, GPCR/thrombin receptor) and cytoskeletal processes (actin bundle assembly, filopodium regulation) linked to cell migration and epithelial polarity, suggesting a cluster of signaling-driven regulators of movement and polarity rather than a single isolated pathway.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0051017","count":4}]},{"hash":"1737907509726976561","title":"Germline and Neural Development","description":"The top GO terms show clear signals of germline biology (piRNA processing, male meiotic nuclear division, gamete-related DNA methylation) alongside neural development (peripheral nervous system development, vocalization behavior). While some terms reflect general transcription and metabolism, the prominent germline and neural themes suggest a cluster focused on developmental programs spanning reproductive and nervous system lineages.","confidence":"Medium","size":21,"edges":81,"triangles":151,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071625","count":9},{"id":"GO:0055015","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0048546","count":8},{"id":"GO:0007140","count":8}]},{"hash":"176525624140026476","title":"Endomembrane vesicle trafficking","description":"The cluster is dominated by GO terms for vesicle transport within the endomembrane system (ER\u2013Golgi, Golgi\u2013ER, endosome-to-m melanosome, anterograde/retrograde vesicle transport) and membrane organization, plus nuclear envelope reassembly, indicating a coherent theme of intracellular trafficking and membrane dynamics rather than a single signaling pathway. A few terms like apoptotic signaling and NK T cell differentiation appear incidental to the main transport-focused pattern.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2001241","count":10},{"id":"GO:0006890","count":9},{"id":"GO:0006888","count":9},{"id":"GO:0048490","count":9},{"id":"GO:0007084","count":8}]},{"hash":"1101057858214397720","title":"Neural development with transcription and ubiquitin deubiquitination","description":"The cluster centers on transcriptional regulation (DNA-templated transcription, mRNA processing) and ubiquitin-related protein turnover (multiple deubiquitination terms, free ubiquitin chain depolymerization, ubiquitin-linked processes). The neural development terms (neural tube closure, righting reflex) and a behavioral term (adult feeding behavior) suggest a nervous system development/function theme. Together, they point to a cohesive theme of transcription control coupled with ubiquitin-mediated regulation in neural development and behavior.","confidence":"Medium","size":21,"edges":10,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006397","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0060013","count":4},{"id":"GO:0035520","count":4}]},{"hash":"484903275164655322","title":"Hair follicle morphogenesis and keratinization","description":"The cluster is dominated by terms linked to skin/hair biology, especially hair follicle morphogenesis and keratinization, with supporting signals for multicellular growth, cell proliferation/division, and differentiation. Additional terms for Golgi localization/trafficking and TORC1 regulation fit the cellular context of differentiating epidermal cells. This combination supports a theme centered on hair follicle development and keratinocyte differentiation.","confidence":"High","size":21,"edges":43,"triangles":28,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051683","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0031069","count":3}]},{"hash":"550678299147273184","title":"Bacterial lipid and quinone biosynthesis","description":"The top GO terms cluster around fatty acid biosynthesis, menaquinone biosynthesis, and lipoteichoic acid biosynthesis, all linked to lipid metabolism and isoprenoid/quinone pathways in bacteria. Some outliers (seed coat development, retinol metabolism) may reflect cross-annotation noise, but the dominant signal points to bacterial lipid assembly and related metabolic routes.","confidence":"Medium","size":21,"edges":64,"triangles":95,"max_degree":12,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006633","count":8},{"id":"GO:0009234","count":6},{"id":"GO:0010124","count":6},{"id":"GO:0070395","count":5},{"id":"GO:1902987","count":5}]},{"hash":"658855858871655500","title":"Embryonic organogenesis and neural differentiation","description":"Based on the top GO terms, the proteins are implicated in diverse developmental and morphogenetic processes across multiple tissues (e.g., metencephalon development, inner ear morphogenesis, ureteric bud branching, palate formation, male gonad development, retinal axon guidance, forebrain neuronal commitment). This points to a broad embryonic development/neural differentiation theme rather than a single tissue- or pathway-specific function, justifying the label as a general developmental cluster.","confidence":"Medium","size":21,"edges":134,"triangles":485,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0045617","count":7},{"id":"GO:0031290","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0022037","count":6},{"id":"GO:0072107","count":6}]},{"hash":"123969118260122683","title":"Cellular Stress Response Signaling","description":"This cluster centers on stress- and defense-related signaling, with terms like hepatocyte apoptotic process, NF-kappaB regulation, and NOD2 signaling; it also includes responses to mechanical and chemical stimuli and mRNA stability regulation, suggesting a cohesive theme of cellular stress response and survival rather than a single pathway.","confidence":"Medium","size":21,"edges":8,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":5},{"id":"GO:0000083","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0007205","count":5}]},{"hash":"1194955058129932706","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":147,"triangles":637,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006552","count":9},{"id":"GO:0009409","count":6},{"id":"GO:0042594","count":6},{"id":"GO:0009228","count":6},{"id":"GO:0009791","count":5}]},{"hash":"451581657012361426","title":"Integrin signaling and cell adhesion","description":"This cluster is dominated by GO terms related to integrin activation and integrin-mediated signaling, along with processes like platelet activation and fibroblast migration, suggesting a cohesive module governing cell adhesion and movement. Immune-related terms may reflect broader signaling roles but do not outweigh the clear integrin/adhesion theme.","confidence":"High","size":21,"edges":86,"triangles":100,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":2},{"id":"GO:0033623","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0010748","count":2},{"id":"GO:0045425","count":2}]},{"hash":"1058253581333643923","title":"Embryonic Morphogenesis and Transcriptional Regulation","description":"The proteins show strong enrichment for embryonic development and morphogenesis terms (blastocyst formation, hindlimb and palate development, endocardial cushion morphogenesis, skeletal muscle differentiation) along with SMAD signaling and transcriptional regulation, suggesting a coordinated role in embryonic tissue morphogenesis governed by transcriptional control.","confidence":"High","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001825","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0060395","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0021538","count":5}]},{"hash":"1973910061169269986","title":"Ubiquitin-Dependent Proteolysis and Immune Signaling","description":"The cluster centers on ubiquitination processes (autoubiquitination, K48/K63/K6 linkages) and ERAD, indicating roles in targeted protein degradation. The presence of terms related to antiviral defense, TNF signaling, and NF-kappaB regulation suggests these proteins also coordinate immune signaling pathways, making ubiquitin-mediated proteolysis a unifying theme.","confidence":"High","size":21,"edges":79,"triangles":120,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":9},{"id":"GO:1903265","count":9},{"id":"GO:0070936","count":9},{"id":"GO:0042787","count":9}]},{"hash":"556885801516846329","title":"Unknown","description":"The top GO terms span a wide range of processes: protein localization to synapse; lung-associated mesenchyme development; meiotic DNA double-strand break formation and its repair; centrosome duplication; death-inducing signaling complex assembly; axon extension; plus several obsolete terms. This mix suggests no single cohesive biological theme or pathway that ties the proteins together, but rather a heterogeneous collection of annotations. Therefore, there is no clear, representative label for this cluster beyond Unknown.","confidence":"","size":21,"edges":92,"triangles":208,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":21},{"id":"GO:0006349","count":21},{"id":"GO:0060484","count":21},{"id":"GO:1903343","count":21},{"id":"GO:2001033","count":21}]},{"hash":"1401699075626866364","title":"Embryonic development and morphogenesis","description":"The cluster\u2019s top GO terms cluster around embryonic development and tissue morphogenesis, including placental/trophoblast differentiation, cartilage morphogenesis, EMT in endocardial cushion formation, endocrine system development, left-right patterning, and pancreatic cell development. A few terms refer to general transcription and splicing, consistent with regulatory processes during development. Overall, the proteins appear to participate in diverse developmental programs rather than a single pathway, so this label captures the shared theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0035270","count":5}]},{"hash":"1920902695012295564","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":196,"triangles":1102,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":11},{"id":"GO:0000463","count":11},{"id":"GO:1902626","count":9},{"id":"GO:0000466","count":9},{"id":"GO:0031047","count":8}]},{"hash":"78550017645600415","title":"Ubiquitin-Dependent Proteolysis and NF-kB Regulation","description":"Most terms point to ubiquitin-mediated protein turnover (ERAD, ubiquitin-dependent proteolysis, autoubiquitination, K63-linked ubiquitination) and regulation of NF-kappaB signaling, with additional items touching immune signaling and host defense (LPS signaling, suppression of symbiont invasion). The cluster coalesces around ubiquitin-driven proteostasis and inflammatory signaling pathways, justifying this label.","confidence":"High","size":21,"edges":5,"triangles":1,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":17},{"id":"GO:1901253","count":17},{"id":"GO:0042787","count":16},{"id":"GO:0043123","count":16},{"id":"GO:0051092","count":16}]},{"hash":"888796286392296148","title":"Chromosome dynamics in mitosis/meiosis","description":"The top GO terms cluster around mitotic nuclear membrane reassembly, spindle elongation, chromatin assembly during DNA replication, and centromeric sister chromatid cohesion, all core to chromosome management during cell division. Additional signals related to growth and signaling (TORC1, amino acid response, serine dephosphorylation) suggest linked regulation of cell-cycle progression. Overall, these terms converge on chromosome dynamics during cell division.","confidence":"High","size":21,"edges":30,"triangles":25,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007084","count":5},{"id":"GO:0071230","count":5},{"id":"GO:0051232","count":5},{"id":"GO:0045945","count":5},{"id":"GO:0070262","count":5}]},{"hash":"2224201642618796269","title":"Tissue development and morphogenesis","description":"The GO terms cluster around developmental and morphogenetic processes across multiple tissues (anterior commissure morphogenesis, bone and lung development, cardiac differentiation and EMT in heart structures, transcriptional regulation during development), suggesting a general theme of tissue formation and organogenesis rather than a single molecular function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021960","count":10},{"id":"GO:0006351","count":10},{"id":"GO:2000791","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0033689","count":9}]},{"hash":"642689268654852501","title":"Synaptic membrane organization and spine maintenance","description":"Most GO terms cluster around the architecture and regulation of synapses, especially presynaptic membrane organization and dendritic spine maintenance, with supportive hints from protein homooligomerization. A few terms about lipid transport in the brain are present but seem secondary to the dominant synaptic theme.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901630","count":3},{"id":"GO:0000070","count":3},{"id":"GO:1905860","count":3},{"id":"GO:1905855","count":3},{"id":"GO:1903001","count":3}]},{"hash":"287549805276880849","title":"Embryonic Development and Tissue Differentiation","description":"Proteins in this cluster are linked to diverse developmental and differentiation processes across multiple tissues (lung epithelium, skeletal muscle, cartilage, placenta/t trophoblast, endocardial cushion EMT, endocrine system development). The common thread is broad embryonic development and tissue specification rather than a single pathway, supported by terms involving differentiation, morphogenesis, and signaling regulation. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":4},{"id":"GO:0060487","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0043388","count":3}]},{"hash":"2240480504237027733","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":7,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:1901639","count":3},{"id":"GO:0006382","count":3},{"id":"GO:0046709","count":3},{"id":"GO:0009240","count":3}]},{"hash":"411889003700219588","title":"Cardiovascular and Pulmonary Development","description":"The top GO terms center on heart development and outflow tract morphogenesis, plus lung epithelial cell differentiation, pointing to a cohesive program of cardiac and lung tissue development. Additional terms like multicellular stress response and xenobiotic stimulus response may reflect regulatory and environmental-context roles during organogenesis, reinforcing a developmental cluster with cardio-pulmonary emphasis.","confidence":"High","size":21,"edges":179,"triangles":884,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":18},{"id":"GO:0043388","count":18},{"id":"GO:0033555","count":17},{"id":"GO:0060487","count":17},{"id":"GO:0035690","count":17}]},{"hash":"333332154370964226","title":"Innate immune signaling and cytokine production","description":"The top GO terms are dominated by innate immune-related processes: TLR9 signaling, defense response to Gram-negative bacteria, IL-8 production, and cytokine production, indicating a cluster centered on immune signaling and inflammatory responses. Other terms like translation, RNA export, and chromatin-related processes suggest accompanying cellular activities often seen in stressed or activated cells, but the strongest signal here points to innate immune function. Confidence: Medium","confidence":"","size":21,"edges":169,"triangles":767,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006407","count":4},{"id":"GO:0030466","count":3},{"id":"GO:0009729","count":3},{"id":"GO:0050829","count":3}]},{"hash":"454559268410276865","title":"Diverse solute transporter cluster","description":"The top GO terms are dominated by transmembrane transport for a wide range of substrates\u2014urate, 4-hydroxyphenylacetate, sialic acid, nitrate, phosphate, potassium, arabinose, and more\u2014indicating these proteins are membrane transporters with broad substrate specificity. A metabolic term (fucose metabolic process) appears but does not override the clear transport signal, supporting a label of a cluster of diverse solute transporters.","confidence":"High","size":21,"edges":63,"triangles":93,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0015747","count":15},{"id":"GO:1900754","count":13},{"id":"GO:0006004","count":13},{"id":"GO:0042128","count":13},{"id":"GO:0015739","count":13}]},{"hash":"1971671547056049425","title":"Unknown","description":"There is no shared functional signal: no edges or triangles and no GO terms to summarize, so a common theme cannot be inferred. ReCIPE re-added proteins but without interaction or annotation data, a concise, representative label cannot be established.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"600040830555645967","title":"Organ Development and Telomere Regulation","description":"This cluster is enriched for organ development terms (lung development, adrenal gland development, nervous system development) alongside several telomere-related processes (telomere maintenance via telomere lengthening, telomere assembly, telomere localization to the chromosome telomeric region, and regulation of telomerase). The shared theme appears to be developmental proteins that also participate in telomere dynamics, suggesting a link between organogenesis pathways and telomere regulation.","confidence":"Medium","size":21,"edges":8,"triangles":0,"max_degree":3,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030324","count":6},{"id":"GO:0030325","count":4},{"id":"GO:0045668","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0032211","count":3}]},{"hash":"1826498660395300747","title":"Vertebrate neural and sensory organ development","description":"The top GO terms cluster around nervous-system and sensory-organ formation in vertebrates: neural crest formation, forebrain neuronal commitment, spinal cord motor neuron differentiation, cerebral cortex regionalization, retina development, and inner ear morphogenesis. These shared themes suggest the proteins participate in neurodevelopment and sensory organ morphogenesis; one outlier term about ureteric bud branching is a broader developmental process and does not strongly alter the main theme. ","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0014029","count":17},{"id":"GO:0090190","count":17},{"id":"GO:0021902","count":17},{"id":"GO:0060041","count":16},{"id":"GO:0014813","count":16}]},{"hash":"1766686602353596997","title":"Tissue Development and Differentiation","description":"The proteins map to a broad set of developmental and differentiation processes across multiple tissues (epithelial maturation in the prostate, nail and lens development, lung secretory differentiation, axial mesoderm morphogenesis) as well as immune differentiation terms, suggesting a general theme of tissue-specific development rather than a single pathway. Confidence reflects this broad, representative but non-specific connection.","confidence":"Medium","size":21,"edges":22,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060743","count":5},{"id":"GO:0002635","count":4},{"id":"GO:0061470","count":4},{"id":"GO:0060013","count":3},{"id":"GO:0048319","count":3}]},{"hash":"1997960121774867324","title":"Transcriptional Regulation and Chromatin Remodeling","description":"The cluster is dominated by GO terms tied to transcription control and chromatin dynamics, including DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and nucleosome assembly, which together suggest a core role in gene expression regulation and chromatin structure. While there are additional signals related to differentiation, cellular stress (dexamethasone response), and signaling pathways (NOD1/2) that can influence transcription, the strongest, most cohesive theme is transcriptional regulation and chromatin remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0030154","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0070431","count":3}]},{"hash":"357745626214718386","title":"Hair Follicle Morphogenesis and Keratinocyte Activation","description":"Based on the top GO terms, the cluster is dominated by hair-related biology: hair cycle and hair follicle morphogenesis, along with keratinocyte activation. While there are other terms spanning autophagy regulation, immune and neural processes, the strongest and most coherent signal is epidermal/hair follicle development and related keratinocyte activity, suggesting this cluster reflects skin and hair biology.","confidence":"Medium","size":21,"edges":209,"triangles":1311,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:1904714","count":21},{"id":"GO:0055015","count":21},{"id":"GO:0097284","count":21},{"id":"GO:0042633","count":21},{"id":"GO:0001867","count":21}]},{"hash":"1898791676317920775","title":"Pain and cold sensation signaling","description":"This cluster is enriched for nociception and thermosensory GO terms, including detection of chemical and mechanical stimuli for pain, response to cold, and pain-related signaling (capsaicin/capsazepine). Calcium import across the plasma membrane supports calcium signaling in sensory neurons. While some terms touch neuroendocrine and thermogenic processes (vasopressin secretion, brown fat differentiation), the core pattern points to pain and temperature sensation.","confidence":"Medium","size":21,"edges":28,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0050968","count":6},{"id":"GO:1903444","count":6},{"id":"GO:2000340","count":6},{"id":"GO:0009409","count":6},{"id":"GO:0030103","count":6}]},{"hash":"2028208741161547471","title":"Placental and Neural Morphogenesis with Angiogenesis","description":"This cluster shows strong representation of placental branching morphogenesis, labyrinthine layer development, epithelial morphogenesis, and nervous system development, including angiogenesis and neural tube closure, indicating a cohesive theme of developmental growth in placenta and nervous system. Some immune/vascular terms (complement, blood pressure regulation) appear but do not dominate the signal. ","confidence":"Medium","size":21,"edges":10,"triangles":0,"max_degree":2,"top_function":"wound healing","top_go_terms":[{"id":"GO:0045766","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0010951","count":6},{"id":"GO:0060670","count":6},{"id":"GO:0007399","count":5}]},{"hash":"685095278454258140","title":"Transmembrane Transporters (Ions and Nutrients)","description":"This cluster is enriched for transmembrane transport GO terms across ions (potassium, sodium, nitrate, sialic acid), nutrients (vitamin, fucose, 4-hydroxyphenylacetate), and xenobiotics, plus a vesicular neurotransmitter loading term, indicating a group of membrane transporter proteins with diverse substrates.","confidence":"High","size":21,"edges":12,"triangles":3,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0071805","count":12},{"id":"GO:0015706","count":12},{"id":"GO:0035725","count":12},{"id":"GO:0098700","count":9},{"id":"GO:1900754","count":9}]},{"hash":"1681265921191997380","title":"Unknown","description":"There are no shared GO terms or interactions among the proteins (Edges 0, Triangles 0, Max Degree 0), and although many were re-added by ReCIPE, there is no functional connection to define a common theme. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"464485090500304108","title":"Transmembrane Transporters","description":"The proteins are enriched for GO terms related to moving substances across membranes, including various ion transports (potassium, phosphate, nitrite/nitrate), nutrient and xenobiotic transport, and vesicular transporter activity (neurotransmitter loading). This pattern indicates a cohesive group of membrane transport proteins handling ions and metabolites, possibly including vesicular transporters.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0098700","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0035461","count":4}]},{"hash":"899391272110231264","title":"Synapse Assembly and Plasticity","description":"This cluster is dominated by GO terms related to neuronal synapse formation and regulation, including regulation of AMPA receptor clustering, regulation of synapse assembly, and long-term synaptic depression. While there are a few terms spanning broader developmental or unrelated processes, the strongest signal is neural-synaptic, suggesting the proteins collectively contribute to synapse formation and activity modulation (plasticity). ","confidence":"Medium","size":21,"edges":13,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904717","count":1},{"id":"GO:1904743","count":1},{"id":"GO:0006929","count":1},{"id":"GO:0021631","count":1},{"id":"GO:0060197","count":1}]},{"hash":"681526714268688510","title":"Developmental signaling and branching morphogenesis","description":"The top GO terms collectively point to development and organ morphogenesis, notably branching morphogenesis of glands (salivary, lung mesenchyme) and neural patterning (branchiomotor neuron axon guidance), with involvement of FGF signaling and MAPKKK cascades. While some terms touch immune or endocrine processes, the dominant theme is developmental signaling guiding tissue morphogenesis.","confidence":"Medium","size":21,"edges":91,"triangles":218,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021785","count":6},{"id":"GO:0090080","count":6},{"id":"GO:0090272","count":6},{"id":"GO:0060484","count":6},{"id":"GO:2000830","count":6}]},{"hash":"2151845770720113709","title":"Muscle Contraction and Ubiquitin Signaling","description":"The top GO terms strongly point to muscle biology, including striated muscle cell development, muscle contraction, and atrial cardiac muscle action potential, indicating a cluster centered on muscle function. The inclusion of ubiquitin-related terms (K63-linked ubiquitination, ubiquitin-dependent ERAD) suggests regulation of protein signaling or quality control relevant to muscle tissues, supporting a cohesive theme of muscle function with ubiquitin-mediated regulation.","confidence":"High","size":21,"edges":57,"triangles":59,"max_degree":11,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0045124","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0098910","count":3}]},{"hash":"138055682981829383","title":"Diverse Signaling Pathways","description":"The top GO terms cluster around multiple signaling cascades\u2014immune differentiation (B cell differentiation, neutrophil regulation), Rho signaling, NFAT/calcineurin signaling, IGF and growth hormone receptor pathways, angiogenesis, and ER stress response\u2014indicating the proteins participate in a variety of regulatory signaling processes rather than a single pathway. This supports using a broad label like \"Diverse Signaling Pathways.\" ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030183","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0048009","count":2}]},{"hash":"1258984292694931773","title":"Embryonic Development and Organogenesis","description":"Top GO terms show a broad emphasis on developmental processes across tissues (heart cushion EMT, left-right patterning, placenta differentiation, cartilage morphogenesis, endocrine and pancreatic development, and neural development), suggesting the proteins cluster around general embryonic development and organ formation rather than a single pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":4},{"id":"GO:0051571","count":3},{"id":"GO:0030901","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1712971134051092191","title":"RNA splicing regulators and mRNA processing","description":"This cluster is dominated by GO terms related to splicing and mRNA processing, including mRNA stabilization, regulation and positive regulation of mRNA splicing via the spliceosome, and general RNA splicing. While there are hints of broader regulatory roles (transcription initiation, circadian rhythm, androgen signaling, and apoptotic regulation), the strongest signal is spliceosome-mediated RNA processing, suggesting these proteins function as splicing regulators and mRNA maturation factors.","confidence":"High","size":21,"edges":69,"triangles":84,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048255","count":8},{"id":"GO:0000381","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0008380","count":6},{"id":"GO:2001244","count":5}]},{"hash":"1098168013064453881","title":"Epigenetic chromatin modification and transcription control","description":"The top GO terms are dominated by histone modifications (H3K4, H3K9, H3K27, H3K36) and DNA methylation\u2013dependent heterochromatin formation, indicating epigenetic regulation of transcription. This suggests the cluster centers on chromatin state modulation that governs gene expression, with some auxiliary links to transcription elongation and stress-responsive pathways. Confidence reflects a strong, representative link to epigenetic regulation, despite a few outliers.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090309","count":3},{"id":"GO:0051567","count":3},{"id":"GO:1901674","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0034244","count":2}]},{"hash":"1752721224767804224","title":"Neural crest\u2013driven cranial nerve development","description":"The top terms cluster around neural crest biology and cranial nerve formation\u2014branchiomotor axon guidance, trigeminal nerve organization, sympathetic neuron projection, and neural crest migration\u2014along with skeletal system development, consistent with neural crest derivatives contributing to the skeleton. A few immune-regulatory terms may reflect shared signaling pathways but do not override the primary neural crest/cranial nerve theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021785","count":9},{"id":"GO:0043318","count":9},{"id":"GO:0097490","count":9},{"id":"GO:0021637","count":9},{"id":"GO:0043031","count":9}]},{"hash":"2298278548825995233","title":"Neural signaling and synaptic regulation","description":"Top GO terms converge on neuronal signaling and synaptic regulation, including cell surface receptor signaling, synapse assembly and activity regulation, and mechanosensory/sensory perception terms. This pattern suggests a cluster of proteins involved in neural communication and sensory processing (and related behavioral responses like drug exposure), likely in an insect model.","confidence":"High","size":21,"edges":157,"triangles":628,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007166","count":7},{"id":"GO:0042220","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0035002","count":5}]},{"hash":"83342939884372731","title":"Developmental gene regulation and organogenesis","description":"These terms cluster around transcriptional control (DNA-templated transcription and nuclear receptor/glucocorticoid signaling) and diverse developmental processes (endocrine system development, left-right pattern formation, cartilage morphogenesis, trophoblast differentiation, and liver regeneration). The ubiquitin-dependent protein catabolic process appears as a general cellular maintenance context rather than a specific pathway. Together, they point to gene regulation guiding development and organogenesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0030579","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0042921","count":3},{"id":"GO:0080182","count":2}]},{"hash":"574853112362899117","title":"Immune Activation and Signaling","description":"The cluster shows a cohesive set of immune-related activities across innate and adaptive immunity, including classical complement activation, innate immune response, phagocytosis, Fc receptor signaling, B cell receptor signaling, gamma-delta T cell activation, monocyte extravasation, and regulation of IL-10 production and cytotoxic T cell activity, suggesting coordinated immune activation and regulation.","confidence":"High","size":21,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":11},{"id":"GO:0045087","count":10},{"id":"GO:0006910","count":10},{"id":"GO:0038095","count":10},{"id":"GO:0050853","count":10}]},{"hash":"249673317787781879","title":"Muscle contraction and cytoskeletal dynamics","description":"The terms cluster around muscle contraction mechanisms (striated and smooth), muscle filament sliding, and fiber-type transitions, alongside cytoskeletal organization and microtubule assembly, indicating a muscle-cytoskeleton functional theme. A subset emphasizes chaperone activity, protein folding, and ubiquitin-proteasome\u2013mediated quality control, suggesting proteostasis supports both muscle function and cytoskeletal dynamics.","confidence":"High","size":21,"edges":86,"triangles":196,"max_degree":17,"top_function":"protein folding","top_go_terms":[{"id":"GO:0007021","count":4},{"id":"GO:0032968","count":3},{"id":"GO:0006457","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0043622","count":3}]},{"hash":"1112423623943187164","title":"Actin Cytoskeleton Remodeling","description":"This cluster is dominated by GO terms related to actin dynamics (lamellipodium and ruffle assembly, polymerization, bundling, and cytoskeleton organization) with links to signaling pathways (integrin signaling, NO response) that commonly regulate actin remodeling and cell adhesion/motility.","confidence":"High","size":21,"edges":208,"triangles":1292,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":17},{"id":"GO:0060997","count":16},{"id":"GO:0030041","count":15},{"id":"GO:0051016","count":14},{"id":"GO:1900029","count":14}]},{"hash":"1437582820656249026","title":"Neural development and synaptic organization","description":"This cluster is enriched for nervous system development, nerve impulse transmission, and synapse organization, with specific hints to axonal components such as paranodal region localization and clustering of voltage-gated sodium channels. The inclusion of Roundabout signaling and BMP pathway regulation supports a developmental, guidance-related theme, while STAT phosphorylation ties into broader signaling networks. Overall, the dominant theme is neural development and synaptic/axonal signaling.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0042517","count":2},{"id":"GO:0045663","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0002175","count":2}]},{"hash":"1295108331752642092","title":"Wnt Signaling and Cytoskeletal Regulation","description":"This cluster centers on signaling pathways (notably Wnt) and regulators of the cytoskeleton (GTPase/Rho signaling, spindle assembly, mitochondrial fission), with supporting signals from development-related processes (amygdala, smooth muscle development) and protein turnover. The mixed GO terms point to a theme of signal transduction coordinating cytoskeletal dynamics during development, with ancillary roles in degradation and defense.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0090141","count":3},{"id":"GO:0021764","count":3}]},{"hash":"2286469272931051728","title":"Rho/Ral-driven cytoskeletal remodeling and vesicle trafficking","description":"Most terms cluster around Rho and Ral signal transduction regulating actin-driven cytoskeletal dynamics (e.g., lamellipodium assembly) and vesicle trafficking processes (synaptic vesicle priming, endosomal transport). This points to a cohesive functional theme of cytoskeleton remodeling coupled to vesicle movement, governed by Rho/Ral pathways. Some terms extend to related signaling contexts (VEGF, GPCR, T cell activation), which can modulate these core processes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0030032","count":4},{"id":"GO:0035924","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0002291","count":4}]},{"hash":"1184034585305811943","title":"Skeletal and cardiac muscle development and contraction","description":"Top GO terms indicate clear connections to muscle biology, including sarcomere organization, skeletal muscle fiber development, and muscle contraction, as well as calcium-regulated control of contraction (regulation of the release of sequestered calcium ion). Together these terms suggest a cohesive cluster around muscle formation and calcium-driven contraction in both skeletal and heart muscle, with some ancillary terms like skin development or taste perception likely representing broader annotation signals. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":3},{"id":"GO:0010881","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0007275","count":2}]},{"hash":"3330849682382096","title":"Neuronal adhesion and synapse formation","description":"The cluster is dominated by GO terms tied to neuron-cell adhesion (homophilic/heterophilic), neuron-specific adhesion, and synapse assembly, aligning with nervous system development and sensory neuron function (e.g., sensory perception of sound). While other terms touch bone formation and fibrinolysis, the strongest signal centers on neural adhesion and synaptogenesis, suggesting roles in neuronal connectivity. ","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007157","count":8},{"id":"GO:0007399","count":6},{"id":"GO:0072006","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0007156","count":6}]},{"hash":"1194339713116190228","title":"Neuroendocrine-immune and vascular regulation","description":"The cluster shows a mix of regulatory processes spanning endocrine/hormonal secretion, cardiovascular control (intestinal smooth muscle contraction and heart contraction regulation by catecholamines), immune/inflammatory regulation (IL-1\u03b2 production, neutrophil-mediated killing), neurotrophic signaling (GDNF production), morphine response, and endothelial barrier modulation. This pattern points to coordinated signaling across neuroendocrine, immune, and vascular systems rather than a single pathway, so a cross-system regulation label is most appropriate.","confidence":"Medium","size":21,"edges":33,"triangles":26,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":13},{"id":"GO:0070963","count":13},{"id":"GO:0046879","count":13},{"id":"GO:0001997","count":13},{"id":"GO:0071417","count":13}]},{"hash":"1807347162124589933","title":"Cardiovascular and immune signaling","description":"Top GO terms indicate a blend of muscle function (intestine smooth muscle contraction; regulation of heart contraction by catecholamines), secretion processes (hormone secretion; GDNF production), and immune/cytokine signaling (IL-1beta production; neutrophil-mediated killing; endothelial barrier regulation). The presence of morphine response suggests broader neuromodulatory signaling. Together, these terms point to a cluster of proteins involved in coordinating cardiovascular/muscle physiology with hormonal and immune signaling, i.e., cardio-immune-hormonal regulation.","confidence":"Medium","size":21,"edges":33,"triangles":14,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":21},{"id":"GO:0070963","count":21},{"id":"GO:0046879","count":21},{"id":"GO:0001997","count":21},{"id":"GO:0071417","count":21}]},{"hash":"667438383937353156","title":"Innate Immunity and Signaling Cross-talk","description":"The cluster is dominated by innate immune terms: innate immune response, complement activation via the lectin pathway, and defense against Gram-positive bacteria, indicating a core innate-immune function. Additional terms point to developmental and signaling processes (Wnt, cartilage condensation, HGF response, p38 MAPK regulation, angiogenesis, glucose response), suggesting cross-talk between immune signaling and developmental/growth pathways. Overall, the label captures the primary immune focus with related signaling connections.","confidence":"Medium","size":20,"edges":58,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051918","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0016055","count":4}]},{"hash":"328967874545900552","title":"Cell Cycle and DNA Damage Response","description":"The cluster is dominated by terms related to cell division and mitosis (cell cycle, mitotic cell cycle, establishment of mitotic spindle orientation) and DNA repair via homologous recombination, pointing to coordination of genome maintenance with cell cycle progression. Additional terms on ubiquitin-dependent degradation (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process) and chromatin-associated processes (histone H3 acetylation, DNA-templated transcription) support a broader theme of proteostasis and transcriptional regulation during division. A few terms are marked obsolete, but the overall signal remains strongly aligned with cell cycle control and DNA damage response mechanisms. ","confidence":"High","size":20,"edges":114,"triangles":281,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0000724","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0060733","count":4}]},{"hash":"92186920307389181","title":"Neuronal polarity and migration with cytoskeleton dynamics","description":"This cluster is enriched for GO terms tied to cell polarity, centrosome and microtubule-based movement, and neuronal processes such as neuron migration and receptor localization to synapse. While some terms touch on non-neuronal contexts like tube formation or cardiac regeneration, the shared theme centers on cytoskeletal organization and polarity guiding neuronal development and synaptic organization.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":3},{"id":"GO:0035148","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0030010","count":2},{"id":"GO:1905519","count":2}]},{"hash":"2198251349159749776","title":"Neural development and synaptic organization","description":"The top GO terms point to synapse formation and localization (protein localization to synapse, receptor clustering, long-term synaptic depression), junctional maintenance (adherens and paranodal), and developmental processes (cochlea morphogenesis, Wnt signaling regulation). These collectively highlight neural development with a focus on synaptic assembly, maintenance, and intercellular junctions. A few terms (e.g., carnitine transport, regulation of cell proliferation) appear ancillary but do not contradict the overarching theme, supporting a cohesive label centered on neural synaptic organization and development.","confidence":"High","size":20,"edges":132,"triangles":529,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":18},{"id":"GO:0090103","count":18},{"id":"GO:0071896","count":18},{"id":"GO:0008285","count":18},{"id":"GO:0060292","count":18}]},{"hash":"2175243486009030136","title":"Glucose/Glycogen Metabolism and Energy Regulation","description":"This cluster centers on carbohydrate metabolism and energy regulation, with strong signals for glucose-6-phosphate and fructose-6-phosphate pathways, carbohydrate phosphorylation, and glycogen biosynthesis, plus hexokinase-dependent signaling and energy-sensing cues such as leptin response and lactation. A relic mitochondrion-localization term is present but does not define the core theme.","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":14},{"id":"GO:0051156","count":11},{"id":"GO:0007595","count":9},{"id":"GO:0006002","count":9},{"id":"GO:0044320","count":9}]},{"hash":"1588292594402145401","title":"Bacterial glycosylation and carbohydrate biosynthesis","description":"The top GO terms cluster around glycosylation and carbohydrate metabolism (glycogen and glucose pathways, GPI anchor biosynthesis, multiple glycosylation-related terms), with some associated osmotic stress responses and biosynthesis of thiols (mycothiol/bacillithiol). This suggests a cohesive theme of bacterial glycan assembly and carbohydrate biosynthesis, with stress-adaptive regulation. ","confidence":"Medium","size":20,"edges":81,"triangles":171,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":7},{"id":"GO:0097502","count":6},{"id":"GO:0009413","count":6},{"id":"GO:0033577","count":6},{"id":"GO:0010125","count":6}]},{"hash":"507812241454178392","title":"DNA Replication and Repair","description":"The cluster is dominated by core DNA metabolism terms: replication, primer synthesis, unwinding, recombination, and repair (including SOS response and strand-annealing pathways). The viral genome replication term suggests involvement in replication machinery applicable to viruses as well, but the bundle centers on maintaining genome integrity during replication and repair processes. An additional RNA processing term appears less central but can reflect broader gene-expression quality-control links to replication stress.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0019079","count":10},{"id":"GO:0006268","count":10},{"id":"GO:0009432","count":10},{"id":"GO:0045003","count":9}]},{"hash":"574308672719887698","title":"DNA repair and chromatin-regulated transcription","description":"This cluster centers on DNA repair and recombination, coupled with transcription regulation governed by chromatin state. Several top GO terms refer to DNA repair/recombination and RNA Pol II transcription regulation, including transcription preinitiation complex assembly and histone modification/remodeling hints, suggesting genome maintenance linked to chromatin-mediated transcription control.","confidence":"High","size":20,"edges":166,"triangles":784,"max_degree":19,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0043966","count":6},{"id":"GO:0006310","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0042766","count":5},{"id":"GO:0043457","count":5}]},{"hash":"940291758588992241","title":"Ribosome Biogenesis and Translation","description":"Most of the top GO terms converge on ribosome assembly and the protein-synthesis process: ribosome biogenesis; translation and its substeps (initiation, elongation, termination); and related mRNA regulation via deadenylation-dependent decay, including the special case of selenocysteine incorporation. The antibiotic response term is consistent with interactions of antibiotics with ribosomes, reinforcing the translation-centric theme. Together, these signals point to a cluster centered on the ribosome and protein synthesis machinery.","confidence":"High","size":20,"edges":184,"triangles":1038,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":13},{"id":"GO:0006412","count":12},{"id":"GO:2000767","count":10},{"id":"GO:0046677","count":10},{"id":"GO:0014009","count":10}]},{"hash":"2285413512466709183","title":"Intestinal brush border cytoskeleton regulation","description":"The terms cluster around cytoskeletal dynamics and microvillus structure in intestinal epithelia (Rho signaling, actin/actomyosin organization, regulation of microvillus length, terminal web assembly) with a key function in nutrient absorption (glucose uptake). Additional signaling pathways (cAMP, Hippo, thyroid hormone) suggest coordinated regulation of epithelial structure and transport.","confidence":"Medium","size":20,"edges":6,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":12},{"id":"GO:0031532","count":10},{"id":"GO:0060396","count":10},{"id":"GO:0031032","count":9},{"id":"GO:0001951","count":9}]},{"hash":"1579160580256582868","title":"Cardiac muscle contraction and sarcomere organization","description":"The top GO terms strongly point to cardiac muscle function and sarcomere structure, with entries for cardiac contraction, sarcomere organization, and epinephrine-mediated heart-rate regulation. There are also vascular smooth muscle regulatory terms, but overall the cluster centers on cardiac/sarcomeric processes.","confidence":"High","size":20,"edges":63,"triangles":153,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":6},{"id":"GO:0060298","count":5},{"id":"GO:0045214","count":5},{"id":"GO:0003065","count":5},{"id":"GO:1904753","count":5}]},{"hash":"2063899753004071723","title":"Cardiac and skeletal muscle development","description":"The top GO terms are strongly focused on heart development, skeletal muscle fiber development, and cardiac muscle contraction, pointing to a theme centered on cardiac and skeletal muscle formation and function. While there are additional immune-related terms and transcription/protein interaction terms, the dominant signal aligns with muscle development and heart muscle activity, supporting this specific naming. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:2001275","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0006351","count":3}]},{"hash":"659850860301726947","title":"Cross-tissue Signaling Regulation and Neural Development","description":"The top GO terms point to broad signaling pathway regulation (insulin signaling, T cell receptor signaling) and processes affecting tissue barriers and cell proliferation, plus regulation of stress responses (ER stress, UPR). At the same time, neural development terms (cerebellar cortex formation, Bergmann glial differentiation) appear, suggesting the cluster captures proteins involved in modulation of signaling across multiple tissues with a neural development aspect. This is a cohesive theme of signaling regulation across systems, though the set spans immune, metabolic, and neural contexts rather than a single pathway.","confidence":"Medium","size":20,"edges":183,"triangles":1020,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":19},{"id":"GO:0050852","count":18},{"id":"GO:0090557","count":18},{"id":"GO:0008285","count":16},{"id":"GO:1903753","count":16}]},{"hash":"589591503086022931","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms cluster around developmental processes and tissue morphogenesis across multiple organs (placenta/ trophoblast differentiation, endocrine development, left-right patterning, cartilage morphogenesis, heart development via EMT, and pancreatic development). This points to a cohesive theme of embryonic development and cell/tissue differentiation. A few terms relate to general cellular processing (splicing, ubiquitin-mediated proteolysis) that support these developmental programs but are not central to the cluster\u2019s primary function.","confidence":"High","size":20,"edges":10,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0050853","count":4}]},{"hash":"1731931818810102255","title":"Wnt signaling regulation and cell cycle control","description":"The cluster shows strong representation of both positive and negative regulation of canonical Wnt signaling, along with ubiquitin-proteasome\u2013mediated proteolysis and core cell-cycle processes (mitotic cell cycle, DNA replication). This points to a cohesive theme where Wnt pathway modulation is linked to cell cycle control, with additional signals of broader signaling roles (e.g., synaptic localization, T cell receptor signaling) that tie into general regulatory networks.","confidence":"High","size":20,"edges":123,"triangles":384,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032436","count":11},{"id":"GO:0090263","count":9},{"id":"GO:0000186","count":9},{"id":"GO:0000902","count":9},{"id":"GO:0050852","count":9}]},{"hash":"266227701553482356","title":"Embryonic organogenesis and heart development","description":"The top GO terms are dominated by embryonic development and heart-related processes: heart development, left/right pattern formation, EMT in endocardial cushion formation, trophoblast differentiation, cartilage morphogenesis, and endocrine organ development. This suggests proteins in the cluster are linked to early organogenesis with a central emphasis on cardiac morphogenesis, though a few terms touch on other developmental lineages (dendrite and pancreatic cell development). Overall, the cluster is best labeled as embryonic organogenesis with heart development.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060806","count":2}]},{"hash":"904086109619511628","title":"Mitotic control and actin remodeling in development","description":"The cluster is dominated by terms tied to cell division and cytoskeletal dynamics: mitotic cell cycle and sister chromatid segregation point to mitosis, while Arp2/3-mediated actin nucleation and regulation of GTPase activity suggest coordinated cytoskeletal remodeling. Development-related terms like gastrulation and neuron apoptotic process indicate broader developmental roles. Although there are some broader or obsolete terms (e.g., transcription-related ones), the core theme across many proteins appears to center on mitosis and actin-driven remodeling during development.","confidence":"High","size":20,"edges":17,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":17},{"id":"GO:0000278","count":17},{"id":"GO:0030433","count":15},{"id":"GO:0060733","count":14},{"id":"GO:0000070","count":14}]},{"hash":"1354239283918603251","title":"B Cell Activation and IgE Class Switching","description":"The prominent GO terms point to B cell biology\u2014germinal center formation, B cell receptor signaling, and IgE isotype switching\u2014suggesting a cluster of proteins involved in B cell activation and type 2 immune responses. A few terms (circadian sleep/wake cycle, phototropism, obsolete entries) seem unrelated and likely noise.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0045496","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0002467","count":6},{"id":"GO:1904431","count":6},{"id":"GO:0042748","count":6}]},{"hash":"1605953201510188660","title":"Ribosome biogenesis and translation regulation","description":"The proteins in this cluster predominantly relate to the ribosome and protein synthesis: translation and cytoplasmic translation, regulation of translational elongation, tRNA modification, and even selenocysteine incorporation; plus ribosomal large subunit export from the nucleus, which ties to ribosome biogenesis. A cell cycle term is present but appears ancillary. Together, these terms define a core theme of ribosome assembly/biogenesis and translational control.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0002181","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0000055","count":1}]},{"hash":"1622949283850160982","title":"Unknown","description":"These GO terms span several distinct biological themes: intracellular protein transport is a broad cellular process, but other entries relate to endocrine system development, germinal center formation, left-right patterning, trophoblast giant cell differentiation, circadian rhythm, and immune isotype regulation. The mix suggests no single coherent function defining the cluster, making a precise, representative label difficult.","confidence":"","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0045496","count":2},{"id":"GO:0060707","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0035270","count":2}]},{"hash":"1243832419573571743","title":"Ubiquitin-Dependent Proteolysis (ERAD)","description":"Top GO terms are dominated by ubiquitination and proteolysis (protein ubiquitination, ubiquitin-dependent protein catabolic process, K48-linked ubiquitination, and the ubiquitin-dependent ERAD pathway). This suggests the proteins function in tagging substrates for degradation via the proteasome, particularly through ER-associated degradation. Some additional terms (response to ethanol, toxic substances, mechanical stimulus, vitamin D, and fat cell differentiation) may reflect broader cellular contexts but do not obscure the core ubiquitin-proteasome activity.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0070936","count":3}]},{"hash":"1414544977949530023","title":"Stress-response and cell cycle regulation","description":"The proteins show enrichment for responses to stressors (heat, mechanical/chemical sensory stimuli) and regulation of the cell cycle, with additional signals related to migration, heart-rate regulation, and mRNA stability. This suggests a theme of how cells sense and respond to stress while coordinating division and signaling, making a cohesive label around stress-response and cell cycle control.","confidence":"Medium","size":20,"edges":28,"triangles":7,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:0009408","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0032212","count":4}]},{"hash":"1485508077958440699","title":"Cell signaling and actin cytoskeleton remodeling","description":"This cluster is defined by GO terms for diverse signal transduction pathways (GPCR/PKC, Rho/Rap/Ral, thrombin receptor, insulin receptor signaling) together with actin cytoskeleton organization, indicating proteins that coordinate signaling with cytoskeletal dynamics and cellular activation/motility.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":3},{"id":"GO:0002291","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0032485","count":3},{"id":"GO:0032486","count":3}]},{"hash":"359855745510259949","title":"Chromosome Segregation and DNA Replication Machinery","description":"The top GO terms emphasize centromeric chromatin assembly (CENP-A), DNA replication, cell division, and mitotic sister chromatid segregation, together with microtubule severing, which together point to a cohesive set of proteins governing chromatin organization, DNA replication, and mitotic chromosome segregation. Additional terms on ER-to-Golgi transport and ERAD likely reflect broader cellular quality control or trafficking roles that can be important during the cell cycle, but the central theme remains chromosomal maintenance and mitosis.","confidence":"Medium","size":20,"edges":112,"triangles":278,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061641","count":6},{"id":"GO:0006888","count":5},{"id":"GO:0000070","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0051260","count":4}]},{"hash":"1604024452311079865","title":"Cell cycle and signaling regulation","description":"The top GO terms point to cell cycle and proliferation (cell cycle, endothelial proliferation, mesoderm formation) and signaling pathway modulation (adenylate cyclase activity, PKA activity). While there are some outliers (RNA decay, centrosome localization, DNA transposition), the dominant pattern centers on growth, proliferation, and regulation of signaling, suggesting a cluster tied to proliferative control and signaling governance.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0070966","count":2},{"id":"GO:1904780","count":2}]},{"hash":"1686370632792362272","title":"Neural development and transcription regulation","description":"Based on the top GO terms, this cluster is enriched for neural lineage specification and differentiation processes (spinal cord motor neuron and interneuron fate, oligodendrocyte differentiation, cortical interneuron differentiation, subpallium fate commitment) alongside general transcriptional activity (RNA polymerase II\u2013mediated transcription and its negative regulation). The combination suggests a group of proteins coordinating transcriptional control during neural development, with some broader developmental terms also present. ","confidence":"High","size":20,"edges":114,"triangles":342,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0031018","count":7},{"id":"GO:0043010","count":6},{"id":"GO:0060435","count":6},{"id":"GO:0060163","count":6}]},{"hash":"504736598537620992","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":17,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":5},{"id":"GO:0071555","count":5},{"id":"GO:0007584","count":4},{"id":"GO:0006189","count":4},{"id":"GO:0006099","count":4}]},{"hash":"881462241533150228","title":"Cell signaling and differentiation cues","description":"This cluster shows enrichment for diverse signaling-related and differentiation-related GO terms, including regulation of NFAT signaling, voltage-gated calcium channels, xenobiotic response, and epithelial differentiation, along with a few cell cycle/morphogenesis terms like actomyosin ring assembly and cell budding. There isn\u2019t a single cohesive pathway across all proteins, but the common thread is modulation of signaling and development across different contexts, making a broad label like \"cell signaling and differentiation cues\" appropriate.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060487","count":12},{"id":"GO:0035690","count":12},{"id":"GO:0048168","count":12},{"id":"GO:0097274","count":12},{"id":"GO:2000256","count":12}]},{"hash":"444565977193959184","title":"Intracellular Metal Ion Homeostasis and Detoxification","description":"Top GO terms point to regulation, sequestration, and detoxification of metal ions (notably zinc and cadmium) with related transmembrane transport; additional cobalt and iron transport terms suggest a broader focus on maintaining intracellular metal ion balance. This coheres into a single functional theme: maintaining and detoxifying cellular metal ion levels.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006882","count":7},{"id":"GO:0061090","count":7},{"id":"GO:0006876","count":7},{"id":"GO:0010312","count":7},{"id":"GO:0006877","count":7}]},{"hash":"173140294976606548","title":"Actin Remodeling in Cardiac Development and Signaling","description":"This cluster is dominated by GO terms connected to actin cytoskeleton dynamics (lamellipodium assembly, actin filament bundle assembly), regulation of small GTPases, and key cardiac signaling processes (heart development, cardiac muscle contraction, and positive regulation of calcineurin-NFAT signaling). The convergence on actin remodeling and cardiac signaling suggests a coherent module of proteins coordinating cytoskeletal changes with heart development and function. A few terms related to sensory signaling and adipocyte differentiation appear but are less central to the core theme. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0051017","count":3}]},{"hash":"576414749066151143","title":"Neuronal calcium signaling and excitability","description":"The top GO terms center on neural-related processes (cerebellum maturation, startle response, pain perception, membrane depolarization) and calcium ion transport/homeostasis, with some cardiac development signals (AV node action potential, outflow tract morphogenesis). The unifying theme appears to be excitability and calcium signaling across neural and, to a lesser extent, cardiac contexts, making this a coherent cluster name.","confidence":"Medium","size":20,"edges":12,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021590","count":20},{"id":"GO:0086045","count":20},{"id":"GO:0050968","count":20},{"id":"GO:1903444","count":20},{"id":"GO:0001964","count":20}]},{"hash":"315373696282803060","title":"Immune Signaling Regulation","description":"The terms cluster around modulation of signaling pathways and immune-related processes, including B cell differentiation, regulation of neutrophil degranulation, and various signaling cascades (phosphorylation, serine/threonine kinase activity, calcineurin-NFAT, and IGF receptor signaling). While xenobiotic response and telomere maintenance terms are present, the predominant theme appears to be regulation of cellular signaling with immune functional associations.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0042325","count":2},{"id":"GO:0071901","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0032212","count":2}]},{"hash":"683511414285389447","title":"Diverse substrate membrane transporters","description":"The proteins show a pattern of membrane transport functions across a wide range of substrates\u2014nitrite, glucose, fucose, sialic acid, vitamins, xenobiotics, nitrate assimilation, potassium ions, and neurotransmitter loading into vesicles\u2014indicating a cluster of diverse membrane transporter proteins rather than a single substrate-specific function.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":6},{"id":"GO:1904659","count":5},{"id":"GO:0098700","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006004","count":4}]},{"hash":"1808345291391697251","title":"Lung Development and Morphogenesis","description":"The top GO terms point to a developmental program focused on lung formation, including lung morphogenesis, lung-associated mesenchyme development, and angiogenesis, with signaling via the ERK cascade. While a couple of terms relate to ribosome biogenesis, the dominant theme is organ development and vascularization in the lung, making this a representative label. ","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1636685809917841743","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around broad developmental processes across multiple tissues and organs during embryogenesis\u2014placental/trophoblast differentiation, cartilage morphogenesis, endocrine system development, endocardial EMT, left-right patterning, and pancreatic cell development\u2014indicating a general theme of embryo development and morphogenesis. A few gene expression/translation-related terms appear but do not define a cohesive alternative function. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1786378721370068366","title":"Germline Meiosis and Translational Regulation","description":"This cluster combines strong signals for translation and its control (translation, cap-dependent translational initiation, negative regulation of translation, deadenylation) with germline/meiosis-related processes (male meiosis chromosome segregation, male germ-line cyst formation), suggesting a functional module in germ cell development where translational control is key to meiosis and differentiation. Dexa response and viral process terms appear less central to the core theme but do not override it. ","confidence":"Medium","size":20,"edges":174,"triangles":892,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0071549","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0007060","count":4},{"id":"GO:0045665","count":4}]},{"hash":"1386315544632911680","title":"Ribosome Biogenesis and Translation","description":"Top GO terms cluster around cytoplasmic translation, ribosomal subunit biogenesis and export, and tRNA modification, pointing to a ribosome assembly and protein synthesis module. The presence of cell cycle/division terms suggests a link to growth, but the core signal is ribosome production and translation machinery.","confidence":"Medium","size":20,"edges":50,"triangles":26,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0042274","count":1}]},{"hash":"2033851116702970748","title":"Adaptive immune signaling and leukocyte migration","description":"This cluster combines TCR signaling, B cell maturation, NK T differentiation, and cytokine responses with lamellipodium assembly and Rho/PI3K\u2013mediated cytoskeletal dynamics, pointing to coordinated immune signaling and actin remodeling during leukocyte activation and movement.","confidence":"High","size":20,"edges":164,"triangles":767,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030032","count":16},{"id":"GO:0050852","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0035023","count":15},{"id":"GO:0048013","count":14}]},{"hash":"427454615198254417","title":"Neuronal axon guidance and neural development","description":"The top GO terms cluster around axon guidance for commissural and branchiomotor neurons, along with sympathetic ganglion development and related neural patterning, indicating a core function in neural wiring during development. Additional terms on epithelial branching morphogenesis and growth factor signaling are supportive but secondary, reflecting broader developmental signaling contexts that can influence neural connectivity and plasticity.","confidence":"Medium","size":20,"edges":11,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071679","count":2},{"id":"GO:0007313","count":2},{"id":"GO:0061549","count":2},{"id":"GO:0021785","count":2},{"id":"GO:0048168","count":2}]},{"hash":"1601140510793072118","title":"Endothelial barrier integrity and actin remodeling","description":"This cluster centers on endothelial barrier formation (endothelial junctions) and cytoskeletal dynamics, highlighted by lamellipodium assembly, actin cytoskeleton organization, and Rho/Rac signaling, which together govern cell adhesion, spreading, and barrier function. The presence of heart development and insulin signaling terms suggests broader developmental and metabolic contexts, while ER stress\u2013related terms indicate stress response modulation of these processes. Overall, the dominant theme is endothelial cell junctions coupled with actin remodeling.","confidence":"High","size":20,"edges":143,"triangles":586,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090557","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0030032","count":15},{"id":"GO:0030036","count":15},{"id":"GO:0008286","count":15}]},{"hash":"525759300942458656","title":"Zona Pellucida Binding and Glycosylation","description":"The top GO terms strongly cluster around sperm\u2013zona pellucida interactions (penetration and binding of sperm to zona pellucida), pointing to fertilization-related adhesion. Coupled with glycosylation and glycosphingolipid biosynthesis processes, this suggests a theme of cell-surface glycoprotein interactions and membrane composition relevant to gamete recognition. Some other terms related to mammary gland development and infection-structure formation may be auxiliary, but the core signal centers on sperm-ZP binding and associated glycosylation pathways. Medium","confidence":"","size":20,"edges":84,"triangles":150,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007341","count":19},{"id":"GO:0007339","count":19},{"id":"GO:0060058","count":19},{"id":"GO:0006486","count":19},{"id":"GO:0030879","count":19}]},{"hash":"1490465414612620033","title":"Embryonic development and tissue morphogenesis","description":"This cluster is dominated by GO terms tied to embryonic development and organ/tissue morphogenesis, including placental differentiation, cartilage and heart-related morphogenesis, and left-right patterning, with a few RNA processing terms likely reflecting shared gene expression machinery. The common theme is developmental differentiation and morphogenesis across multiple tissues.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":7},{"id":"GO:0060806","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0035270","count":6}]},{"hash":"813817210936417607","title":"Phagocytosis and B cell immune activation","description":"The cluster shows strong enrichment for phagocytosis-related terms (engulfment, recognition), innate immunity (innate immune response, complement activation), and adaptive immunity (B cell receptor signaling, positive regulation of B cell activation). Although a few adhesion terms appear, the dominant theme ties together phagocytic processes with B cell\u2013mediated immune activation, indicating an integrated innate-adaptive immune response cluster.","confidence":"High","size":20,"edges":21,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":14},{"id":"GO:0006910","count":14},{"id":"GO:0050853","count":14},{"id":"GO:0045087","count":14},{"id":"GO:0050871","count":14}]},{"hash":"1402147955351152410","title":"Immunological synapse regulation and cell adhesion","description":"Top terms center on immune cell communication and adhesion (immunological synapse regulation, heterophilic cell-cell adhesion, actin cytoskeleton control) and on modulation of cytotoxic responses (negative regulation of NK and cytotoxic T cell activity and gamma-delta T cell activation). This suggests a cohesive theme of immune synapse formation and cell-contact signaling.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":20},{"id":"GO:0043031","count":20},{"id":"GO:0051963","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0046718","count":20}]},{"hash":"801642859425072191","title":"Complement Activation and Vascular Inflammation","description":"This cluster is dominated by GO terms for complement system activation across all major pathways (lectin, classical, alternative) and includes inflammatory and vascular-related processes (response to LPS, angiogenesis, blood pressure regulation, and plasminogen activation), suggesting a theme of innate immune activation linked to vascular remodeling and inflammatory signaling.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":17},{"id":"GO:0006958","count":17},{"id":"GO:0006957","count":14},{"id":"GO:0001701","count":14},{"id":"GO:0034392","count":14}]},{"hash":"2068496382059652796","title":"Gram-positive cell wall glycosylation and teichoic acid biosynthesis","description":"Most terms point to bacterial cell wall and polysaccharide biosynthesis: teichoic acid biosynthesis, cell wall organization, UDP-glucose metabolism, cellulose biosynthesis, and protein O-linked glycosylation via GalNAc/Ser/Thr\u2014patterns typical of Gram-positive cell wall glycosylation. Some terms like immunoglobulin production and hyaluronan biosynthesis are likely non-bacterial noise, but the dominant theme ties to Gram-positive cell wall biosynthesis and glycosylation.","confidence":"High","size":20,"edges":169,"triangles":823,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":15},{"id":"GO:0019350","count":11},{"id":"GO:0016266","count":9},{"id":"GO:0018242","count":9},{"id":"GO:0030244","count":9}]},{"hash":"1216315007987810045","title":"Mitosis and Chromatin Regulation","description":"This cluster is dominated by cell division and chromatin-related functions: cytological processes like mitosis, sister chromatid cohesion, CDK activity regulation, and establishment of protein localization to chromatin, plus DNA-templated transcription. Although there are some trafficking terms, the strongest signals point to cell-cycle\u2013driven chromatin regulation as the unifying theme.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007584","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0006351","count":3}]},{"hash":"2002159256529528153","title":"Neural synapse and BBB components","description":"This cluster centers on brain-related signaling and barrier biology, highlighted by GO terms for bicellular tight junction assembly and establishment of the glial blood-brain barrier, as well as neural transmission (nerve impulse, excitatory postsynaptic potential). Additional terms on membrane organization, trafficking, and excitability (endosome transport, membrane raft assembly, actin dynamics, membrane hyperpolarization) reinforce a cohesive theme of neuronal function and brain barrier integrity.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0060857","count":3},{"id":"GO:0019226","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0060079","count":2}]},{"hash":"1900526083486058647","title":"Unknown","description":"The top GO terms cover a mix of developmental, cardiac electrophysiology, respiration/ischemia-stress responses, memory, defecation rhythm, and germ-line maintenance, with no single dominant function tying the proteins together. The lack of cohesive theme or interactions suggests there isn\u2019t a clear shared role to name the cluster beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0060371","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0086016","count":2}]},{"hash":"1183579440305250052","title":"Skin ECM Remodeling and Angiogenesis","description":"The cluster is dominated by extracellular matrix organization and skin development terms, with endothelial tube lumen extension pointing to angiogenesis, plus proteolysis supporting matrix remodeling. These converging themes suggest coordinated remodeling of the skin ECM during vessel formation, with growth factor signaling included. Some immune-related terms appear but are less central to the main theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0030198","count":2},{"id":"GO:0006508","count":1},{"id":"GO:0030183","count":1}]},{"hash":"1563204426663939887","title":"mRNA Processing and Decay","description":"The top GO terms cluster around RNA lifecycle processes: deadenylation-dependent mRNA decay, pre-mRNA cleavage for polyadenylation, and splicing via the spliceosome, pointing to a core theme of mRNA maturation and turnover. While a few developmental signaling terms are present, the dominant signals are RNA processing-related, suggesting this cluster primarily represents RNA maturation/decay functions rather than a single developmental program. ","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0098789","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0021785","count":2},{"id":"GO:0048803","count":2}]},{"hash":"283778844545360008","title":"Embryonic and placental development","description":"The terms center on embryonic development and tissue morphogenesis, including placental and trophoblast differentiation, EMT in endocardial cushions, cartilage morphogenesis, left-right patterning, and endocrine/pancreatic lineages. A couple of RNA-processing terms are present but do not override the developmental theme. Therefore the cluster aligns best with embryonic and placental development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1423796613088524226","title":"Rho-Driven cytoskeletal remodeling and integrin signaling","description":"This cluster is dominated by GO terms linked to Rho protein signal transduction, lamellipodium and stress fiber dynamics, and integrin activation, pointing to actin cytoskeleton remodeling and cell adhesion/migration. Some sensory-related terms may be incidental, but the core theme is cytoskeletal regulation and adhesion signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0030032","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0051262","count":4}]},{"hash":"447698874468461627","title":"Actin Cytoskeleton Remodeling in Immune Cells","description":"The cluster is dominated by terms for actin cytoskeleton organization and the assembly of lamellipodia and filopodia, plus adhesion-dependent cell spreading and Rho signaling, all pointing to dynamic cytoskeletal remodeling and cell migration. Immune-related terms such as B cell affinity maturation and cytokine responses (interleukin-4 production and interleukin-7 signaling) suggest that these proteins participate in immune cell activation and interactions that depend on cytoskeletal remodeling. Some developmental terms (heart development, myelin maintenance) appear, but the strongest shared function is actin-driven remodeling in immune and migratory contexts.","confidence":"High","size":20,"edges":25,"triangles":9,"max_degree":6,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":15},{"id":"GO:0002344","count":14},{"id":"GO:0030032","count":14},{"id":"GO:0030036","count":14},{"id":"GO:0035023","count":14}]},{"hash":"719899333922385575","title":"Unknown","description":"No GO terms or functional connections are available for this cluster (no edges, no triangles, no top terms). Without a shared theme, I cannot assign a meaningful label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1135419291251544724","title":"Neural development and neuromuscular signaling","description":"This cluster centers on nervous system development and motor-neuron\u2013driven neuromuscular function, with proteins linked to somatic motor neuron differentiation, neuromuscular posture control, and neurofilament cytoskeleton organization, plus glutamate reuptake. The presence of sphingolipid biosynthesis (sphingosine and ceramide) suggests neuron membrane signaling roles and glial interactions (negative regulation of Schwann cell migration). Altogether, it frames a neural-developmental and neuromuscular signaling theme.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0046512","count":4},{"id":"GO:0050881","count":4},{"id":"GO:0051935","count":4},{"id":"GO:0046513","count":4},{"id":"GO:0044257","count":4}]},{"hash":"1597149293019461270","title":"Cardiac metabolism and GPCR signaling","description":"The cluster is enriched for mitochondrial energy processes (electron transport chain) and signaling pathways that regulate heart function and vascular tone, notably GPCR pathways that activate adenylate cyclase, along with terms for heart contraction and blood pressure regulation. Additional terms point to smooth muscle contraction and hormone secretion, consistent with a cardiometabolic signaling hub; immune and neurotrophic production terms may reflect broader systemic regulation but are secondary. This combination supports labeling as a cardiac energy/metabolic signaling cluster.","confidence":"High","size":20,"edges":59,"triangles":41,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":20},{"id":"GO:0010579","count":20},{"id":"GO:0045777","count":20},{"id":"GO:0014827","count":19},{"id":"GO:0070963","count":19}]},{"hash":"1221608037165055844","title":"Membrane Lipid Biosynthesis and Trafficking","description":"This cluster is dominated by lipid metabolism terms (very long-chain fatty acid, long-chain fatty-acyl-CoA, unsaturated fatty acids, sphingolipid biosynthesis) and endomembrane trafficking (post-Golgi vesicle transport, multivesicular body sorting to vacuole). The overlap suggests proteins involved in membrane lipid synthesis linked to vesicular transport; organism-specific terms like courtship behavior, pheromone metabolism, and swim bladder development may reflect broader regulatory contexts but do not override the core lipid/trafficking theme.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0042761","count":9},{"id":"GO:0042810","count":8},{"id":"GO:0030148","count":8},{"id":"GO:0006892","count":8},{"id":"GO:0035338","count":8}]},{"hash":"19709093471230703","title":"Neural development and inflammatory S1P signaling","description":"The cluster includes brain and spleen development, neuromuscular/posture control, neurofilament organization, calcium signaling, inflammatory response, and sphingosine-1-phosphate signaling, suggesting a link between neural development and inflammatory lipid signaling.","confidence":"Medium","size":20,"edges":187,"triangles":1088,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0048536","count":3},{"id":"GO:0050884","count":3},{"id":"GO:0060052","count":3}]},{"hash":"1102178287502227285","title":"Neuroendocrine-immune signaling cluster","description":"The GO terms point to hormone secretion and autonomic regulation of muscle contraction (intestinal smooth muscle and heart) alongside immune and inflammatory processes (IL-1\u03b2 regulation, neutrophil killing), morphine response, and endothelial barrier modulation, suggesting a cohesive theme of neuroendocrine signaling coordinating immune, vascular, and nervous system functions.","confidence":"Medium","size":20,"edges":9,"triangles":4,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":18},{"id":"GO:0070963","count":18},{"id":"GO:0046879","count":18},{"id":"GO:0001997","count":18},{"id":"GO:0071417","count":18}]},{"hash":"1343490765020327401","title":"Systemic physiological regulation","description":"The terms cluster around broad regulatory roles affecting multiple tissues, including hormone secretion, modulation of heart and intestinal smooth muscle contraction, immune signaling (IL-1\u03b2 production, neutrophil killing), endothelial barrier regulation, and neurotrophic factor production. This suggests a high-level theme of systemic regulatory processes rather than a single, cohesive pathway, yielding a moderate confidence in this label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":4},{"id":"GO:0070963","count":4},{"id":"GO:0046879","count":4},{"id":"GO:0001997","count":4},{"id":"GO:0071417","count":4}]},{"hash":"1932336967567090070","title":"Calcium-dependent neuronal signaling and dopamine release","description":"The cluster\u2019s top GO terms converge on neural communication and excitability, including regulation of nerve impulse transmission, excitatory postsynaptic potentials, action potentials, reflexes, and calcium import, plus dopamine secretion and neuroprotective regulation of neuron survival. This points to calcium-triggered secretory and synaptic processes, with a strong emphasis on dopaminergic signaling and fast neural responses, despite one term related to acrosome reaction\u2014overall a coherent neuronal signaling theme.","confidence":"High","size":20,"edges":187,"triangles":1089,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":20},{"id":"GO:0060013","count":18},{"id":"GO:0098703","count":18},{"id":"GO:2000344","count":18},{"id":"GO:0060079","count":18}]},{"hash":"1940789189522237363","title":"Innate immune activation and phagocytosis","description":"The terms cluster around inflammatory and immune effector processes: complement activation via the lectin pathway, Fc-gamma receptor signaling, recognition and uptake of particles (phagocytosis), regulation of adhesion molecules, and lipid mediator (arachidonate) release, with related platelet activation and inflammation-related lymphatic remodeling. This pattern points to a module coordinating innate/adaptive immune activation with phagocytic and adhesive responses. ","confidence":"High","size":20,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":19},{"id":"GO:0006910","count":19},{"id":"GO:0071226","count":19},{"id":"GO:0036303","count":19},{"id":"GO:0060355","count":19}]},{"hash":"696765356195421529","title":"Neural Signaling and Visual Perception","description":"The top GO terms point to receptor internalization and recycling (trafficking), intracellular signal transduction, and excitatory postsynaptic potentials, indicating synaptic signaling in neurons. Additionally, detection of light stimulus involved in visual perception suggests involvement in photoreceptor/visual pathways. Ion transmembrane transport supports neuronal excitability, tying together signaling and vision functions as a cohesive cluster.","confidence":"High","size":19,"edges":24,"triangles":18,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031623","count":8},{"id":"GO:0001919","count":8},{"id":"GO:0050908","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0035725","count":7}]},{"hash":"1185600981733158431","title":"Proteostasis and cytoskeleton remodeling in differentiating cells","description":"The top GO terms cluster around protein turnover (ubiquitination, proteasome assembly) and protein interactions (homooligomerization) with cytoskeletal organization (actin filament bundles) and differentiation processes (skeletal muscle differentiation, epithelial polarity). This suggests a theme where proteostasis and cytoskeletal dynamics are coordinated during cell differentiation. A few signaling and sensory terms appear, but they seem less central to the core cluster.","confidence":"Medium","size":19,"edges":78,"triangles":91,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0070682","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0050853","count":3}]},{"hash":"662806422721628651","title":"Rho/Rac-driven cytoskeletal and integrin signaling","description":"This cluster centers on Rho and Rac-mediated signaling, actin dynamics (filopodium formation), and integrin activation/signaling, with related terms for cell junction assembly and morphogenesis, plus links to synaptic plasticity. The shared theme is cytoskeletal remodeling coordinated with cell adhesion and integrin-mediated signaling, spanning both junctional and neuronal contexts.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0046847","count":10},{"id":"GO:0016601","count":10},{"id":"GO:0033623","count":8},{"id":"GO:0033622","count":8}]},{"hash":"332288799462020693","title":"Innate immune and neural development signals","description":"The top GO terms are dominated by innate immune and defense-related processes (innate immune response, defense response to virus and Gram-positive bacteria), indicating this cluster is largely immune-related. Among the terms there are also neural-related ideas (positive regulation of synapse assembly, corpus callosum development), suggesting some members link immune signaling with neural development or neural-immune crosstalk. Additional terms like vitamin D response and phosphatidylinositol dephosphorylation point to signaling pathways that can modulate immune and neural functions. Overall, the cluster seems best described as innate immune signaling with links to neural development.","confidence":"Medium","size":19,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0071260","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0043488","count":4}]},{"hash":"321154099662770324","title":"Vertebrate Development and Transcription Regulation","description":"This cluster centers on vertebrate organ development (forebrain, retina, skeletal system) and multicellular development, along with DNA-templated transcription, suggesting a set of transcription regulators guiding developmental programs. An isolated immune-defense term may be incidental.","confidence":"High","size":19,"edges":11,"triangles":3,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0006349","count":6},{"id":"GO:0007338","count":6}]},{"hash":"1936146051231211406","title":"Ubiquitin-mediated proteostasis and transcription","description":"The cluster\u2019s top GO terms cluster around ubiquitin biology: several deubiquitination activities (monoubiquitinated protein deubiquitination, K11-, K48-, K63-linked deubiquitination, and free ubiquitin chain depolymerization) and ERAD-related maintenance, plus RIPoptosome assembly in necroptosis. This points to regulation of protein turnover via ubiquitin signaling and protein quality control. The presence of DNA-templated transcription suggests transcriptional regulation or pleiotropy, which is commonly linked to ubiquitin pathways that modify transcription factors. A few neural/behavior terms (righting reflex, adult feeding behavior) could reflect broader regulatory roles or annotation noise. Overall, the core theme is ubiquitin-mediated proteostasis with transcriptional regulation as a secondary facet. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0060013","count":4},{"id":"GO:0035520","count":4},{"id":"GO:0035871","count":4},{"id":"GO:1904378","count":4}]},{"hash":"1756636783949682434","title":"Developmental ECM remodeling and signaling","description":"The top terms center on extracellular matrix organization (collagen fibril organization, cuticle/molting cycle), embryonic development, and growth-related signaling pathways (VEGF, IGF receptor signaling), plus cell migration. This points to a core theme of ECM-driven developmental remodeling and associated signaling, with a few immune/metabolic terms appended that may intersect these processes.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0030199","count":8},{"id":"GO:0018996","count":8},{"id":"GO:0043569","count":7},{"id":"GO:0010748","count":7}]},{"hash":"263775968933819839","title":"Epithelial polarity and stress-response signaling","description":"This cluster centers on epithelial cell behavior (establishment of polarity, cell migration) and mechanisms of cellular stress and signaling (mechanotransduction, ubiquitination, NOD2 signaling, apoptosis, differentiation, and RNA processing). While diverse, the shared themes are epithelial dynamics and stress/immune response pathways, suggesting a broad epithelial-stress signaling role rather than a single, narrow function. Confidence: Medium","confidence":"","size":19,"edges":45,"triangles":24,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0097284","count":4},{"id":"GO:0016567","count":4}]},{"hash":"798772049685975054","title":"Developmental differentiation and transcription regulation","description":"The cluster\u2019s top GO terms span embryonic and germline development (preblastoderm mitotic cell cycle regulation, syncytial nuclear migration, germarium and egg chamber structures), plus immune and muscle-related differentiation (macrophage/granulocyte differentiation, embryonic skeletal system development, negative regulation of muscle development) and transcriptional regulation. This points to a set of proteins involved in controlling gene expression during development across multiple lineages, rather than a single pathway, so a broad label focused on development and differentiation fits best.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":10},{"id":"GO:0043249","count":8},{"id":"GO:0030708","count":8},{"id":"GO:0035190","count":8},{"id":"GO:0030851","count":8}]},{"hash":"1669152161636961387","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":113,"triangles":308,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":8},{"id":"GO:0000462","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0000463","count":8},{"id":"GO:0000466","count":7}]},{"hash":"953813562102369940","title":"Embryonic development and tissue morphogenesis","description":"These terms indicate broad involvement in development and morphogenesis across tissues (placental differentiation, trophoblast lineage, cartilage morphogenesis, and EMT during heart and endocardial cushion formation). The presence of left-right patterning and endocrine system development supports a developmental/regulatory theme rather than a single pathway. Although one term is immune-related (B cell receptor signaling), the dominant pattern is embryonic development and organogenesis.","confidence":"Medium","size":19,"edges":10,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0035270","count":6}]},{"hash":"662127405641061489","title":"Ubiquitin-Proteasome System and Interferon Signaling","description":"This cluster centers on ubiquitin-mediated protein modification and degradation, highlighted by multiple ubiquitin linkage terms (K27, K11, K63) and SCF-dependent proteasomal catabolic processes, indicating strong involvement in the ubiquitin-proteasome system. The presence of a cellular response to interferon-beta suggests a link to immune signaling, while other terms may reflect broader regulatory roles of ubiquitination across cellular compartments, including peroxisomes and synapse-related processes. Overall, the common theme is ubiquitin signaling coupled to proteasome-driven turnover.","confidence":"High","size":19,"edges":94,"triangles":229,"max_degree":18,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0044314","count":19},{"id":"GO:0070979","count":19},{"id":"GO:0070534","count":19},{"id":"GO:0035458","count":19},{"id":"GO:0051965","count":19}]},{"hash":"2213599874762322191","title":"Developmental Differentiation Signaling","description":"This cluster is enriched for GO terms related to development and differentiation across multiple tissues (heart, endocrine system, trophoblast, dendritic cell), with accompanying signaling pathway regulation (B cell receptor signaling, Rho signaling). The unifying theme is developmental differentiation and associated signaling rather than a single fixed molecular function.","confidence":"Medium","size":19,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1179097482939773167","title":"Cardiovascular development and redox response","description":"The cluster centers on heart development and vascular traits (blood vessel diameter maintenance, oxygen transport, platelet aggregation) alongside oxidative stress responses (hydrogen peroxide detoxification/response and nitrosative stress). These together suggest a cohesive theme of cardiovascular development paired with redox/homeostatic mechanisms, though a few terms (e.g., nitrogen fixation, endocytosis) may reflect broader or cross-species annotations. ","confidence":"Medium","size":19,"edges":69,"triangles":128,"max_degree":15,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0042744","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0009399","count":7},{"id":"GO:0051409","count":7}]},{"hash":"938472471644374631","title":"Antiviral Immune Signaling and Cytokine Secretion","description":"This cluster is enriched for GO terms related to defense against virus, interferon response, and IL-18 production, which point to antiviral immune signaling and cytokine secretion. Additional terms for Golgi organization, ER membrane fusion, and microtubule dynamics align with intracellular trafficking and secretory pathways needed to process and release cytokines. Some neural-related terms appear, but the dominant pattern centers on immune signaling and cytokine secretion.","confidence":"Medium","size":19,"edges":37,"triangles":10,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0016320","count":6},{"id":"GO:0071158","count":6},{"id":"GO:0007019","count":6},{"id":"GO:0051607","count":6}]},{"hash":"1968106856164646254","title":"Oocyte Meiosis and Spindle Assembly","description":"The top GO terms emphasize oocyte maturation, spindle assembly during female meiosis I, and ubiquitin-proteasome\u2013mediated protein degradation, all pointing to tightly coordinated regulation of meiosis and cell-cycle progression in oocytes, supported by microtubule dynamics. Some neural-development terms appear, but the strongest signal centers on meiosis-related processes and proteolysis.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":14},{"id":"GO:0031146","count":14},{"id":"GO:0021678","count":12},{"id":"GO:0006516","count":12},{"id":"GO:0008285","count":12}]},{"hash":"2158664553705177943","title":"ER stress\u2013induced apoptosis and cytokine signaling","description":"The cluster shows strong enrichment for unfolded protein response and endoplasmic reticulum (ER) stress\u2013related terms (UPR transcription regulation, ER-stress\u2013triggered apoptotic signaling) and also includes immune-related processes (cytokine production, IL-4 response, interferon production, MHC II biosynthesis). This pattern suggests a coherent ER stress\u2013driven apoptotic and immune signaling program. Some terms appear peripheral or obsolete, but the core theme remains ER stress\u2013apoptosis\u2013immunity. ","confidence":"High","size":19,"edges":73,"triangles":139,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006990","count":13},{"id":"GO:1990440","count":13},{"id":"GO:0070059","count":12},{"id":"GO:0071353","count":12},{"id":"GO:0045078","count":11}]},{"hash":"1298776233086650502","title":"Neural development and synaptic signaling with innate immunity","description":"The terms point to neural development (optic nerve morphogenesis, notochord development) and synaptic biology (positive regulation of synapse assembly, trans-synaptic signaling, long-term synaptic plasticity), along with an innate immune signaling component (MyD88-dependent TLR4 pathway, negative regulation of IL-2 production). This suggests a cluster of proteins involved in development and modulation of neural circuits, with some immune-signaling cross-talk.","confidence":"Medium","size":19,"edges":66,"triangles":90,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007527","count":6},{"id":"GO:0035660","count":6},{"id":"GO:0006355","count":6},{"id":"GO:0032703","count":4},{"id":"GO:0021631","count":4}]},{"hash":"398388827213856041","title":"Cytoskeletal dynamics and GTPase signaling","description":"Based on the top GO terms, the cluster is centered on lamellipodium assembly and small GTPase\u2013mediated signal transduction, with positive regulation of GTPase activity, pointing to actin cytoskeleton remodeling governed by GTPases. Additional terms for innate immune response, defense against virus, and ROS/stress responses (cadmium, hydrogen peroxide) suggest a link between cytoskeletal dynamics and defense signaling. The presence of photosynthesis and mitotic cell cycle terms adds some heterogeneity, but the core theme remains cytoskeletal signaling and stress-related responses.","confidence":"Medium","size":19,"edges":82,"triangles":125,"max_degree":15,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030032","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0015979","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0071276","count":3}]},{"hash":"1127900104023368031","title":"Nucleotide and Coenzyme Biosynthesis & Phosphorylation","description":"This cluster is dominated by terms tied to biosynthesis of nucleotides and cofactors (CoA, NAD+, CDP, ADP, AMP salvage) and associated phosphorylation steps, pointing to a shared function in energy metabolism and nucleotide cofactor production. While developmental terms such as liver and brain development appear, the dominant signal remains metabolic; thus the label reflects the core function of the cluster.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0015937","count":10},{"id":"GO:0016310","count":10},{"id":"GO:0046940","count":9},{"id":"GO:0046939","count":9},{"id":"GO:0009435","count":6}]},{"hash":"1282248943979879881","title":"Synaptic Localization and Neural Signaling","description":"The cluster is driven by GO terms centered on protein localization to the synapse and neural signaling (protein localization to synapse; regulation of JNK cascade; grooming behavior), which points to roles in synaptic assembly/maintenance and neuronal communication. While other terms touch on polarity and metabolism, the strongest signal is neural/synaptic function, supporting a label focused on synaptic localization and signaling.","confidence":"Medium","size":19,"edges":102,"triangles":278,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":18},{"id":"GO:0046328","count":18},{"id":"GO:0071847","count":18},{"id":"GO:0046037","count":18},{"id":"GO:2000821","count":18}]},{"hash":"1531254285479352805","title":"Histone modification and chromatin assembly","description":"The prominent GO terms are histone modifications (H3-K27/K4 methylation, acetylation) and nucleosome assembly, plus transcriptional regulation and cell-cycle-associated processes (centrosome cycle, spindle assembly). This suggests a cohesive module of chromatin modifiers and assembly factors linking chromatin state to gene expression and cell division, with readouts in development.","confidence":"High","size":19,"edges":119,"triangles":365,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007098","count":5},{"id":"GO:0098532","count":5},{"id":"GO:0007399","count":4},{"id":"GO:1901674","count":4},{"id":"GO:0080182","count":4}]},{"hash":"546155344815248571","title":"Neural Development and Synaptic Function","description":"Based on the GO terms, forebrain development, neuroblast fate commitment, neuron-neuron synaptic transmission, and segment specification cluster around nervous system development and neuronal signaling. Although there are a couple of mitochondrial terms, the neural development terms appear to dominate, making a neural development/synaptic function label most representative.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":1},{"id":"GO:0006120","count":1},{"id":"GO:1903999","count":1},{"id":"GO:0090361","count":1},{"id":"GO:0007379","count":1}]},{"hash":"1660928020274044923","title":"RNA Modification and Processing (tRNA/rRNA)","description":"Enriched GO terms center on RNA modification: tRNA methylation, tRNA thio-modification, rRNA guanine-N7 methylation, and cytidine-to-uridine editing, suggesting a core function in RNA maturation and processing. Additional terms for transcription and viral process appear less frequently and may reflect broader cellular roles, with some proteins linked to deubiquitination and metabolism (thiamine biosynthesis) as context rather than defining features. Overall, the cluster seems to represent RNA modification/editing proteins.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0016032","count":1},{"id":"GO:0016554","count":1},{"id":"GO:0009229","count":1},{"id":"GO:0070476","count":1}]},{"hash":"1874818145600117630","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues (face, skeletal, respiratory system, smooth muscle, placental differentiation) and cell migration, suggesting a general embryonic morphogenesis theme. Some terms about protein targeting to membranes and unfolded protein response may reflect secretory pathway activity during development, but overall it aligns with embryonic morphogenesis rather than a single pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060324","count":3},{"id":"GO:0010761","count":3},{"id":"GO:0071218","count":3},{"id":"GO:0006616","count":3},{"id":"GO:0071243","count":3}]},{"hash":"441776904017084376","title":"Secretory Vesicle Regulation and Signaling","description":"This cluster is enriched for GO terms centered on secretory and vesicle-related processes (neurotransmitter secretion, synaptic vesicle priming, acrosome reaction, neutrophil degranulation) and on regulation of signaling pathways (Rho and Ras) that influence vesicle trafficking and cytoskeletal dynamics, together with some vascular development terms. This suggests a unifying theme around controlled secretion and vesicle dynamics across different cell types, with ancillary links to cell movement and signaling. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0007269","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0035023","count":3}]},{"hash":"407422680585470101","title":"Mitochondrial respiration and energy production","description":"The GO terms point strongly to mitochondrial oxidative phosphorylation, with electron transport (ubiquinol to cytochrome c), proton transmembrane transport, and aerobic respiration as the core signals. Some terms appear unrelated (viral processes, symbiont entry), likely annotation noise or broad terms, but the dominant theme remains mitochondrial energy metabolism.","confidence":"High","size":19,"edges":100,"triangles":265,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":3},{"id":"GO:1902600","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0051289","count":2}]},{"hash":"1793532801104342838","title":"Mitotic Chromosome Dynamics","description":"The dominant terms point to chromosome maintenance and segregation during mitosis (mitotic cell cycle, CENP-A chromatin assembly, microtubule severing, Okazaki fragment processing in mitotic replication, DNA-templated transcription, and cell division), with some ancillary processes like rRNA maturation and ER-Golgi trafficking likely representing broader cellular housekeeping. This supports a cohesive theme around mitotic chromosome organization and spindle dynamics.","confidence":"High","size":19,"edges":19,"triangles":4,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0051301","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0051260","count":5},{"id":"GO:0051013","count":5}]},{"hash":"432317878383965489","title":"P-body Assembly and Translational Regulation","description":"The GO terms cluster around RNA processing bodies (P-bodies), including P-body assembly, negative regulation of cytoplasmic P-body assembly, deadenylation-dependent decapping, negative regulation of translational initiation, and mRNA capping. These collectively point to post-transcriptional control of gene expression via mRNA decay and translation regulation. Some other terms (hair follicle maturation, muscle regeneration, insulin signaling) may reflect broader tissue contexts but do not redefine the core RNA-processing theme.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":2},{"id":"GO:0010607","count":2},{"id":"GO:0045947","count":2},{"id":"GO:0000290","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2101900024006989087","title":"Ribosome biogenesis and rRNA maturation","description":"This cluster is dominated by terms for translation, maturation of LSU- and SSU-rRNA, ribosome biogenesis, and snoRNP/snoRNA-associated RNA processing, indicating a core function in ribosome assembly and RNA modification/processing that supports translation. Some peripheral terms (splicing regulation, JNK signaling, selenocysteine incorporation) may reflect broader RNA metabolism or signaling links, but the central theme is ribosome production and rRNA maturation.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000470","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0006417","count":3},{"id":"GO:0000462","count":3}]},{"hash":"1265412201736860981","title":"Redox Homeostasis and Myogenesis/Adipogenesis","description":"This cluster is enriched for oxidative stress response and detoxification (cell redox homeostasis; cellular oxidant detoxification) and for differentiation of fat cells and muscle lineage (fat cell differentiation; myotube differentiation; myoblast proliferation). The additional terms for xenobiotic response and vasodilation support a broader role in stress response and tissue remodeling, tying redox balance to adipogenic and myogenic differentiation. ","confidence":"High","size":19,"edges":122,"triangles":480,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":13},{"id":"GO:0098869","count":13},{"id":"GO:0055114","count":6},{"id":"GO:0030416","count":6},{"id":"GO:0045444","count":6}]},{"hash":"1189072710996019181","title":"RNA Pol II Transcription Regulation","description":"The cluster is enriched for GO terms tied to transcription control by RNA polymerase II, including regulation of DNA-templated transcription, transcription initiation at RNA polymerase II promoter, and snRNA transcription by RNA polymerase II. This suggests a core group of transcription factors or co-regulators. Other terms such as spindle assembly and reproductive tissue development hint at broader regulatory roles in cell cycle and development, but the dominant signal is Pol II\u2013driven transcription regulation.","confidence":"Medium","size":19,"edges":135,"triangles":638,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":7},{"id":"GO:0051225","count":5},{"id":"GO:0006367","count":4},{"id":"GO:0042795","count":4},{"id":"GO:0032911","count":4}]},{"hash":"649721359719490552","title":"Hormone receptor signaling and circadian gene regulation","description":"The proteins cluster around nuclear receptor\u2013mediated transcription in response to hormones (thyroid hormone, glucocorticoids) and circadian control of gene expression, with related xenobiotic/drug response terms. This suggests a coherent theme of hormone signaling and rhythmic transcription, with some developmental and stress-related processes linked as downstream effects.","confidence":"High","size":19,"edges":6,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1904017","count":18},{"id":"GO:0032922","count":18},{"id":"GO:0009410","count":18},{"id":"GO:0060713","count":18},{"id":"GO:0042634","count":18}]},{"hash":"909371141012579655","title":"Embryonic development and morphogenesis","description":"The GO terms cluster around embryonic tissue formation across multiple organs\u2014chondrocyte differentiation, ureteric bud branching, palate and gonad development\u2014along with regulatory signaling like BMP, EMT, and endothelial migration, indicating a cohesive theme of developmental morphogenesis.","confidence":"High","size":19,"edges":147,"triangles":665,"max_degree":18,"top_function":"wound healing","top_go_terms":[{"id":"GO:0002062","count":11},{"id":"GO:0001658","count":10},{"id":"GO:0060021","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0048146","count":8}]},{"hash":"1144483117654989729","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0031274","count":2},{"id":"GO:0007254","count":2}]},{"hash":"1300525805492813999","title":"Protein processing and organelle trafficking","description":"This cluster is driven by terms related to maturation and handling of proteins (protein processing, proteasome assembly, protein hexamerization) and their intracellular targeting/trafficking (inter-Golgi vesicle transport, SNARE complex disassembly, mitochondrial inner membrane insertion). While a couple terms (UV repair, mtDNA replication regulation) are less directly related, the dominant theme centers on protein maturation, assembly, and proper localization within cellular organelles. ","confidence":"Medium","size":19,"edges":139,"triangles":535,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0016485","count":2},{"id":"GO:0048219","count":2},{"id":"GO:0070914","count":2},{"id":"GO:0090296","count":2},{"id":"GO:0070682","count":2}]},{"hash":"704696117769130689","title":"Notch-regulated thymocyte development and leukocyte migration","description":"The cluster\u2019s strongest signals are thymus-related: positive regulation of T cell differentiation in thymus, thymocyte migration, and lymphocyte chemotaxis, along with Notch receptor processing. This points to a core function in Notch-regulated thymic T cell development and leukocyte trafficking. Some terms (VEGF signaling, heart trabecula formation) suggest broader developmental signals but do not override the immune-focused theme. ","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090331","count":18},{"id":"GO:2000415","count":18},{"id":"GO:1900121","count":18},{"id":"GO:2000418","count":18},{"id":"GO:1900748","count":18}]},{"hash":"384965734191754246","title":"Aromatic Compound Degradation and Detoxification","description":"The top GO terms point to catabolic processes for aromatic compounds (beta-ketoadipate pathway, 3-phenylpropionate and stilbene catabolism) along with detoxification-related processes (cellular oxidant detoxification, response to toxic substance). Additional terms for antibiotic biosynthesis, nitrogen utilization, and menaquinone biosynthesis suggest a broader metabolic context tied to energy, redox balance, and secondary metabolism. Together, these terms indicate a cohesive theme of aromatic compound degradation and associated detoxification pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0019740","count":1},{"id":"GO:0019380","count":1}]},{"hash":"272483003438652314","title":"Mitochondrial Translation and Electron Transport","description":"The top GO terms cluster around mitochondrial gene expression and energy production: mitochondrial translation, assembly of respiratory chain complex I, NADH to ubiquinone electron transport, cytochrome c\u2013related apoptosis signals, and protein lipoylation, with hints of hypoxia response. This cohesively points to proteins involved in mitochondrial translation and oxidative phosphorylation, occasionally linked to apoptotic regulation.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0032981","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0090200","count":1}]},{"hash":"83767113046316487","title":"Spliceosome Components and RNA Processing","description":"This cluster is dominated by splicing- and RNA-processing terms (mRNA splicing via spliceosome, spliceosomal complex/snRNP assembly, tRNA processing, rRNA maturation), with additional signals related to translation initiation regulation. The core theme appears to be spliceosome/RNA-processing machinery, possibly with cross-talk to translation initiation.","confidence":"Medium","size":19,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1904667","count":2}]},{"hash":"2133765824444911011","title":"Unknown","description":"The top GO terms are highly diverse, including neural guidance, hormone signaling, cell-matrix adhesion, thyroid hormone response, plant phloem development, immune cell homeostasis, and differentiation in cardiac and nephron tissues. This mix spans multiple organisms and biological contexts with no clear, single underlying function tying the cluster together, so a concise representative label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008045","count":6},{"id":"GO:0060396","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0097067","count":5},{"id":"GO:0030579","count":5}]},{"hash":"487764774477267749","title":"Neural Development and Synapse Formation","description":"GO terms indicate neural development and connectivity processes, including myelination, synapse assembly, axon guidance, nervous system development, and cell adhesion. Although a wing disc patterning term appears, the dominant signal is neural development and synapse formation, suggesting proteins involved in neural connectivity. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0048096","count":2},{"id":"GO:0048190","count":2},{"id":"GO:0030308","count":2}]},{"hash":"1223892948787562356","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009555","count":1},{"id":"GO:2000042","count":1},{"id":"GO:0033045","count":1},{"id":"GO:0043007","count":1},{"id":"GO:0000732","count":1}]},{"hash":"1341686028419903811","title":"Embryonic Organ Morphogenesis","description":"All top GO terms point to developmental morphogenesis across multiple organs (brain regions, sensory structures like the cochlea, facial/trigeminal nerves, kidney structures, skeletal and nail morphogenesis). This suggests a general theme of embryonic organ formation rather than a single specific pathway, hence the label Embryonic Organ Morphogenesis.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021723","count":19},{"id":"GO:0022037","count":19},{"id":"GO:0090103","count":19},{"id":"GO:1900212","count":19},{"id":"GO:0021754","count":19}]},{"hash":"1232074969809088592","title":"Olfactory system development","description":"This cluster is dominated by GO terms for olfactory placode morphogenesis and olfactory nerve formation, suggesting a cohesive role in olfactory system development. The glycosylation-related terms (protein sialylation, N-glycan processing, glycosylceramide metabolism, etc.) likely reflect membrane and receptor maturation processes relevant to neural development, supporting the theme. Occasional pollen-related terms may reflect cross-species annotation noise, but the olfactory development signal remains strongest.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071699","count":4},{"id":"GO:0021628","count":4},{"id":"GO:1990743","count":3},{"id":"GO:0001574","count":3},{"id":"GO:0009860","count":3}]},{"hash":"1859916565258683662","title":"Craniofacial skeleton and sensory organ morphogenesis","description":"Top GO terms show diverse embryonic morphogenesis in craniofacial structures (palate, cranial skeleton), neural/cranial nerves (trigeminal, oculomotor), and sensory organs (retina, inner ear), plus neural survival regulation. This indicates a cohesive theme of head development and sensory-neural morphogenesis, justifying a concise label for the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0008584","count":8},{"id":"GO:0021559","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0035115","count":7}]},{"hash":"1817050043519705802","title":"Ribosome Biogenesis and Translation","description":"These proteins cluster around core functions of ribosome production and protein synthesis: translation (GO:0006412), ribosome biogenesis and large subunit assembly (GO:0042273, GO:0042254, GO:0000027), and related RNA processing steps (rRNA maturation, export, and intron/splicing activities). The pattern points to a cohesive group of ribosome biogenesis factors and translation machinery, with a potential minor link to antibiotic response under stress. ","confidence":"High","size":19,"edges":156,"triangles":755,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0046677","count":5},{"id":"GO:0042273","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000027","count":4}]},{"hash":"443532576076634993","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The top GO terms cluster around spliceosome activity and mRNA processing\u2014negative regulation of splicing, splice-site recognition, alternative splicing via the spliceosome, and processome assembly\u2014pointing to RNA processing and splicing regulation as the core function. Additional terms on translational initiation and ncRNA-mediated silencing suggest broader RNA regulatory roles, but the dominant theme remains spliceosome-driven splicing regulation.","confidence":"High","size":19,"edges":32,"triangles":20,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0075522","count":3}]},{"hash":"708337894661441899","title":"Embryonic craniofacial, neural crest, and organ morphogenesis","description":"The terms point to broad embryonic development of multiple tissues, especially craniofacial structures (roof of mouth, cranial skeleton), neural crest derivatives (neural crest formation, trigeminal nerve development), sensory organs (retina, inner ear), limb morphogenesis, muscle precursor development, and gonad/kidney morphogenesis. This reflects a general morphogenetic program during embryogenesis rather than a single pathway, supporting a label focused on embryonic morphogenesis across tissues.","confidence":"Medium","size":19,"edges":114,"triangles":277,"max_degree":16,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0042472","count":11},{"id":"GO:0048701","count":11},{"id":"GO:0021559","count":10},{"id":"GO:0014029","count":10}]},{"hash":"2286017978467770875","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":93,"triangles":220,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009113","count":4},{"id":"GO:0046835","count":4},{"id":"GO:0002943","count":3},{"id":"GO:0014850","count":3}]},{"hash":"751149959791554178","title":"Neural and sensory organ development","description":"These proteins show a strong enrichment for nervous system and sensory structure development, including visual perception, retinal ganglion and motor neuron axon guidance, cerebellum and inner ear development. While other terms (heart, placenta) appear, the dominant theme is neural/sensory morphogenesis, supporting this label.","confidence":"High","size":19,"edges":16,"triangles":3,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0007275","count":13},{"id":"GO:0021549","count":12},{"id":"GO:0001890","count":12}]},{"hash":"891206051260710370","title":"Lung Branching Morphogenesis & ECM Remodeling","description":"The top GO terms cluster around branching morphogenesis in the lung (lung epithelial tube branching) and the remodeling of the extracellular matrix, including basement membrane disassembly and collagen catabolic processes. This suggests the proteins collectively participate in airway branching during lung development and associated ECM remodeling. Some terms are broader or obsolete, but the core signal centers on morphogenesis driven by ECM dynamics.","confidence":"High","size":19,"edges":110,"triangles":377,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060448","count":11},{"id":"GO:0050790","count":11},{"id":"GO:0034769","count":11},{"id":"GO:0051603","count":11},{"id":"GO:0030574","count":11}]},{"hash":"1400691060542136815","title":"Mitosis, cell cycle, and ribosome export","description":"This cluster shows strong enrichment for mitosis-related terms (mitotic cell cycle, exit from mitosis, division septum assembly) indicating a core association with cell division processes. It also features ribosome-related terms (cytoplasmic translation, ribosomal large subunit export from nucleus) and protein heterooligomerization, suggesting concurrent roles in protein synthesis and complex assembly essential during cell division. A minority of terms relate to non-motile cilium assembly and cellular response to amino acid starvation, which appear as secondary connections rather than primary themes.","confidence":"Medium","size":19,"edges":88,"triangles":163,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":12},{"id":"GO:0051301","count":12},{"id":"GO:0000055","count":12},{"id":"GO:0010458","count":12},{"id":"GO:0000917","count":12}]},{"hash":"1577817225108063234","title":"Axon guidance and synapse formation","description":"This cluster is dominated by neural development and synaptic signaling terms (optic nerve morphogenesis, fasciculation of motor neuron axon, positive regulation of synapse assembly, trans-synaptic signaling, and ephrin receptor signaling), pointing to roles in axon pathfinding and synapse formation. Some terms like myotube differentiation, apoptotic process, and activated T cell proliferation appear as broader or context signals, but the core theme centers on neural connectivity and synaptic assembly.","confidence":"Medium","size":19,"edges":5,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021631","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0060044","count":6},{"id":"GO:0097156","count":6},{"id":"GO:0014902","count":6}]},{"hash":"422536759040357321","title":"GPCR Signaling and Second Messenger Cascades","description":"This cluster is dominated by GO terms tied to G protein-coupled receptor signaling and second messenger generation. Multiple terms point to GPCR pathways activating adenylyl cyclase or guanylyl cyclase to produce cAMP and cGMP, including adenosine receptor signaling and adrenergic receptor signaling, plus related intracellular signal transduction and downstream transcription regulation. The presence of blue light signaling and hypoxia detection suggests integration with sensory signaling, but the core theme remains GPCR-driven signal transduction.","confidence":"High","size":19,"edges":120,"triangles":393,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":19},{"id":"GO:0001973","count":19},{"id":"GO:0006171","count":19},{"id":"GO:0007168","count":19},{"id":"GO:0070483","count":19}]},{"hash":"2248350830620725005","title":"UV-induced DNA repair and transcription regulation","description":"The top GO terms center on transcription-coupled nucleotide-excision repair and pyrimidine dimer repair, plus responses to UV-B and UV-C, pointing to a cohesive theme of DNA damage repair in response to UV exposure. A few developmental/regulatory terms appear, but the dominant signal is UV-related DNA repair and transcriptional control.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":5},{"id":"GO:0010224","count":5},{"id":"GO:0061178","count":5},{"id":"GO:1901666","count":5},{"id":"GO:0000720","count":5}]},{"hash":"200269723738501224","title":"Centrosome cycle and transcription regulation","description":"This cluster prominently features centrosome-related terms (centrosome cycle; negative regulation of protein localization to centrosome) along with transcription and chromatin regulation (DNA-templated transcription; regulation of histone acetylation), suggesting a module linking centrosome function to gene expression control. Additional terms related to autophagy, ERAD, immune/MHC processes, and heart development are present but less cohesive with the core theme.","confidence":"Medium","size":19,"edges":130,"triangles":508,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000289","count":6},{"id":"GO:1904780","count":6},{"id":"GO:0045347","count":5},{"id":"GO:0044829","count":5},{"id":"GO:0007098","count":4}]},{"hash":"1993401296911051798","title":"ER-to-Golgi COPI Vesicle Trafficking","description":"The top GO terms cluster around protein retention in the ER lumen, regulation of ER exit, COPI-coated vesicle budding/coating, and Golgi ribbon formation, all pointing to a shared role in ER-to-Golgi transport and Golgi organization. A few developmental terms appear but do not define the core function; the dominant signal is COPI-mediated trafficking between ER and Golgi.","confidence":"High","size":19,"edges":124,"triangles":402,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":3},{"id":"GO:0070863","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0035964","count":2},{"id":"GO:0090161","count":2}]},{"hash":"1833186155617625353","title":"Embryonic organogenesis and tissue differentiation","description":"The top GO terms point to multiple embryonic development processes across different tissues (heart/endocardial cushions, trophoblast differentiation, endocrine system, left-right patterning, cartilage morphogenesis, placenta-related differentiation, pancreatic cell development). This suggests a cluster of proteins broadly involved in developmental lineage specification rather than a single molecular function, hence a label focusing on embryonic organogenesis and tissue differentiation. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060536","count":4}]},{"hash":"731761655860800204","title":"Neuroendocrine signaling and muscle contraction regulation","description":"The cluster includes neural/behavioral terms (grooming behavior, glial-derived neurotrophic factor production), hormone secretion, and regulation of muscle contraction (intestinal smooth muscle and heart contraction via catecholamines), all pointing to coordinated signaling across neural, hormonal, and muscular systems, with additional immune-related regulation (IL-1\u03b2). This combination supports a label focused on neuroendocrine signaling linked to muscle function.","confidence":"Medium","size":19,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007625","count":3},{"id":"GO:0006468","count":3},{"id":"GO:0014827","count":2},{"id":"GO:0046879","count":2},{"id":"GO:0070963","count":2}]},{"hash":"1027410446711540043","title":"Plant Membrane Sugar and Metabolite Transporters","description":"Most top terms point to transmembrane transport of sugars and metabolites (UDP-glucose, GDP-fucose, phosphoenolpyruvate, phosphoglycerate, triose phosphate, amino acids) across Golgi/plasma membranes, with some plant-root development terms suggesting a link to root growth processes. This makes a coherent theme of membrane transporters in plants.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015786","count":8},{"id":"GO:0036085","count":8},{"id":"GO:1990536","count":7},{"id":"GO:0080147","count":7},{"id":"GO:0015713","count":7}]},{"hash":"626090844228005211","title":"Unknown","description":"These GO terms describe varied physiological regulation, including GI smooth muscle contraction, cardiac contraction modulation by catecholamines, hormone secretion, inflammatory cytokine production, neural growth factor production, morphine response, endothelial barrier regulation, and cell proliferation. There isn\u2019t a clear, single function or pathway tying all proteins together; the cluster appears to mix signaling, muscle activity, immune response, and vascular processes. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":16},{"id":"GO:0070963","count":16},{"id":"GO:0046879","count":16},{"id":"GO:0001997","count":16},{"id":"GO:0071417","count":16}]},{"hash":"802961459169261096","title":"RNA Processing and Translational Regulation","description":"Based on the GO terms, this cluster centers on post-transcriptional RNA metabolism and control of protein synthesis: regulation of mRNA splicing via the spliceosome, cytoplasmic mRNA processing body assembly, and both positive and negative regulation of translation, including circadian translation and miRNA-mediated silencing. Some terms also touch on spermatogenesis and signaling, but the common theme is RNA processing/translation control.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048024","count":4},{"id":"GO:0043046","count":4},{"id":"GO:0007283","count":4},{"id":"GO:0090328","count":4},{"id":"GO:0010603","count":4}]},{"hash":"1315380768874795439","title":"Neurovascular development and inflammatory signaling","description":"The cluster includes neural-development terms (axonal fasciculation, axon extension, myelination) alongside vascular-related processes (angiogenesis, endothelial/smooth muscle migration, RTK signaling) and inflammatory context (acute-phase response, macrophage regulation), suggesting a shared theme of coordinated neurovascular development with immune/inflammatory modulation.","confidence":"Medium","size":18,"edges":69,"triangles":118,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0014912","count":4},{"id":"GO:0043031","count":3},{"id":"GO:0007413","count":3}]},{"hash":"1309389101077135085","title":"Vertebrate Development and Metabolic Signaling","description":"The cluster combines vertebrate developmental processes (somitogenesis, cranial skeletal system development, hair follicle development) with metabolic signaling (insulin receptor signaling pathway, glucose homeostasis), and includes immune regulation terms (negative regulation of IL-6 production, tolerance induction to self antigen), plus a context of physiological stress response (cellular response to hyperoxia). This suggests a coherent theme where developmental programs intersect with metabolic and immune regulatory pathways in vertebrates, rather than a single isolated function.","confidence":"Medium","size":18,"edges":50,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:1904888","count":5},{"id":"GO:0001756","count":5},{"id":"GO:0051798","count":5},{"id":"GO:0002924","count":5}]},{"hash":"2000569544599115619","title":"Developmental gene regulation and morphogenesis","description":"The cluster includes terms related to transcriptional control (DNA-templated transcription, regulation of gene expression by imprinting), signaling (GCN2-mediated signaling), and cytoskeletal remodeling (Arp2/3 complex\u2013mediated actin nucleation), plus developmental and morphogenetic processes (gastrulation, prostate gland development, neuron apoptosis, sensory taste). These collectively suggest a theme around development, growth, and cellular architecture shaping, rather than a single narrow function.","confidence":"Medium","size":18,"edges":8,"triangles":0,"max_degree":4,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060733","count":9},{"id":"GO:0000070","count":9},{"id":"GO:0034314","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0006349","count":9}]},{"hash":"727854010925527565","title":"Rho-GTPase signaling and cytoskeletal remodeling","description":"The cluster shows strong representation of GO terms related to Rho regulation, GTPase activity control, integrin signaling, and filopodium assembly, all pointing to cytoskeletal dynamics and cell shape changes. The presence of morphogenesis/heart development terms aligns with cell movement and tissue remodeling, while DNA replication and DNA repair terms may reflect common housekeeping processes in the proteins or dual roles. Overall, the dominant theme is signaling that modulates the actin cytoskeleton and cell morphology.","confidence":"Medium","size":18,"edges":85,"triangles":252,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0007229","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0006915","count":4}]},{"hash":"1139213866010284268","title":"Wnt signaling regulators in neural development","description":"The cluster has strong representation of both positive and negative regulation of canonical Wnt signaling (GO:0090263 and GO:0090090) with the same high counts, pointing to a coherent role in modulating Wnt pathway activity. Neural development terms such as hippocampus and cerebral cortex development further support a brain-development context for these Wnt regulators. Immune signaling terms (T cell receptor signaling and TNF signaling) appear but don\u2019t override the central Wnt-regulation theme. Overall, the dominant signal is Wnt pathway regulation with a neural development angle.","confidence":"High","size":18,"edges":137,"triangles":609,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":13},{"id":"GO:0050852","count":13},{"id":"GO:0051436","count":13},{"id":"GO:0090090","count":13},{"id":"GO:0030216","count":9}]},{"hash":"817091534356768874","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0008283","count":4},{"id":"GO:0000480","count":4}]},{"hash":"1040459682696860806","title":"NF-kB-regulated innate immune signaling","description":"The top GO terms cluster around NF-kappaB transcription factor regulation, NOD2 signaling, TNF signaling, and defense against virus, with ubiquitination as a common mechanistic thread, pointing to innate immune signaling and inflammatory control. Some terms (osteoblast differentiation, meiosis) are less connected and may reflect annotation noise or moonlighting roles. Confidence: Medium","confidence":"","size":18,"edges":47,"triangles":18,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":6},{"id":"GO:0070431","count":4},{"id":"GO:0016049","count":3},{"id":"GO:0045667","count":3},{"id":"GO:0016567","count":3}]},{"hash":"1814953603382727627","title":"Embryonic Development and Neural Differentiation","description":"Most of the top GO terms describe developmental processes across multiple tissues\u2014myoblast migration, ectoderm formation, spinal cord neuron specification and axon guidance, retina development, as well as placenta and nephric duct elongation. This points to a cluster centered on embryonic development with emphasis on neural and ectodermal derivatives. Therefore, Embryonic Development and Neural Differentiation appropriately captures the common theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051451","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0008585","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0001705","count":2}]},{"hash":"318890699412070644","title":"Developmental cell cycle progression and apoptosis","description":"The dominant terms include G1/S and G2/M transitions, mitosis-related processes, and apoptosis, plus developmental contexts (thymus development and mammary gland epithelial proliferation) and transcription. This suggests the cluster centers on proteins coordinating cell division and programmed cell death during development.","confidence":"High","size":18,"edges":56,"triangles":119,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":12},{"id":"GO:0033598","count":11},{"id":"GO:0000320","count":11},{"id":"GO:0046626","count":11},{"id":"GO:0000086","count":11}]},{"hash":"1710664557556064970","title":"Organogenesis and tissue differentiation regulators","description":"The Top Terms span transcriptional regulation and development across multiple organs (heart, kidney, lung, nervous system, fat), including DNA-templated transcription, SMAD/TGF-beta signaling, and various organ-specific differentiation processes (ureteric bud, outflow tract, anterior commissure, type I pneumocytes, adipocytes). This suggests a common theme of regulators guiding organogenesis and lineage differentiation, even though no single pathway dominates. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0007182","count":3},{"id":"GO:0021960","count":2},{"id":"GO:0060038","count":2},{"id":"GO:1902894","count":2}]},{"hash":"481665616782233481","title":"Mitochondrial translation and tRNA charging","description":"The set is dominated by translation-related GO terms, especially mitochondrial tRNA aminoacylation for threonine, glycine, and proline, along with generic translation, pointing to mitochondrial protein synthesis as the core function. Other signals like diadenosine tetraphosphate and polyamine biosynthesis are present but less central, consistent with a broader metabolic context. Therefore, \u201cMitochondrial translation and tRNA charging\u201d is a fitting label.","confidence":"High","size":18,"edges":13,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0070159","count":2}]},{"hash":"794757823254269610","title":"TLR signaling and neural development","description":"This cluster is dominated by innate immune signaling terms, notably MyD88-dependent TLR signaling, TLR1 signaling, and detection of bacterial lipoprotein, indicating a core TLR-mediated immune signaling theme. The presence of neural development and signaling terms (dopamine response, tangential migration to the olfactory bulb, Wnt signalosome) alongside cell cycle references suggests these proteins participate in broader signaling networks that connect immune sensing with neural development and cell division. Confidence: Medium","confidence":"","size":18,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002755","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0034130","count":2},{"id":"GO:1902499","count":2},{"id":"GO:0070340","count":2}]},{"hash":"1346189060560869002","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":105,"triangles":334,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":15},{"id":"GO:0034975","count":12},{"id":"GO:0045454","count":12},{"id":"GO:0036494","count":12},{"id":"GO:0035719","count":12}]},{"hash":"2100690449885892209","title":"Unknown","description":"The GO terms span several unrelated areas (developmental processes, immune function, circadian rhythm, and a basic cellular transport process) with no single dominant theme or shared pathway, and the cluster has no edges, making a coherent functional label untenable.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045496","count":3},{"id":"GO:0060707","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0002467","count":3}]},{"hash":"371159856598689182","title":"Actin remodeling and cell migration","description":"The cluster is enriched for actin-related processes and motility: Rho and Rac signaling, barbed-end actin filament capping, ruffle assembly, and fibroblast migration, along with EGFR-stimulated responses and endomembrane remodeling. These together point to coordinated actin cytoskeleton reorganization and membrane dynamics driving cell movement. ","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010761","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0010256","count":3},{"id":"GO:0097178","count":3}]},{"hash":"1002805613791435428","title":"Mitochondrial ATP Synthase Assembly and Cristae Formation","description":"This cluster is dominated by mitochondrial-related GO terms: assembly of the proton-transporting ATP synthase complex, mitochondrial protein processing, cristae formation, and mitochondrial fusion, pointing to mitochondrial biogenesis and inner-membrane organization as the core function. A couple of terms about cilium assembly and intraciliary transport appear but are less represented, suggesting possible annotation overlap rather than a primary theme. Overall, the strongest signal is mitochondrial assembly/biogenesis with cristae remodeling as a key aspect.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033615","count":3},{"id":"GO:0034982","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0035721","count":2},{"id":"GO:0016573","count":1}]},{"hash":"552602056758632923","title":"Rho-GTPase signaling and cell-cycle control","description":"The top GO terms indicate enrichment for Rho-mediated signal transduction and activation of GTPase activity, with links to cytoskeletal signaling and cell-cycle regulation (centriole replication, CDK activity, transcriptional control). Although meiosis and retina development appear, the recurring theme is Rho-related signaling coordinating cell cycle and growth. ","confidence":"Medium","size":18,"edges":24,"triangles":10,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0042144","count":2}]},{"hash":"440249375191851715","title":"Neural development signaling (Wnt/Ephrin)","description":"The cluster's strongest signals are axonogenesis, Wnt signaling, and regulation of ephrin receptor signaling, pointing to neural development and axon guidance pathways. Some meiosis and telomere-related terms are present but likely incidental or cross-annotations; the core theme appears to be signaling pathways guiding neural development rather than a single, cohesive cytoskeletal or cell-cycle process. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007111","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0015914","count":2},{"id":"GO:1904743","count":2},{"id":"GO:0051225","count":2}]},{"hash":"1995450162941121873","title":"GPCR signaling and cardiac muscle regulation","description":"This cluster is dominated by GO terms related to G protein-coupled receptor signaling, including thrombin and tachykinin receptor pathways, acetylcholine receptor signaling, GPCR internalization, and desensitization, together with cardiac muscle contraction terms. The co-occurrence of GPCR-related processes and heart muscle function suggests a cohesive theme around GPCR-mediated signaling that influences cardiac muscle activity, with additional cytoskeletal/regulatory connections (e.g., filopodium assembly) and apoptosis context providing supporting context.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051489","count":5},{"id":"GO:0070493","count":5},{"id":"GO:0007217","count":4},{"id":"GO:0002029","count":4},{"id":"GO:0045988","count":4}]},{"hash":"1976844480324414647","title":"Placental and embryonic morphogenesis","description":"This cluster is dominated by GO terms related to placental development and embryonic tissue morphogenesis (e.g., trophoblast giant cell differentiation, embryonic placenta development, left/right pattern formation, cartilage morphogenesis, EMT in heart cushion formation). While a few terms touch on other lineages (pancreatic, skeletal muscle), the overarching theme is embryonic development and organogenesis with a strong placental component. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0060806","count":9}]},{"hash":"543102662853800056","title":"NOD2-Driven Innate Immune Signaling","description":"The cluster is enriched for the NOD2 signaling pathway and innate immune response, with involvement in antiviral defense and ubiquitination that modulates NF-kB signaling, indicating a core theme of NOD2-mediated innate immune signaling. Additional terms like Wnt signaling, pinocytosis, and neuronal differentiation suggest broader signaling/trafficking roles, but the dominant pattern centers on innate immune signaling via NOD2.","confidence":"High","size":18,"edges":40,"triangles":14,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070431","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0016567","count":4}]},{"hash":"1278197133718998384","title":"Unknown","description":"The top GO terms cover very diverse biological processes\u2014mitotic and meiotic chromosome dynamics, transcription by RNA polymerase III, TORC1 signaling, ceramide metabolism, and chromatin assembly\u2014without a single dominant theme. With 0 edges and only single-term representation for each term, there is no clear shared function linking the proteins. Therefore, a cohesive functional label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007084","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0051232","count":1},{"id":"GO:0045945","count":1},{"id":"GO:0070262","count":1}]},{"hash":"1073983355273195999","title":"Proteostasis and redox maintenance","description":"The top GO terms point to core cellular maintenance: translation, protein modification and repair reflect proteostasis, while oxidation-reduction processes and cellular response to hydrogen peroxide, plus ubiquinone biosynthesis, highlight redox balance and mitochondrial function. A couple of terms about development appear as outliers and do not define the cluster's main theme. Overall, the proteins seem tied to maintaining protein function and redox homeostasis, justifying the label.","confidence":"Medium","size":18,"edges":137,"triangles":600,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006744","count":2},{"id":"GO:1990355","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0006464","count":1}]},{"hash":"1683650299687963500","title":"Synaptic Localization and Junction Maintenance","description":"These proteins co-cluster around synaptic organization and localization (protein localization to synapse, long-term synaptic depression, receptor clustering) and cell junction maintenance (adherens junction, paranodal junction maintenance). The presence of cochlea morphogenesis further supports a neural/ear development context, pointing to roles in synapse maturation and junction integrity in the nervous system. Confidence: High","confidence":"","size":18,"edges":29,"triangles":14,"max_degree":9,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035418","count":16},{"id":"GO:0090103","count":16},{"id":"GO:0071896","count":16},{"id":"GO:0008285","count":16},{"id":"GO:0060292","count":16}]},{"hash":"1907391068292650534","title":"Metabolic and hemostatic regulation","description":"The cluster shows strong signals for metabolic processes (fatty acid oxidation, cholesterol efflux, gluconeogenesis) alongside hemostatic and vascular-related terms (blood coagulation, regulation of platelet aggregation, PDGFR signaling). This suggests a theme of coordinated metabolic control with vascular/hemostatic regulation, rather than a single isolated pathway.","confidence":"Medium","size":18,"edges":89,"triangles":203,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0050873","count":6},{"id":"GO:0090051","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0010875","count":5}]},{"hash":"494634967416676777","title":"Ubiquitin-Proteasome Regulation and GTPase Signaling","description":"The GO terms show a strong emphasis on regulation of ubiquitin-dependent proteolysis and protein ubiquitination, pointing to proteostasis control. In addition, there is notable involvement of small GTPase signaling (Rab and Rap) and modulation of kinase activities linked to cell cycle, suggesting a coordinated network of protein turnover with signaling pathways; a few terms touch on virus-related host responses, but the core theme remains proteostasis and GTPase-driven signaling.","confidence":"Medium","size":18,"edges":55,"triangles":93,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0032434","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0031578","count":2},{"id":"GO:0090630","count":2}]},{"hash":"507981268568754641","title":"Lipid metabolism and chemical stress responses","description":"The most represented terms point to lipid-related processes (phosphatidylcholine biosynthesis and cholesterol homeostasis), suggesting a role in membrane lipid metabolism. A sizeable portion also covers responses to chemical and pathogenic stimuli (xenobiotic stimulus, LPS, ethanol, herbicide) along with wounding and apoptotic regulation, implying a coordinated cellular stress-response program. The negative regulation of gluconeogenesis supports metabolic reprogramming during stress. The vaginal development term seems out of place and may reflect an annotation artefact rather than a core function of the cluster. Overall, this cluster appears to combine lipid homeostasis with environmental/chemical stress responses.","confidence":"Medium","size":18,"edges":24,"triangles":20,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006656","count":12},{"id":"GO:0042493","count":12},{"id":"GO:0060068","count":12},{"id":"GO:0042632","count":12},{"id":"GO:0006915","count":12}]},{"hash":"1695792649379461303","title":"Central metabolism and redox balance","description":"The terms point to core energy- and redox-related pathways: glycolysis, malate metabolism, NADPH regeneration, pantothenate (CoA) biosynthesis, and amino acid (valine, tyrosine) biosynthesis/catabolism, with a note on xenobiotic response. Together they suggest a cluster of enzymes tied to central carbon metabolism and redox homeostasis, rather than a single specialized pathway.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006740","count":7},{"id":"GO:0015940","count":6},{"id":"GO:0006108","count":5},{"id":"GO:0006096","count":5}]},{"hash":"81719737269692987","title":"Innate antibacterial defense and inflammation","description":"The top GO terms indicate a strong emphasis on defense responses to Gram-negative and Gram-positive bacteria, antibacterial humoral response, and inflammatory response, pointing to innate immune functions as the core. A few terms related to nervous system development or synapse assembly appear but are likely incidental or reflect multi-functional proteins; overall, the dominant signal is antibacterial defense and inflammation.","confidence":"High","size":18,"edges":8,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050829","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0035584","count":3}]},{"hash":"2267171218129271598","title":"DNA Repair and Protein Quality Control","description":"This cluster is enriched for DNA repair processes (UV-damage excision repair, nucleotide-excision repair, DNA damage recognition, mismatch repair) and for proteostasis-related pathways (protein deglycosylation, ER-associated degradation, and general protein quality control), suggesting a coordinated response to DNA damage that also maintains protein homeostasis under stress.","confidence":"High","size":18,"edges":146,"triangles":715,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0070914","count":3},{"id":"GO:0006289","count":3},{"id":"GO:0000715","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0010224","count":2}]},{"hash":"44953733252819055","title":"Rho and Rap GTPase Signaling","description":"The cluster centers on small GTPase signaling (Rho, Rap) with terms for activation of GTPase activity and related signaling pathways (IGF receptor, thrombin receptor) and cytoskeletal/membrane dynamics (microvillus assembly, endocytic recycling). This suggests a coherent theme of GTPase-regulated signal transduction coordinating cytoskeletal organization and membrane trafficking.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090630","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0030033","count":4},{"id":"GO:2000973","count":3}]},{"hash":"956813916803991982","title":"Calcium signaling in muscle and neural function","description":"The top GO terms cluster around calcium transport and homeostasis across membranes, regulation of skeletal and cardiac muscle contraction, and synaptic plasticity, pointing to calcium-mediated signaling coordinating muscle activity and neuron communication.","confidence":"Medium","size":18,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":6},{"id":"GO:0098703","count":5},{"id":"GO:0007154","count":5},{"id":"GO:0051560","count":5},{"id":"GO:0014819","count":5}]},{"hash":"1132644056366171075","title":"Glycan processing and glycosphingolipid metabolism","description":"The cluster is enriched for glycan-related GO terms (N-glycan processing, oligosaccharide metabolic process, protein sialylation, ganglioside biosynthesis, glycosylceramide metabolism, N-acetylneuraminate metabolism), indicating a cohesive theme around glycosylation and glycosphingolipid biosynthesis. Some olfactory/nerve and pollen terms appear, but the dominant signal centers on glycans and glycolipids, supporting a glycan-processing/metabolism function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071699","count":6},{"id":"GO:0021628","count":6},{"id":"GO:1990743","count":5},{"id":"GO:0001574","count":5},{"id":"GO:0009860","count":5}]},{"hash":"1520533482016070981","title":"T cell activation and innate immune response","description":"These proteins are enriched for terms related to both adaptive and innate immunity, notably T cell costimulation, positive regulation of T cell proliferation, and gamma-delta T cell activation, alongside innate immune processes such as phagocytosis recognition and monocyte extravasation. The presence of immunological synapse regulation and T cell signaling themes further supports a cohesive role in immune activation and coordination between T cell\u2013mediated and innate responses.","confidence":"High","size":18,"edges":8,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0042102","count":7},{"id":"GO:0002250","count":7},{"id":"GO:0000187","count":6}]},{"hash":"1544560645292056415","title":"GPCR signaling in muscle development","description":"Top GO terms strongly point to G protein-coupled receptor signaling (GO:0007189, GO:0007186) and muscle-related processes (GO:0001501 skeletal system development, GO:0045663 positive regulation of myoblast differentiation, GO:0048661 positive regulation of smooth muscle cell proliferation). This suggests a theme where GPCR pathways influence muscle development and differentiation, making this a concise, representative label for the cluster. There are other less central terms in the set (e.g., auditory stimulus, pregnancy, foam cell differentiation), but the dominant signal is GPCR-mediated modulation of muscle growth and differentiation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0007189","count":3},{"id":"GO:0007565","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0045663","count":2}]},{"hash":"1913692448712906768","title":"Plant pigment and lipid biosynthesis","description":"The top GO terms include phenylpropanoid and anthocyanin biosynthesis (pigments), wax biosynthesis, and ether lipid biosynthesis, plus various carbohydrate-related biosynthetic processes. This points to a cluster enriched in plant secondary metabolism and lipid-based components (pigments, waxes, membranes). However, several terms appear obsolete or cross-kingdom (e.g., colanic acid biosynthesis), which lowers specificity. Overall, the label captures the strongest shared signal with moderate confidence.","confidence":"Medium","size":18,"edges":82,"triangles":214,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0019878","count":10},{"id":"GO:0009699","count":10},{"id":"GO:0009718","count":10},{"id":"GO:0006541","count":10}]},{"hash":"174845497104473304","title":"Multiorgan Development and Branching Morphogenesis","description":"The cluster shows enrichment for multicellular organism development with organ-specific terms such as lung, pancreas, genital disc development, and branching morphogenesis in salivary glands, suggesting a general theme of organogenesis and tissue patterning. Some signaling terms (MAPKKK cascade and FGF receptor pathway) and lipid biosynthesis hints may reflect the coordinated signaling underpinning these developmental processes. Confidence: Medium","confidence":"Medium","size":18,"edges":9,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0031016","count":2},{"id":"GO:0090080","count":1},{"id":"GO:0046854","count":1},{"id":"GO:0060484","count":1}]},{"hash":"581663046975040973","title":"Unknown","description":"The GO terms for this cluster are highly diverse and largely unconnected, spanning retina formation, muscle and respiratory development, epithelial morphogenesis, ribosome biogenesis, rRNA processing, mitochondrial complex I assembly, fat cell differentiation, and even bacterial flagellum assembly. With no edges or clear shared pathway among the proteins, there is no coherent functional theme to anchor a specific label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010842","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0060541","count":1},{"id":"GO:0003381","count":1},{"id":"GO:0090305","count":1}]},{"hash":"143122758420677755","title":"Membrane Transporters for Nutrients and Ions","description":"The GO terms are dominated by transmembrane transport of diverse substrates (4-hydroxyphenylacetate, fucose, nitrate, sialic acid, phosphate, potassium, arabinose, nitrate) and even neurotransmitter loading into synaptic vesicles, indicating a transporter-focused cluster. While a metabolism term appears, the prevailing pattern is transporter activity across membranes for nutrients and ions. Confidence: High.","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":18},{"id":"GO:0006004","count":18},{"id":"GO:0042128","count":18},{"id":"GO:0015739","count":18},{"id":"GO:0035435","count":18}]},{"hash":"654760263074099579","title":"Immune and Developmental Processes","description":"The top GO terms include immune-related functions (B cell differentiation, innate immune response) alongside developmental processes (endothelial and face morphogenesis, pregnancy), plus ER unfolded protein response and cell-cycle related terms. This points to a loose cluster of proteins involved in immune signaling and developmental pathways, with some cellular stress responses, rather than a single cohesive pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030183","count":2},{"id":"GO:0007565","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0001886","count":2},{"id":"GO:0030968","count":2}]},{"hash":"2135865064144350482","title":"Axon Paranode Adhesion and Synapse Assembly","description":"The GO terms center on cell-cell adhesion (homophilic/heterophilic) and localization to paranode/juxtaparanode axon regions, with Roundabout signaling, synapse assembly, and neuronal migration, indicating a module for axon domain organization and synapse formation in developing neurons.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0002175","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0051965","count":7}]},{"hash":"1259089964596102428","title":"Immune Cell Activation and Regulation","description":"The GO terms cluster around T cell activation (including gamma-delta T cells and co-stimulation), cytokine production, immunological synapse regulation, and macrophage/monocyte activity, indicating a group involved in immune signaling and regulation rather than a single metabolic pathway. This theme best fits the set of terms shown, reflecting both activation and inhibitory/regulatory processes in immune cell interactions.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000521","count":3},{"id":"GO:0046629","count":3},{"id":"GO:0035696","count":3},{"id":"GO:0006910","count":3},{"id":"GO:2001181","count":3}]},{"hash":"1647620861407092873","title":"Muscle innervation and smooth muscle regulation","description":"The cluster shows enrichment for innervation, regulation of cardiac conduction, calcium signaling, and smooth muscle-related processes (including regulation of smooth muscle cell migration and matrix adhesion) plus collagen biosynthesis, pointing to nervous control of muscle function and vascular smooth muscle/ ECM remodeling. Some terms are obsolete or indirect, but the core theme is nerve-driven muscle activity and smooth muscle regulation.","confidence":"Medium","size":18,"edges":128,"triangles":491,"max_degree":17,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0060384","count":5},{"id":"GO:1903779","count":5},{"id":"GO:0001300","count":5},{"id":"GO:0014912","count":5},{"id":"GO:0014068","count":5}]},{"hash":"571000396520339092","title":"Neuroimmune development and synapse formation","description":"The top GO terms show both innate immune responses (interferon-beta production, dsRNA, LPS, defense to Gram-positive bacteria) and neural development/synapse-related processes (axonogenesis, synapse assembly, corpus callosum development, pain-related behavior). This points to a cluster of proteins that integrate immune signaling with neural development and sensory pathways, suggesting neuroimmune regulation of brain development and pain signaling.","confidence":"Medium","size":18,"edges":31,"triangles":37,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045359","count":11},{"id":"GO:0050830","count":11},{"id":"GO:0022038","count":11},{"id":"GO:0014068","count":11},{"id":"GO:0043330","count":11}]},{"hash":"413955384835145019","title":"Integrin signaling and endocytic trafficking","description":"This cluster centers on GO terms for integrin-mediated signaling, cell motility regulation, and receptor signaling, including receptor internalization and endosome-to-melanosome transport, suggesting a membrane signaling module tied to vesicle trafficking. The presence of visual perception and paranodal junction terms hints at broader roles in neuronal and pigment-related contexts, but the core theme remains surface receptor signaling coupled to intracellular transport and endocytosis.","confidence":"Medium","size":18,"edges":143,"triangles":670,"max_degree":17,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:2001046","count":13},{"id":"GO:2000680","count":8},{"id":"GO:2000145","count":8},{"id":"GO:0007166","count":8},{"id":"GO:0030913","count":8}]},{"hash":"1763269930376009665","title":"Unknown","description":"The terms span DNA damage response and repair, UV response, and retinoic acid signaling, but also distinct immune regulation functions (negative regulation of T cell proliferation, IL-4 production, IgE isotype switching) and unrelated processes like metal ion transport and neuromuscular posture. This breadth suggests no single cohesive function tying the cluster together, so a specific label isn\u2019t justifiable.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902230","count":3},{"id":"GO:0032526","count":3},{"id":"GO:0045739","count":3},{"id":"GO:0034644","count":3},{"id":"GO:0050884","count":2}]},{"hash":"1682300233427176697","title":"Thiamine biosynthesis and ROS detoxification","description":"The cluster\u2019s top GO terms are dominated by thiamine metabolism (thiamine metabolic process and thiamine diphosphate biosynthetic process) and by ROS-related terms (positive regulation of ROS metabolic process, removal of superoxide radicals), indicating a link between vitamin B1 metabolism and redox balance. Additional terms related to nutrient response and xenobiotic/alkane sulfonate and nitrophenol catabolism suggest broader metabolic and detoxification roles that often accompany redox regulation. Overall, the proteins appear to coordinate thiamine biosynthesis with oxidative stress management and related catabolic activities.","confidence":"Medium","size":18,"edges":21,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0006772","count":4},{"id":"GO:0009229","count":4},{"id":"GO:2000379","count":2},{"id":"GO:0007584","count":2}]},{"hash":"913650876768421409","title":"Developmental cell polarity and morphogenesis","description":"This cluster is characterized by GO terms tied to establishing and maintaining cell polarity (bipolar cell polarity, cell shape regulation), lamellipodium assembly, cell-matrix adhesion, axon guidance, and heart development, all pointing to developmental morphogenesis and coordinated cell movement. While a few entries touch on growth hormone signaling and proteasomal degradation, the dominant pattern centers on spatial organization and movement of cells during development, justifying a morphology/migration-focused label. Confidence is moderate due to some functional diversity and lack of interaction context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0060396","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007160","count":3}]},{"hash":"354223842311429100","title":"Unknown","description":"The top GO terms span diverse domains: bacterial cell wall catabolism, viral release, signaling pathways (ERK cascade, adenylate cyclase regulation), organ development and physiology (heart development, glomerular filtration), sensory/pain regulation, electron transport chain, and locomotory behavior. There isn\u2019t a single unifying biological function across all proteins, suggesting a heterogeneous mix without a cohesive theme. ","confidence":"","size":18,"edges":41,"triangles":29,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009253","count":9},{"id":"GO:0019076","count":9},{"id":"GO:0016998","count":9},{"id":"GO:0070374","count":8},{"id":"GO:0007507","count":8}]},{"hash":"354603751610327012","title":"Ion and Metabolite Transporters","description":"The top GO terms are dominated by transmembrane transport of ions and metabolites (potassium, phosphate, sialic acid, urate, and other substrates), plus related metabolic processes, suggesting the cluster is enriched for transporter proteins or transport-associated functions. Some non-transport terms appear, but the recurrent theme points to membrane transport activity as the core. ","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0018230","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0048733","count":4},{"id":"GO:1900754","count":2}]},{"hash":"1202205379385125120","title":"Glycinergic Synaptic Transmission and Glycine Transport","description":"Most of the top GO terms cluster around glycine-mediated synaptic signaling and associated glycine transport/secretion (glycinergic transmission, glycine import, glycine secretion). Several terms also point to neural development contexts (thalamus development, perineurial glial growth), suggesting brain/neuronal tissue relevance. The combination of glycine-specific synaptic function and transport processes makes this label representative.","confidence":"High","size":18,"edges":37,"triangles":27,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0060092","count":15},{"id":"GO:0051583","count":15},{"id":"GO:0042066","count":15},{"id":"GO:0021794","count":15},{"id":"GO:0015824","count":15}]},{"hash":"521498136263864446","title":"Diverse Substrate Transporters","description":"These proteins are enriched for transmembrane transport activities across a wide range of substrates (e.g., 4-hydroxyphenylacetate, fucose, nitrate, sialic acid, phosphate, potassium, arabinose) and include neurotransmitter loading into synaptic vesicles. The varied substrate terms and lack of a single dominant substrate suggest the cluster groups membrane transporter proteins by function (transport) rather than substrate specificity, indicating a broad transporter category. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":6},{"id":"GO:0006004","count":6},{"id":"GO:0042128","count":6},{"id":"GO:0015739","count":6},{"id":"GO:0035435","count":6}]},{"hash":"433939568285834372","title":"Neural development and synaptic signaling","description":"The cluster is dominated by GO terms tied to neural processes: positive regulation of synapse assembly, acetylcholine biosynthesis/secretion, and axon guidance, plus cocaine response and general cell-surface receptor signaling. While there are some ECM/vascular terms (collagen fibril organization, angiogenesis) that are less specific to neurons, the overall signal points to neural development and synaptic communication.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0030199","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0007166","count":3},{"id":"GO:0042220","count":3}]},{"hash":"375920118431074549","title":"Neural development and myelination","description":"Many terms point to neural development: CNS myelination, axon development, substantia nigra and retina development. ECM assembly and focal adhesion regulation suggest structural scaffolding for neurite outgrowth and myelination, while long-chain fatty acid biosynthesis supports myelin lipids. Neurotransmission is reflected by regulation of serotonin uptake. A couple of terms are less directly linked (bone mineralization, phototaxis), but the dominant theme is neural development and maturation.","confidence":"High","size":18,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030501","count":6},{"id":"GO:0085029","count":5},{"id":"GO:0051612","count":5},{"id":"GO:0046956","count":5},{"id":"GO:0051893","count":5}]},{"hash":"1171942605330946785","title":"Unknown","description":"There is no shared functional signal given: top terms are empty, edges/triangles are zero, and there is no connectivity among the proteins, so a coherent function cannot be inferred. The note about ReCIPE re-adding proteins suggests this cluster may be an artifact rather than a biologically cohesive set.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"544319671700265758","title":"Angiogenesis-Related Integrin Adhesion Signaling","description":"The top GO terms converge on regulation of integrin-mediated adhesion, focal adhesion dynamics, and responses to vascular growth signals (VEGF and FGF), plus maintenance of blood vessel diameter, pointing to endothelial adhesion and angiogenic signaling as the core theme. A few terms about transcription regulation may reflect broader gene expression control within these processes, but the dominant pattern is adhesion- and vascular signaling. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0090314","count":1},{"id":"GO:0033628","count":1},{"id":"GO:0035924","count":1},{"id":"GO:0044344","count":1}]},{"hash":"1586453977340501064","title":"RNA Editing and miRNA Processing","description":"The cluster\u2019s strongest signal comes from RNA metabolism and RNA silencing: adenosine-to-inosine editing, pre-miRNA processing, and RISC complex assembly. While some neural development and immune/antiviral terms appear, the core recurring terms point to RNA regulation and the miRNA pathway, guiding the label toward an RNA-processing theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021965","count":3},{"id":"GO:0006382","count":3},{"id":"GO:0060216","count":3},{"id":"GO:0035455","count":3},{"id":"GO:0048899","count":3}]},{"hash":"983114993556039468","title":"Mitochondrial Translation and Complex IV Assembly","description":"The top GO terms point to mitochondrial respiratory chain complex assembly (including complex IV) and translation, suggesting a mitochondria-centric module possibly involving mitochondrial protein synthesis paired with assembly of electron transport chain complexes. The low connectivity and limited term counts indicate a small, cohesive function rather than a broad process, but the mitochondrial theme is clear enough to justify this label.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0033108","count":1}]},{"hash":"1320857279750463286","title":"Neural development and neuron differentiation","description":"Most of the top GO terms describe development and differentiation of neural tissues across various CNS regions (cortex, subpallium, spinal cord, brainstem) and related structures (cochlea), with transcriptional activity as a general process. This shared theme supports labeling the cluster as neural development-focused, despite one outlier term (endocrine pancreas development).","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060435","count":18},{"id":"GO:0060163","count":18},{"id":"GO:0021530","count":18},{"id":"GO:0006366","count":18},{"id":"GO:0021892","count":18}]},{"hash":"2276992217787778308","title":"Rap1 signaling and cytoskeletal remodeling in neurons","description":"The top GO terms cluster around Rap protein signaling (Rap1), regulation of phosphorylation, actin nucleation and polymerization, and membrane trafficking, with several entries tied to synaptic plasticity and ephrin signaling. This suggests a theme where Rap1-mediated signaling coordinates cytoskeletal dynamics and membrane trafficking to modulate neuronal adhesion and synaptic function, hence a neuron-centric signaling and remodeling label.","confidence":"Medium","size":18,"edges":22,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0010801","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0048227","count":2},{"id":"GO:0035264","count":2}]},{"hash":"2171033449825603398","title":"Synaptic vesicle trafficking and neurotransmitter release","description":"The cluster is enriched for neuronal synaptic functions: regulation of excitatory postsynaptic potential, neurotransmitter secretion (including norepinephrine), and receptor localization to the synapse. It also includes vesicle trafficking steps through the Golgi and endosomes and spontaneous neurotransmitter release, pointing to coordinated vesicle handling and synaptic transmission. Membrane-related sphingolipid metabolism may support the membrane dynamics required for vesicle fusion and receptor trafficking. Overall, this set represents a synaptic vesicle trafficking and neurotransmission module.","confidence":"High","size":18,"edges":86,"triangles":152,"max_degree":16,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:2000463","count":14},{"id":"GO:0048280","count":11},{"id":"GO:0045022","count":10},{"id":"GO:0061669","count":10},{"id":"GO:0006891","count":10}]},{"hash":"1681893563635812801","title":"Spliceosome Assembly and mRNA Splicing Regulation","description":"The terms are dominated by spliceosome-related processes: mRNA splice site recognition, alternative splicing via spliceosome, negative regulation of mRNA splicing, and small-subunit processome assembly, indicating a cohesive cluster of splicing machinery and its regulation; there are auxiliary notes on translational initiation and ncRNA-mediated silencing, but splicing is the core signal.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":18},{"id":"GO:0006376","count":18},{"id":"GO:0000380","count":18},{"id":"GO:0034462","count":18},{"id":"GO:0075522","count":18}]},{"hash":"84356535531548069","title":"RNA Methylation and Ribosome Export","description":"Proteins in this cluster are strongly associated with RNA modification and ribosome-related processes, including RNA guanine-N7 methylation, mRNA capping, tRNA wobble uridine modification, and various forms of protein methylation (e.g., arginine and N-terminal trimethylation), as well as export of the ribosomal small subunit from the nucleus. This points to a cohesive theme centered on RNA modification and ribosome maturation/assembly. Some peripheral terms (nodulation, antibiotic biosynthetic process) appear but do not override the core RNA/ribosome focus.","confidence":"High","size":18,"edges":109,"triangles":325,"max_degree":15,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0036265","count":11},{"id":"GO:0006370","count":11},{"id":"GO:0019919","count":10},{"id":"GO:0046690","count":10},{"id":"GO:0018012","count":10}]},{"hash":"267631707470042974","title":"Cartilage and bone formation via BMP signaling","description":"This cluster is dominated by GO terms for chondrocyte and chondroblast differentiation, osteoblast differentiation, and skeletal system development, all tied to BMP signaling and related ERK cascade activity. Additional terms on endothelial migration and valve morphogenesis align with mesenchymal remodeling during skeletal and craniofacial development. The recurring BMP and bone/cartilage differentiation themes make a cohesive skeletogenesis signature likely.","confidence":"High","size":18,"edges":149,"triangles":754,"max_degree":17,"top_function":"wound healing","top_go_terms":[{"id":"GO:0002062","count":14},{"id":"GO:0060021","count":12},{"id":"GO:0030513","count":12},{"id":"GO:0001501","count":11},{"id":"GO:0045669","count":11}]},{"hash":"1053501366224929133","title":"Embryonic organ morphogenesis","description":"The GO terms cluster around development and morphogenesis across multiple tissues (ureteric bud branching, digestive tract morphogenesis, neural crest migration, pancreas development, Sertoli cell development, lens proliferation, spinal cord interneuron specification) with transcriptional regulation also present, indicating a unifying theme of embryonic organogenesis and differentiation.","confidence":"High","size":18,"edges":61,"triangles":119,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090190","count":9},{"id":"GO:0048557","count":9},{"id":"GO:0001755","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0031018","count":9}]},{"hash":"1922031072889094102","title":"Rho/Rac GTPase Signaling and Cell Polarity","description":"The set is dominated by GO terms for small GTPase signaling, especially Rho and Rac pathways, and regulation of GTPase activity, indicating a cohesive theme of cytoskeletal dynamics and polarity control. Terms like establishment of epithelial cell polarity and regulation of Rac/Rho signaling support this connection, with neutrophil degranulation and vascular remodeling reflecting downstream or related immune and vascular roles of these pathways.","confidence":"High","size":18,"edges":149,"triangles":756,"max_degree":17,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":16},{"id":"GO:0035023","count":16},{"id":"GO:0043314","count":15},{"id":"GO:0043552","count":15},{"id":"GO:0060313","count":15}]},{"hash":"1899467986928740794","title":"Ubiquitin signaling in innate antiviral defense","description":"This cluster is dominated by GO terms related to ubiquitination (protein ubiquitination, autoubiquitination, K63-linked ubiquitination, ERAD pathway) and antiviral/innate immune functions (innate immune response, suppression of viral release, regulation of viral material transport). The overlap strongly suggests a functional module centered on ubiquitin-mediated signaling in host antiviral defense, despite a few unrelated terms. ","confidence":"High","size":18,"edges":13,"triangles":2,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":16},{"id":"GO:1903762","count":15},{"id":"GO:0070534","count":14},{"id":"GO:1901253","count":14},{"id":"GO:1902187","count":14}]},{"hash":"2212134400197014309","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":106,"triangles":347,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0018406","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0006490","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0016576","count":3}]},{"hash":"563152262837132844","title":"Plant GPI-anchor and glycosylation machinery","description":"This cluster shows strong representation for GPI anchor biosynthesis and dolichol-linked oligosaccharide biosynthesis\u2014core steps of protein glycosylation in the ER. Additional terms point to membrane trafficking (receptor-mediated endocytosis), ribonucleoprotein assembly and ER stress\u2013related translation, and several plant-specific processes (pollen tube guidance, cytokinin signaling, photosynthesis). Taken together, the proteins are most coherently grouped as components involved in glycoprotein maturation and ER/secretory-pathway\u2013related trafficking in plants, with some attached signaling contexts.","confidence":"Medium","size":18,"edges":17,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":5},{"id":"GO:0006488","count":4},{"id":"GO:0010183","count":3},{"id":"GO:0006898","count":3},{"id":"GO:0070979","count":2}]},{"hash":"692375562175764692","title":"Epigenetic Histone Modification Regulation","description":"Protein set is dominated by GO terms related to histone modifications (H3-K27/K4/K9 acetylation and methylation) and epigenetic reprogramming, indicating a cohesive epigenetic-regulation cluster. While a few terms touch on development, the core theme is chromatin state regulation via histone marks, justifying this label.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901674","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0021678","count":1},{"id":"GO:0051571","count":1},{"id":"GO:0030901","count":1}]},{"hash":"1207637917857065750","title":"Neuronal signaling and migration","description":"This cluster centers on neural signaling pathways (Rap/GTPase signaling, dopamine response, Wnt signaling) and neural development/migration (tangential migration to the olfactory bulb). While there are some immune-related terms (TLR1 signaling, detection of bacterial lipopeptide), the dominant theme is neural signaling and migration. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0032486","count":3},{"id":"GO:0034130","count":2},{"id":"GO:1902499","count":2},{"id":"GO:0070340","count":2}]},{"hash":"2268214381752929070","title":"Autonomic neuroendocrine-immune signaling","description":"The top GO terms point to autonomic regulation of gut motility and heart function (intestine smooth muscle contraction; regulation of heart contraction by epinephrine/norepinephrine), hormone and neurotrophic factor production, and immune/inflammatory processes (IL-1\u03b2 regulation; neutrophil killing; morphine response). Together they suggest a coherent theme of autonomic, neuroendocrine, and immune interactions coordinating cardiovascular, gut, and inflammatory functions.","confidence":"Medium","size":18,"edges":97,"triangles":227,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":17},{"id":"GO:0070963","count":17},{"id":"GO:0046879","count":17},{"id":"GO:0001997","count":17},{"id":"GO:0071417","count":17}]},{"hash":"781991558615159900","title":"Neural and visceral organ development","description":"The top GO terms cluster around nervous system development (forebrain, brain, neural crest, enteric nervous system) and development of visceral organs (urinary bladder, uterus, digestive tract). A regulatory term on transcription suggests developmental gene regulation. Overall, the cluster reflects developmental processes spanning neural and visceral organogenesis.","confidence":"High","size":18,"edges":16,"triangles":4,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0060157","count":7},{"id":"GO:0060065","count":7},{"id":"GO:0048565","count":7}]},{"hash":"2046571358032113273","title":"BMP-regulated lung and facial morphogenesis","description":"The cluster is enriched for BMP signaling (positive and negative regulation), lung development, and face morphogenesis, along with cell-matrix adhesion and angiogenesis. This suggests proteins coordinating BMP/TGF-\u03b2 signaling with adhesion dynamics to drive lung and craniofacial morphogenesis, with both pro- and anti-signaling roles contributing to tissue remodeling.","confidence":"High","size":18,"edges":17,"triangles":6,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0030514","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0060325","count":3},{"id":"GO:0030509","count":3}]},{"hash":"820203573150708887","title":"Angiogenesis and Adipogenesis","description":"This cluster is enriched for angiogenesis and vascular development terms (angiogenesis, positive regulation of angiogenesis, multicellular organism development) and for adipogenesis (fat cell differentiation), suggesting a vascular-adipose development program. Chemotaxis and mRNA processing point to migratory and gene-expression activities during tissue remodeling, while glycogen metabolism and insulin response hint at metabolic regulation linked to adipose tissue. Together, the dominant theme is angiogenesis with accompanying adipose development, hence the label.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045719","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0002003","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007275","count":3}]},{"hash":"851358029180816923","title":"Actin Remodeling and Developmental Signaling","description":"This cluster centers on Arp2/3 complex\u2013mediated actin nucleation, indicating cytoskeletal remodeling, alongside terms tied to development, transcriptional control, and differentiation (gastrulation, prostate gland development, neuron apoptosis, chromatid segregation, DNA-templated transcription). The overlap suggests a module where cytoskeletal dynamics interface with developmental gene regulation and tissue differentiation, rather than a single narrow function.","confidence":"Medium","size":17,"edges":17,"triangles":4,"max_degree":5,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0034314","count":17},{"id":"GO:0060733","count":16},{"id":"GO:0000070","count":16},{"id":"GO:0006351","count":16},{"id":"GO:0006349","count":16}]},{"hash":"1023928523083858037","title":"Mammary Epithelial Proliferation and Cell Cycle Regulation","description":"The top GO terms consistently point to mammary gland epithelial proliferation and progression through key cell cycle checkpoints (G1/S, G2/M) with associated mitotic processes, transcriptional regulation, and chromatin modifications, indicating a cohesive module focused on proliferation and cycle control in mammary epithelium. Some signaling terms (insulin receptor regulation) and a note of LPS response suggest additional regulatory layers, but the dominant theme remains epithelial proliferation linked to cell cycle control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033598","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0046626","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0000082","count":4}]},{"hash":"1450411216409694249","title":"Chromatin modification and transcription during the cell cycle","description":"The cluster is enriched for DNA-templated transcription and multiple histone modification terms (H3K4/H3K79 methylation, H3 acetylation/deacetylation) along with mitotic cell cycle and cell division terms, pointing to epigenetic regulation of gene expression during cell cycle progression. Some terms (hypoxia response, fertilization, Gram-positive defense) appear less central but may reflect broader transcriptional regulation contexts. Overall, the core theme is chromatin-based control of transcription in dividing cells.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0051568","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0034729","count":6},{"id":"GO:0071456","count":6}]},{"hash":"1602203389223264004","title":"Immune signaling and ER stress response","description":"The GO terms cluster around transcriptional activity (RNA polymerase II), cytokine/interferon production, MHC class II biosynthesis, and ER stress\u2013related unfolded protein response leading to apoptosis, with supporting links to wound healing and circadian rhythm. This combination suggests a coherent theme of immune activation coordinated with ER stress responses and related inflammatory regulation, though one term (segmental identity) may reflect annotation noise. ","confidence":"Medium","size":17,"edges":113,"triangles":426,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0045078","count":12},{"id":"GO:0042089","count":12},{"id":"GO:0007381","count":12},{"id":"GO:1904576","count":12}]},{"hash":"1871188893337943905","title":"ECM remodeling and basement membrane development","description":"The proteins are enriched for extracellular matrix-related processes: ECM organization, cell-matrix adhesion, elastic fiber assembly, and basement membrane development (glomerular basement membrane). The EMT term tied to endocardial cushion formation supports a developmental ECM remodeling theme, suggesting roles in connective tissue and tissue morphogenesis. Some immune signaling terms appear, but the dominant pattern points to ECM and development connections. ","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0045880","count":3},{"id":"GO:0055114","count":3}]},{"hash":"312832604396487000","title":"Mitochondrial respiration and translation","description":"The cluster centers on mitochondrial energy metabolism (electron transport, NADH to ubiquinone; proton-motive ATP synthesis) and mitochondrial ribosome activity (translation and rRNA methylation), suggesting proteins involved in mitochondrial energy production and mitochondrial protein synthesis. Some development terms appear incidental or due to broad annotations.","confidence":"High","size":17,"edges":130,"triangles":597,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0034553","count":2},{"id":"GO:0021762","count":1},{"id":"GO:0015986","count":1}]},{"hash":"874178499217353568","title":"Transcription Initiation and RNA Processing with Ubiquitin Regulation","description":"The top GO terms cluster around transcription initiation (RNA polymerase II preinitiation complex assembly; DNA-templated transcription) and RNA processing/spliceosomal rearrangements, with additional hints of ubiquitin-mediated regulation (K11-linked deubiquitination; histone deubiquitination). While autophagy and ER-Golgi transport appear, the strongest signal is nuclear transcription and RNA processing, sometimes linked to chromatin regulation via deubiquitination. Confidence: Medium","confidence":"","size":17,"edges":133,"triangles":638,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006914","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051123","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1951118956690814154","title":"RNA Splicing and Processing Machinery","description":"The cluster centers on RNA processing and splicing (spliceosome assembly, mRNA splicing) and RNA maturation (tRNA and rRNA processing) with mRNA decay/P-body involvement, suggesting a cohesive set of nuclear RNA processing factors. A plant-abscisic acid response term is present but likely secondary.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000290","count":17},{"id":"GO:0009737","count":15},{"id":"GO:0008033","count":15},{"id":"GO:0030490","count":15},{"id":"GO:0000387","count":15}]},{"hash":"2201749767488464163","title":"Membrane trafficking and proteolysis","description":"Based on GO terms such as receptor-mediated endocytosis, membrane protein intracellular domain proteolysis, mannose trimming in ERAD, and general protein catabolic processes in the vacuole, the cluster appears to group proteins involved in intracellular trafficking and proteolytic processing of membrane-associated or secreted proteins. A few terms (stomatal morphogenesis, isotype switching) are less connected and may be noise, but the dominant signal points to vesicle-mediated transport and proteolysis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010103","count":1},{"id":"GO:0033572","count":1},{"id":"GO:0007039","count":1},{"id":"GO:0042135","count":1},{"id":"GO:1904382","count":1}]},{"hash":"663317181623989365","title":"Unknown","description":"The top GO terms span animal neural development and axon paranode localization alongside plant-specific secondary metabolism and lignin biosynthesis, xenobiotic and antibiotic metabolism. There is no single coherent theme linking these functions for a unified protein cluster, suggesting heterogeneous annotations or cross-species data. Therefore, no intuitive label can be assigned.","confidence":"","size":17,"edges":46,"triangles":31,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0052697","count":5},{"id":"GO:0033330","count":5},{"id":"GO:0009808","count":5}]},{"hash":"1278549261462005664","title":"Neural development and axon guidance","description":"The top GO terms include ephrin receptor signaling, motor neuron axon guidance, and cerebral cortex development, all core to neural development and axon pathfinding. Some terms touch broad cellular processes or unrelated contexts (cell cycle, sperm capacitation, cocaine response), but the dominant neural-development signals justify labeling the cluster as neural development and axon guidance.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045793","count":9},{"id":"GO:0033160","count":8},{"id":"GO:0048013","count":8},{"id":"GO:0008045","count":8},{"id":"GO:0031532","count":8}]},{"hash":"359079212503887765","title":"Mitotic cycle control and transcription regulation","description":"Based on the GO terms, this cluster is enriched for cell cycle control and transcriptional regulation. Several terms focus on mitotic transitions (G1/S and G2/M) and DNA-templated transcription, with related signals for RNA polymerase II\u2013mediated transcription and chromatin modification (histone H3 acetylation). While a defense response term is present, the dominant pattern ties cell-cycle progression to transcriptional and epigenetic regulation, suggesting proteins that coordinate proliferation with gene expression.","confidence":"Medium","size":17,"edges":37,"triangles":14,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000082","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0043966","count":3}]},{"hash":"2264617506209031324","title":"Ribosome biogenesis and translation","description":"The enriched terms point to ribosome assembly and processing (LSU preribosome, LSU/5.8S rRNA maturation, large subunit export) and active translation/elongation with translational fidelity, indicating a cluster of proteins involved in ribosome biogenesis and protein synthesis. ","confidence":"High","size":17,"edges":84,"triangles":203,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:1990145","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0032232","count":3},{"id":"GO:0006414","count":3}]},{"hash":"494513103784561457","title":"Angiogenesis and migration signaling cluster","description":"Angiogenesis and migration are the dominant themes in this set, with multiple terms for blood vessel formation, angiogenesis regulation, melanocyte migration, and cell-matrix adhesion, plus development. Supporting signaling context includes MAPK/JUN activation and NFAT pathway regulation, as well as apoptosis execution and proteasomal turnover, suggesting a coordinated program of vascular/pigment cell remodeling and movement.","confidence":"High","size":17,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0007258","count":7},{"id":"GO:0000187","count":7},{"id":"GO:0097194","count":7},{"id":"GO:0051534","count":6}]},{"hash":"333488483479155409","title":"Plant photosynthesis and cytokinin signaling","description":"This cluster includes GO terms centered on photosynthesis and cytokinin-activated signaling, both characteristic of plant physiology, suggesting proteins involved in chloroplast energy capture and hormone-driven growth regulation. Other terms are more diverse or less prominent, so the core theme is plant photosynthetic and hormonal signaling functions.","confidence":"Medium","size":17,"edges":22,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1901925","count":4},{"id":"GO:0070301","count":3},{"id":"GO:0006730","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0009736","count":2}]},{"hash":"652727902579050451","title":"Rho GTPase\u2013driven cytoskeleton remodeling and cell cycle","description":"The dominant GO terms center on small GTPase signaling (Rho), regulation of Rho pathways, cytoskeletal organization (septin ring), cell migration, and cell cycle processes. Together they point to proteins coordinating cytoskeletal dynamics with cell division, with other terms like tRNA modification and glucose regulation being less central artifacts. Confidence: High","confidence":"","size":17,"edges":9,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0007264","count":5},{"id":"GO:2001275","count":5}]},{"hash":"595660826037440647","title":"Metabolic and Biosynthetic Processes","description":"The dominant GO terms center on metabolism and biosynthesis (L-alanine catabolic process, sterol and antibiotic biosynthesis, redox reactions), suggesting a cluster of proteins involved in various metabolic pathways; a few unrelated terms appear, but the overall pattern supports a metabolic theme. ","confidence":"Medium","size":17,"edges":12,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0030435","count":5},{"id":"GO:0007584","count":4},{"id":"GO:0042853","count":4},{"id":"GO:0060992","count":4}]},{"hash":"609745634201639583","title":"Mitochondrial dynamics in neurons","description":"The top GO terms cluster around mitochondria: mitochondrion inheritance, mitochondrial membrane organization, mitochondrial fission, and intracellular distribution of mitochondria, suggesting a shared function in mitochondrial dynamics. The presence of neural signaling terms like synaptic transmission (GABAergic) and ephrin receptor signaling indicates neuronal context, while heart contraction reflects muscle energy demand\u2014supporting a role for mitochondria in excitable tissues. Taken together, this cluster likely represents proteins involved in mitochondrial dynamics and trafficking within neurons (and related signaling pathways).","confidence":"High","size":17,"edges":82,"triangles":179,"max_degree":13,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051932","count":14},{"id":"GO:0048312","count":14},{"id":"GO:0032456","count":14},{"id":"GO:0000001","count":14},{"id":"GO:0007006","count":14}]},{"hash":"2274648749443620460","title":"Ectodermal Face and Eye Development","description":"The top terms point to development of ectoderm-derived structures and epithelial morphogenesis (face, eye, ectoderm, keratinocytes, tight junctions, digit morphogenesis, skin-related processes) with transcriptional regulation as a core mechanism. While heart development appears among terms, the dominant signal is ectodermal/epithelial patterning and organogenesis, so the label captures the cluster\u2019s representative function.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0060324","count":2},{"id":"GO:0051546","count":2}]},{"hash":"521790212831245187","title":"Muscle differentiation and sarcomere organization","description":"This cluster centers on muscle-related processes: skeletal muscle cell differentiation and sarcomere organization are prominent, suggesting roles in muscle development and fiber architecture. The presence of signaling pathways such as IGF receptor signaling, Rac regulation, and GPCR-related signaling supports growth and cytoskeletal remodeling in muscle cells. Some terms like B cell signaling or visual learning are less directly related, but the strongest cohesive theme is muscle differentiation and sarcomeric structure.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0035914","count":2}]},{"hash":"322970714235479461","title":"GTPase signaling and synaptic regulation in neurons","description":"This cluster centers on GTPase-mediated signaling (Rho and other small GTPases), including regulation of Rho and Ras pathways, which are key for cytoskeleton dynamics, cell migration, and dendritic spine development, all linked to neuronal signaling. The coexistence of GABAergic synaptic transmission suggests a role in neuronal communication and synaptic regulation. Together, these terms point to a cohesive theme of GTPase-driven signaling shaping neuronal structure and synaptic function.","confidence":"Medium","size":17,"edges":32,"triangles":29,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0007205","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5}]},{"hash":"1626304239123334081","title":"ER-Golgi vesicle trafficking and sphingolipid metabolism","description":"This cluster centers on vesicle transport between the ER and Golgi, including retrograde transport and general protein transmembrane transport, plus sphingolipid/ceramide metabolism and homeostasis. The presence of myelination and ER stress/ribophagy terms suggests membrane dynamics and quality control linked to lipid-rich membranes, supporting a cohesive theme of secretory trafficking coupled with lipid regulation.","confidence":"High","size":17,"edges":82,"triangles":196,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090156","count":2},{"id":"GO:1900060","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0006672","count":2}]},{"hash":"660081510056567154","title":"Nuclear transcription, replication, and ribosome biogenesis","description":"The top GO terms cluster around essential nuclear activities: DNA-templated transcription, mitotic DNA replication (Okazaki fragment processing), mitotic chromatid cohesion, ribosomal RNA maturation, and nuclear pore localization. Together these indicate a group of proteins involved in genome maintenance, gene expression, and ribosome biogenesis, with apoptosis terms (neural/glial) appearing as more peripheral annotations. This cohesive theme best explains the mixture of transcription, DNA replication/mitosis, and ribosome-related processes observed. ","confidence":"Medium","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051402","count":4},{"id":"GO:0051301","count":3},{"id":"GO:1903461","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0007064","count":3}]},{"hash":"2235846223283339557","title":"Cellular stress response and receptor signaling","description":"The cluster is enriched for stress-related terms (response to toxic substance, response to hypoxia, cellular oxidant detoxification) and signaling-related processes (receptor internalization, positive regulation of calcium-mediated signaling, DNA-templated transcription), suggesting a theme around how cells respond to stress and regulate signaling pathways. Some terms like nitrogen fixation or heart development appear less related, but the dominant pattern supports a stress-response/receptor-trafficking focus.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":3},{"id":"GO:0009399","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0007596","count":2}]},{"hash":"851522704869028328","title":"Dopaminergic Signaling and Receptor Trafficking","description":"This cluster is dominated by GO terms for dopamine GPCR signaling and processes tied to receptor trafficking\u2014endocytosis, clathrin coat assembly, endosome-to-postsynaptic membrane transport, and positive regulation of receptor recycling\u2014indicating a coherent theme around dopamine signaling linked to receptor internalization and recycling. Some peripheral terms (insulin secretion, muscle/skeletal development, ovarian follicle regulation) may be incidental annotations, but do not override the central trafficking-signaling pattern.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007212","count":2},{"id":"GO:0098887","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0045807","count":2},{"id":"GO:0048268","count":2}]},{"hash":"1075972847114736655","title":"Unknown","description":"The GO terms are scattered across development (placenta morphogenesis, BMP signaling, intestinal stem cell homeostasis, skeletal muscle development, acrosome reaction) and across immune/neural signaling, epigenetic regulation, and viral processes, with no single unifying function or pathway connecting all proteins. Because there is no cohesive theme or direct interaction evident, a specific label cannot be confidently assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060669","count":2},{"id":"GO:1901536","count":2},{"id":"GO:0045869","count":2},{"id":"GO:0048490","count":2},{"id":"GO:0043123","count":2}]},{"hash":"1187271280374218280","title":"Neural and Hair Follicle Development via GTPase Signaling","description":"This cluster shows a coherent theme around development in neural and skin tissues, with key processes like nervous system development, hair follicle placode formation, dendritic spine development, and epithelial cell\u2013cell adhesion, all linked through small GTPase\u2013mediated signaling and protein complex localization, suggesting a shared regulatory module controlling morphogenesis and cell adhesion.","confidence":"Medium","size":17,"edges":116,"triangles":448,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071701","count":15},{"id":"GO:0007399","count":15},{"id":"GO:0046909","count":15},{"id":"GO:0051291","count":15},{"id":"GO:0007264","count":15}]},{"hash":"54228194430878108","title":"Embryogenesis and tissue morphogenesis","description":"Based on the GO terms, the proteins are enriched for embryonic development and tissue morphogenesis across multiple lineages (placenta/trophoblast, cartilage, hair follicle, endocardial cushion EMT) and associated differentiation processes. While there are some regulatory terms related to RNA processing and DNA replication initiation, the dominant theme is developmental differentiation and morphogenesis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0032298","count":2}]},{"hash":"2062581701392711600","title":"Unknown","description":"The top GO terms are highly diverse, including oxidative stress response, protein modification/repair, development, and immune activation, with no single dominant function. This mix suggests no coherent, shared biological theme for the cluster, so Unknown is appropriate.","confidence":"","size":17,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:1990355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006464","count":2},{"id":"GO:0070301","count":2}]},{"hash":"1648109853405617","title":"Embryonic Development and Morphogenesis","description":"This cluster is dominated by GO terms related to embryonic development and tissue formation, including placental/trophoblast differentiation, cartilage morphogenesis, epithelial-to-mesenchymal transition in heart development, left-right pattern formation, and endocrine/pancreatic development, suggesting a cohesive role in embryogenesis and organogenesis. The mitochondrial electron transport terms (complex II assembly and NADH to ubiquinone) are less connected to the main theme and may reflect incidental metabolic associations.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0035270","count":1}]},{"hash":"625493839956828855","title":"Bacterial lipid biosynthesis and antibiotic production","description":"The cluster shows a coherent emphasis on lipid-related biosynthesis: fatty acid elongation, very long-chain fatty acids, mycolic acid biosynthesis, and sphinganine (a sphingolipid) metabolism, plus polyhydroxybutyrate biosynthesis and antibiotic biosynthetic processes. These together suggest bacteria actively producing complex lipids and secondary metabolites, with mycobacterial-type lipid pathways contributing to the signal. Some terms like retinal metabolism and lung development appear less connected and may reflect broad cross-species annotations rather than a core function of this cluster.","confidence":"High","size":17,"edges":17,"triangles":12,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0042574","count":3},{"id":"GO:0006666","count":3}]},{"hash":"12561982538087443","title":"Immune signaling and lymphocyte activation","description":"The GO terms show several immune-related processes (B cell differentiation, NK cell activation, regulation of type I interferon signaling, and regulation of IL-13 production), suggesting the cluster reflects immune signaling and lymphocyte-related modulation. Other terms touch on trafficking and adhesion but do not define a single cohesive pathway, so the strongest common theme is immune function. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070267","count":1},{"id":"GO:0007157","count":1},{"id":"GO:0042998","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0042144","count":1}]},{"hash":"1505901113914802372","title":"Growth Factor Signaling and Immune Regulation","description":"Top GO terms cluster around growth factor signaling (insulin-like growth factor receptor signaling; growth hormone receptor signaling) with additional immune regulation terms (B cell differentiation; TNF production regulation; neutrophil degranulation regulation; Rac/Rho signaling in immune contexts) and metabolic links (glucose import in response to insulin). This combination suggests a cohesive theme of growth-factor\u2013driven signaling that modulates immune cell function and metabolic responses.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0032760","count":3},{"id":"GO:0046325","count":2},{"id":"GO:2001274","count":2}]},{"hash":"667529237478819785","title":"Adhesion and Immune Regulation in Tissue Remodeling","description":"This cluster centers on cell adhesion (heterophilic cell-cell adhesion; regulation of cell-substrate adhesion) and immune processes (T cell apoptotic process; regulation of T cell cytokine production), with additional signals related to differentiation of fat cells and osteoblasts, and responses to nerve injury and external stimuli. The common thread appears to be signaling that coordinates adhesion dynamics, immune modulation, and tissue remodeling/differentiation.","confidence":"Medium","size":17,"edges":7,"triangles":1,"max_degree":6,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0045598","count":6},{"id":"GO:0048678","count":5},{"id":"GO:0045669","count":4},{"id":"GO:0010812","count":4}]},{"hash":"1363145071049292797","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by ubiquitination and protein degradation terms: K48-linked ubiquitination, ubiquitin-dependent ERAD, and ubiquitin-dependent protein catabolic processes, plus a Wnt receptor catabolic process, all pointing to proteostasis via ubiquitin tagging and degradation. There are a few outliers (peroxisomal import, phloem development, X-inactivation terms) that may reflect annotation noise or broader connections to cellular regulation, but the prevailing signal centers on ubiquitin-mediated protein turnover.","confidence":"Medium","size":17,"edges":4,"triangles":0,"max_degree":2,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070936","count":8},{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:1900095","count":5},{"id":"GO:0060816","count":5}]},{"hash":"683943703142370906","title":"Bone development and chondrocyte differentiation","description":"The top GO terms cluster around skeletal system development, chondrocyte differentiation and maturation, bone mineralization and resorption, and calcium homeostasis, indicating a coherent theme of bone and cartilage formation and remodeling. The terms suggest these proteins work in skeletal development and cartilage biology rather than unrelated pathways.","confidence":"High","size":17,"edges":11,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902733","count":1},{"id":"GO:0060649","count":1},{"id":"GO:0001501","count":1},{"id":"GO:0030501","count":1},{"id":"GO:0006874","count":1}]},{"hash":"646244838006957885","title":"Cardiac Potassium Channel Regulation","description":"The terms cluster around potassium ion transport and handling, membrane potential maintenance, and cardiac action potentials (including repolarization and heart-rate regulation), all pointing to potassium channels driving cardiac electrical activity. A peripheral term on mechanosensory detection is present but does not define the cluster\u2019s core function. ","confidence":"High","size":17,"edges":66,"triangles":111,"max_degree":13,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0060075","count":16},{"id":"GO:0098914","count":16},{"id":"GO:1990573","count":10},{"id":"GO:0086091","count":10},{"id":"GO:0086002","count":10}]},{"hash":"47736486776346975","title":"Cell division and cytokinesis machinery","description":"Dominated by cell division and mitosis-related terms (cell division, exit from mitosis, mitotic cell cycle, division septum assembly) and cytoskeletal remodeling (stress fiber assembly) with related protein complex formation (heterooligomerization). Though a few terms touch xenobiotic response, the prevalent theme is cell-division machinery and cytokinesis across organisms, justifying the label.","confidence":"High","size":17,"edges":8,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0000055","count":9},{"id":"GO:0030011","count":8},{"id":"GO:0010458","count":8},{"id":"GO:0000917","count":8}]},{"hash":"1021736311347562243","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent degradation, including autoubiquitination, ubiquitin-dependent protein catabolic process, ERAD, and K48/K6-linked ubiquitination. While there are also related terms touching chromatin remodeling and immune signaling, the core theme is ubiquitin-mediated proteolysis across proteins and pathways.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":12},{"id":"GO:0042787","count":12},{"id":"GO:0030433","count":11},{"id":"GO:0070936","count":11},{"id":"GO:1903265","count":11}]},{"hash":"683407131153265119","title":"Spliceosome Assembly and mRNA Splicing Regulation","description":"The cluster shows a strong enrichment for spliceosome-related terms (mRNA splice site recognition, alternative splicing, and negative regulation of mRNA splicing) along with small-subunit processome assembly, indicating a coherent role in RNA processing and splicing control. There are additional signals related to translational initiation, but the dominant theme is spliceosome-mediated mRNA processing and splicing regulation.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":17},{"id":"GO:0006376","count":17},{"id":"GO:0000380","count":17},{"id":"GO:0034462","count":17},{"id":"GO:0075522","count":17}]},{"hash":"411729797446758496","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around broad embryonic development, including placental/trophoblast differentiation, left-right patterning, and morphogenesis of multiple organs (ear, cartilage, pancreas, etc.), with transcriptional regulation noted. This suggests a cohesive theme of embryonic differentiation and organ formation rather than a single tissue or pathway.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5}]},{"hash":"1886908042849514159","title":"Innate Immunity and Developmental Remodeling","description":"The Top Terms include innate immune response and complement activation indicating immune signaling, as well as nervous system development, somite development, and multicellular organism development, plus collagen fibril organization and apoptotic cell clearance. This mix suggests proteins that bridge immune responses with developmental and tissue-remodeling processes, including extracellular matrix remodeling and clearance of dying cells, rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0007275","count":3}]},{"hash":"5028193524102620","title":"Mitochondrial dynamics and lipid metabolism","description":"The top GO terms show a strong emphasis on mitochondrial processes: positive regulation of mitochondrial DNA replication, mitochondrial membrane potential, and stress-induced mitochondrial fusion, pointing to a mitochondria-centric module. Lipid metabolism is also implicated by SREBP signaling and negative regulation of cholesterol biosynthesis, suggesting coordination between mitochondrial function and lipid homeostasis. A few terms related to ER quality control and cell signaling (ERAD, cadherin-mediated adhesion, IL-2 production) appear but are less central, so the core theme is mitochondrial dynamics combined with lipid metabolism.","confidence":"High","size":17,"edges":15,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:2000049","count":1},{"id":"GO:0090297","count":1},{"id":"GO:0032933","count":1},{"id":"GO:1990046","count":1}]},{"hash":"256813830885228235","title":"Steroid biosynthesis and mitochondrial calcium signaling","description":"The cluster shows explicit steroid-related processes (progesterone biosynthetic process; steroid biosynthetic process) and mitochondrial calcium handling (calcium import into the mitochondrion; positive regulation of mitochondrial calcium ion concentration), plus ER organization, which together point to steroid hormone production linked to mitochondrial/ER function. Additional terms related to insulin secretion and fat cell differentiation suggest broader metabolic regulation in endocrine contexts, reinforcing a steroidogenesis\u2013metabolism theme. ","confidence":"High","size":17,"edges":29,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045599","count":2},{"id":"GO:0032024","count":2},{"id":"GO:0036444","count":2},{"id":"GO:0035786","count":2},{"id":"GO:0051561","count":2}]},{"hash":"1830408867009196480","title":"Autophagy and endolysosomal trafficking","description":"The cluster is enriched for terms governing autophagosome maturation, endolysosomal transport, and Rab/Rap signaling, as well as membrane remodeling and microtubule-based vesicle movement. Together these indicate a cohesive function in autophagy regulation and endosome/lysosome trafficking along the secretory and recycling pathways.","confidence":"High","size":17,"edges":18,"triangles":11,"max_degree":5,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1903527","count":9},{"id":"GO:0016477","count":7},{"id":"GO:1901097","count":6},{"id":"GO:0032418","count":6},{"id":"GO:0032483","count":6}]},{"hash":"1758048044494175693","title":"Immune cell development and Rho/Rac signaling","description":"This cluster is driven by immune-related differentiation and development terms (interleukin-4 production, cellular response to interleukin-7, B cell affinity maturation, NK T cell differentiation, hematopoiesis), indicating hematopoietic lineage specification and lymphocyte maturation. It also centers on cytoskeletal and small GTPase signaling (regulation of Rho and Rac signaling, small GTPase-mediated signaling, lamellipodium assembly), which are key for immune cell activation, migration, and actin remodeling. Together, these terms suggest a cohesive theme of immune development tied to actin dynamics and GTPase-driven signaling.","confidence":"High","size":17,"edges":100,"triangles":311,"max_degree":16,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0032633","count":15},{"id":"GO:0098761","count":15},{"id":"GO:0002344","count":15},{"id":"GO:0001865","count":15},{"id":"GO:0035023","count":15}]},{"hash":"1934325254042298070","title":"Secretory granule and neural differentiation","description":"This cluster centers on neuronal development terms (cerebellar granule cell differentiation; nerve growth factor signaling) and secretory/vesicle-related processes (mast cell degranulation; secretory granule localization; microvillus assembly), suggesting a common theme of secretion and signaling machinery across neural and secretory cell types.","confidence":"Medium","size":17,"edges":28,"triangles":26,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":3},{"id":"GO:0090630","count":2},{"id":"GO:0003209","count":2},{"id":"GO:0034242","count":2},{"id":"GO:0043303","count":2}]},{"hash":"1657828188286015823","title":"Ribosome biogenesis and RNA processing","description":"Top GO terms point to ribosome biogenesis and RNA processing (90S preribosome assembly, rRNA processing, translation initiation/reinitiation, spliceosome-mediated splicing, polyadenylation) with additional signals for transcription and cell-cycle processes. The common theme is RNA maturation and ribosome production.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0006378","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0098789","count":4}]},{"hash":"48504529263429495","title":"Neural development and GPCR signaling","description":"This cluster is enriched for neural-related processes: phospholipase C-activating GPCR signaling, cAMP biosynthesis, and serotonergic neuron axon guidance, plus regulation of blood-brain barrier establishment and neural maturation. While there are outlier terms (seminiferous tubule development, angiogenesis regulation, ETC), the dominant theme ties to neuronal development and signaling pathways, especially GPCR-driven signaling and axon guidance in the CNS.","confidence":"Medium","size":17,"edges":32,"triangles":21,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007200","count":17},{"id":"GO:0072520","count":17},{"id":"GO:0036515","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0006171","count":16}]},{"hash":"2301193469331802004","title":"Cell cycle checkpoints, telomere maintenance, and apoptosis regulation","description":"These terms cluster around cell cycle control (G2/M regulation), telomere maintenance and capping, and apoptosis signaling (extrinsic pathway and cytochrome c release), with hints of transcriptional repression and altered nuclear import, implying a stress-response module coordinating division, genome integrity, and programmed cell death.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010389","count":2},{"id":"GO:2000480","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0042308","count":2}]},{"hash":"1745700641466834046","title":"Angioblast and mesodermal vascular development","description":"Most GO terms revolve around vascular and mesodermal processes: lymph vessel development, angioblast migration from lateral mesoderm to midline, and mesodermal cell migration, plus related regulation of heart function and blood pressure. A few terms appear unrelated (drinking behavior, heat generation) but do not overwhelm the vascular theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001945","count":1},{"id":"GO:0002026","count":1},{"id":"GO:0045776","count":1},{"id":"GO:0090134","count":1},{"id":"GO:0035479","count":1}]},{"hash":"1271726021349308706","title":"Neuronal growth and mitochondrial regulation","description":"The cluster centers on neuronal development features: neuron projection development and axon extension, supported by microtubule bundle formation and calcium-mediated signaling. It also includes mitochondrial-related processes (negative regulation of mitochondrial fission and localization to mitochondrion) and neuron-specific structural aspects like neurofibrillary tangle assembly, suggesting a cohesive module coordinating axon outgrowth with cytoskeletal and mitochondrial dynamics. ","confidence":"Medium","size":17,"edges":51,"triangles":92,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0050848","count":11},{"id":"GO:1901216","count":11},{"id":"GO:0031175","count":11},{"id":"GO:1903748","count":11},{"id":"GO:1902988","count":11}]},{"hash":"1104423243406900047","title":"Neuronal membrane transport and myelination","description":"Top GO terms indicate membrane transport (transmembrane transport, chemical synaptic transmission, polyamine transport), ion and cell volume homeostasis (chloride ion homeostasis, cell volume homeostasis, regulation of cell volume), and neuron-specific development processes (dendritic spine development, myelination). This combination suggests a cluster of membrane proteins involved in neural transport and regulation, contributing to synaptic function and myelination. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0055085","count":6},{"id":"GO:0042552","count":5},{"id":"GO:0098713","count":5},{"id":"GO:0060996","count":5},{"id":"GO:1902269","count":5}]},{"hash":"1740316311572354127","title":"Sphingolipid metabolism and signaling","description":"This cluster is dominated by terms related to sphingolipid metabolism (sphinganine-1-phosphate and sphingosine pathways) and regulation of sphingolipid-mediated signaling, with supporting lipid biosynthesis/dephosphorylation processes (phospholipid dephosphorylation, phosphatidylglycerol biosynthesis). While some GO terms reference obsolete Wnt signaling, the strongest signal points to lipid metabolism and sphingolipid signaling as the core theme. Confidence: High.","confidence":"","size":17,"edges":42,"triangles":31,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0044330","count":6},{"id":"GO:0006668","count":6},{"id":"GO:1902068","count":6},{"id":"GO:0044328","count":6},{"id":"GO:0006670","count":6}]},{"hash":"171189688045121936","title":"Neural development and axon guidance","description":"Top GO terms indicate strong enrichment for nervous system development, CNS development, and synaptic assembly, along with neuronal adhesion and axon-related localization (paranode). While a few terms reference other organs, the dominant signal is neural differentiation and connectivity, suggesting a cluster of proteins involved in neural development and axon guidance. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007417","count":8},{"id":"GO:0030513","count":7},{"id":"GO:0007399","count":6},{"id":"GO:0002175","count":6},{"id":"GO:0045765","count":6}]},{"hash":"378364247923731755","title":"Cellular stress responses and inflammatory signaling","description":"This cluster shows enrichment for cellular responses to UV-B and pH, autophagy-related processes, and regulation of cytokine production including IL-6, pointing to a theme of stress response coupled with inflammation; other terms like endothelial migration and growth regulation are supportive but less central. Overall, a label centered on stress/inflammation best captures the shared functions.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030308","count":3},{"id":"GO:0071467","count":3},{"id":"GO:0034727","count":2},{"id":"GO:0071493","count":2},{"id":"GO:0043542","count":2}]},{"hash":"1117871140103991529","title":"Integrated cardiovascular and immune signaling","description":"The terms center on muscle contraction in cardiac and intestinal smooth muscle, plus hormone secretion and various immune and vascular regulatory processes (IL-1\u03b2 production, neutrophil killing, endothelial barrier regulation) and neurotrophic/hormonal signals. This suggests a theme of coordinated signaling that links cardiovascular/smooth muscle function with endocrine and immune modulation, rather than a single narrow function.","confidence":"Medium","size":17,"edges":128,"triangles":569,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":17},{"id":"GO:0070963","count":17},{"id":"GO:0046879","count":17},{"id":"GO:0001997","count":17},{"id":"GO:0071417","count":17}]},{"hash":"1751942916639144948","title":"Skeletal muscle contraction and signaling regulation","description":"These proteins show strong enrichment for skeletal muscle\u2013related processes: muscle contraction, calcium-handling via negative regulation of calcium-dependent ATPase activity, and skeletal muscle differentiation. They also feature regulatory controls over growth and signaling pathways (TGF-beta/BMP and PI3K/AKT) that influence muscle development and function, with chloride transport common in muscle physiology. A few terms about nuclear envelope dynamics appear, but the dominant pattern points to muscle function and its signaling regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903611","count":2},{"id":"GO:0006936","count":2},{"id":"GO:0048147","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0035914","count":1}]},{"hash":"1927640714016600204","title":"Neuronal adhesion and synapse assembly","description":"This cluster is dominated by GO terms for neuron-to-neuron and neuron-to-glia adhesion (homophilic/heterophilic) and nervous system development, plus positive regulation of synapse assembly and dendritic spine modulation, pointing to a shared role in establishing neural contacts and synapse formation. A few terms (complement activation, phagocytosis) may reflect immune components in neural tissue but are less central to the core function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0007158","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043931","count":4}]},{"hash":"2166451627100167093","title":"Neuroendocrine-immune signaling and muscle function","description":"Top GO terms include intestinal smooth muscle contraction, heart contraction regulation by adrenaline, hormone secretion, immune modulation (IL-1\u03b2 production), neutrophil-mediated killing, neural signaling (glial-derived neurotrophic factor production, morphine response), and endothelial barrier regulation, suggesting a theme of coordinated signaling across neuroendocrine, immune, and muscular systems. This supports labeling the cluster as neuroendocrine-immune signaling and muscle function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":17},{"id":"GO:0070963","count":17},{"id":"GO:0046879","count":17},{"id":"GO:0001997","count":17},{"id":"GO:0071417","count":17}]},{"hash":"1256470949473969356","title":"Retinoid metabolism in neural and craniofacial development","description":"The top GO terms reveal strong retinoid metabolism signals (retinal, retinol, and 9-cis-retinoic acid biosynthesis) paired with neural and craniofacial development terms (forebrain and face development). This suggests the cluster comprises proteins involved in retinoid signaling that guides brain and facial structure formation, with a neural-related functional readout like righting reflex supporting neural activity. Confidence: High","confidence":"High","size":16,"edges":71,"triangles":170,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":9},{"id":"GO:0042572","count":9},{"id":"GO:0042904","count":8},{"id":"GO:0060013","count":6},{"id":"GO:0019545","count":6}]},{"hash":"2001102490772192905","title":"Organogenesis and tissue development","description":"This cluster\u2019s top GO terms cluster around broad developmental processes across multiple tissues\u2014skeletal system development, heart development, lung mesenchyme development, and multicellular organism development\u2014with additional hints of nervous system development (synapse assembly) and lineage differentiation (melanocyte, brown fat). While there are some immune-related terms present, the overall theme points to organogenesis and tissue morphogenesis rather than a single specific pathway, so a general development-focused label fits best.","confidence":"Medium","size":16,"edges":21,"triangles":7,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0071222","count":4}]},{"hash":"588556994850734261","title":"Developmental gene expression and proliferation","description":"This cluster shows enrichment across transcriptional regulation, translation signaling (GCN2), cell cycle and cytoskeletal processes, and multiple developmental/differentiation pathways (gastrulation, prostate gland development, taste perception, neuronal apoptosis, and proliferation). The common theme centers on growth, gene expression control, and developmental differentiation rather than a single narrow function, supporting the broad label of developmental gene expression and proliferation.","confidence":"Medium","size":16,"edges":110,"triangles":443,"max_degree":15,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060733","count":15},{"id":"GO:0000070","count":15},{"id":"GO:0034314","count":15},{"id":"GO:0006351","count":15},{"id":"GO:0006349","count":15}]},{"hash":"647483525546657118","title":"Synaptic organization and plasticity","description":"The top GO terms center on localization to synapse, receptor clustering, dendritic spine morphogenesis, and Rho GTPase signaling, all of which drive synapse assembly and activity-dependent plasticity (including long-term depression). Neural-context terms like sensory perception of sound and social behavior reinforce a neuronal synapse theme, while a single apoptotic term likely reflects developmental pruning rather than a core function of the cluster. ","confidence":"High","size":16,"edges":99,"triangles":339,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":14},{"id":"GO:0008285","count":14},{"id":"GO:0043113","count":14},{"id":"GO:0060997","count":14},{"id":"GO:0007266","count":14}]},{"hash":"1726630229685754761","title":"Neuronal signaling and synaptic transmission","description":"The top GO terms point to neural communication and development, including GPCR and tachykinin receptor signaling, neurotrophin TRK signaling, synaptic vesicle exocytosis, and catecholamine secretion, plus spinal cord development. A few terms touch on immune processes, but the dominant pattern is neuronal signaling and synaptic function, so the label reflects the cluster.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0043314","count":6},{"id":"GO:0007217","count":6}]},{"hash":"1704159544515177174","title":"Inner ear sensory neuron development and synapse signaling","description":"The cluster\u2019s top GO terms cluster around inner ear receptor cell development, synapse assembly, and receptor tyrosine kinase signaling, suggesting a core theme of sensory neuron development and synaptic communication. Auxiliary terms like prostaglandin signaling, xenobiotic response, and LPS response indicate broader signaling and stress responses, while electron transport and collagen organization points to general cellular/structural roles. Overall, the strongest signal is in sensory neuron development and synaptic signaling, particularly related to the inner ear.","confidence":"Medium","size":16,"edges":41,"triangles":42,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0060119","count":4}]},{"hash":"28826131721886885","title":"Phosphoinositide signaling and STAT/IFN regulation","description":"The top GO terms emphasize phosphatidylinositol biosynthesis and PI3P production, alongside negative regulation of STAT phosphorylation and type II interferon signaling, suggesting a module centered on lipid-mediated signal transduction that interfaces with JAK-STAT/IFN pathways. Additional development-related terms may reflect broader roles in hematopoietic and brain development, but the core theme remains lipid signaling linked to cytokine pathways.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042512","count":16},{"id":"GO:0046854","count":16},{"id":"GO:0036092","count":16},{"id":"GO:1903997","count":16},{"id":"GO:0043552","count":16}]},{"hash":"2137698776561895248","title":"Innate Immunity and Neurodevelopment","description":"The cluster is enriched for innate immune processes (innate immune response, defense to Gram-positive bacterium) alongside endocytosis and transcription, plus developmental terms including CNS neuron development and skeletal development. This pattern suggests proteins that participate in immune signaling with links to neural development, justifying a label that spans both immunity and neurodevelopment domains.","confidence":"Medium","size":16,"edges":17,"triangles":3,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0014068","count":3}]},{"hash":"620035190169000587","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000462","count":4},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1750957484417114277","title":"Cell adhesion and tissue development","description":"The top GO terms are dominated by adhesion-related processes (heterophilic cell-cell adhesion; cell-matrix adhesion) and developmental/morphogenesis signals (ossification, photoreceptor differentiation, axonal fasciculation, keratinocyte proliferation). Together these suggest a cluster of proteins involved in cell adhesion and tissue development, with some ancillary immune signaling terms likely reflecting broader extracellular interactions. Confidence: Medium","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007160","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0007413","count":4}]},{"hash":"1946236268651216728","title":"Regulatory signaling in vascular and metabolic processes","description":"These proteins appear to participate in broad regulatory signaling affecting vascular biology (endothelial proliferation, smooth muscle migration), metabolism (glucose import, gluconeogenesis, glycogen synthesis), immune activity (complement activation, MCP-1 production), renal function (albumin absorption), and synapse assembly, rather than a single cohesive pathway. This suggests a general regulatory hub spanning vascular, metabolic, and immune contexts.","confidence":"Medium","size":16,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001938","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0046326","count":4},{"id":"GO:0071639","count":4}]},{"hash":"290540792694953753","title":"PI3K/AKT-VEGF Developmental Signaling","description":"Predominant GO terms point to PI3K/AKT and VEGF receptor signaling with links to multicellular development; additional terms like glucose stimulus response and autophagy regulation reflect downstream signaling and metabolic context, with some auxiliary references to NFAT signaling and neuronal-related processes. Overall, the cluster centers on growth-factor\u2013driven, development-associated signaling pathways.","confidence":"High","size":16,"edges":7,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":7},{"id":"GO:0048010","count":7},{"id":"GO:0071333","count":7},{"id":"GO:0051534","count":6},{"id":"GO:0050830","count":6}]},{"hash":"1014033230329199077","title":"Cardiac Muscle Development and Cell Migration","description":"This cluster features strong signals for heart development and striated muscle differentiation, reinforced by actin cytoskeleton organization and small GTPase\u2013mediated signaling. Additional terms point to cell movement and adhesion regulation (cell migration, regulation of integrin activation), as well as vascular remodeling and growth signaling (insulin-like growth factor receptor signaling). Taken together, the proteins appear to participate in cardiovascular muscle development with coordinated cytoskeletal dynamics and motility.","confidence":"High","size":16,"edges":18,"triangles":3,"max_degree":7,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0051146","count":4}]},{"hash":"1996790373632113733","title":"Transcription Regulation and Cell Cycle","description":"This cluster is dominated by GO terms related to gene expression control, notably DNA-templated transcription and histone H3 acetylation, with clear ties to cell cycle and growth regulation (mitotic cell cycle, negative regulation of cell growth). The additional development-related terms (brain, gonad, bladder, ascospore formation) hint at broad regulatory roles across tissues and species, rather than a single pathway. Overall, the common theme is regulation of transcription/chromatin with links to cell proliferation and development.","confidence":"Medium","size":16,"edges":81,"triangles":194,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007420","count":3}]},{"hash":"821378569417545518","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090503","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0070935","count":4},{"id":"GO:0098586","count":4},{"id":"GO:0007519","count":4}]},{"hash":"1931599290505618157","title":"Cell cycle and DNA replication regulation","description":"The top GO terms show mitotic transitions (G1/S and G2/M), DNA replication, RNA polymerase II transcription, ubiquitin-dependent proteasomal degradation, and nucleotide-excision repair, indicating a cohesive cluster of proteins coordinating cell-cycle progression with genome duplication and transcriptional control.","confidence":"High","size":16,"edges":115,"triangles":495,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000086","count":4},{"id":"GO:0006366","count":4},{"id":"GO:0000082","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1626429049558157062","title":"Cardiac development and embryogenesis","description":"This cluster is enriched for heart-related developmental processes, notably epithelial-to-mesenchymal transition in endocardial cushion formation, cardiac muscle cell proliferation, and in utero embryonic development, indicating a core theme of cardiac development with some broader embryonic processes.","confidence":"High","size":16,"edges":32,"triangles":14,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0071230","count":3},{"id":"GO:0060749","count":2},{"id":"GO:0006808","count":2},{"id":"GO:0030279","count":2}]},{"hash":"706374130978085455","title":"Starvation-Driven Lipid and Ketone Catabolism","description":"The cluster\u2019s strongest signals are catabolic processes related to energy production under starvation, notably fatty acid beta-oxidation, ketone body catabolism, and amino acid (isoleucine) catabolism, plus a response to starvation. Developmental terms for liver, adipose tissue, and brain suggest tissue contexts but do not outweigh the core metabolic theme; overall, it points to energy-yielding lipid/ketone metabolism during nutrient scarcity.","confidence":"High","size":16,"edges":98,"triangles":329,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":8},{"id":"GO:0042594","count":8},{"id":"GO:0006550","count":7},{"id":"GO:0046952","count":7},{"id":"GO:0032385","count":7}]},{"hash":"1351507893863626207","title":"ECM-driven vascular remodeling and inflammation","description":"The cluster is dominated by terms related to extracellular matrix organization (collagen fibril organization) and mechanotransduction (cellular response to mechanical stimulus), with signals affecting vascular cell proliferation and signaling (positive regulation of EGFR signaling, vascular smooth muscle cell proliferation) and endothelial behavior (negative regulation of endothelial cell migration). Inflammatory context is supported by acute-phase response and IL-8 production. While kidney development appears among terms, the strongest theme ties to ECM- and vascular-associated remodeling and inflammatory signaling.","confidence":"High","size":16,"edges":63,"triangles":76,"max_degree":11,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0030199","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0045742","count":7},{"id":"GO:1904707","count":7},{"id":"GO:0014068","count":7}]},{"hash":"1078168059311934891","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":113,"triangles":466,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0042797","count":4},{"id":"GO:0001172","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000480","count":4}]},{"hash":"1983110774190789321","title":"Neuronal development and synaptic localization with translational control","description":"This cluster is enriched for neuronal development and synapse-related functions (dendrite morphogenesis, hippocampus development, protein localization to synapse), and includes translational regulation via eIF2\u03b1 phosphorylation and mRNA processing. While a couple terms pertain to broader localization or proliferation, the dominant theme ties neuronal development and synaptic targeting with control of translation and RNA processing.","confidence":"Medium","size":16,"edges":30,"triangles":17,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035418","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0007318","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0021766","count":3}]},{"hash":"360588963101846263","title":"Organ Development and Differentiation","description":"The top GO terms depict development and cell fate specification across multiple tissues (lung/bronchiole, spinal cord neurons and oligodendrocytes, cortex interneurons, cochlea, skeletal muscle, cartilage, pancreas), with a general transcriptional activity term. This pattern points to a cluster of proteins involved in broad organogenesis and tissue-specific differentiation rather than a single pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060435","count":3},{"id":"GO:0060163","count":3},{"id":"GO:0021530","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0021892","count":3}]},{"hash":"907289591087252365","title":"Endocytosis and vesicle trafficking","description":"The cluster is dominated by GO terms related to endocytosis, Golgi-to-endosome transport, and clathrin-mediated vesicle trafficking, with additional notes on actin dynamics (Arp2/3 regulation) and receptor signaling modulation (EGFR/PDGFR pathways). While a couple terms are broader or less directly tied (e.g., iron import, storage protein import), the strongest signal is endocytic trafficking and its regulation by the actin cytoskeleton, which likely coordinates receptor signaling and membrane transport. This makes the label Endocytosis and vesicle trafficking a concise, representative theme for the cluster.","confidence":"High","size":16,"edges":116,"triangles":510,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":12},{"id":"GO:0000147","count":12},{"id":"GO:2000369","count":12},{"id":"GO:0006897","count":12},{"id":"GO:0045742","count":11}]},{"hash":"1434304567245259417","title":"Vertebrate Development and Innate Immunity","description":"The top GO terms show a mix of vertebrate development (neural tube closure; multicellular organism development; skeletal system development) and innate immune functions (innate immune response; defense response to Gram-positive bacteria), with additional signals related to cytoskeletal organization (protein localization to microtubule) and stress responses (cellular response to cadmium ion). This suggests a cluster that centers on developmental processes intertwined with immune signaling and cytoskeletal dynamics, rather than a single, narrow function. ","confidence":"Medium","size":16,"edges":83,"triangles":245,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0035372","count":7}]},{"hash":"472445879416510610","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome assembly and function, including export of the large subunit from the nucleus, cytoplasmic translation, small subunit biogenesis, and tRNA modification, pointing to core protein synthesis machinery as the defining theme; other terms hint at growth-related processes like cell cycle/division, which often accompany ribosome biogenesis.","confidence":"High","size":16,"edges":7,"triangles":1,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0000055","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0002181","count":6},{"id":"GO:0045036","count":6},{"id":"GO:1903833","count":6}]},{"hash":"1803689893490604744","title":"Neural development and synaptic function","description":"The cluster is enriched for neural-related processes, including synaptic transmission and vesicle transport, actin-dependent cell motility, and migration of neural precursors (radial glia and Purkinje cells). SMAD signaling and adherens junction organization further support developmental and connectivity aspects in neural tissue. While a few terms touch non-neural development (lung alveolus, erythrocyte differentiation), the predominant theme ties to neurons and their synaptic machinery.","confidence":"Medium","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":2},{"id":"GO:2000643","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0060319","count":2},{"id":"GO:0048491","count":2}]},{"hash":"2073996931346413146","title":"Ribosome Biogenesis and Translation","description":"Top terms center on ribosome biogenesis, export of large subunit, and ribosomal assembly, plus cytoplasmic translation and tRNA modification. This points to a functional cluster of ribosome production and protein synthesis machinery. Some cell-cycle related terms are present but secondary to the core ribosome/translation theme.","confidence":"High","size":16,"edges":90,"triangles":256,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0051301","count":2}]},{"hash":"711105984722694924","title":"Proteostasis and DNA Damage Response","description":"This cluster shows strong enrichment for ubiquitin-proteasome\u2013related processes (proteasome assembly; ubiquitin-dependent protein catabolic process) and stress/damage signaling (cellular response to ionizing radiation; intra-S DNA damage checkpoint signaling; response to anoxia). While a few terms touch on differentiation and metabolism, the core pattern centers on regulated protein turnover and stress response pathways, justifying this label.","confidence":"Medium","size":16,"edges":94,"triangles":297,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0031573","count":2}]},{"hash":"220491830430355336","title":"Unknown","description":"The terms span diverse biology (immune, neural, muscle development, circadian rhythm, signaling) with no single unified function linking them all. This suggests the cluster is functionally heterogeneous or contains annotation noise, so a cohesive, specific label isn\u2019t discernible.","confidence":"","size":16,"edges":19,"triangles":9,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002467","count":13},{"id":"GO:0007399","count":12},{"id":"GO:0045496","count":12},{"id":"GO:0035914","count":12},{"id":"GO:2000312","count":12}]},{"hash":"1187909296018182532","title":"Nuclear envelope and ER organization","description":"Top GO terms cluster around nuclear envelope organization, localization to the nuclear envelope, and endoplasmic reticulum organization, with related membrane activities such as ATP-dependent transport and calcium transporter regulation. While a few terms pertain to immune signaling or development, the strongest and most coherent signal is membrane/organellar organization near the nucleus, justifying this label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071763","count":1},{"id":"GO:0090435","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0007029","count":1},{"id":"GO:1901896","count":1}]},{"hash":"1439090605134653898","title":"Sphingolipid metabolism and signaling","description":"The top terms are clearly centered on sphingolipid biology: sphinganine-1-phosphate metabolic process, regulation of sphingolipid mediated signaling pathway, and sphingosine metabolic process, with supporting lipid-related processes like phospholipid dephosphorylation and phosphatidylglycerol biosynthetic process. While a few unrelated terms (glucose-6-phosphate transport, germ cell repulsion, cellular oxidant detoxification) appear, they are likely peripheral noise. Overall, the cluster most likely reflects sphingolipid metabolism and signaling activity.","confidence":"Medium","size":16,"edges":103,"triangles":368,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0044330","count":5},{"id":"GO:0006668","count":5},{"id":"GO:1902068","count":5},{"id":"GO:0044328","count":5},{"id":"GO:0006670","count":5}]},{"hash":"251334720128424768","title":"Hepatic metabolism and detoxification","description":"GO terms cluster around liver-centric metabolism and detoxification, including retinol/retinal metabolism, bile acid catabolism, and glutathione biosynthesis, plus liver regeneration and stress responses (cadmium exposure and CDK activity regulation). This combination suggests a hepatocyte-focused functional theme rather than a general cellular process.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071276","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0097421","count":2}]},{"hash":"696310564528443658","title":"DNA Damage Response and Chromatin Regulation","description":"The top terms cluster around DNA-templated transcription, p53-mediated DNA damage response, protein kinase activation, and chromatin remodeling (histone acetylation, control of heterochromatin), suggesting a module linking DNA damage signaling to transcriptional output and chromatin state; a few terms (lysosome localization, seminiferous tubule development) appear less central but do not overturn the core theme.","confidence":"High","size":16,"edges":87,"triangles":239,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0032418","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006978","count":2},{"id":"GO:2000219","count":2}]},{"hash":"1699648025793391134","title":"Neuronal development with mitochondrial fission and actin dynamics","description":"The cluster highlights nervous system/brain development, GABAergic synaptic transmission, and filopodium/actin remodeling, together with mitochondrial fission and small GTPase signaling. This points to proteins coordinating neuronal maturation and synapse formation through cytoskeletal dynamics and mitochondrial dynamics in developing neurons.","confidence":"High","size":16,"edges":60,"triangles":101,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000266","count":12},{"id":"GO:0007264","count":12},{"id":"GO:0007399","count":11},{"id":"GO:1900026","count":11},{"id":"GO:0051932","count":11}]},{"hash":"2108000436683363685","title":"NOD2\u2013NF-\u03baB\u2013Linked Inflammation and Cell Cycle Regulation","description":"This cluster\u2019s top GO terms center on NOD2 signaling and NF-\u03baB\u2013related transcriptional regulation, with evidence for inflammatory response and transcriptional control, alongside cell cycle and DNA-templated transcription terms. The combination suggests proteins that participate in innate immune signaling that intersects with transcriptional regulation and cell-cycle processes, rather than a single isolated function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2}]},{"hash":"166340102444069472","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042273","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000480","count":4},{"id":"GO:0000472","count":4},{"id":"GO:0060303","count":4}]},{"hash":"736785050902330641","title":"Regulation of cytotoxic immune responses and cell adhesion","description":"Based on the Top Terms, the cluster is enriched for both negative regulation of cytotoxic activities (cytotoxic T cell degranulation, NK cell cytotoxicity) and modulation of macrophage activation, alongside cell adhesion\u2013related terms and antibody-dependent cellular cytotoxicity. This points to a functional theme of immune regulation of cytotoxic effector functions, coordinated with cell\u2013cell adhesion signaling. Some nervous system development terms appear incidental, but the dominant signal is immune cytotoxicity control and adhesion.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":15},{"id":"GO:0090138","count":15},{"id":"GO:0002859","count":15},{"id":"GO:0043031","count":14},{"id":"GO:0001788","count":14}]},{"hash":"2246737513495728045","title":"Embryonic neural and organ morphogenesis","description":"The top GO terms point to development and morphogenesis of neural structures (medullary reticular formation, metencephalon, facial nucleus, trigeminal nerve, cochlea) as well as other organs (ureteric bud, metanephros, skeletal joints, nail plate). This pattern suggests a general theme of embryonic organogenesis across diverse tissues rather than a single pathway, so a label capturing embryonic neural and organ morphogenesis fits well.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021723","count":16},{"id":"GO:0022037","count":16},{"id":"GO:0090103","count":16},{"id":"GO:1900212","count":16},{"id":"GO:0021754","count":16}]},{"hash":"437984172618266677","title":"Notch-Guided Neural and Pancreatic Differentiation","description":"This cluster centers on developmental cell fate specification involving Notch signaling, spanning neural lineages (spinal cord motor neuron fate, astrocyte differentiation) and pancreatic endocrine development (endocrine pancreas development, PP cell fate). The inclusion of Notch signaling alongside neural and pancreatic differentiation GO terms suggests a common theme of Notch-regulated developmental differentiation, with transcription by RNA polymerase II reflecting the gene expression programs driving these fates. Some other terms about differentiation in different lineages appear ancillary, but the core pattern points to developmental differentiation linked to Notch signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":3},{"id":"GO:2001038","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0031018","count":3}]},{"hash":"2124190960104782868","title":"Bacterial Defense and Chemokine Signaling","description":"The dominant GO terms point to immune functions: defense responses to both Gram-negative and Gram-positive bacteria, antibody-dependent cellular cytotoxicity, mast cell degranulation, and chemokine production, suggesting a cluster focused on antibacterial defense and leukocyte recruitment. The presence of endothelial morphogenesis and nervous system development terms likely reflects multifunctionality or shared components, but the strongest signal is antibacterial defense and chemokine signaling.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050829","count":8},{"id":"GO:0001886","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0048675","count":8},{"id":"GO:0001788","count":8}]},{"hash":"1872671478087784072","title":"Pituitary Neuropeptide GPCR Signaling","description":"Based on the dominant GO terms, this cluster centers on GPCR-mediated neuropeptide signaling in the pituitary, including neuropeptide signaling, GPCR signaling pathways, and prolactin secretion, with links to adenohypophysis development and calcium signaling. The terms point to a coherent pituitary neuroendocrine signaling module driving hormone secretion, with some peripheral or artifact terms present. ","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":6},{"id":"GO:0007189","count":5},{"id":"GO:0008277","count":4},{"id":"GO:0051571","count":3},{"id":"GO:0070459","count":3}]},{"hash":"513550261324074140","title":"Unknown","description":"The Top Terms are scattered across metabolism and development with multiple obsolete GO terms, including oxidation-reduction, epoxygenase P450 pathway, stilbene and cellulose catabolic processes, diacylglycerol catabolic process, and even neuroblast differentiation. There is no single shared function or pathway that unites these terms, and the cluster has zero edges/triangles, suggesting unconnected proteins or very broad, context-dependent roles. Without a cohesive theme, the safe label is Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0046272","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0046839","count":2}]},{"hash":"557434688449463608","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms point to broad developmental and morphogenetic processes across tissues\u2014placental/trophoblast differentiation, cartilage morphogenesis, EMT in heart cushion formation, left-right patterning, endocrine and pancreatic development, and even filopodium regulation and signaling. This suggests the proteins co-function in embryonic tissue differentiation and patterning rather than a single specific pathway, so a label centered on embryonic development and morphogenesis best captures the cluster\u2019s theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0035270","count":2}]},{"hash":"1976807036916441942","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071480","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0034965","count":1}]},{"hash":"530208660979097463","title":"Proteoglycan metabolism and cartilage development","description":"The top GO terms cluster around dermatan sulfate and heparan sulfate proteoglycan metabolic processes, polysaccharide localization, and chondrocyte development, pointing to synthesis/modification of proteoglycans in the extracellular matrix, especially in cartilage. Some unrelated terms appear, but the dominant theme is proteoglycan biosynthesis/metabolism within cartilage ECM.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015867","count":2},{"id":"GO:0006955","count":2},{"id":"GO:0050655","count":1},{"id":"GO:0030202","count":1},{"id":"GO:0015015","count":1}]},{"hash":"498720612237517675","title":"Adipogenesis and brown fat regulation","description":"The top GO terms emphasize fat cell differentiation and regulation of brown fat differentiation (including negative regulation), pointing to adipocyte development and energy storage. Additional terms reference foam cell differentiation (lipid-loaded macrophages) and inflammatory signaling (chemokine production, salicylic acid pathway), suggesting a cluster where adipose tissue development intersects with lipid metabolism and immune responses. While a few terms touch pain perception and hepatocyte apoptotic processes, the dominant theme is adipogenesis with lipid/inflammatory regulation, supporting a label centered on adipose tissue formation and brown fat regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":5},{"id":"GO:0045444","count":5},{"id":"GO:2001275","count":5},{"id":"GO:2000031","count":4},{"id":"GO:0050968","count":4}]},{"hash":"1180445544625449385","title":"Quinone biosynthesis and related fatty acid/amino acid metabolism","description":"The top GO terms cluster around quinone biosynthesis (phylloquinone, menaquinone) and connect to fatty acid beta-oxidation and amino acid/folate metabolism, suggesting a bacterial metabolic module centered on quinone production with linked catabolic/anabolic pathways.","confidence":"High","size":16,"edges":39,"triangles":21,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":15},{"id":"GO:0010124","count":15},{"id":"GO:0009234","count":15},{"id":"GO:0006635","count":15},{"id":"GO:0017000","count":15}]},{"hash":"1815700829762228644","title":"Unknown","description":"There are no GO terms, edges, or other functional signals to tie these proteins together, so a meaningful common function cannot be inferred. The lack of topology and terms means this cluster cannot be confidently named.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2005177209660384913","title":"Developmental and Immune Processes","description":"Top GO terms indicate both developmental roles (embryonic development, skeletal system development, visual perception, brown fat differentiation) and immune/response pathways (complement activation, IL-1 response, xenobiotic response) plus cell adhesion, suggesting these proteins participate in tissue development with immune and barrier-related signaling.","confidence":"Medium","size":16,"edges":85,"triangles":222,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006957","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0090528","count":3},{"id":"GO:0001501","count":2}]},{"hash":"407455853060754187","title":"Meiosis-associated cell cycle and splicing regulation","description":"This cluster shows a coherent focus on regulation of the cell cycle and cell division, including meiosis-specific processes (e.g., homologous chromosome pairing at meiosis, guard mother cell differentiation, syncytial blastoderm mitotic cell cycle) and regulation of mRNA splicing through spliceosome-related processes (alternative splicing, splice site recognition, polyadenylation regulation). The combination suggests a coordinated program controlling cell division with RNA processing during meiosis and early development, rather than disparate functions.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0006376","count":3},{"id":"GO:1900363","count":3}]},{"hash":"1413936458089843157","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030261","count":2},{"id":"GO:0000379","count":1},{"id":"GO:0006388","count":1},{"id":"GO:0071031","count":1},{"id":"GO:0071030","count":1}]},{"hash":"2075524082289351197","title":"Unknown","description":"The top GO terms are scattered across fibrinolysis, hemolysis, microglial activation regulation (both positive and negative), regulation of sensory perception of pain, membrane potential, receptor clustering, and keratinocyte differentiation, with no clear single biological theme. The network has no edges, further obscuring a cohesive function. These points together make a unified label unreliable.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":3},{"id":"GO:0009405","count":3},{"id":"GO:0044179","count":3},{"id":"GO:1900116","count":3},{"id":"GO:1903979","count":2}]},{"hash":"761426487718744020","title":"Long-Chain Lipid Biosynthesis","description":"This cluster is dominated by lipid biosynthesis terms: fatty acid elongation, very long-chain fatty acids, sphingolipid biosynthesis, and mycolic acid biosynthetic processes, along with retinal and estrogen biosynthesis that tie to lipid-derived metabolites. The shared theme appears to be the production and modification of long-chain lipids and lipid-derived molecules.","confidence":"High","size":16,"edges":17,"triangles":6,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006666","count":4},{"id":"GO:0030497","count":4},{"id":"GO:0017000","count":4}]},{"hash":"1600395576067482808","title":"Neural development and synaptic plasticity","description":"This cluster is dominated by GO terms related to neural development and activity-dependent signaling, including axon growth, visual perception/learning, LTP, TRK/neurotrophin signaling, MAPK/ERK pathways, and Wnt signaling. While a few terms touch broader developmental processes (e.g., heart development), the prevailing theme ties to neuronal differentiation, axonogenesis, and synaptic modulation, especially in the visual system. ","confidence":"High","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0070374","count":7},{"id":"GO:0007409","count":6},{"id":"GO:0060291","count":6}]},{"hash":"653327792155595568","title":"Unknown","description":"The top GO terms include mitochondrial complex IV assembly, peroxisome organization/fission, brown fat differentiation, and several B cell/immune response processes. These functions are heterogeneous with no clear single theme connecting them, making a cohesive, specific label inappropriate.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0016559","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0007031","count":1},{"id":"GO:0044375","count":1}]},{"hash":"1372155159768158134","title":"Actin-driven cytoskeleton remodeling and cell migration","description":"This cluster centers on actin filament polymerization and cortical assembly, GTPase activation, and processes related to cell spreading, migration, and morphogenesis (e.g., PDGF response and mammary gland branching). The convergent theme is cytoskeletal remodeling that enables cell movement and developmental morphogenesis, so the label aptly captures the cluster\u2019s function. ","confidence":"High","size":16,"edges":90,"triangles":317,"max_degree":14,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:1900026","count":12},{"id":"GO:0043552","count":9},{"id":"GO:0036120","count":9},{"id":"GO:0070588","count":9},{"id":"GO:0060444","count":9}]},{"hash":"1255640965469098798","title":"Isoprenoid and cholesterol biosynthesis","description":"This cluster is dominated by GO terms for terpenoid and isoprenoid biosynthesis \u2014 including geranyl diphosphate, farnesyl diphosphate, geranylgeranyl diphosphate, monoterpene, quinone, and cholesterol biosynthesis \u2014 suggesting a core role in lipid/isoprenoid metabolism. While some cell cycle and transport terms appear, they do not define the main function, so labeling it as isoprenoid/terpenoid biosynthesis best captures the cluster\u2019s theme.","confidence":"Medium","size":16,"edges":66,"triangles":128,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006695","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0015031","count":3},{"id":"GO:1901663","count":3}]},{"hash":"842633988411086365","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental processes and tissue shaping across multiple organs (palate, outflow tract, cranial skeleton, midbrain, tooth dentin, cartilage, hindlimb, prostate), with DNA-templated transcription suggesting regulatory control. This points to a general developmental/morphogenetic role rather than a single tissue-specific function.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0008584","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0030901","count":6}]},{"hash":"1710043480942557334","title":"Unknown","description":"The top GO terms span immune signaling, neural development and function (cerebellum maturation, startle response, pain perception), cardiac physiology (AV node depolarization, outflow tract morphogenesis), and even plant-style signaling (salicylic acid pathway) as well as metabolic regulation (brown fat differentiation) and mRNA stability. This wide, non-cohesive mix makes it unclear what single underlying function ties the cluster together. Therefore there is no clear, representative theme to label.","confidence":"","size":16,"edges":18,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0043029","count":4},{"id":"GO:0021590","count":3},{"id":"GO:0086045","count":3},{"id":"GO:2000031","count":3}]},{"hash":"1373823178481228053","title":"Mitotic Regulation and Antiviral Ubiquitination","description":"The top GO terms cluster around mitosis and cell division (mitotic cell cycle, cell division, APC/C-dependent catabolic process) and ubiquitin signaling (K11-linked ubiquitination), pointing to regulated proteolysis during the cell cycle. The presence of innate immune response and defense to virus suggests a link through ubiquitin-mediated signaling commonly used in antiviral pathways. Additional terms related to snoRNP assembly, ER-stress\u2013related translation, and histone methylation likely reflect auxiliary RNA processing and chromatin regulation accompanying these core processes. Overall, the cluster seems to reflect mitotic control interconnected with ubiquitin signaling and some antiviral defense connections.","confidence":"Medium","size":16,"edges":61,"triangles":130,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0051301","count":12},{"id":"GO:0045087","count":10},{"id":"GO:0070979","count":9},{"id":"GO:2001162","count":9}]},{"hash":"1700137696409997851","title":"Lymphocyte Activation and Migration","description":"The cluster's top GO terms cluster around immune cell signaling and development, including B cell affinity maturation, NK T cell differentiation, interleukin-4 production, and responses to interleukins 4 and 7, as well as cell migration, integrin signaling, and filopodium assembly. These terms together point to lymphocyte activation and movement, with some PI3K-related signaling connections that can also appear in insulin signaling and heart development pathways. Overall, the dominant theme is lymphocyte activation and migration.","confidence":"High","size":16,"edges":92,"triangles":283,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":10},{"id":"GO:0032633","count":9},{"id":"GO:0098761","count":9},{"id":"GO:0002344","count":9},{"id":"GO:0001865","count":9}]},{"hash":"672794227873049097","title":"Embryonic organogenesis and neural development","description":"The proteins in this cluster are enriched for transcription regulation and diverse organogenesis processes, including neural crest migration and development of the endocrine pancreas, hypothalamus, pituitary, habenula, and facial/oral structures. This pattern suggests a shared developmental gene regulatory module coordinating embryonic morphogenesis across tissues.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0060021","count":11},{"id":"GO:0090190","count":11},{"id":"GO:0048557","count":10},{"id":"GO:0001755","count":10}]},{"hash":"893776204145080811","title":"Centrosome, Cilium, and Spindle Regulators","description":"This cluster is dominated by GO terms tied to centrosome localization, microtubule nucleation, spindle assembly checkpoint regulation, intraflagellar transport, and cilium assembly, with additional links to left/right symmetry and cilia-related morphogenesis. These signals together point to proteins coordinating centrosomal/ciliary function and spindle dynamics, rather than unrelated signaling pathways, supporting a cohesive centrosomal\u2013ciliary\u2013spindle role.","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0051642","count":4},{"id":"GO:0007020","count":4},{"id":"GO:0090267","count":3},{"id":"GO:1902017","count":3},{"id":"GO:0035735","count":3}]},{"hash":"1233144072015029392","title":"Muscle Calcium Signaling and Stress Response","description":"This cluster centers on calcium-mediated processes affecting both skeletal and cardiac muscle function, including calcium ion detection and regulation of contraction, muscle development, and attachment. It also groups inflammatory and stress-related responses (interleukin-1, ethanol, startle) and neuromuscular signaling, suggesting a cohesive theme of calcium-dependent muscle signaling under stress.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071347","count":4},{"id":"GO:0048741","count":3},{"id":"GO:0071361","count":3},{"id":"GO:0005513","count":3},{"id":"GO:0001964","count":3}]},{"hash":"1168500548039605319","title":"Developmental Signaling and Morphogenesis","description":"The terms point to diverse developmental and morphogenetic processes across tissues\u2014muscle attachment and smooth muscle development, Wnt signaling, Rho-mediated cytoskeletal changes, dendritic spine morphogenesis, and even neural/hematopoietic development\u2014suggesting a broad theme of developmental signaling rather than a single, cohesive function. This makes the label reasonable but not overly specific given the cross-tissue variety.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016203","count":3},{"id":"GO:0021629","count":3},{"id":"GO:0014809","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0016055","count":3}]},{"hash":"267241161454832867","title":"Neuroimmune Development","description":"The top terms show both immune-related processes (immunoglobulin-mediated immune response; antigen processing/presentation via MHC II) and neural development (forebrain and nervous system development, neuron apoptotic process, adult locomotory behavior), suggesting these proteins participate in neuroimmune development or cross-talk between immune signaling and neural development rather than a single, narrow function. ","confidence":"Medium","size":16,"edges":43,"triangles":45,"max_degree":14,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0016064","count":3},{"id":"GO:0019886","count":3},{"id":"GO:0045060","count":3},{"id":"GO:0045059","count":3},{"id":"GO:0007399","count":3}]},{"hash":"73353818655467210","title":"Taste and olfactory sensory signaling","description":"Most terms point to sensory perception and neural signaling (sweet taste detection, olfactory learning, excitatory postsynaptic potentials, receptor internalization, intracellular signaling; plus lateral line development), indicating a shared function in taste/odor sensing and synaptic processing. The electron transport chain term is less central to this theme.","confidence":"High","size":16,"edges":42,"triangles":66,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0022900","count":13},{"id":"GO:0031623","count":13},{"id":"GO:0035556","count":12},{"id":"GO:0060079","count":12},{"id":"GO:0048899","count":12}]},{"hash":"342349649004795980","title":"Developmental transcription and RNA processing","description":"This cluster is enriched for RNA processing and transcription regulation GO terms (splicing, transcription regulation, RNA Pol II regulatory region control, ribosomal subunit export) together with several embryonic development processes (placenta, trophoblast differentiation, cartilage morphogenesis, EMT in heart development, endocrine system development). The common thread appears to be gene expression control during development, mediated at the RNA level and transcriptional regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0032298","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0060806","count":4}]},{"hash":"995263299736620592","title":"Cardiac conduction and calcium signaling","description":"The GO terms are dominated by heart-related functions: outflow tract morphogenesis, atrial cardiac muscle cell action potential regulation, Purkinje-to-ventricular signaling, SA node action potential regulation, and calcium release from the sarcoplasmic reticulum, all pointing to cardiac development and electrical/contraction coupling. Some terms like skin development and ossification may reflect broader developmental processes or annotation noise, but the core theme centers on cardiac conduction and calcium handling. ","confidence":"Medium","size":16,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0003151","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0034465","count":3},{"id":"GO:0071313","count":3},{"id":"GO:0098910","count":3}]},{"hash":"233026289871682787","title":"Vacuolar amino acid transport","description":"This cluster is dominated by GO terms for transmembrane transport of amino acids into or out of the vacuole (arginine, histidine, lysine, tyrosine, glutamate, serine, etc.), suggesting a cohesive vacuolar amino acid import/export function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090518","count":10},{"id":"GO:0090513","count":10},{"id":"GO:0089708","count":10},{"id":"GO:0006867","count":10},{"id":"GO:0090514","count":10}]},{"hash":"63791067797202949","title":"Hormone Secretion and Adrenergic Regulation","description":"The cluster is dominated by GO terms about regulating secretion (insulin, hormone secretion) and contraction/response to adrenergic signals (intestinal smooth muscle contraction, heart contraction regulation by epinephrine/norepinephrine), pointing to a shared role in endocrine signaling and organ motility. Immune/inflammatory and neurotrophic-related terms appear but are secondary to the central theme of secretion and contractile regulation.","confidence":"Medium","size":16,"edges":48,"triangles":39,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050796","count":16},{"id":"GO:0071407","count":16},{"id":"GO:0014827","count":14},{"id":"GO:0070963","count":14},{"id":"GO:0046879","count":14}]},{"hash":"1519846418957881011","title":"Neuroendocrine-immune and cardiovascular signaling","description":"The top GO terms point to hormone secretion, regulation of heart contraction by catecholamines, intestine smooth muscle activity, and immune-related processes (neutrophil killing, IL-1\u03b2 production), plus morphine response and neurotrophic factor production. This suggests a broad neuroendocrine signaling cluster that modulates cardiovascular function and immune responses rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":16},{"id":"GO:0070963","count":16},{"id":"GO:0046879","count":16},{"id":"GO:0001997","count":16},{"id":"GO:0071417","count":16}]},{"hash":"729315018733649315","title":"Neuroendocrine-immune-vascular signaling","description":"This cluster features strong terms across heart and gut autonomic regulation (epinephrine/norepinephrine\u2013driven heart contraction, intestinal smooth muscle contraction), hormone secretion, immune modulation (IL-1\u03b2 production, neutrophil killing), and vascular integrity (endothelial barrier), plus neural-related outputs (glial neurotrophic factor production, morphine response). Together, they point to integrated signaling among nervous, endocrine, immune, and vascular systems.","confidence":"Medium","size":16,"edges":45,"triangles":25,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":16},{"id":"GO:0070963","count":16},{"id":"GO:0046879","count":16},{"id":"GO:0001997","count":16},{"id":"GO:0071417","count":16}]},{"hash":"1367361186113268123","title":"Neural Development and Synaptic Plasticity","description":"The strongest signals are cerebral cortex development and synaptic plasticity (long-term potentiation and its negative regulation), with related glial regulation, pointing to neural development and neuronal signaling as the core theme. Immune signaling and angiogenesis terms may reflect pleiotropic pathway use, but the predominant pattern centers on neural development and synaptic function.","confidence":"Medium","size":15,"edges":22,"triangles":4,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0060291","count":6},{"id":"GO:0031914","count":6},{"id":"GO:0070498","count":6}]},{"hash":"263649138498342225","title":"Membrane transporters and pH regulation","description":"The cluster\u2019s top GO terms are dominated by various forms of transmembrane transport (fructose, oxalate, L-aspartate, sulfate, bicarbonate) and intracellular pH changes or gastric acid secretion, all pointing to membrane transporters and processes that maintain ion and metabolite balance. A few terms (negative regulation of Rho signaling, sperm capacitation, sensory perception of sound) are broader but can intersect with transport and signaling contexts, supporting a core theme around membrane transport and ion/pH homeostasis.","confidence":"Medium","size":15,"edges":22,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":4},{"id":"GO:0048240","count":4},{"id":"GO:0019532","count":4},{"id":"GO:0001696","count":4},{"id":"GO:0015755","count":4}]},{"hash":"1179399901285262847","title":"Mitotic Division and Skin Development with Actin Remodeling","description":"This cluster centers on mitotic processes (spindle orientation, chromatid segregation, mitotic cell cycle) and development, especially skin/multicellular development, with a clear signal of actin cytoskeleton remodeling from Arp2/3-mediated nucleation, suggesting a cohesive mitosis- and development-focused program.","confidence":"High","size":15,"edges":68,"triangles":171,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000132","count":14},{"id":"GO:0043588","count":14},{"id":"GO:0016575","count":14},{"id":"GO:0007275","count":14},{"id":"GO:0030433","count":14}]},{"hash":"337897618287071955","title":"Mitosis, DNA Repair, and Nuclear Transport","description":"The top GO terms cluster around mitotic processes (cell division, mitotic sister chromatid cohesion, microtubule severing) and DNA repair (homologous recombination), together with nucleocytoplasmic transport (nuclear pore localization, mRNA export) and translation initiation steps. This pattern suggests a coordinated module of chromosome maintenance during cell division linked to nuclear transport and translation machinery, possibly representing multi-subunit complexes that function in both nucleus and cytoplasm during mitosis. ","confidence":"Medium","size":15,"edges":20,"triangles":5,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007064","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0002188","count":3}]},{"hash":"1267005462500447908","title":"Glutamatergic Synapse Signaling and Learning","description":"The top GO terms strongly point to excitatory synaptic activity, including glutamatergic synaptic transmission and excitatory postsynaptic potentials, along with visual learning. Additional terms like receptor clustering and PI3K/AKT signaling fit a synaptic signaling toolkit involved in plasticity and learning. Some developmental and cell-cycle terms may reflect multifunctional proteins or annotation noise, but they do not override the dominant synaptic signal. Overall, the cluster seems best characterized by glutamatergic synapse signaling and learning-related functions.","confidence":"High","size":15,"edges":24,"triangles":18,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035249","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0043491","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0008542","count":4}]},{"hash":"842053769664068992","title":"Epigenetic chromatin silencing and remodeling","description":"This cluster centers on epigenetic regulation of chromatin: heterochromatin formation, transcriptional silencing, DNA methylation, and chromatin remodeling, with a coherent theme around transcriptional control rather than signaling or metabolism.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0006346","count":4},{"id":"GO:0061186","count":4},{"id":"GO:0031939","count":4},{"id":"GO:0061188","count":4}]},{"hash":"1503522471698551265","title":"Ubiquitin-Proteasome Proteolysis and Cell Cycle Regulation","description":"The cluster is dominated by GO terms related to ubiquitin-dependent proteolysis and the SCF ubiquitin ligase pathway (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; protein polyubiquitination; ubiquitin-dependent protein catabolic process). This points to proteostasis through the ubiquitin-proteasome system, including degradation of cell-cycle regulators, with supporting terms for transcriptional regulation and cell division. Metal-response terms (cadmium, methylmercury) may reflect proteostasis-related stress signaling observed alongside ubiquitin-mediated degradation. Confidence: High","confidence":"","size":15,"edges":61,"triangles":139,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":14},{"id":"GO:0000083","count":14},{"id":"GO:0000209","count":14},{"id":"GO:0071276","count":14},{"id":"GO:0042787","count":14}]},{"hash":"2008633972176976599","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":42,"triangles":60,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009432","count":11},{"id":"GO:0019079","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0031047","count":9},{"id":"GO:0000480","count":9}]},{"hash":"191306554032195571","title":"NOD2-driven NF-kB and neddylation regulation","description":"The cluster centers on innate immune signaling via NOD2 and the regulation of NF-kB activity, alongside components of the ubiquitin/neddylation system (neddylation, ubiquitin-protein transferase activity) that modulate protein turnover. Additional links to proteolysis and DNA damage responses (gamma radiation, UV-C) reinforce a theme of signal transduction coupled to protein modification and degradation. This combination supports a cohesive label focused on NOD2/NF-kB signaling and neddylation control.","confidence":"High","size":15,"edges":43,"triangles":38,"max_degree":11,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070431","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0044254","count":3},{"id":"GO:2000435","count":3},{"id":"GO:2000436","count":3}]},{"hash":"1625238901465533658","title":"Calcium-regulated actin remodeling and signaling","description":"Primarily driven by actin cytoskeleton remodeling terms (lamellipodium assembly, actomyosin structure organization) and calcium signaling (cellular response to calcium, calcineurin-NFAT). The presence of phosphorylation regulation and growth-factor responses (EGF) supports a coherent theme of calcium-dependent signaling coordinating cytoskeletal dynamics and cell migration, with additional context in neurons and plants.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070886","count":11},{"id":"GO:0030032","count":11},{"id":"GO:0071277","count":11},{"id":"GO:0050732","count":11},{"id":"GO:1902896","count":11}]},{"hash":"1560340098339816318","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":38,"triangles":40,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":4},{"id":"GO:0007098","count":4},{"id":"GO:0061188","count":3},{"id":"GO:0000395","count":3},{"id":"GO:1904751","count":3}]},{"hash":"2104684353783742974","title":"Regulatory Signaling and Gene Regulation","description":"The terms point to broad regulatory roles rather than a single enzymatic activity: regulation of signaling pathways (including salicylic acid signaling and chemokine production), post-transcriptional control (mRNA stability), and processes like ubiquitination, apoptosis, and development. This pattern suggests the proteins function collectively as regulators of signaling and gene expression across diverse biological contexts, rather than a narrowly defined pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000031","count":10},{"id":"GO:0050968","count":10},{"id":"GO:0043488","count":10},{"id":"GO:1903444","count":10},{"id":"GO:1904743","count":10}]},{"hash":"431926713911428960","title":"Endocytosis and receptor trafficking","description":"The top GO terms point to endocytic processes, including positive regulation of endosome transport and receptor internalization, plus regulation of receptor activity, suggesting a cluster of proteins involved in endocytic trafficking and modulation of signaling at the cell surface. Supporting terms related to actomyosin organization reflect cytoskeletal changes necessary for endocytosis. A few terms about development or metabolism are less connected, but do not override the main theme. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000643","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0031623","count":3},{"id":"GO:2000310","count":2},{"id":"GO:0048319","count":2}]},{"hash":"584964924516489691","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":9,"triangles":4,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070935","count":5},{"id":"GO:0033129","count":5},{"id":"GO:0061481","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0022013","count":4}]},{"hash":"41231044113280026","title":"Oxidative stress detoxification and DNA repair","description":"The GO terms cluster around redox balance and detoxification (cellular oxidant detoxification, glutathione metabolic process, cell redox homeostasis) and DNA maintenance (nucleotide-excision repair), with toxin catabolism and responsive metabolic processes also represented. This suggests a shared role in cellular defense against oxidative damage and xenobiotics, coupled with DNA repair and broader metabolic adjustments under stress. Confidence reflects a cohesive stress-response & detoxification theme, with a few outliers such as specific calcium-signaling annotations.","confidence":"Medium","size":15,"edges":89,"triangles":317,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":13},{"id":"GO:0006749","count":12},{"id":"GO:0006289","count":12},{"id":"GO:0009407","count":12},{"id":"GO:0014810","count":12}]},{"hash":"1096473583295684541","title":"Neuronal Golgi-ER and endocytic vesicle trafficking","description":"This cluster is enriched for GO terms describing Golgi-to-ER retrograde transport, endosome-to-Golgi transport, endocytosis, Golgi localization/inheritance, and synaptic vesicle budding, with neuron-specific terms like Purkinje cell maturation and locomotory behavior. The common theme is vesicle trafficking and Golgi dynamics in neurons, suggesting these proteins function together in neuronal vesicle trafficking and Golgi maintenance.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0009615","count":2},{"id":"GO:0016185","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0006897","count":2}]},{"hash":"2259111106603372486","title":"Spliceosome and RNA processing factors","description":"The top terms cluster around mRNA splicing and RNA processing (spliceosome assembly, splice site recognition, alternative splicing, small-subunit processome) with a note of translational regulation, indicating a set of proteins focused on splicing/biogenesis rather than other functions.","confidence":"High","size":15,"edges":96,"triangles":374,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":12},{"id":"GO:0006376","count":12},{"id":"GO:0000380","count":12},{"id":"GO:0034462","count":12},{"id":"GO:0075522","count":12}]},{"hash":"1164412872093082621","title":"Transcription Regulation and RNA Processing","description":"The cluster is dominated by GO terms tied to transcription control (positive regulation of transcription by RNA Polymerase II, DNA-templated transcription elongation) and RNA processing (mRNA splicing via spliceosome, regulatory ncRNA-mediated gene silencing). Chromatin-related activity is suggested by histone H3-K36 methylation/dimethylation terms, indicating coordinated transcriptional regulation with chromatin modification. Some terms about responses to DNA-damaging agents (camptothecin, hydroxyurea) may reflect stress-linked transcriptional regulation. A placenta morphogenesis term is present but likely ancillary to the core regulatory theme. Overall, a coherent theme of transcription regulation intertwined with chromatin state and RNA processing.","confidence":"Medium","size":15,"edges":30,"triangles":21,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0072757","count":3},{"id":"GO:0072711","count":3},{"id":"GO:0097198","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0031047","count":2}]},{"hash":"1892042649062692861","title":"Lung branching morphogenesis and planar polarity signaling","description":"The cluster\u2019s top GO terms cluster around lung morphogenesis and planar polarity, with supporting signals from receptor clustering, cell adhesion, and neural guidance cues (GPCR acetylcholine signaling and serotonergic axon guidance), suggesting a coordinated signaling/adherence program directing tissue morphogenesis and planar orientation.","confidence":"High","size":15,"edges":48,"triangles":83,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060490","count":13},{"id":"GO:0060488","count":13},{"id":"GO:0090251","count":13},{"id":"GO:0007213","count":13},{"id":"GO:0036515","count":13}]},{"hash":"932843162820572542","title":"GPCR-driven cardiac signaling and heart development","description":"This cluster is dominated by GO terms for G protein-coupled receptor signaling (tachykinin and acetylcholine pathways) and processes related to heart function (cardiac muscle contraction, heart development, and regulation of heart contraction), including GPCR desensitization and internalization. Although a visual perception term appears, the strongest signal centers on GPCR-mediated signaling in cardiac context, justifying a label around GPCR-driven cardiac signaling and development.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":2},{"id":"GO:0002029","count":2},{"id":"GO:0007217","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0007601","count":2}]},{"hash":"1422078222459421144","title":"Developmental signaling and differentiation","description":"Based on the GO terms, the proteins cluster around pathways that drive development and cell differentiation, including IGF and growth hormone signaling, calcineurin-NFAT regulation, and morphogenesis (ear canal, bone remodeling). Some terms touch on immune and vascular differentiation, indicating a broader developmental signaling/differentiation theme rather than a single specific function. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048752","count":2},{"id":"GO:0046849","count":1},{"id":"GO:0030183","count":1},{"id":"GO:0043314","count":1},{"id":"GO:0035024","count":1}]},{"hash":"1731399807086748828","title":"Synaptic signaling and membrane trafficking","description":"The top GO terms indicate neuronal signaling (excitatory postsynaptic potential, transmission of nerve impulse, membrane hyperpolarization) alongside membrane organization and trafficking (endosome transport, membrane raft assembly) and cytoskeletal/cell-adhesion processes (actin-mediated contraction, integrin signaling). Together, these suggest proteins that modulate synaptic activity through membrane dynamics and intracellular trafficking.","confidence":"Medium","size":15,"edges":30,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":7},{"id":"GO:0070830","count":6},{"id":"GO:0019226","count":5},{"id":"GO:0045022","count":5},{"id":"GO:0060079","count":5}]},{"hash":"629127447802071834","title":"Ion and small-molecule transmembrane transport","description":"The terms cluster around transmembrane transport of ions (potassium, sodium, phosphate) and small molecules (fucose, sialic acid, vitamins, xenobiotics), as well as neurotransmitter loading into synaptic vesicles, suggesting a group of membrane transport proteins with broad substrate specificity and possible vesicular transport roles.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0098700","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0006004","count":3}]},{"hash":"2236774916684391594","title":"Developmental morphogenesis and cytokinesis","description":"The GO terms point to processes involved in shaping tissues and cells during development, such as cell morphogenesis and wing disc pattern formation, plus cytokinesis via cleavage furrow formation. There are also regulatory layers like transcription initiation-coupled chromatin remodeling, and broader membrane/trafficking and signaling processes (endosome transport, phosphatidic acid biosynthesis) that support membrane remodeling during development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":2},{"id":"GO:0048096","count":1},{"id":"GO:0048190","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0045022","count":1}]},{"hash":"2167616491353887000","title":"Neural and Cardiac Development and Signaling","description":"The top GO terms point to development and function of excitable tissues (brain/cerebellum and heart), with cerebellum maturation, AV-node depolarization, and outflow tract morphogenesis suggesting neural and cardiac developmental roles. The presence of startle response, pain perception, cold response, and calcium/magnesium ion regulation indicates broader sensory and ionic signaling tied to excitability. CXCL1 production adds a signaling dimension, but overall the cluster seems to center on developmental programs and excitability signaling in neural and cardiac contexts, with associated stress and thermal responses.","confidence":"Medium","size":15,"edges":10,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021590","count":15},{"id":"GO:0086045","count":15},{"id":"GO:0050968","count":15},{"id":"GO:1903444","count":15},{"id":"GO:0001964","count":15}]},{"hash":"301062611421799951","title":"RNA splicing and transcription regulation","description":"The cluster is enriched for RNA processing and transcription-related GO terms (spliceosomal snRNP assembly, RNA splicing, DNA-templated transcription, and regulation of transcription), indicating a cohesive theme around RNA processing and transcription control, despite a few development-related terms present as annotations. ","confidence":"High","size":15,"edges":93,"triangles":328,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000387","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0060749","count":2}]},{"hash":"1657042046250066704","title":"Unknown","description":"There are no top GO terms, no edges, and maximum degree is zero, so there is no shared functional signal to tie these proteins together. The mention of \u201cReCIPE\u201d re-added proteins suggests a curated set rather than a cohesive functional cluster; without any GO annotations or interaction data, I cannot infer a unifying theme, so the label is Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"333578590694973381","title":"Coagulation and Innate Immune Activation","description":"The terms cluster around complement activation, fibrinolysis (plasminogen activation), fibrinogen regulation, endothelial barrier dynamics, and leukocyte recruitment, pointing to coordinated coagulation with innate immune and vascular processes. Some terms appear less related (e.g., midbrain development), likely noise, but the core theme is clear.","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":12},{"id":"GO:0003050","count":11},{"id":"GO:0014068","count":10},{"id":"GO:0070684","count":9},{"id":"GO:0070947","count":9}]},{"hash":"1044622537286760518","title":"Transcription Regulation and Vesicle Transport","description":"The cluster\u2019s top terms include DNA-templated transcription and negative regulation of transcription by RNA polymerase II, pointing to transcriptional regulators. The presence of protein transport, ER-to-Golgi vesicle transport, and retrograde transport terms suggests accompanying vesicle-trafficking roles. Together, they indicate a cluster of proteins involved in transcription regulation alongside intracellular transport processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010729","count":2},{"id":"GO:0070895","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046022","count":2}]},{"hash":"420808428959932259","title":"Mucosal immune activation and endothelial growth","description":"This cluster combines immune-related functions (T cell activation, mucosal immune response, defense against virus, interferon regulation) with vascular remodeling signals (PDGF receptor signaling, PI3K/Akt pathway, endothelial cell proliferation) and tissue homeostasis, suggesting coordinated immune activation in mucosal tissues with endothelial/mesenchymal remodeling.","confidence":"High","size":15,"edges":57,"triangles":79,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048873","count":8},{"id":"GO:0010641","count":8},{"id":"GO:0050691","count":7},{"id":"GO:0032689","count":7},{"id":"GO:0051897","count":7}]},{"hash":"894551353898232301","title":"Glycan biosynthesis and sialylation","description":"The proteins in this cluster are strongly associated with glycan-related processes: protein sialylation, N-glycan processing, oligosaccharide metabolism, and glycosphingolipid/ganglioside biosynthesis and metabolism. While some GO terms touch on pollen development or olfactory structures, these likely reflect broader roles of glycosylation in cell signaling and membrane biology. Overall, the cohesive theme is glycan synthesis and modification.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990743","count":4},{"id":"GO:0001574","count":4},{"id":"GO:0009860","count":4},{"id":"GO:0006491","count":4},{"id":"GO:0009311","count":4}]},{"hash":"1827126338295797236","title":"Neural development and synaptic adhesion","description":"The top GO terms cluster around neural connectivity: positive regulation of synapse assembly, synapse organization, nervous system development, and neuron-specific cell-cell adhesion (homophilic/heterophilic). Additional terms like dendrite self-avoidance and chemorepulsion in interneuron migration reinforce a focus on neuronal wiring and connectivity. While angiogenesis and ossification appear, the dominant signal is neural development and synaptic adhesion, justifying this label.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051965","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0007156","count":10},{"id":"GO:0007158","count":10},{"id":"GO:0007157","count":7}]},{"hash":"2093141462084912263","title":"Immune Activation and Acute-Phase Response","description":"This cluster\u2019s GO terms point to broad immune and inflammatory roles: myeloid cell differentiation, activated T cell proliferation, and the acute-phase response, accompanied by kinase signaling terms like peptidyl-serine phosphorylation. Hormonal signaling (estrogen response) and megakaryocyte differentiation offer additional but related angles on immune regulation and inflammation. Because there is no tight, single-function module and the terms span several related immune processes, the most representative label is a broad immune-activation theme rather than a specific pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018105","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0045654","count":1},{"id":"GO:1901215","count":1},{"id":"GO:0030099","count":1}]},{"hash":"606518269151822390","title":"Autophagy Pathways and Protein Lipidation","description":"The top GO terms cluster around autophagy-related processes (macroautophagy, nucleophagy, mitophagy, Cvt pathway) and related protein handling such as lipidation/delipidation and membrane targeting, indicating a cohesive theme of autophagy machinery and membrane-associated protein processing. The cerebellar neuron development term appears as an outlier and unlikely to define the cluster\u2019s primary function. ","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034727","count":5},{"id":"GO:0006501","count":4},{"id":"GO:0051697","count":4},{"id":"GO:0016236","count":4},{"id":"GO:0006612","count":4}]},{"hash":"1301534703277539748","title":"Vesicle trafficking and host immune response","description":"Based on the GO terms, the cluster centers on membrane- and vesicle-related processes (palmitoylation, vacuole fusion, endosome-to-plasma membrane transport, synaptic vesicle clustering) and immune/host-interaction signals (response to biotic stimulus, interferon-alpha, host-mediated suppression of symbiont invasion). Some terms about sebaceous gland development and bone mineralization appear less connected to trafficking, suggesting a few outliers. Overall, the dominant theme is vesicle trafficking linked to immune signaling and host interaction.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018230","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0048733","count":2},{"id":"GO:0097091","count":1},{"id":"GO:0099638","count":1}]},{"hash":"1680513600300897218","title":"Neuronal signaling and learning","description":"The listed GO terms include signal transduction, response to amphetamine, and visual learning, all pointing to neural signaling and behavioral plasticity. A few terms (positive regulation of G1/S transition) are less neuron-specific, but overall the terms suggest nervous-system\u2013related functions, indicating a cluster of proteins involved in neuronal signaling and learning.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007165","count":1},{"id":"GO:0007621","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0030307","count":1},{"id":"GO:0008542","count":1}]},{"hash":"2162522952503771595","title":"Neural development and synapse formation","description":"The top GO terms cluster around nervous system development, synapse assembly, axon guidance, and sensory modalities (sound and equilibrioception), plus cadherin-mediated cell adhesion, all pointing to neural connectivity and sensory pathway formation. A few terms (e.g., germinal center B cell differentiation) are less related and may be incidental noise. Overall, the dominant theme is neural development and synaptic organization.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0007605","count":8},{"id":"GO:0021957","count":8},{"id":"GO:0007399","count":6},{"id":"GO:0060989","count":6}]},{"hash":"1930249166484574383","title":"Tissue development and differentiation","description":"The GO terms show a focus on tissue development and differentiation, including angiogenesis, myelination, and keratinization, with other terms pointing to metabolism and signaling that are less central. This suggests a core theme around developmental and differentiation processes across tissues.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":1},{"id":"GO:1905333","count":1},{"id":"GO:0031641","count":1},{"id":"GO:0000002","count":1},{"id":"GO:0006206","count":1}]},{"hash":"326981185343051184","title":"Spliceosome-Mediated mRNA Splicing and Processing","description":"This cluster is enriched for GO terms related to mRNA splicing, spliceosome assembly, and alternative splicing, including splice-site recognition and mRNA processing steps. The presence of small-subunit processome assembly and regulatory splicing terms supports a role in RNA maturation and spliceosomal function; some terms also touch on RNA-based regulation, but the core theme is spliceosome-driven RNA processing.","confidence":"High","size":15,"edges":86,"triangles":274,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075522","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0042921","count":3}]},{"hash":"422621701461366173","title":"Unknown","description":"The top terms span several unrelated biological areas (neural development such as synapse assembly and myelination; ear/otolith morphogenesis; innate immune defense; biotin transport; plant hormone signaling), and there is only a single edge with no clustering structure. This lack of a coherent, common function across the proteins makes a single interpretable label unlikely.","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0045087","count":3}]},{"hash":"66609383029417414","title":"Diverse solute and nutrient transporters","description":"This cluster is dominated by multiple transmembrane transport GO terms for a wide range of substrates (sugar/alcohols like fucose, arabinose; ions like phosphate and potassium; organic acids like 4-hydroxyphenylacetate; sialic acid; and nitrate), indicating a cohesive module of membrane transport proteins handling diverse solutes. A few terms about receptor clustering and cytoskeletal regulation are present but secondary to transport. ","confidence":"High","size":15,"edges":72,"triangles":192,"max_degree":13,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:1900754","count":13},{"id":"GO:0006004","count":13},{"id":"GO:0042128","count":13},{"id":"GO:0015739","count":13},{"id":"GO:0035435","count":13}]},{"hash":"1743169305181778864","title":"Developmental Signaling and Transcription Regulation","description":"The cluster shows enrichment for transcription-related processes (DNA-templated transcription) and various signaling pathways (insulin secretion, PPAR, retinoic acid receptor signaling), plus multiple developmental terms (male gonad development, retinal cone cell development, ventricular cardiac muscle morphogenesis) and RNA processing regulation. This pattern points to a broad theme of transcriptional control linked to development and signaling across tissues, rather than a single specific function. ","confidence":"Medium","size":15,"edges":12,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050796","count":4},{"id":"GO:0035357","count":4},{"id":"GO:0048384","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0006351","count":3}]},{"hash":"1371506173973766328","title":"Craniofacial neural crest and sensory organ morphogenesis","description":"The dominant GO terms map to craniofacial and sensory organ development: inner ear morphogenesis, otic placode formation, embryonic cranial skeleton morphogenesis, neural crest formation, and retina development, with habenula development indicating broader brain-region development. While there is some transcriptional regulation, the shared theme is neural crest\u2013driven craniofacial and sensory organ morphogenesis.","confidence":"High","size":15,"edges":101,"triangles":409,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042472","count":4},{"id":"GO:0090190","count":4},{"id":"GO:0043049","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0035914","count":4}]},{"hash":"1828882385314297977","title":"Unknown","description":"The GO terms span highly diverse developmental and physiological processes across different tissues and even across species (nervous system development, muscle differentiation, germinal center formation, circadian rhythms, insect genitalia development, plant metabolism), with no single unifying function or pathway. This heterogeneity makes it inappropriate to assign a coherent, specific functional label.","confidence":"","size":15,"edges":20,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":13},{"id":"GO:0051260","count":13},{"id":"GO:0045496","count":12},{"id":"GO:0035914","count":12},{"id":"GO:2000312","count":12}]},{"hash":"1597186092264141396","title":"Actin Cytoskeleton Remodeling and Protrusion Assembly","description":"The top terms are dominated by actin-related processes\u2014organization, filopodium and lamellipodium assembly, filament bundling, crosslinking, and barbed-end capping\u2014pointing to coordinated actin remodeling to form cellular protrusions. Some associated signals (insulin receptor pathway, BDNF response, excitatory postsynaptic potential) suggest a neuronal/synaptic context for these actin dynamics. This combination supports labeling the cluster as actin-based protrusion assembly/remodeling in a signaling-enabled context.","confidence":"High","size":15,"edges":62,"triangles":136,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030036","count":12},{"id":"GO:0046847","count":11},{"id":"GO:0030032","count":11},{"id":"GO:0008286","count":11},{"id":"GO:0051017","count":11}]},{"hash":"248520348382196462","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":14,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0098530","count":6},{"id":"GO:0071037","count":6},{"id":"GO:0009048","count":6},{"id":"GO:0071035","count":6},{"id":"GO:0071040","count":6}]},{"hash":"297193521396064538","title":"Cytoplasmic and Mitochondrial Translation Machinery","description":"The top GO terms are dominated by translation-related processes, including general translation and several mitochondrial translation steps, indicating a cohesive cluster of proteins involved in protein synthesis across cytoplasmic and mitochondrial compartments. Additional terms on regulation of translation and translational fidelity reinforce this theme, with a few peripheral annotations (e.g., response to antibiotic, skeletal muscle differentiation) likely reflecting secondary associations rather than core functionality.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0006450","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0070126","count":2},{"id":"GO:0006407","count":2}]},{"hash":"909521132677488051","title":"Unknown","description":"The GO terms span seed development, tight junction assembly, transcription regulation, IgA isotype switching, fear behavior, histone methylation, heart septum morphogenesis, and Fas signaling\u2014diverse processes with no clear shared function. With no connecting edges among proteins, there is no coherent theme to label the cluster, so it is Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048316","count":3},{"id":"GO:0070830","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048298","count":2},{"id":"GO:0001662","count":2}]},{"hash":"1297381970857143008","title":"Vacuolar Proton Transport and Endocytosis","description":"This cluster centers on vacuolar trafficking and proton homeostasis: enriched terms include clathrin-dependent endocytosis and regulation of Rho signaling (cytoskeletal/trafficking control), vacuolar acidification and V-type ATPase assembly, proton transport, and vacuolar protein degradation. The combination of endocytic machinery with vacuolar proton-pumping and related metabolism suggests a cohesive theme of endocytic entry coupled to vacuolar acidification and function.","confidence":"High","size":15,"edges":14,"triangles":5,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0072583","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0007588","count":4},{"id":"GO:0007035","count":4},{"id":"GO:0015986","count":4}]},{"hash":"165958824946779137","title":"Nuclear RNA processing and export","description":"The cluster centers on RNA processing and transport within the nucleus, highlighted by terms for mRNA splicing via spliceosome and ribosomal large subunit export from the nucleus, as well as regulation of tRNA export. A few other terms (e.g., ubiquitination) may modulate these processes, but the core theme ties to nuclear RNA metabolism and RNA component export rather than cytosolic functions. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0033160","count":1},{"id":"GO:2000238","count":1}]},{"hash":"346482144189697519","title":"Rho GTPase signaling and actin dynamics","description":"The cluster is enriched for small GTPase\u2013mediated signaling and actin cytoskeleton organization, with hints of migration-related processes (e.g., leading process extension in radial glia) and regulation of GTPase activity, suggesting a common theme of GTPase-driven cytoskeletal remodeling during cell movement. While some terms touch on other pathways, the actin dynamics and GTPase signaling are the most coherent thread across the top terms.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0007264","count":3}]},{"hash":"1011864806555671588","title":"Contractile and Immune-Hormonal Signaling","description":"The top GO terms point to muscle contraction (intestinal smooth muscle and heart contraction regulation) alongside hormone secretion and immune-related processes (IL-1\u03b2 production, neutrophil killing, endothelial barrier regulation) as well as morphine response and neurotrophic factor production. This suggests a cluster of proteins that coordinate contractile activity with hormonal and immune signaling across tissues, rather than a single, tight pathway. Therefore, the label emphasizes both contractile control and broader systemic signaling roles. ","confidence":"Medium","size":15,"edges":95,"triangles":341,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":15},{"id":"GO:0070963","count":15},{"id":"GO:0046879","count":15},{"id":"GO:0001997","count":15},{"id":"GO:0071417","count":15}]},{"hash":"321763453586899830","title":"Neuroendocrine-immune regulation of muscle and vasculature","description":"This cluster centers on signaling that ties hormonal/neurotransmitter control to muscle function (intestinal smooth muscle contraction; regulation of heart contraction by epinephrine) and immune/vascular modulation (cytokine production, neutrophil activity, endothelial barrier regulation, morphine response). The convergence of hormone secretion, muscle contractility, and immune\u2013vascular processes suggests a cohesive neuroendocrine-immune modulatory theme affecting muscle and vascular systems.","confidence":"Medium","size":15,"edges":76,"triangles":199,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":12},{"id":"GO:0070963","count":12},{"id":"GO:0046879","count":12},{"id":"GO:0001997","count":12},{"id":"GO:0071417","count":12}]},{"hash":"2085413405370288547","title":"Neural signaling and reflexes","description":"The terms cluster around neuronal activity and communication: action potentials, excitatory postsynaptic potentials, startle and righting reflexes, calcium-dependent neurotransmitter processes including dopamine secretion, and modulation of chloride transport; the optic nerve morphogenesis term suggests development of the visual neural pathway. Together they indicate neural signaling and reflex behavior with a developmental aspect.","confidence":"High","size":15,"edges":80,"triangles":278,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060013","count":15},{"id":"GO:0098703","count":15},{"id":"GO:2000344","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0001964","count":15}]},{"hash":"84469594531559916","title":"Unknown","description":"The top GO terms cover intestinal smooth muscle contraction, heart contraction regulation by catecholamines, hormone secretion, immune signaling (IL-1\u03b2 production, neutrophil-mediated killing), morphine response, endothelial barrier regulation, and neurotrophic factor production. This mix spans muscle, endocrine, immune, vascular, and nervous system functions without a clear single theme, so a concise, representative label cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":15},{"id":"GO:0070963","count":15},{"id":"GO:0046879","count":15},{"id":"GO:0001997","count":15},{"id":"GO:0071417","count":15}]},{"hash":"1059492343538589360","title":"Cardiovascular and smooth muscle regulation","description":"This cluster's top GO terms cluster around smooth muscle contraction (intestine), regulation of heart contraction by catecholamines, hormone secretion, vascular/endothelial barrier modulation, and inflammatory signaling (IL-1\u03b2), as well as responses linked to morphine. Together, they point to a cohesive theme of regulatory signaling that modulates muscle function (both smooth and cardiac) alongside endocrine and vascular/immune processes. Some terms are broader or obsolete, but the common thread is regulatory signaling affecting muscle performance and related hormonal/immune pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":14},{"id":"GO:0070963","count":14},{"id":"GO:0046879","count":14},{"id":"GO:0001997","count":14},{"id":"GO:0071417","count":14}]},{"hash":"1393668964953002099","title":"Embryonic development and immune-neural signaling","description":"The cluster's top GO terms point to developmental processes (multicellular organism development, cerebral cortex development, myoblast fusion, angiogenesis) as well as immune and neural signaling (interleukin-1\u2013mediated signaling, T cell receptor signaling, JNK cascade regulation, long-term synaptic potentiation, PI3K/AKT signaling). This mix suggests proteins that participate in developmental signaling with integrated immune and neural contexts rather than a single pathway, warranting a label that reflects both developmental and immune-neural roles.","confidence":"Medium","size":14,"edges":26,"triangles":35,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046330","count":9},{"id":"GO:0007275","count":8},{"id":"GO:0070498","count":8},{"id":"GO:0000086","count":8},{"id":"GO:0043491","count":8}]},{"hash":"351293368793322019","title":"Embryonic Development and Pattern Formation","description":"This cluster centers on developmental processes across multiple tissues, especially neural development (cerebral cortex, cerebellum, neuronal stem cells) and organ morphogenesis (eye, trachea, gonads, prostate, ovarian follicle). The recurring theme is pattern formation and tissue morphogenesis during development, including left/right pattern establishment and sensory/motor development. Confidence: Medium","confidence":"Medium","size":14,"edges":10,"triangles":4,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":6},{"id":"GO:0021987","count":5},{"id":"GO:0097150","count":5},{"id":"GO:0060438","count":5},{"id":"GO:0048048","count":5}]},{"hash":"1754396916312906109","title":"Vertebrate development and neural tube formation","description":"The cluster is dominated by terms linked to development, especially vertebrate skeletal and neural development (skeletal system development, forebrain development, neural tube closure, multicellular organism development) and DNA-templated transcription as a central mechanism, with additional stress and immune-related terms that appear ancillary. This suggests proteins involved in developmental programs with transcriptional regulation, including neural structure formation.","confidence":"Medium","size":14,"edges":88,"triangles":331,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006349","count":8},{"id":"GO:0001501","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0007275","count":7}]},{"hash":"1230661780965793621","title":"Immune Signaling and Development","description":"This cluster is characterized by a strong representation of immune-related GO terms (interleukin-4 production, cellular response to interleukin-7, B cell affinity maturation, NK T cell differentiation) alongside developmental/morphogenetic processes (heart development, branching in mammary gland duct morphogenesis). The common theme appears to be signaling pathways that function in both immune contexts and tissue development, with some general housekeeping terms (e.g., centrosome localization, mRNA tail shortening) that are less central to the main theme. Therefore, the label \"Immune Signaling and Development\" best captures the core functions represented, with some mild ambiguity due to the developmental terms. ","confidence":"Medium","size":14,"edges":69,"triangles":197,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904780","count":7},{"id":"GO:0008286","count":5},{"id":"GO:0032633","count":4},{"id":"GO:0098761","count":4},{"id":"GO:0002344","count":4}]},{"hash":"1173543789101675601","title":"Unknown","description":"The top terms span highly diverse biological contexts (nervous system development, muscle differentiation, immune processes, circadian rhythms, swimming, even plant metabolism), with several terms appearing unrelated or erroneous. There is no single coherent function linking all proteins, so a specific, representative label cannot be assigned.","confidence":"","size":14,"edges":58,"triangles":111,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0045496","count":6},{"id":"GO:0035914","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0002467","count":6}]},{"hash":"602889661357718195","title":"Ubiquitin deubiquitination and protein quality control","description":"The cluster is dominated by proteins involved in removing ubiquitin from substrates across multiple linkages (K48, K63, K29, K6) and in depolymerizing free ubiquitin chains, with associations to ERAD and maintenance of unfolded protein. This points to a cohesive theme of ubiquitin-mediated proteostasis. While other terms touch transcription and splicing, they appear secondary to deubiquitination/quality-control functions.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":6},{"id":"GO:0071108","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0010995","count":6},{"id":"GO:0070537","count":6}]},{"hash":"1460139320229451950","title":"Angiogenesis and Immune Signaling","description":"The cluster centers on processes like angiogenesis, cell migration, cell-cell signaling, and adaptive immune response, with supporting roles for leukotriene biosynthesis and TORC2 signaling that links to cytoskeletal dynamics and vascular remodeling. This combination suggests a cohesive theme of vascular-immune communication and migratory signaling, justifying a label focused on angiogenesis coupled with immune signaling.","confidence":"High","size":14,"edges":41,"triangles":33,"max_degree":8,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0038203","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007267","count":3},{"id":"GO:0002250","count":3}]},{"hash":"2292116752257483221","title":"BMP/FGF-driven tissue differentiation","description":"The cluster centers on developmental differentiation and signaling, especially bone and tooth formation (osteoblast fate, odontogenesis) with BMP signaling and FGFR pathway regulation. Additional terms like scab formation and retinal cell death suggest broader differentiation processes across tissues, supporting a unifying label focused on developmental signaling guiding tissue differentiation.","confidence":"High","size":14,"edges":20,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035314","count":5},{"id":"GO:0035165","count":5},{"id":"GO:0030509","count":5},{"id":"GO:0048469","count":5},{"id":"GO:0040036","count":5}]},{"hash":"2268931075586153298","title":"Cytoskeletal remodeling and cell-adhesion signaling","description":"This cluster is enriched for terms related to actin stress fiber regulation, Rho signaling, and integrin-mediated adhesion, as well as processes like keratinocyte migration and brush border assembly, pointing to a common theme of cytoskeletal dynamics and cell-matrix interactions that drive tissue morphogenesis and cell movement. Some terms touch on specialized sensory differentiation, but they can be contextually linked to cytoskeletal remodeling in sensory tissues, supporting the overall theme.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":4},{"id":"GO:0060396","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0001751","count":3}]},{"hash":"1822559749195912529","title":"Retina-related secretory trafficking","description":"The cluster is dominated by vesicle trafficking and secretion terms (insulin secretion, regulated exocytosis, endocytic recycling) alongside retina-specific development terms (rhabdomere development, neural retina development), suggesting a retinal secretory/trafficking module. Some terms reflect broader signaling or post-translational modification processes (I-kappaB phosphorylation, regulation of deneddylation) that may be ancillary to the main theme.","confidence":"Medium","size":14,"edges":12,"triangles":10,"max_degree":5,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0035773","count":6},{"id":"GO:0007252","count":6},{"id":"GO:0060625","count":5},{"id":"GO:0045055","count":5},{"id":"GO:1903452","count":5}]},{"hash":"249158968006449534","title":"Neural development and microtubule regulation","description":"These proteins show strong signals for nervous system development and dendrite formation (neural morphogenesis), complemented by several microtubule\u2013related processes (protein localization to microtubules, regulation of microtubule depolymerization). While innate immune response and broader development terms appear, the core enrichment centers on neural development intertwined with cytoskeletal dynamics, justifying a label focused on neural morphogenesis with cytoskeletal regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0000902","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0016358","count":4}]},{"hash":"2284478622147713242","title":"Unknown","description":"The top GO terms span disparate contexts (nervous system development, B cell signaling and germinal center formation, circadian rhythm, phototropism) with little cohesive overlap, and includes obsolete/regulatory terms, making it impossible to assign a single representative function to this cluster.","confidence":"","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0045496","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0002467","count":2},{"id":"GO:1904431","count":2}]},{"hash":"467669184395667790","title":"Axon guidance and synapse formation","description":"This cluster is dominated by neural development terms: positive regulation of synapse assembly, axonal fasciculation, corpus callosum development, and regulation of axon regeneration, with Wnt signaling also implicated in development. These collectively point to axon wiring and synapse formation processes. A few terms like pinocytosis, brassinosteroid detection, and defense response to Gram-negative bacteria may reflect broader cellular functions or annotation noise rather than core themes.","confidence":"Medium","size":14,"edges":27,"triangles":7,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0007413","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0022038","count":4},{"id":"GO:0048681","count":4}]},{"hash":"495887180265527458","title":"Multi-lineage Differentiation and Development","description":"The top GO terms point to differentiation and maturation across several tissue lineages (fat cells, Sertoli cells, cardiac muscle, neurons) and embryonic development, with supporting transcriptional and growth activity. This suggests a cluster of genes involved in broad developmental differentiation programs across tissues rather than a single pathway. ","confidence":"Medium","size":14,"edges":22,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":3},{"id":"GO:0045444","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0006351","count":2}]},{"hash":"913341893178213100","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0006094","count":6},{"id":"GO:0042594","count":6},{"id":"GO:0001889","count":5},{"id":"GO:0019878","count":4}]},{"hash":"624899611073681316","title":"Cell polarity regulation and amino acid metabolism","description":"Top GO terms show a mix of regulatory/developmental processes (regulation of establishment of cell polarity; placenta development) alongside multiple metabolic biosynthetic/catabolic pathways (hydrogen sulfide, pyruvate, D-serine, L-homocysteine/cysteine related) and mRNA processing. This suggests the cluster groups proteins involved in coordinating cell organization with amino acid metabolism and RNA processing, rather than a single clean pathway. The presence of placenta development may reflect tissue-specific annotation rather than a core shared function. ","confidence":"Medium","size":14,"edges":8,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000114","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0070814","count":1}]},{"hash":"1706470533044159469","title":"Mitochondrial fusion and cristae formation","description":"This cluster is dominated by GO terms related to mitochondrial morphology: cristae formation and mitochondrial fusion, each with two proteins, indicating a shared function in maintaining mitochondrial structure and dynamics. While a few singletons touch on neuronal synapse regulation and lipid-related processes, the strongest signal is mitochondrial remodeling, suggesting a cohesive mitochondrial morphology role across contexts.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042407","count":2},{"id":"GO:0008053","count":2},{"id":"GO:1901630","count":1},{"id":"GO:0000070","count":1},{"id":"GO:1905860","count":1}]},{"hash":"802207794222937011","title":"ER Stress and Ubiquitin-Mediated Quality Control","description":"This cluster centers on ER stress\u2013induced apoptotic signaling, ERAD/ubiquitination, and ubiquitin chain dynamics, suggesting proteins involved in sensing misfolded proteins in the ER and marking them for degradation, with related interferon signaling connections. Some terms (transcription regulation, DNA repair, erythrocyte differentiation) seem peripheral, but the dominant theme is ER stress response coupled to ubiquitin-mediated proteostasis.","confidence":"Medium","size":14,"edges":84,"triangles":285,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0060340","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0035458","count":4},{"id":"GO:0051865","count":4}]},{"hash":"60903750857266225","title":"Cardiac muscle function and multiciliated differentiation","description":"This cluster centers on cardiac-related processes (sarcomere organization, cardiac muscle contraction, heart rate regulation) and on ciliogenesis (centriole replication and de novo centriole assembly in multiciliated epithelial differentiation). The GO terms suggest two related but distinct tissue-specific programs\u2014muscle architecture/function and multiciliated cell differentiation\u2014within the same protein group, indicating a composite cluster that touches both cardiac muscle biology and ciliogenesis. ","confidence":"Medium","size":14,"edges":39,"triangles":60,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":6},{"id":"GO:1904753","count":5},{"id":"GO:1904706","count":5},{"id":"GO:0060298","count":5},{"id":"GO:0003065","count":5}]},{"hash":"1200324653869675131","title":"Rho/Rac-Driven Cytoskeletal Remodeling and Migration","description":"Based on the dominant GO terms, the cluster centers on actin cytoskeleton dynamics (lamellipodium assembly, actin organization) governed by Rho family GTPases (Rho, Rac) to drive cell migration and spreading; immune signaling terms appear ancillary. ","confidence":"High","size":14,"edges":79,"triangles":254,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":11},{"id":"GO:0030036","count":11},{"id":"GO:0007264","count":11},{"id":"GO:0035023","count":11},{"id":"GO:0016477","count":11}]},{"hash":"112785177948781952","title":"Unknown","description":"The top GO terms are highly diverse across different organisms and tissues (fat cell differentiation, stress response, plant mucilage biosynthesis and cell wall processes, haltere and xylem development, lens/kidney/neuron differentiation, and hormone biosynthesis regulation), with no single shared function or pathway evident. This makes it impossible to assign a cohesive functional label to the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0035902","count":2},{"id":"GO:0010192","count":1},{"id":"GO:0048735","count":1},{"id":"GO:0072086","count":1}]},{"hash":"2150183882708746148","title":"Growth signaling and cell cycle regulation","description":"The terms show signaling pathway regulation (T cell receptor signaling; Wnt and TOR signaling) together with cell-cycle processes (APC-dependent catabolic process, ubiquitin ligase activity), suggesting proteins that coordinate growth signaling with cell division rather than a single pathway.","confidence":"Medium","size":14,"edges":71,"triangles":201,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051436","count":6},{"id":"GO:0090090","count":6},{"id":"GO:0000186","count":6}]},{"hash":"879176236186037963","title":"Stress-Responsive Transcription Regulation","description":"The cluster shows enrichment for transcription-related GO terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) along with several stress-response terms (response to hydrogen peroxide, heat, UV-A) and signals of cytoskeletal dynamics (microtubule polymerization/depolymerization). This pattern points to proteins that regulate transcription in response to cellular stress and may coordinate chromatin or nuclear functions with cytoskeletal/proteostasis changes.","confidence":"High","size":14,"edges":55,"triangles":83,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0042542","count":4},{"id":"GO:0060303","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0070141","count":3}]},{"hash":"965959854215386883","title":"Endomembrane trafficking and Golgi\u2013endosome transport","description":"The top terms cluster around vesicle trafficking within the endomembrane system: endosome organization, Golgi to endosome transport, vesicle docking in exocytosis, vacuole fusion, SNARE complex regulation, and general intracellular protein transport, with some cell division terms likely reflecting vesicle dynamics during mitosis. This points to a cohesive function in cargo routing and membrane trafficking rather than a purely mitotic role.","confidence":"Medium","size":14,"edges":41,"triangles":87,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006886","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0035542","count":6}]},{"hash":"2205271707937974396","title":"Golgi-ER trafficking in neural development","description":"The top GO terms cluster around Golgi localization and protein complex localization, ER stress response, and trafficking-related processes, with supporting neural-development signals such as nervous system development and interneuron migration, plus cell-polarity and organelle maintenance terms. This suggests a cohesive module of proteins involved in secretory pathway trafficking and organelle homeostasis that also contributes to neural development and epithelial polarity.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0051519","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0090162","count":2}]},{"hash":"543780936565827818","title":"Neuronal Synaptic Secretion and Spine Maintenance","description":"The top GO terms cluster around neuronal secretion and synaptic function: dense core granule maturation, regulation of neurotransmitter secretion, monoamine transport, and long-term synaptic depression, along with dendritic spine maintenance and actin cytoskeleton regulation. This points to proteins involved in secretory pathways and the structural remodeling of synapses, consistent with neurotransmitter release and spine dynamics. The presence of cell morphogenesis signals also aligns with structural changes at synapses. ","confidence":"High","size":14,"edges":71,"triangles":190,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1990502","count":6},{"id":"GO:0060292","count":4},{"id":"GO:0034316","count":4},{"id":"GO:0097062","count":4},{"id":"GO:0050796","count":4}]},{"hash":"1799693644512850561","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":62,"triangles":177,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0022013","count":10},{"id":"GO:0070935","count":10},{"id":"GO:0010323","count":10},{"id":"GO:0006402","count":10}]},{"hash":"2092875630721716737","title":"Embryogenesis and germ layer formation","description":"The GO terms are dominated by gastrulation, mesoderm formation, and endoderm development, with a notable link to FGF receptor signaling. Together these point to proteins involved in embryonic development and germ layer specification, despite a few outlier terms likely representing annotation noise. Confidence is High.","confidence":"","size":14,"edges":69,"triangles":168,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0045743","count":1},{"id":"GO:0052541","count":1},{"id":"GO:0015014","count":1},{"id":"GO:0007369","count":1}]},{"hash":"1417661245195783659","title":"Carbohydrate metabolism with transport and kinase signaling","description":"The top GO terms point to carbohydrate metabolic processes (including gluconeogenesis), transporter activity (glycine betaine and magnesium ion transport), and regulatory/protein interaction steps (protein kinase activation, tetramerization, nuclear import). This suggests a cluster centered on metabolic regulation together with transport and signaling activities, despite some older terms. ","confidence":"Medium","size":14,"edges":67,"triangles":181,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019346","count":7},{"id":"GO:0032147","count":6},{"id":"GO:0031460","count":6},{"id":"GO:0005975","count":6},{"id":"GO:0055114","count":6}]},{"hash":"1464219127454190913","title":"Glycosaminoglycan proteoglycan biosynthesis","description":"The cluster shows strong representation of dermatan/heparan sulfate proteoglycan metabolic and biosynthetic processes, including chain elongation and enzymatic modification, plus polysaccharide localization. This points to a coherent theme of glycosaminoglycan/proteoglycan biosynthesis and trafficking to the extracellular matrix, with incidental links to development (chondrocyte development, ureteric bud formation) where proteoglycans play roles. Overall, the data support a proteoglycan biosynthesis-focused cluster.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050655","count":1},{"id":"GO:0030202","count":1},{"id":"GO:0015015","count":1},{"id":"GO:0033037","count":1},{"id":"GO:0015768","count":1}]},{"hash":"894118866552095053","title":"Angiogenesis and placental morphogenesis","description":"This cluster is enriched for terms about vascular and placental development, including positive regulation of angiogenesis, placental branching morphogenesis, epithelial morphogenesis, and collagen organization, with supporting signals from broader developmental and vascular-associated processes such as nervous system development and coagulation.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0060672","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0006958","count":4}]},{"hash":"1100599078904407473","title":"Axon Guidance and Neuronal Development","description":"The top GO terms are dominated by neural development and axon pathfinding: branchiomotor neuron axon guidance, sympathetic neuron projection extension, trigeminal nerve organization, axonal fasciculation, ventral trunk neural crest migration, and semaphorin-plexin signaling in axon guidance, plus regulation of synapse assembly. Although there are some terms like kidney development and classical complement activation, the shared theme across the majority of terms is neuronal development and axon guidance, suggesting these proteins function together in neural wiring.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0021785","count":2},{"id":"GO:0097490","count":2},{"id":"GO:0021637","count":2},{"id":"GO:0051965","count":2}]},{"hash":"937798822376073619","title":"RNA processing and translation","description":"The top GO terms cluster around the RNA life cycle and gene expression control: cytoplasmic translation, deadenylation-independent mRNA decay, snoRNA splicing, and regulation of mRNA localization, with some related to historical or broad RNA processing events like polyadenylation. A few terms touch on signaling (ERK cascade, FGF response) and immune regulation, but the strongest and most coherent theme is RNA metabolism and translation. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0031086","count":4},{"id":"GO:0002181","count":4},{"id":"GO:1904582","count":4},{"id":"GO:0034247","count":4},{"id":"GO:1904246","count":4}]},{"hash":"2150307663629389679","title":"Neutrophil Chemotaxis and Cytoskeletal Signaling","description":"The cluster is dominated by innate immune and cell-migration processes: response to lipopolysaccharide and neutrophil chemotaxis, with strong signals for cytoskeletal remodeling (actin and microtubules) and downstream signaling (NF-kB, STAT, PI biosynthesis), suggesting coordinated pathways driving neutrophil movement and cytoskeletal dynamics. Some growth-related or neuronal terms appear less central but may reflect broader signaling cross-talk.","confidence":"High","size":14,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":11},{"id":"GO:0031532","count":11},{"id":"GO:0032496","count":11},{"id":"GO:0030593","count":11},{"id":"GO:0051092","count":11}]},{"hash":"953809029924208810","title":"Endosomal-lysosomal trafficking and autophagy regulation","description":"This cluster shows enrichment for endosome/lysosome localization, Rab and Rap signaling, and autophagosome maturation regulation, plus vesicle transport along microtubules and membrane tubulation, indicating a cohesive role in endosomal-lysosomal trafficking and autophagy control.","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":2},{"id":"GO:0032418","count":2},{"id":"GO:0032483","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0032486","count":2}]},{"hash":"118778742341391223","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around embryonic development, differentiation, and morphogenesis\u2014placental/trophoblast differentiation, cartilage morphogenesis, left-right pattern formation, and EMT-related heart development\u2014with supporting terms like endocrine system development and reorganization of transcription/splicing. While some general cellular processes appear, the dominant theme links these proteins to embryo development and tissue formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0032298","count":5}]},{"hash":"829504353424282221","title":"Unknown","description":"The GO terms span immune differentiation (B cell differentiation) and diverse signaling processes (neutrophil regulation, Rho signaling, calcineurin-NFAT signaling, IGF and GH receptor pathways), plus endothelial angiogenesis and ER stress responses. This mix suggests no single coherent biological theme to define a specific cluster label, so an Unknown designation is appropriate.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030183","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0048009","count":2}]},{"hash":"1355229096996192899","title":"Unknown","description":"The terms cover cuticle/ECM development, collagen signaling, immune complement activation, vascular/lymphangiogenesis, developmental differentiation, and endocrine secretion, with no single cohesive function defining the cluster. A confident, specific label cannot be supported.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042338","count":8},{"id":"GO:2000584","count":8},{"id":"GO:0071230","count":8},{"id":"GO:0035987","count":8},{"id":"GO:0060355","count":8}]},{"hash":"659287312590602061","title":"Unknown","description":"The top GO terms are heterogeneous: sensory perception of sound, GPCR signaling, protein tetramerization, small GTPase signaling, redox and oxidative stress, protein repair and modification, and a few organism-specific terms. There is no clear single biological process tying these proteins together, so the cluster appears functionally diverse or unrelated, best labelled Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0055114","count":1}]},{"hash":"1296502560864150858","title":"Imaginal disc morphogenesis and planar polarity","description":"This cluster\u2019s top GO terms center on imaginal-disc\u2013derived development, including leg joint morphogenesis, wing hair orientation, and ommatidial planar polarity, along with actin and actomyosin cytoskeleton organization and axon guidance. Together, these terms point to a cohesive theme of insect imaginal disc\u2013driven morphogenesis and planar polarity establishment, with cytoskeletal dynamics as a key mechanism. Some terms (phloem development, T cell homeostasis) appear unrelated and likely represent noise, but do not obscure the dominant signal.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016348","count":2},{"id":"GO:0042067","count":2},{"id":"GO:0001737","count":2},{"id":"GO:0051017","count":2},{"id":"GO:1902669","count":2}]},{"hash":"2001208621162532485","title":"Developmental signaling and tissue development","description":"The top terms center on FGFR-related signaling and MAPKKK cascade regulation, plus multiple development-related processes (lung mesenchyme, skeletal system development, parathyroid hormone secretion). Although immune and cell-cycle terms appear, the predominant theme is developmental signaling and tissue morphogenesis across organs, suggesting a developmental-module nature for this cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090080","count":6},{"id":"GO:0090272","count":6},{"id":"GO:0060484","count":6},{"id":"GO:2000830","count":6},{"id":"GO:0043318","count":6}]},{"hash":"30410838802516402","title":"Glycosylation and Glycan Metabolism","description":"The top GO terms are dominated by glycan-related processes: protein sialylation, N-glycan processing, glycosylceramide/glycosphingolipid metabolism, and general oligosaccharide metabolism, with additional sialic acid (N-acetylneuraminate) involvement. A few terms related to pollen development and olfactory tissue appear, which may reflect broader roles of glycans in reproductive and sensory tissues, but the core signal centers on glycan biosynthesis and modification.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990743","count":3},{"id":"GO:0001574","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006491","count":3},{"id":"GO:0009311","count":3}]},{"hash":"18944707376071562","title":"Mitochondrial function and nutrient signaling","description":"Dominant GO terms cluster around mitochondrial processes (mitochondrial ATP synthase assembly, mitochondrial protein processing) and nutrient-sensing pathways (TORC1 signaling, cellular response to amino acid stimulus), suggesting a core theme of mitochondrial metabolism and growth signaling. A few items relate to meiosis and chromatin assembly, which may reflect broader cell-cycle roles or annotation noise, but the strongest link is mitochondrial function linked to nutrient-responsive regulation.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033615","count":2},{"id":"GO:0034982","count":2},{"id":"GO:0007084","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0051232","count":1}]},{"hash":"2217562821975137877","title":"Nutrient and xenobiotic transmembrane transporters","description":"The GO terms cluster around transport across membranes for a variety of substrates (nitrate, sugars like arabinose and fucose, sialic acid, phosphate, potassium, xenobiotics), indicating a group of membrane transporter proteins with broad substrate specificity. Despite having no observed edges, the common function as transmembrane transporters justifies this label.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":9},{"id":"GO:0006855","count":8},{"id":"GO:1900754","count":7},{"id":"GO:0006004","count":7},{"id":"GO:0015739","count":7}]},{"hash":"72756639884188495","title":"Embryonic Development and Tissue Morphogenesis","description":"The terms cluster around developmental processes across multiple tissues: placental/trophoblast differentiation, EMT in heart development, cartilage morphogenesis, left-right patterning, endocrine system and pancreatic cell development, and axonogenesis. These collectively point to embryonic differentiation and organ morphogenesis rather than a single pathway. A few terms (like mRNA splicing and microtubule dynamics) are general cellular processes that support development, but the dominant theme remains developmental differentiation across tissues.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003198","count":2}]},{"hash":"2072044587504781244","title":"Immune Cell Activation Signaling","description":"The top GO terms point to activation and signaling in immune cells, notably positive regulation of B and T cell proliferation, and signaling cascades like STAT phosphorylation and ERK activation, consistent with immune activation. Some terms (neuron projection development, ganglioside biosynthesis, pollen tube growth) appear ancillary or cross-annotated, suggesting a primary theme of immune activation with broader membrane/glycosylation associations. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030890","count":3},{"id":"GO:0042104","count":2},{"id":"GO:0042523","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010976","count":2}]},{"hash":"567476297119066513","title":"Integrin signaling and immune cell adhesion","description":"This cluster is dominated by GO terms related to integrin-mediated signaling, cell adhesion, migration, and extravasation, plus immune-related processes like T cell activation and complement activation, suggesting a coherent theme of immune cell trafficking and adhesion. Additional terms such as hyaluronan metabolism and heterotypic cell\u2013cell adhesion support extracellular matrix remodeling relevant to migration, while a few developmental terms (endodermal differentiation, stamen formation) appear as broader contexts but do not override the main adhesion/migration signal.","confidence":"Medium","size":14,"edges":71,"triangles":184,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0006511","count":4},{"id":"GO:0006929","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0034113","count":4}]},{"hash":"1817986287490410102","title":"Symbiont-Linked Immune Modulation and ER Remodeling","description":"The cluster prominently features terms about symbiont-mediated perturbation of host ubiquitin-like protein modification, suppression of host adaptive immune responses, and regulation of tolerance, suggesting a theme of host immune modulation by symbionts. Complementing this, ER tubular network maintenance and formation point to cellular remodeling connected to secretion and membrane organization, with additional hints from ubiquitination and barrier-related biosynthesis (suberin/cutin) that could reflect defense-related remodeling. Taken together, the dominant signal appears to be symbiont-driven immune modulation with associated ER/membrane dynamics.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071788","count":3},{"id":"GO:0071787","count":3},{"id":"GO:0039648","count":2},{"id":"GO:0002643","count":2},{"id":"GO:0010345","count":2}]},{"hash":"1489587475308208933","title":"Embryogenesis and gene regulation","description":"The GO terms point to embryonic development processes (epiboly in gastrulation, prechordal plate formation) alongside regulatory pathways (positive regulation of TGF-\u03b2 signaling, protein ubiquitination) and RNA processing or transcription-related activities (mRNA splicing, negative regulation of RNA Pol II binding, ribosomal subunit export). This mix suggests a cluster centered on developmental gene regulation and general expression control rather than a single enzymatic function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0030579","count":2},{"id":"GO:0030511","count":2},{"id":"GO:0055113","count":2},{"id":"GO:0021501","count":2}]},{"hash":"270206721174354644","title":"Metabolic Regulation and Development Regulators","description":"The proteins in this cluster are linked to metabolic control (negative regulation of gluconeogenesis, positive regulation of glycogen biosynthesis) as well as developmental and regulatory processes (brown fat differentiation, tendon development, synapse assembly, IL-8 production, complement activation, ERK signaling regulation). This points to a group of regulators that influence metabolism, differentiation, and signaling across tissues rather than a single, unified pathway.","confidence":"Medium","size":14,"edges":35,"triangles":25,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045721","count":6},{"id":"GO:0050873","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0070373","count":6},{"id":"GO:0045725","count":5}]},{"hash":"605010639793448246","title":"GPCR-Mediated Neuronal Signaling and Axon Guidance","description":"Top GO terms are dominated by GPCR signaling pathways (adenylate cyclase-activating and PLC-activating), plus axonal fasciculation and synapse assembly, indicating a core theme of neuronal signaling and connectivity. While vascular-related terms are present, the strongest signal centers on GPCR-driven neuronal signaling and axon development.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0035025","count":13},{"id":"GO:0016525","count":12}]},{"hash":"1959628958487789737","title":"Cell signaling and immune modulation","description":"Most enriched GO terms point to regulation and modulation of signaling pathways (ERK cascade; GTPase activity; adenylate cyclase activity) and immune/host-response processes (inflammatory response, morphine-related signaling). This suggests a cluster centered on cellular signaling with roles in immune modulation, even though a few outlier terms (energy metabolism, cytolysis, bacterial/viral processes) are present, the core theme is signaling regulation and host response.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0043278","count":7},{"id":"GO:0050728","count":7},{"id":"GO:0043547","count":7}]},{"hash":"1718294516360845429","title":"Transmembrane Transport of Metabolites and Ions","description":"This cluster is dominated by transport-related GO terms across membranes for small molecules (glucose, myo-inositol, biotin, pantothenate) and sodium ions, with acetylcholine biosynthesis adding a neuronal metabolic context. Together these terms point to a membrane transport/metabolic module handling nutrient and ion exchange.","confidence":"High","size":14,"edges":67,"triangles":167,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":14},{"id":"GO:0015798","count":14},{"id":"GO:0008292","count":14},{"id":"GO:0071436","count":14},{"id":"GO:0015878","count":14}]},{"hash":"894128655008671302","title":"Muscle Contraction and Hormone-Inflammation Signaling","description":"These proteins cluster around GO terms for intestinal smooth muscle contraction and regulation of heart contraction by adrenaline, plus hormone secretion and inflammatory processes (IL-1 beta production, neutrophil activity). The common theme appears to be signaling that links hormonal cues to contractile and inflammatory/vascular responses, even though other terms like morphine response and glial neurotrophic factor production add diversity. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":14},{"id":"GO:0070963","count":14},{"id":"GO:0046879","count":14},{"id":"GO:0001997","count":14},{"id":"GO:0071417","count":14}]},{"hash":"476969416907571827","title":"Autophagy and DNA Repair Cluster","description":"The top GO terms cluster around autophagic and DNA-maintenance activities: positive regulation of macroautophagy, base-excision repair, and DNA recombination, suggesting a theme of cellular stress response and genome integrity. Some terms on development and angiogenesis appear, but they seem peripheral to the main signal. Overall, the cluster centers on maintenance of cellular health and genome stability.","confidence":"Medium","size":13,"edges":35,"triangles":44,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0010080","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0009097","count":2}]},{"hash":"66226020852955384","title":"Meiotic and mitotic chromosome segregation","description":"The top terms cluster around meiotic spindle elongation, centromeric cohesion, meiotic nuclear division, and sister chromatid separation, plus mitotic nuclear membrane reassembly and nuclear import. Together they indicate a cohesive set of proteins coordinating chromosome organization and segregation during both meiosis and mitosis, with some regulatory terms that may reflect broader control but do not alter the central theme.","confidence":"High","size":13,"edges":34,"triangles":54,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051232","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0051754","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0007143","count":4}]},{"hash":"1337270718008839892","title":"TORC1-Driven Growth and Translational Regulation","description":"The GO terms show TORC1 signaling and formation of translation preinitiation complex as central themes, indicating coordinated control of protein synthesis and cell growth. Coupled terms like DNA-templated transcription and multicellular development (including skin development) suggest this growth/translation axis feeds into transcriptional programs and developmental processes, with spindle orientation linking to cell division. Some obsolete terms appear, but the core pattern points to growth and translational regulation tied to development.","confidence":"Medium","size":13,"edges":59,"triangles":141,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038202","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0035948","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000132","count":5}]},{"hash":"1672110921870015555","title":"Mitotic spindle dynamics and microtubule regulation","description":"Reasoning: The top GO terms cluster around microtubule depolymerization (plus-end and cytoplasmic), spindle apparatus events (mitotic spindle pole separation, kinetochore attachment), and cytokinesis, indicating a focus on microtubule dynamics during cell division, with some broader cytoskeletal roles in plants and development. This justifies a label centered on mitotic spindle dynamics and microtubule regulation.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0032487","count":13},{"id":"GO:0070462","count":13},{"id":"GO:0010938","count":13},{"id":"GO:0000073","count":13},{"id":"GO:0099607","count":13}]},{"hash":"1763619972646702833","title":"ECM Adhesion and Remodeling","description":"The cluster\u2019s top GO terms cluster around extracellular matrix interactions and remodeling: calcium-independent cell-matrix adhesion, hyaluronan metabolic process, substrate-dependent cell migration, and negative regulation of ECM assembly, together with positive regulation of metallopeptidase activity. This points to dynamic ECM remodeling and adhesion as a central function. Additional terms like acute-phase response and complement activation suggest linked inflammatory modulation of ECM. Some terms (endodermal differentiation, visual perception, stamen formation) are broader or species-specific annotations and do not define the core theme, but they do not override the ECM-centric interpretation.","confidence":"High","size":13,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":4},{"id":"GO:0007161","count":4},{"id":"GO:0030212","count":3},{"id":"GO:0006929","count":3},{"id":"GO:0050908","count":3}]},{"hash":"1128047551601420243","title":"Developmental signaling and cytoskeletal remodeling","description":"The cluster centers on developmental processes across tissues (heart and neuron development) and cellular remodeling activities (cell migration, filopodium assembly, caveolin-mediated endocytosis) linked with signaling pathways (Ras, NF-kappaB) and neural plasticity (long-term potentiation), suggesting a cohesive theme of developmental signaling intertwined with cytoskeletal and membrane dynamics.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0046580","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0046847","count":3}]},{"hash":"945068073028271918","title":"Mitotic cell cycle and DNA repair","description":"The cluster combines terms for cell division and multiple DNA repair processes (BER, NER, alkylation repair, depyrimidination) plus centrosome-associated microtubule organization, indicating a group of proteins that coordinate DNA repair with mitotic progression.","confidence":"High","size":13,"edges":45,"triangles":78,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0035552","count":2},{"id":"GO:0006265","count":2},{"id":"GO:0032074","count":2}]},{"hash":"550973800309824465","title":"Broad Solute Transport","description":"The top GO terms are largely centered on transport of diverse solutes (taurine, glycine betaine, fatty acids into peroxisomes, carbohydrates, cysteine, molybdate, lipoproteins), suggesting a theme of broad nutrient and small-molecule movement. The presence of SOS response and nucleotide-excision repair hints at a concomitant stress/damage-response context, but the strongest signal is multi-solute transport. Confidence: Medium","confidence":"","size":13,"edges":13,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060702","count":6},{"id":"GO:0015734","count":5},{"id":"GO:0015910","count":4},{"id":"GO:0031460","count":4},{"id":"GO:0009432","count":4}]},{"hash":"586414811366965446","title":"Stem cell differentiation and skeletal development","description":"The top GO terms cluster around differentiation and development across multiple lineages\u2014stem cell differentiation, chondrocyte and odontogenesis pathways, osteoblast differentiation, cranial skeleton morphogenesis, and hematopoiesis\u2014along with regulation of the cell cycle, indicating a cohesive theme of lineage specification and skeletal/craniofacial tissue formation.","confidence":"High","size":13,"edges":21,"triangles":17,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048863","count":4},{"id":"GO:0042675","count":4},{"id":"GO:0048745","count":4},{"id":"GO:0007050","count":4},{"id":"GO:0060044","count":4}]},{"hash":"1853693075669659866","title":"Small GTPase\u2013driven actin cytoskeleton organization","description":"This cluster is dominated by GO terms linking small GTPase signaling (activation of GTPase activity, small GTPase-mediated signal transduction) with actin cytoskeleton organization, suggesting proteins that coordinate cytoskeletal dynamics through GTPase pathways. Additional terms related to growth factor signaling and growth/size regulation point to broader signaling roles that interface with cytoskeletal control, supporting a cohesive theme of GTPase-regulated actin remodeling within growth factor\u2013responsive signaling contexts.","confidence":"Medium","size":13,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0060313","count":2}]},{"hash":"1742201414190633467","title":"DNA replication and repair","description":"This cluster is dominated by GO terms tied to DNA replication, DNA-templated transcription, nucleotide-excision repair, and cellular responses to DNA damage (gamma radiation), plus telomere maintenance via recombination. While there is a stray term related to nervous system development, the majority point to genome maintenance and chromosomal dynamics, suggesting a cohesive function in DNA metabolism and genome stability. The presence of protein oligomerization supports multi-protein complexes typical of replication/repair pathways.","confidence":"High","size":13,"edges":67,"triangles":188,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007129","count":4},{"id":"GO:0007399","count":4},{"id":"GO:2000819","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0071480","count":3}]},{"hash":"259745798134868421","title":"DNA replication and repair with chromatin remodeling","description":"This cluster is dominated by terms related to DNA replication and various DNA repair pathways (including replication-born DSB repair and interstrand cross-link repair) and is complemented by chromatin-related activities such as heterochromatin formation and nucleosome dynamics. Transcription regulation terms are present but less central, suggesting the main theme is genome maintenance during replication with chromatin context. ","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0006268","count":4},{"id":"GO:0030466","count":4},{"id":"GO:0009432","count":3},{"id":"GO:1990414","count":3}]},{"hash":"1779078222730983378","title":"Embryonic Development Across Tissues","description":"The GO terms span multiple tissues and stages of embryogenesis (muscle, palate, nervous system, placenta/trophoblast, endocrine development, primitive streak/gastrulation) and include a broad regulatory term. This suggests the proteins function as general developmental regulators rather than a single tissue-specific module.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0048935","count":3},{"id":"GO:0090009","count":3}]},{"hash":"842535248191242352","title":"Developmental and Secretory Signaling","description":"The top GO terms include organ development (heart, thymus), secretory processes (insulin secretion, synaptic vesicle maturation), and key signaling regulators (PI3K activity, GTPase regulation, NF-kappaB, B cell signaling). This pattern suggests a cluster of proteins coordinating development with secretion and immune signaling rather than a single tissue-specific function.","confidence":"Medium","size":13,"edges":12,"triangles":4,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0033138","count":5},{"id":"GO:0016188","count":4},{"id":"GO:0030073","count":4},{"id":"GO:0031532","count":4}]},{"hash":"2300331039515391559","title":"Organelle Gene Expression","description":"These proteins cluster around transcription and ribosome assembly in organelles\u2014mitochondria and plastids\u2014evidenced by mitochondrial transcription, mitochondrial ribosome assembly, plastid rRNA transcription, and chloroplast organization. There are also related RNA processing terms and a nuclear chromatin assembly note, but the dominant signal is organelle gene expression and associated ribosome assembly. ","confidence":"Medium","size":13,"edges":19,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0034080","count":3},{"id":"GO:0051260","count":2},{"id":"GO:0045762","count":2},{"id":"GO:0061668","count":1},{"id":"GO:0006393","count":1}]},{"hash":"259074180044957925","title":"Central carbon metabolism and NADPH generation","description":"This cluster is dominated by core metabolic pathways: glycolysis, the TCA cycle, glyoxylate cycle, and the pentose phosphate pathway, along with NADPH regeneration and related acyl-CoA metabolism. The presence of these GO terms indicates proteins participate in central energy production and biosynthetic precursor generation, with NADPH supply as a key connecting factor. Minor involvement in amino acid biosynthesis terms (lysine/leucine) likely reflects linked metabolic routes rather than a dedicated pathway, supporting a broad central metabolism function.","confidence":"High","size":13,"edges":75,"triangles":255,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0019878","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0006096","count":3}]},{"hash":"2121575630262802648","title":"NF-kB-linked inflammation and myogenesis","description":"This cluster centers on NF-kappaB signaling regulation (and canonical NF-kappaB pathway regulation) alongside immune-related responses (B cell receptor signaling, LPS response, muramyl dipeptide) and muscle differentiation processes (myotube development/differentiation, response to muscle stretch), suggesting a theme where inflammatory signaling interfaces with myogenesis.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0071375","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0032495","count":5}]},{"hash":"2086557721673503916","title":"Neuronal development and synapse assembly","description":"This cluster centers on neuronal growth and synaptic organization, with GO terms for dendrite extension, neuron survival, and postsynaptic membrane assembly via neuroligin clustering. Additional terms on endosome transport and ubiquitination point to synaptic trafficking and signaling, while SMAD/TGF-beta signaling modulation can influence neural development. One outlier term (lung epithelial differentiation) is less connected.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:1903861","count":5},{"id":"GO:0043524","count":5},{"id":"GO:0060487","count":4},{"id":"GO:2000643","count":4},{"id":"GO:0097118","count":4}]},{"hash":"926588692481941421","title":"Negative regulation of TGF-beta/BMP signaling","description":"This cluster is dominated by GO terms for negative regulation of TGF-beta receptor signaling, BMP signaling, and SMAD complex assembly, plus a related note on peptidyl-threonine dephosphorylation, suggesting phosphatases that modulate these pathways. A single outlier term about photosystem stoichiometry appears unrelated and may reflect annotation noise, but the core theme centers on suppressing TGF-beta/BMP signaling and SMAD pathway activity.","confidence":"High","size":13,"edges":68,"triangles":207,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0080005","count":10},{"id":"GO:0035970","count":10},{"id":"GO:0042006","count":10},{"id":"GO:0071560","count":10},{"id":"GO:0000173","count":10}]},{"hash":"1078609300042485395","title":"ER Protein Quality Control and Stress Response","description":"The cluster is enriched for ER-associated degradation, unfolded protein maintenance, proteasome-mediated protein catabolism, and ER stress\u2013related signaling, with translation and calcium transport nearby, pointing to a proteostasis and ER stress regulation theme. Some DNA repair and PML body\u2013related terms appear less central, suggesting broader stress-response roles for a subset of proteins, but the dominant signal is proteostasis/ER stress. ","confidence":"High","size":13,"edges":64,"triangles":162,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0033132","count":7},{"id":"GO:0070911","count":6},{"id":"GO:1904378","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0032436","count":5}]},{"hash":"673308945788790511","title":"Developmental Polarity and Vesicle Trafficking","description":"The proteins share GO terms tied to epidermis morphogenesis, cell polarity maintenance, vesicle size regulation, axon extension, and synaptic vesicle exocytosis, plus signaling pathways (phagocytic signaling and androgen receptor). This points to a cohesive theme of developmental processes involving cell polarity and vesicle trafficking across epithelial and neural contexts, hence the label. ","confidence":"Medium","size":13,"edges":64,"triangles":168,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":13},{"id":"GO:0030011","count":13},{"id":"GO:0097494","count":13},{"id":"GO:0008283","count":13},{"id":"GO:1905451","count":13}]},{"hash":"747471069847350073","title":"Neuronal development and dendritic spine morphogenesis","description":"The top terms cluster around nervous system development, dendritic spine morphogenesis, motor neuron axon guidance, and synaptic protein localization, indicating roles in neuronal maturation and synapse formation. Transcription and nuclear export regulation terms likely reflect developmental gene expression programs supporting these processes. Overall, the cluster represents neuronal development and synapse organization.","confidence":"High","size":13,"edges":45,"triangles":96,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0035418","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0060997","count":10}]},{"hash":"666719001234113637","title":"Cardiac Muscle Development and Heart Function","description":"The set is enriched for terms about cardiac muscle tissue development, heart contraction, and vascular smooth muscle development, with supporting muscle organ development and even swim bladder inflation (fish). The dominant theme is cardiac muscle development and heart function, making this label a good fit.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":1},{"id":"GO:0000055","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0048747","count":1}]},{"hash":"329361605948783212","title":"Neural development and synaptic signaling","description":"The top GO terms center on nervous system development, ephrin signaling, axon extension, and excitatory postsynaptic potential, pointing to neuronal growth and synaptic communication as the cluster\u2019s main theme. Some terms are obsolete but the core pattern strongly indicates neural development processes and signaling pathways.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0071380","count":3}]},{"hash":"285447468561648828","title":"FGF-MAPK signaling in development and olfactory system","description":"This cluster is enriched for MAPK/ERK pathway regulation (ERK/MAPK cascades, MAPKKK) and FGF signaling terms, along with olfactory nerve formation, chemorepulsion in olfactory interneuron migration, and related developmental morphogenesis terms, suggesting a theme of signaling-driven neural and olfactory development. While some terms touch on broader development/mesenchymal processes, the common thread is FGF/MAPK signaling influencing developmental outcomes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0048803","count":4},{"id":"GO:0090080","count":4},{"id":"GO:0090272","count":4},{"id":"GO:0060484","count":4}]},{"hash":"1275116530365199658","title":"Mitotic spindle regulation and microtubule dynamics","description":"The cluster's GO terms are centered on mitosis and microtubule dynamics, including mitotic metaphase chromosome alignment, regulation of the mitotic spindle, microtubule polymerization and bundling, and CDK-mediated regulation of mitotic progression. A couple of terms related to immune signaling or stress response appear but are less representative. Overall, the proteins are most consistently linked to cell-cycle control and spindle assembly.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007080","count":2},{"id":"GO:0030308","count":2},{"id":"GO:0070672","count":2},{"id":"GO:1904527","count":2},{"id":"GO:0071409","count":2}]},{"hash":"1555102110251805834","title":"Cardiac Ion Channel Regulation","description":"This cluster is dominated by GO terms centered on heart electrophysiology: membrane repolarization in atrial muscle, regulation of resting membrane potential, regulation of heart rate via cardiac conduction, and cardiac muscle action potentials involved in contraction. The presence of potassium ion import across the plasma membrane and protein tetramerization further supports a role for multimeric potassium channels and related ion transport in maintaining membrane potential. Some terms like wing disc development and BMP/insulin regulation appear tangential or annotation-driven, but the core signal points to cardiac membrane potential control and ion channel function.","confidence":"High","size":13,"edges":72,"triangles":231,"max_degree":12,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0098914","count":12},{"id":"GO:0060075","count":12},{"id":"GO:0086091","count":9},{"id":"GO:1990573","count":9},{"id":"GO:0086002","count":9}]},{"hash":"215963365473761522","title":"Unknown","description":"The top GO terms cover neuronal vesicle clustering, endosome-to-plasma membrane transport, bone formation and mineralization, host defensive responses (including interferon signaling and suppression of symbiont invasion), neuromuscular posture control, and glucose import in response to insulin. There is no single unifying function that ties these into a coherent module for this protein set; the terms span multiple unrelated processes rather than a focused pathway.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097091","count":2},{"id":"GO:0099638","count":2},{"id":"GO:0030282","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0050884","count":2}]},{"hash":"1566249687027762116","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":21,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0006379","count":2},{"id":"GO:0034965","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0000294","count":2}]},{"hash":"1803438789011400731","title":"Cytokine regulation and inflammatory response","description":"The top GO terms cluster around inflammation and cytokine signaling (inflammatory response, neutrophil killing, phagocytosis, NK cell differentiation, IL-17 and IL-10 regulation, CCL5 production). A minor term for neurotransmitter exocytosis is present but outweighed by innate immune activation and cytokine regulation. This supports labeling the cluster as immune inflammation-focused.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048792","count":2},{"id":"GO:0032700","count":1},{"id":"GO:0071609","count":1},{"id":"GO:0001779","count":1},{"id":"GO:0006954","count":1}]},{"hash":"1698407862994454772","title":"Kinetochore-Mitosis and Spindle Dynamics","description":"The proteins are heavily linked to mitotic spindle and kinetochore functions: localization to the kinetochore, attachment/elongation of spindle microtubules, and maturation of the actomyosin ring during mitosis, plus negative regulation of CDK activity and other cell-cycle controls. Some terms about osmotic stress, circadian rhythm, and host immune modulation appear as secondary context, but the dominant theme is chromosome segregation and spindle dynamics, justifying this label.","confidence":"High","size":13,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":6},{"id":"GO:0045736","count":6},{"id":"GO:0051898","count":6},{"id":"GO:0071470","count":5},{"id":"GO:0007623","count":5}]},{"hash":"1423148720739243313","title":"Unknown","description":"The listed GO terms are very diverse and only appear once each, with no shared biological process or molecular function linking many proteins. There are no edges to indicate a coherent pathway or mechanism, so a single, interpretable label cannot be confidently assigned beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018057","count":1},{"id":"GO:2001046","count":1},{"id":"GO:0061053","count":1},{"id":"GO:2000483","count":1},{"id":"GO:0002040","count":1}]},{"hash":"377201576545471305","title":"Mucosal antibacterial innate immune response","description":"Top GO terms indicate defense against bacteria and mucosal innate immunity (Gram-negative/Gram-positive defense, antibacterial humoral response, innate mucosal immunity). A few terms pertain to neuronal axon guidance, but these are less frequent and do not define the cluster. Overall, the proteins are best described by mucosal antibacterial innate immune activity.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050829","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0007413","count":2},{"id":"GO:0002042","count":2},{"id":"GO:0048846","count":2}]},{"hash":"2152553650496105588","title":"Growth and hormonal signaling regulation","description":"This cluster centers on regulation of growth and hormonal signaling across tissues. Enriched terms include regulation of cell growth, organ growth, growth hormone receptor signaling, luteinization, and homeostasis of tissue cell numbers, with supporting signals from insulin secretion regulation and phosphatidylinositol phosphate biosynthesis, pointing to coordinated endocrine and growth-control mechanisms, particularly in reproductive contexts.","confidence":"High","size":13,"edges":65,"triangles":181,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042512","count":13},{"id":"GO:0001558","count":13},{"id":"GO:1904528","count":13},{"id":"GO:0060396","count":13},{"id":"GO:0046854","count":13}]},{"hash":"831462458936502601","title":"Spliceosome Regulation and RNA Processing","description":"The proteins are enriched for GO terms centered on splicing and spliceosome regulation (alternative mRNA splicing, splice site recognition, and regulatory/spliceosome-related processes) with an additional note on mRNA stability under stress and small-subunit processome involvement, suggesting a cohesive module involved in RNA maturation and processing.","confidence":"High","size":13,"edges":71,"triangles":216,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0000381","count":4},{"id":"GO:0048025","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0000380","count":3}]},{"hash":"1176028308104898593","title":"Diverse Small-Molecule Transporters","description":"This cluster is dominated by GO terms for transporting various small molecules and nutrients (glycine betaine, taurine, cysteine, carbohydrates, lipoproteins, long-chain fatty acids into peroxisomes, molybdate), suggesting a set of membrane transport proteins handling diverse substrates. The SOS response and nucleotide-excision repair terms point to linked stress responses or annotation noise, but the core signal is multi-substrate transport capacity across membranes. ","confidence":"High","size":13,"edges":59,"triangles":145,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031460","count":9},{"id":"GO:0009432","count":9},{"id":"GO:0015910","count":9},{"id":"GO:0015689","count":9},{"id":"GO:0008643","count":9}]},{"hash":"297186029977405258","title":"Leukocyte trafficking and integrin signaling","description":"The top GO terms cluster around immune cell migration and adhesion: eosinophil migration, lymphocyte chemotaxis, neutrophil extravasation, monocyte activation, and integrin-mediated adhesion and signaling. There is also positive regulation of TNFSF11 production, which can influence immune cell interactions. A few terms like keratinocyte migration reflect broader migratory processes but still align with the overall theme of cell movement and adhesion.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000418","count":12},{"id":"GO:0048247","count":12},{"id":"GO:0007338","count":12},{"id":"GO:0007229","count":12},{"id":"GO:0042117","count":12}]},{"hash":"1577858929065202184","title":"Unknown","description":"The GO terms are scattered across development (lung epithelial differentiation, placenta morphogenesis), neuronal synapse organization (neuroligin clustering), RNA processing (tRNA export, rRNA processing), and ubiquitination (K63-linked, monoubiquitination), with some regulatory signaling terms. There isn\u2019t a clear, single biological theme tying these terms together, so a coherent, specific label cannot be assigned confidently.","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060487","count":13},{"id":"GO:0097118","count":13},{"id":"GO:2000238","count":13},{"id":"GO:0097198","count":13},{"id":"GO:0070534","count":13}]},{"hash":"448210782677064263","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":61,"triangles":150,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000480","count":3}]},{"hash":"1981076084553208395","title":"Immune signaling in neural and skeletal development","description":"This cluster combines strong immune-related terms (innate/adaptive immunity, defense against bacteria, immunological synapse regulation, gamma-delta T cell activation, STAT phosphorylation signaling) with several development-related terms (skeletal system, CNS development, myoblast differentiation, neuron axon guidance), suggesting proteins involved in immune signaling that intersect neural and muscle development processes.","confidence":"Medium","size":13,"edges":74,"triangles":244,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001501","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0002250","count":5},{"id":"GO:0042517","count":5},{"id":"GO:0042742","count":5}]},{"hash":"712631774732259035","title":"Neural development and transcriptional regulation","description":"The cluster shows enrichment for DNA-templated transcription and transcriptional regulation, along with a notable signal for motor neuron axon fasciculation and apoptotic processes, all of which are linked to neural development and cell fate decisions. While there are some unrelated or obsolete terms, the core theme ties transcription control to neural development and axon guidance.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0097156","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0061087","count":2},{"id":"GO:0000122","count":2}]},{"hash":"183402473125713034","title":"Inflammation and Oxidative Stress Response","description":"The top GO terms cluster around leukotriene biosynthesis, cytokine and LPS responses, and chronic inflammatory processes, indicating an inflammatory signaling theme. Additional terms point to lipid hydroperoxide handling and oxidant detoxification, linking inflammation to redox homeostasis. A couple terms (cornification, Leydig differentiation) are more tissue-specific and less central, but overall the group appears focused on inflammatory signaling and oxidative stress management.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019370","count":3},{"id":"GO:0034097","count":3},{"id":"GO:0002544","count":3},{"id":"GO:0033327","count":3},{"id":"GO:0008285","count":3}]},{"hash":"55583073769857709","title":"Calcium and Ion Transport Signaling","description":"The cluster shows strong enrichment for calcium and other ion transport processes (calcium and potassium/sodium transport, ER calcium concentration regulation, membrane repolarization) and ion homeostasis, plus related lipid signaling (phospholipid dephosphorylation). A cohesive interpretation is a module focused on ion transport across membranes and calcium signaling, with some ancillary hormone and mating-related responses.","confidence":"High","size":13,"edges":45,"triangles":97,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":13},{"id":"GO:0030026","count":11},{"id":"GO:0032470","count":11},{"id":"GO:0036376","count":11},{"id":"GO:1990573","count":11}]},{"hash":"1675693059185544576","title":"Cytoskeletal dynamics and cell motility","description":"The cluster is enriched for microtubule polymerization, centrosome separation, and locomotion terms, pointing to cytoskeletal organization and cell movement, with an axon guidance term supporting neuronal connectivity. This combination supports a label centered on cytoskeletal dynamics driving motility. ","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046785","count":11},{"id":"GO:0031987","count":11},{"id":"GO:0051299","count":11},{"id":"GO:0021785","count":1},{"id":"GO:0048803","count":1}]},{"hash":"1130327713426104787","title":"Multi-lineage developmental differentiation","description":"The top GO terms cover neural and spinal development (oligodendrocyte, floor plate), heart valve morphogenesis (endocardial cushion mesenchymal transition), hematopoietic lineages (hemangioblast, megakaryocyte), and general transcription/cytoskeletal processes, indicating roles in broad embryonic tissue differentiation rather than a single pathway.","confidence":"Medium","size":13,"edges":70,"triangles":209,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0014003","count":5},{"id":"GO:0033504","count":5},{"id":"GO:0060766","count":5},{"id":"GO:0060217","count":4},{"id":"GO:0032922","count":4}]},{"hash":"735229350655323182","title":"Negative regulation of developmental signaling","description":"The top GO terms point to broad suppression of signaling and differentiation processes in development (e.g., BMP and TGF-\u03b2 pathway inhibition, reduced osteoblast/osteoclast differentiation, neural crest and trophoblast differentiation, gonad development) as well as downregulation of related phosphorylation and adhesion processes. Together, they suggest a cluster of proteins that function as inhibitors of developmental signaling programs.","confidence":"Medium","size":13,"edges":74,"triangles":243,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":6},{"id":"GO:0030514","count":5},{"id":"GO:0033689","count":5},{"id":"GO:0030512","count":4},{"id":"GO:0045671","count":4}]},{"hash":"1206440339080321166","title":"Neural signaling and reflexes","description":"These proteins cluster around neuronal signaling and reflex behavior: excitatory postsynaptic potential, action potential, calcium ion import, dopamine secretion, startle and righting reflex, and optic nerve development. The shared theme is neurotransmission and neural excitability in sensory/motor circuits, with supporting terms like chloride transport and neuron survival. Overall, the label captures the core function of the cluster; confidence: High.","confidence":"","size":13,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":13},{"id":"GO:0060013","count":12},{"id":"GO:0098703","count":12},{"id":"GO:2000344","count":12},{"id":"GO:0001964","count":12}]},{"hash":"1190962117447118829","title":"Innate bacterial detection and immune signaling","description":"The cluster includes GO terms for detecting LPS and bacterial lipopeptides, and for TLR signaling and defense against Gram-negative bacteria, indicating a coherent theme of microbial-pattern sensing and innate immune activation. Some terms reflect downstream inflammatory remodeling and neuroimmune interactions that can accompany immune responses, but the dominant pattern is bacterial detection and defense.","confidence":"High","size":12,"edges":46,"triangles":86,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":12},{"id":"GO:0050929","count":12},{"id":"GO:0050829","count":12},{"id":"GO:0034162","count":12},{"id":"GO:0032497","count":12}]},{"hash":"1897977785795282390","title":"Ciliogenesis in multiciliated cells","description":"The GO terms cluster around centriole replication and de novo centriole assembly during differentiation of multiciliated epithelial cells, indicating a shared function in ciliogenesis and basal body/centriole biogenesis in multiciliated epithelia.","confidence":"High","size":12,"edges":7,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007099","count":1},{"id":"GO:1903251","count":1},{"id":"GO:0098535","count":1}]},{"hash":"1057681252284636596","title":"Glutamatergic-GABAergic synaptic signaling","description":"The top GO terms cluster around neuronal signaling: glutamatergic synaptic transmission, GABA signaling, and calcium ion transport, which together point to a neuronal synaptic function with calcium handling. The immune-related terms appear secondary noise and do not define the core theme of the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035249","count":4},{"id":"GO:0006816","count":4},{"id":"GO:0007214","count":4},{"id":"GO:0070498","count":3},{"id":"GO:0050852","count":3}]},{"hash":"156700445538629369","title":"Extracellular Matrix Remodeling","description":"The cluster is dominated by collagen-related processes (fibril organization, catabolic/disassembly) and enamel formation, pointing to extracellular matrix organization/remodeling as the central theme. Supporting terms like ECM disassembly and amelogenesis reinforce this focus, with immune and coagulation terms likely reflecting ECM-associated roles in tissue remodeling and defense. Overall, the core signal is ECM remodeling.","confidence":"High","size":12,"edges":46,"triangles":85,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0030199","count":3},{"id":"GO:0030574","count":3},{"id":"GO:0097186","count":3},{"id":"GO:0022617","count":3}]},{"hash":"254524665104824908","title":"RNA Processing and Translational Regulation","description":"This cluster is enriched for mRNA processing and export terms (mRNA export from nucleus, spliceosome-related splicing and recognition, processome assembly) along with translational control (regulation of translational initiation, IRES-dependent translation) and ncRNA-mediated silencing, indicating a cohesive set of factors regulating RNA maturation and post-transcriptional gene expression.","confidence":"High","size":12,"edges":63,"triangles":191,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":11},{"id":"GO:0048025","count":10},{"id":"GO:0006376","count":10},{"id":"GO:0000380","count":10},{"id":"GO:0034462","count":10}]},{"hash":"364114030834267185","title":"Embryonic neural and cardiac development","description":"The top GO terms indicate angiogenesis, heart development, Schwann cell development, axonogenesis, and other multicellular developmental processes, suggesting a coordinated embryonic program that shapes neural and cardiovascular differentiation, with signaling tied to protein phosphorylation and cell-cycle control.","confidence":"High","size":12,"edges":46,"triangles":108,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0043065","count":9},{"id":"GO:0060079","count":9},{"id":"GO:0000086","count":9}]},{"hash":"1675802097352731363","title":"Epidermis morphogenesis and vesicle trafficking","description":"The cluster\u2019s terms concentrate on epidermal development, maintenance of cell polarity, vesicle size regulation, and vesicle exocytosis, pointing to a coordinated role in epidermal morphogenesis with vesicle trafficking and signaling. Some items (Fc-gamma receptor signaling, axon extension, androgen signaling) are broader or less directly connected, suggesting either cross-talk or annotation noise.","confidence":"Medium","size":12,"edges":34,"triangles":37,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":12},{"id":"GO:0030011","count":12},{"id":"GO:0097494","count":12},{"id":"GO:0008283","count":12},{"id":"GO:1905451","count":12}]},{"hash":"883382131992907767","title":"Motor neuron and spinal cord development","description":"The terms cluster around spinal cord and motor neuron development\u2014axonogenesis, axon guidance, interneuron specification, and motor neuron differentiation\u2014indicating a cohesive theme of vertebrate neural development. A few non-neural embryogenesis terms (nephric duct elongation, uterine epithelium development, female gonad development) appear but do not dominate the cluster\u2019s function.","confidence":"High","size":12,"edges":11,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048936","count":7},{"id":"GO:0055015","count":6},{"id":"GO:0008585","count":5},{"id":"GO:0001705","count":5},{"id":"GO:0021521","count":5}]},{"hash":"1712911452030140129","title":"Neural development and synaptic plasticity","description":"This cluster is strongly enriched for neuronal signaling and development terms: excitatory postsynaptic potential, long-term synaptic potentiation, axonogenesis, and Schwann cell development all point to neural maturation and synaptic plasticity. Additional terms related to cell cycle/g2M reflect developmental proliferation, while heart development and plant signaling terms are likely ancillary or annotation noise. Overall, the core function ties to neural development and synaptic function.","confidence":"Medium","size":12,"edges":12,"triangles":5,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":11},{"id":"GO:0014044","count":11},{"id":"GO:0060291","count":11},{"id":"GO:0000086","count":11},{"id":"GO:0010800","count":11}]},{"hash":"339112470595392255","title":"Redox Homeostasis and Oxidant Detoxification","description":"The dominant terms are redox-related: cellular redox homeostasis, hydrogen peroxide catabolic process, and cellular oxidant detoxification, indicating a coherent oxidative stress response module. Negative regulation of protein kinase activity may reflect redox-sensitive signaling. Although ECM organization and heart development appear, the core signal centers on redox balance and detoxification.","confidence":"Medium","size":12,"edges":37,"triangles":56,"max_degree":10,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045454","count":6},{"id":"GO:0006469","count":5},{"id":"GO:0042744","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0007507","count":4}]},{"hash":"1077650326381715133","title":"Proteostasis and Transcription Regulation","description":"The cluster is enriched for proteasome assembly and ubiquitin-dependent protein catabolic process, indicating a core focus on protein degradation machinery. It also features negative regulation of transcription by RNA polymerase II, suggesting a link to transcription control. While there are a few disparate terms (stamen formation, chlorophyll biosynthesis, mammary gland development) likely due to cross-species annotations or pleiotropy, the dominant theme ties protein turnover to transcriptional regulation, with a possible connection to stress/DNA damage responses (e.g., response to X-ray). ","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043248","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0048455","count":3},{"id":"GO:0015995","count":3}]},{"hash":"655628517779467515","title":"Broad Metabolic Pathways and Detoxification","description":"The top GO terms indicate a mix of metabolic activities, including amino acid (leucine, valine), nucleotide (uracil), and folate metabolism, fatty acid biosynthesis, and antibiotic biosynthesis, along with cellular oxidant detoxification. This points to a cluster centered on general metabolism and redox/detox processes rather than a single specific pathway; the presence of an embryonic development term may reflect developmental regulation of metabolism or annotation context rather than a defining function. Therefore, a broad metabolism/detox label is most representative. ","confidence":"Medium","size":12,"edges":45,"triangles":80,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0006552","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0006212","count":3}]},{"hash":"2095539195527174531","title":"Fibroblast growth regulation and metabolic stress response","description":"This cluster centers on signals that regulate cell growth and proliferation (positive regulation of fibroblast proliferation; hepatocyte growth factor stimulus) and modulate pathways like Wnt signaling, alongside responses to metabolic cues (glucose stimulus, caloric restriction) and stress leading to senescence. There is also transcriptional control (DNA-templated transcription) tying these regulatory processes together, suggesting a theme of growth control integrated with metabolic and stress signaling in a developmental/fibroblast context. ","confidence":"Medium","size":12,"edges":40,"triangles":51,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0090400","count":2},{"id":"GO:0007399","count":2}]},{"hash":"868122511252358951","title":"Cardiac and skeletal muscle development and signaling","description":"The cluster is enriched for heart development and heart rate regulation, skeletal muscle fiber development, and signaling pathways like calcineurin-NFAT and potassium channel clustering, along with vascular branching. This combination points to a cohesive theme of cardiac and skeletal muscle differentiation and excitability, with linked vascular development and neural signaling components, hence a focused label around cardiac and skeletal muscle development and signaling.","confidence":"High","size":12,"edges":39,"triangles":55,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0007614","count":5},{"id":"GO:0001569","count":5},{"id":"GO:0045163","count":5}]},{"hash":"1009857136421431659","title":"Translational Initiation and Ribosome Regulation","description":"The cluster is dominated by GO terms related to translation initiation and ribosome dynamics: translation reinitiation, formation of the translation preinitiation complex, regulation of translation, IRES-dependent initiation, and ribosome disassembly, as well as maintenance of translational fidelity. Although there are hints of neural development and ciliary localization, these terms are less central to the set than the core translation-related functions. This combination suggests a group of proteins involved in initiating and controlling protein synthesis and ribosome behavior, with secondary roles in development or ciliary signaling. ","confidence":"Medium","size":12,"edges":40,"triangles":61,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0097500","count":3},{"id":"GO:0006417","count":2},{"id":"GO:0002192","count":2}]},{"hash":"1800654337133113616","title":"RNA interference and editing machinery","description":"This cluster centers on RNA processing and silencing pathways: RISC assembly, pre-miRNA processing, and siRNA processing, plus adenosine-to-inosine RNA editing, and includes antiviral response terms like interferon-alpha signaling and negative regulation of viral genome replication. The presence of morphogenesis terms may reflect broad regulatory roles of some RNA-processing proteins. Overall, the core theme is RNA interference and RNA editing involved in post-transcriptional gene regulation and innate antiviral defenses.","confidence":"Medium","size":12,"edges":60,"triangles":171,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021965","count":3},{"id":"GO:0006382","count":3},{"id":"GO:0009047","count":3},{"id":"GO:0035455","count":3},{"id":"GO:0021610","count":3}]},{"hash":"1485469321418324353","title":"Metabolism and metal ion transport","description":"The top GO terms span diverse metabolic processes (L-serine biosynthesis, phospholipid dephosphorylation, stilbene catabolic process, lipopolysaccharide biosynthetic process) and ion handling (cadmium and zinc transmembrane transport, calcium ion homeostasis), plus a regulatory signal (response to testosterone). This mix suggests a cluster of proteins involved in broad metabolism with ion transport/homeostasis rather than a single, cohesive pathway, hence the label Metabolism and metal ion transport.","confidence":"Medium","size":12,"edges":38,"triangles":69,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0033574","count":6},{"id":"GO:0019373","count":6},{"id":"GO:0097755","count":6},{"id":"GO:0006874","count":6},{"id":"GO:0009103","count":6}]},{"hash":"633302246500217118","title":"Neuronal development and brain region specification","description":"The top GO terms are dominated by neural development and neuron differentiation/fate specification across multiple regions (subpallium, cerebral cortex, cerebellum, spinal cord) and processes such as neuron migration and oligodendrocyte specification, suggesting proteins cluster around neural development roles. While two terms pertain to other organ development, the prevalent theme is neuronal development and brain region patterning.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031018","count":10},{"id":"GO:0060435","count":9},{"id":"GO:0060163","count":9},{"id":"GO:0021530","count":9},{"id":"GO:0006366","count":9}]},{"hash":"681037613373278966","title":"Unknown","description":"The listed GO terms cover diverse processes across different organisms (plant hormone signaling, pain perception, mRNA stability, fat cell differentiation, telomere binding, chemokine production, hepatocyte apoptosis, dendrite development, heart morphogenesis, and ubiquitination), showing no single cohesive function. There isn\u2019t a clear unifying theme to tie these proteins into a specific biological label, so the safe designation is Unknown.","confidence":"","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000031","count":3},{"id":"GO:0050968","count":3},{"id":"GO:0043488","count":3},{"id":"GO:1903444","count":3},{"id":"GO:1904743","count":3}]},{"hash":"1308005172358099565","title":"Lung development and xenobiotic response","description":"Based on the Top Terms, the proteins prominently map to lung development (lung epithelial cell differentiation and lung development) and cellular response to xenobiotic stimulus, suggesting roles in pulmonary formation and chemical stress response. Other terms point to related signaling and immune pathways (NFAT signaling, eIF2\u03b1 dephosphorylation, T cell homeostasis) but the strongest, most cohesive signal is lung development/differentiation together with xenobiotic response.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060487","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0030324","count":3},{"id":"GO:0051533","count":3},{"id":"GO:0032516","count":3}]},{"hash":"449530301179934588","title":"DNA Replication and Protein Complex Assembly","description":"The top GO terms center on DNA replication and DNA repair (DNA replication; UV-damage excision repair) and include regulation of mitochondrial DNA replication, along with multiple terms about protein oligomerization/assembly (homooligomerization, protein hexamerization, proteasome regulatory particle assembly) and protein processing. This suggests a theme of genome maintenance coordinated with assembly/stoichiometry of protein complexes, including mitochondrial components, with some related trafficking/maintenance processes (stress granule disassembly, inter-Golgi transport) as broader context. Confidence: Medium","confidence":"","size":12,"edges":63,"triangles":192,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0035617","count":8},{"id":"GO:0051260","count":6},{"id":"GO:0016485","count":5},{"id":"GO:0048219","count":5}]},{"hash":"483973806796707204","title":"Ion transport and membrane homeostasis","description":"The cluster is dominated by GO terms related to membrane ion transport and homeostasis, including sodium and potassium import/export, intracellular potassium balance, proton transmembrane transport, vacuolar acidification, and cell volume regulation. These suggest a set of transporter and pump proteins governing cellular excitability and ionic balance, with a tangential reference to brain-derived neurotrophic factor receptor signaling. Overall, the common theme is membrane ion transport and ionic homeostasis with related signaling facets.","confidence":"Medium","size":12,"edges":29,"triangles":24,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031547","count":9},{"id":"GO:0098719","count":9},{"id":"GO:0097623","count":9},{"id":"GO:0009651","count":9},{"id":"GO:0007035","count":9}]},{"hash":"861915320797161355","title":"Mitotic Regulation and Ubiquitin-Proteasome Control","description":"The cluster is enriched for mitotic processes (cell division, mitotic cell cycle, nuclear membrane reassembly, cell death) and for regulation of protein ubiquitination and degradation (ERAD, deubiquitination, protease activity). A lipid droplet organization term appears but the overall pattern points to coordinated control of cell division with ubiquitin/ERAD\u2013mediated proteostasis.","confidence":"Medium","size":12,"edges":40,"triangles":54,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0061060","count":2},{"id":"GO:0008219","count":2}]},{"hash":"2012561387066307160","title":"MAPK signaling regulators and RNA processing factors","description":"This cluster centers on regulation of signaling kinases (Rho and Ras pathways and MAPK cascades like JNK and p38) together with RNA processing and translation-related activities (snRNA pseudouridine synthesis, snoRNP assembly, mRNA splicing regulation, and translation including selenocysteine incorporation). The co-occurrence of these GO terms suggests proteins that link signal transduction to post-transcriptional and translational control.","confidence":"Medium","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0031120","count":3},{"id":"GO:1904571","count":3},{"id":"GO:0006412","count":3}]},{"hash":"843318423868996802","title":"Muscle Growth Signaling and Cytoskeleton Regulation","description":"The cluster\u2019s GO terms cluster around signaling pathways that influence muscle development and cytoskeletal dynamics: TGF-beta receptor signaling and positive regulation of skeletal muscle tissue growth; intermediate filament organization; regulation of GTPase activity; cellular calcium response; and phosphoinositide metabolism, all of which relate to muscle signaling and cytoskeletal architecture. Some terms (e.g., myelination, autophagy, proteasomal degradation) are more divergence-wide, but the core theme centers on growth-related signaling intertwined with cytoskeletal regulation. ","confidence":"Medium","size":12,"edges":17,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071277","count":2},{"id":"GO:0031642","count":2},{"id":"GO:0043087","count":2},{"id":"GO:1902902","count":2},{"id":"GO:0032435","count":2}]},{"hash":"1438573228416837997","title":"Neural development and synaptic plasticity","description":"The top GO terms point to nervous system development and synaptic function, including excitatory postsynaptic potential, long-term potentiation, and Schwann cell development, suggesting a cluster centered on neural development and synaptic signaling. Some terms relate to general cell-cycle transitions and other developmental processes (meiotic cell cycle, G2/M, G1/S, myoblast fusion), which may reflect broader regulatory roles in these proteins or cross-tissue involvement, but the strongest signal is neural development and synaptic plasticity.","confidence":"Medium","size":12,"edges":14,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0051321","count":9},{"id":"GO:0014044","count":9},{"id":"GO:0060291","count":9}]},{"hash":"1820699603409546107","title":"Cerebral cortex development and synapse formation","description":"Top terms point to neuronal development in the cortex, with neuron migration, cortical layer formation, and synapse assembly being prominent, plus trafficking processes like receptor internalization and membrane targeting that support synaptic wiring. While angiogenesis-related terms and branching morphogenesis appear peripheral, the core motif centers on cortical neurodevelopment and synaptic organization. ","confidence":"Medium","size":12,"edges":17,"triangles":9,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001764","count":9},{"id":"GO:0016525","count":9},{"id":"GO:0021819","count":8},{"id":"GO:0042220","count":8},{"id":"GO:0051965","count":8}]},{"hash":"1266872380602138492","title":"Folate and Porphyrin Biosynthesis","description":"This cluster shows enrichment for folic acid metabolism (folic acid biosynthetic and catabolic processes, tetrahydrofolate interconversion) and heme precursor biosynthesis (uroporphyrinogen III and protoporphyrinogen IX), suggesting a core theme around one-carbon metabolism linked to porphyrin/heme production; some methionine salvage terms are obsolete and stress terms likely reflect broader responses.","confidence":"Medium","size":12,"edges":13,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019509","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0071243","count":2},{"id":"GO:0071418","count":2},{"id":"GO:0006780","count":2}]},{"hash":"379231765326078025","title":"Olfactory signaling and synaptic plasticity","description":"This cluster centers on olfactory-related processes (olfactory learning) and neuronal signaling, including excitatory postsynaptic potentials and receptor guanylyl cyclase signaling, indicating synaptic transmission and plasticity in the olfactory pathway. Developmental terms are present but less dominant, suggesting the core function is sensory neuron signaling and its modulation.","confidence":"Medium","size":12,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008355","count":4},{"id":"GO:0010226","count":4},{"id":"GO:0035556","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0048899","count":3}]},{"hash":"768653709615060350","title":"Embryonic Development and Inflammatory Signaling","description":"This cluster shows strong signals for embryonic development and tissue differentiation (roof of the mouth development, embryonic forelimb morphogenesis, uterus development, white fat cell differentiation) alongside immune/inflammatory terms (positive regulation of inflammatory response, cellular response to lipopolysaccharide) and signaling modulation (negative regulation of protein kinase activity) with some neuronal signaling terms (regulation of AMPA receptor activity, short-term synaptic plasticity). The common thread appears to be developmental programs with cross-talk to immune and signaling pathways.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0060065","count":2}]},{"hash":"1351096270533126278","title":"Cardiac Muscle Contraction & Sarcomere Organization","description":"This cluster is dominated by GO terms linked to cardiac muscle function and sarcomere organization (cardiac muscle contraction, sarcomere organization, and epinephrine-mediated heart rate regulation), indicating proteins involved in heart muscle contractility and assembly of the contractile apparatus. Additional terms for vascular smooth muscle regulation and broader nervous system/behavioral processes suggest some pleiotropy, but the strongest signal centers on cardiac muscle physiology.","confidence":"High","size":12,"edges":55,"triangles":143,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":8},{"id":"GO:0060298","count":8},{"id":"GO:0045214","count":8},{"id":"GO:0003065","count":8},{"id":"GO:1904753","count":8}]},{"hash":"1966827369902394592","title":"Lipid and Aromatic Compound Catabolism","description":"This cluster is dominated by catabolic processes: triglyceride catabolism, beta-ketoadipate pathway (aromatic compound degradation), 3-phenylpropionate catabolism, and stilbene catabolism. There are also oxidation-reduction/detoxification-related terms (cellular oxidant detoxification, epoxygenase P450 pathway) that support a detox/metabolic processing theme. While antibiotic biosynthetic process and nitrogen utilization appear less central, they can reflect broader metabolic capabilities observed in related enzymes. Overall, the data point to a cohesive theme of lipid and aromatic compound breakdown with detoxification support.","confidence":"Medium","size":12,"edges":44,"triangles":75,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:0042952","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0098869","count":5},{"id":"GO:0017000","count":4}]},{"hash":"662470420388695445","title":"Vertebrate Embryonic Development and Patterning","description":"The GO terms are dominated by developmental and morphogenetic processes across vertebrate tissues (substantia nigra development, left-right pattern formation, endocardial cushion EMT, placenta and cartilage morphogenesis), indicating a cohesive theme of embryogenesis and tissue patterning, with some outliers like autophagy of peroxisomes and transport that may reflect ancillary cellular functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":3},{"id":"GO:0030242","count":2},{"id":"GO:0050826","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0060806","count":1}]},{"hash":"1410652578161531791","title":"Nucleotide Biosynthesis and Nucleoside Metabolism","description":"The cluster\u2019s top GO terms are dominated by nucleotide-related processes: AMP biosynthesis, hypoxanthine biosynthetic process, nucleoside metabolic process, and 5-phosphoribose 1-diphosphate biosynthetic process, indicating a shared theme of nucleotide production and metabolism. There are a few outlier terms (e.g., fungal-type cell wall organization, nervous system development), which may reflect broad or cross-species annotations, but the strongest common function points to nucleotide biosynthesis pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031505","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0046101","count":1},{"id":"GO:0006167","count":1}]},{"hash":"1567282197698264785","title":"Immune activation and regulation","description":"The proteins show enrichment for immune system processes, including classical complement activation, T cell and gamma-delta T cell activation, cytokine production, and monocyte trafficking, along with regulation of immunological synapse and cytotoxic T cell degranulation. Together they suggest a cluster centered on immune signaling and cell-cell interactions among innate and adaptive immune cells.","confidence":"High","size":12,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0007157","count":5},{"id":"GO:2000521","count":4},{"id":"GO:0046629","count":4},{"id":"GO:0035696","count":4}]},{"hash":"1121002782148804892","title":"Bacterial polysaccharide and LPS biosynthesis","description":"GO terms center on galactose metabolism, UDP-sugar biosynthesis (e.g., UDP-rhamnose), colanic acid biosynthesis, and lipopolysaccharide core region biosynthetic processes, all pointing to production of cell-surface polysaccharides and LPS in bacteria. A few plant-related biosynthesis terms and cytolysis appear as noise, but the dominant signal supports a polysaccharide/LPS biosynthesis theme.","confidence":"High","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0009699","count":11},{"id":"GO:0009718","count":11},{"id":"GO:0006541","count":11},{"id":"GO:0006012","count":11}]},{"hash":"1107216665779336425","title":"Neuronal Axon Guidance and Synapse Assembly","description":"Most of the top GO terms are about nervous system development, axon guidance, synapse assembly, and projections of sympathetic and branchiomotor neurons. This points to a cohesive function in guiding neural projections and organizing synaptic connections in the peripheral nervous system, with semaphorin-plexin signaling as a prominent pathway. The bone maturation term is less related to this cluster and may reflect a broader annotation or secondary role.","confidence":"High","size":12,"edges":8,"triangles":4,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007416","count":9},{"id":"GO:1902287","count":9},{"id":"GO:0097491","count":9},{"id":"GO:0036486","count":9}]},{"hash":"127589537649515794","title":"Ventricular Cardiac Ion Channels and Repolarization","description":"The cluster is dominated by GO terms related to ventricular cardiac muscle action potential, membrane repolarization, and regulation of ion channel activity (potassium and calcium channels), indicating a cohesive role in ventricular electrophysiology and action potential dynamics. While a few terms are less directly related (e.g., cytochrome complex assembly, xenobiotic response), the strongest signal is cardiac ion channel function and repolarization.","confidence":"High","size":12,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017004","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0086091","count":2},{"id":"GO:1902159","count":2},{"id":"GO:1905025","count":2}]},{"hash":"1021031277122675661","title":"Neuronal Synaptic Regulation and Vesicle Signaling","description":"This cluster is dominated by GO terms tied to neuronal synaptic function, including negative regulation of synaptic plasticity, regulation of short-term plasticity, and synaptic vesicle maturation, plus phosphatidylinositol-mediated signaling and localization to cortical microtubule cytoskeleton. These together point to proteins involved in synaptic vesicle trafficking and modulation of synaptic strength. A few terms (neutrophil degranulation, B cell differentiation, tRNA export) are less connected but do not override the core neuronal theme.","confidence":"Medium","size":12,"edges":12,"triangles":8,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043314","count":12},{"id":"GO:2000238","count":12},{"id":"GO:0060304","count":12},{"id":"GO:1900122","count":12},{"id":"GO:0072699","count":12}]},{"hash":"617273626435468239","title":"RNA processing and translation regulation","description":"The cluster\u2019s GO terms cluster around RNA metabolism and post-transcriptional control: mRNA decay, cytoplasmic translation, mRNA localization, snoRNA splicing, spliceosomal snRNP assembly, and polyadenylation regulation. While a couple terms point to signaling (ERK cascade, FGFR response), they appear peripheral to the dominant RNA-centric theme. This supports a label focused on RNA processing and translation control.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031086","count":2},{"id":"GO:0002181","count":2},{"id":"GO:1904582","count":2},{"id":"GO:0034247","count":2},{"id":"GO:1904246","count":2}]},{"hash":"816360177329352330","title":"Mucosal Innate Antibacterial Defense","description":"The top GO terms are dominated by antibacterial humoral response and defense against Gram-positive/negative bacteria, plus innate immune response in mucosa, suggesting a core role in mucosal antibacterial defense. While other terms related to sperm motility, development, and signaling appear, they are less represented and likely reflect multifunctional annotations rather than the cluster\u2019s main function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019731","count":5},{"id":"GO:0050829","count":3},{"id":"GO:0060474","count":3},{"id":"GO:0019933","count":3},{"id":"GO:0035584","count":3}]},{"hash":"873862136935014577","title":"Cerebellar neuron development and locomotor function","description":"Most terms describe cerebellar development and neuron maturation: cerebellum development, Purkinje cell differentiation, granule cell precursor proliferation regulation, radial glia guided migration, and granular layer maturation, plus adult walking behavior. This points to a cluster centered on cerebellar motor function. A few terms (response to ethylene, xenobiotic stimulus, regulation of heart rate by cardiac conduction) are less related and may reflect broad signals, but do not alter the core cerebellar theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007628","count":1},{"id":"GO:0021549","count":1},{"id":"GO:0021702","count":1},{"id":"GO:0021941","count":1},{"id":"GO:0021933","count":1}]},{"hash":"1247264735275429549","title":"RNA Processing and Ubiquitination Regulators","description":"The top terms point to post-transcriptional and post-translational control, with protein ubiquitination and mRNA processing/stability as core themes; the additional signaling and apoptosis terms suggest involvement in coordinated regulatory responses. This supports a label centered on gene expression regulation and protein modification.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0032088","count":4},{"id":"GO:2000031","count":3},{"id":"GO:0050968","count":3}]},{"hash":"465288622877327893","title":"Cardiovascular development and endocardial differentiation","description":"The top GO terms cluster around heart formation and vascular development \u2014 right atrium morphogenesis, ventricular septum development, endocardial differentiation, coronary vasculature development, venous endothelial differentiation, and signaling pathways (Notch, VEGF) that regulate cardiogenesis and vascular differentiation. An outlier term about skeletal muscle acetylcholine receptor clustering is present but does not dominate the theme. ","confidence":"High","size":12,"edges":23,"triangles":19,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0071340","count":9},{"id":"GO:0003213","count":8},{"id":"GO:0060843","count":8},{"id":"GO:0030900","count":8},{"id":"GO:0003270","count":8}]},{"hash":"133370298954567981","title":"Deubiquitinase activity and ubiquitin processing","description":"Most top terms cluster around deubiquitination activities and ubiquitin chain processing (monoubiquitinated protein deubiquitination, K11/K48/K63-linked deubiquitination, and free ubiquitin chain depolymerization), suggesting a function in ubiquitin turnover and protein quality control, including ERAD-related processes. While some behavioral terms appear, they are less central to the core theme. The overall pattern supports a coherent role in deubiquitination and ubiquitin homeostasis.","confidence":"High","size":12,"edges":19,"triangles":11,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060013","count":3},{"id":"GO:0035520","count":3},{"id":"GO:0035871","count":3},{"id":"GO:1904378","count":3},{"id":"GO:0071108","count":3}]},{"hash":"1057056444648318831","title":"Synapse Localization and Axon Growth","description":"The cluster features GO terms tied to neuronal development: protein localization to synapse and positive regulation of axon extension, suggesting roles in synaptic targeting and axon outgrowth. Other terms (lung mesenchyme development, centrosome duplication, signaling complex assembly, and several obsolete terms) indicate some noise or broader cellular processes, so the label is best-effort and moderately confident.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":12},{"id":"GO:0006349","count":12},{"id":"GO:0060484","count":12},{"id":"GO:1903343","count":12},{"id":"GO:2001033","count":12}]},{"hash":"2271745699922975219","title":"Hair Follicle, Gland, and Sensory Organ Development","description":"The top GO terms cluster around ectodermal derivatives: hair follicle development, sebaceous gland differentiation, inner ear receptor cell differentiation, and avascular cornea development, with related regulation of hair cycle timing and associated immune activity. This suggests a developmental program for skin appendages and sensory organs rather than a single pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001942","count":1},{"id":"GO:2001244","count":1},{"id":"GO:0035915","count":1},{"id":"GO:0050830","count":1},{"id":"GO:0051886","count":1}]},{"hash":"459283715703387434","title":"Neuronal lipid remodeling and synaptic plasticity","description":"This cluster centers on lipid handling in the nervous system (HDL/LDL remodeling, cholesterol catabolic processes, lipid transport across the BBB) and on neural signaling and plasticity (axon regeneration, estrogen response, integrin signaling, and regulation of long-term potentiation), suggesting proteins jointly participate in neuronal lipid metabolism and synaptic regulation. The host-virus term appears peripheral to the main theme. ","confidence":"Medium","size":12,"edges":48,"triangles":93,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0034384","count":4},{"id":"GO:0010902","count":4},{"id":"GO:1903002","count":4},{"id":"GO:0044794","count":4},{"id":"GO:0043627","count":4}]},{"hash":"775183447347946036","title":"Neural Development and Endothelial Barrier","description":"This cluster shows brain- and neuron-related processes (myelination, substantia nigra development, regulation of synaptic plasticity) together with endothelial barrier formation and tight junction-related activity (establishment of endothelial barrier, bicellular tight junction assembly, transcytosis). The combination suggests proteins involved in neurodevelopment and neurovascular barrier functions rather than a single pathway. A few terms like hemocyte proliferation and PKC signaling regulation are less central but do not override the dominant neurovascular theme.","confidence":"Medium","size":12,"edges":28,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0070830","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0034115","count":2},{"id":"GO:0061028","count":2}]},{"hash":"2036280849975941090","title":"Signaling and Transcription Regulation","description":"This cluster shows strong signals for transcriptional control (DNA-templated transcription and its regulation) alongside diverse signaling/response pathways, including phototransduction, redox, thyroid hormone signaling, and neuronal-related processes, suggesting proteins that mediate environmental cues and coordinate gene expression across tissues.","confidence":"Medium","size":12,"edges":23,"triangles":27,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051541","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0009585","count":7},{"id":"GO:0006355","count":7},{"id":"GO:0060574","count":7}]},{"hash":"188249978747807294","title":"Brain development and BBB formation","description":"The cluster includes CNS-development terms (substantia nigra development, myelination, regulation of synaptic plasticity) alongside endothelial barrier and tight junction processes (bicellular tight junction assembly, establishment of endothelial barrier, transcytosis, membrane raft polarization), suggesting coordinated neural maturation with blood\u2013brain barrier formation and related signaling modulation (PKC). ","confidence":"High","size":12,"edges":55,"triangles":132,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":8},{"id":"GO:0042552","count":6},{"id":"GO:0048169","count":5},{"id":"GO:0034115","count":5},{"id":"GO:0061028","count":5}]},{"hash":"239867066769613350","title":"NLRP3 inflammasome\u2013driven IL-1\u03b2/IL-18 inflammation","description":"This cluster centers on innate immune activation via the NLRP3 inflammasome, including assembly of the inflammasome complex, production of IL-18 and IL-1\u03b2, and cellular responses to LPS. Ubiquitination and NF-\u03baB-related regulation are consistent with inflammasome control and upstream inflammatory signaling, supporting a cohesive inflammatory module driven by the NLRP3 pathway.","confidence":"High","size":11,"edges":17,"triangles":11,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0044546","count":4},{"id":"GO:0032621","count":4}]},{"hash":"1914722148493394602","title":"Developmental Transcription and RNA Processing","description":"The top GO terms point to gene expression regulation (DNA-templated transcription, GCN2 signaling) and RNA processing/modification (RNA guanine-N7 methylation), with brain development and TGF-beta response suggesting a developmental context. Although some terms are broader or obsolete, the core theme centers on transcriptional control and RNA processing in development and stress, making a cohesive label appropriate.  ","confidence":"Medium","size":11,"edges":27,"triangles":30,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0035948","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0036265","count":5}]},{"hash":"1251302553455207512","title":"Lung angiogenesis and immune development","description":"The top terms point to lung-specific development (lung-associated mesenchyme development) and vascular growth (angiogenesis, positive regulation of angiogenesis), while several immune-related terms (dendritic cell cytokine production, interferon-beta production, IL-12 response, defense against Gram-positive bacteria) suggest concurrent immune signaling. This combination supports a theme of lung vascular development tied to immune functions. ","confidence":"High","size":11,"edges":10,"triangles":5,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0045766","count":6},{"id":"GO:0060484","count":6}]},{"hash":"2185384437763517511","title":"Cell Cycle Regulation and DNA Damage Response","description":"This cluster is dominated by GO terms related to cell division, mitosis, and checkpoints (cell cycle, mitotic cell cycle, G2/M transition, mitotic G1 DNA damage checkpoint signaling) plus responses to ionizing radiation and JNK signaling, indicating a cohesive theme around cell cycle control and DNA damage response; other terms like immune signaling and glucose metabolism appear peripheral rather than core drivers.","confidence":"High","size":11,"edges":37,"triangles":56,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006006","count":2},{"id":"GO:0031571","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1397695934400279659","title":"Neurodevelopment and Wnt signaling","description":"This cluster centers on neural development signals, highlighted by cerebral cortex development and positive regulation of axonogenesis, along with Wnt signaling modulation. Other terms point to general developmental processes (mitotic cell cycle, transcription) and protein regulation (ubiquitination). Placental terms appear as pleiotropic developmental roles but do not redefine the primary neural development theme.","confidence":"Medium","size":11,"edges":30,"triangles":33,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0050772","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1266215751488387441","title":"Inflammation-Driven Signaling and Calcium Dynamics","description":"The terms cluster around innate immune activation (neutrophil degranulation, LPS response) and signaling pathway regulation (ERK/MAPK, PI3K, calcium release) that can influence a range of downstream processes including differentiation and secretion; together they point to a module of inflammatory signaling intertwined with calcium-mediated signaling and developmental regulation.","confidence":"Medium","size":11,"edges":15,"triangles":6,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043312","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0001764","count":4}]},{"hash":"1479305170192823801","title":"Translation Initiation and Cell Cycle Regulation","description":"The cluster is enriched for translation-related terms (translation reinitiation; formation of translation preinitiation complex) and ubiquitin-mediated control of the cell cycle (K11-linked ubiquitination; cell division), pointing to a core theme of coordinating protein synthesis with cell division. Additional terms touch on chromatin regulation, stress responses (hypoxia, cadmium), and development, which may reflect broader regulatory contexts but are less central to the primary theme.","confidence":"Medium","size":11,"edges":34,"triangles":40,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0070979","count":2},{"id":"GO:0051301","count":2}]},{"hash":"368600365889597275","title":"Glycoprotein ERAD and Mannose Trimming","description":"These proteins cluster around ER quality control of glycoproteins: several GO terms describe trimming of terminal mannose on N-glycans in ER and Golgi, and pathways for ubiquitin-dependent ERAD and retrograde transport from ER to cytosol. The repeated mentions of mannose trimming steps (A, B, C branches) and ERAD indicate a coherent module for glycoprotein processing destined for degradation if misfolded.","confidence":"High","size":11,"edges":40,"triangles":67,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0036509","count":2},{"id":"GO:0036510","count":2},{"id":"GO:1904154","count":2},{"id":"GO:1904382","count":2}]},{"hash":"443448151491861887","title":"Immunological synapse signaling","description":"The top GO terms point to immune system functions (adaptive immune response, positive regulation of T cell proliferation, neutrophil clearance) and to synapse-related processes (protein localization to synapse, synapse organization), with regulation of Rho signaling supporting cytoskeletal changes at the immune synapse. Although terms like heart development and blood coagulation appear, the strongest signal centers on immunological synapse signaling and immune cell communication.","confidence":"Medium","size":11,"edges":13,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0035023","count":3}]},{"hash":"137018724735305182","title":"ERAD and Proteasome-Mediated Proteostasis","description":"The primary signals are ubiquitin-dependent ERAD pathway, positive regulation of proteasomal ubiquitin-dependent protein catabolic process, and related ER stress responses, which point to protein quality control in the secretory pathway and turnover via the proteasome. Additional terms like translation, calcium transport regulation, and DNA damage response (nucleotide excision repair, PML body organization) likely reflect broader stress-related coordination, but the dominant theme is proteostasis managed through ERAD and proteasomal degradation.","confidence":"High","size":11,"edges":49,"triangles":119,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0071276","count":5},{"id":"GO:1904378","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0032436","count":4}]},{"hash":"1390666967315967800","title":"Epidermal morphogenesis and vesicle trafficking","description":"The top GO terms are dominated by epidermis morphogenesis and cell polarity, alongside vesicle-related processes (regulation of vesicle size and synaptic vesicle exocytosis), pointing to a cohesive role in epithelial development and vesicle dynamics. While some terms touch broader signaling (axon extension, androgen receptor pathway), the core cluster appears focused on epithelial morphogenesis and vesicle regulation. This combination supports labeling the cluster as epidermal development with vesicle trafficking.","confidence":"High","size":11,"edges":31,"triangles":44,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":10},{"id":"GO:0030011","count":10},{"id":"GO:0097494","count":10},{"id":"GO:0008283","count":10},{"id":"GO:1905451","count":10}]},{"hash":"1102427338933775478","title":"Amino acid and fatty acid catabolism with aerobic respiration","description":"Top GO terms cluster around catabolic metabolism feeding aerobic energy production: leucine catabolism, medium-chain fatty acid catabolism, carnitine-linked metabolism, and regulation of gluconeogenesis, plus an aerobic respiration signal. The presence of oxidation-reduction (redox) activity and the tendency toward multi-subunit enzyme complexes (protein heterooligomerization) fit a coordinated energy-generation module. Some terms related to cold response and development likely reflect broader stress or developmental contexts, but the central theme is energy metabolism under aerobic conditions.","confidence":"High","size":11,"edges":34,"triangles":43,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0051291","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0019254","count":2},{"id":"GO:0006552","count":2}]},{"hash":"387619242014131412","title":"Innate immune signaling network","description":"The prominent GO term is MyD88-dependent Toll-like receptor 4 signaling, indicating innate immune activation, with the transcription regulation term supporting downstream gene expression changes; the muscle development term is less aligned and may reflect multifunctional proteins or annotation overlap. Overall, the cluster centers on innate immune signaling with transcriptional responses.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007527","count":11},{"id":"GO:0035660","count":11},{"id":"GO:0006355","count":11}]},{"hash":"76668431474898810","title":"Glycolysis-Gluconeogenesis and PPP Network","description":"Dominant theme is central carbohydrate metabolism: glycolysis, gluconeogenesis, PPP, and F2,6BP regulation. Insulin secretion regulation and dephosphorylation suggest integration with metabolic signaling. The cluster broadly represents glucose handling and energy balance.","confidence":"High","size":11,"edges":39,"triangles":68,"max_degree":10,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016311","count":5},{"id":"GO:0043609","count":5},{"id":"GO:0009410","count":5},{"id":"GO:0043456","count":5},{"id":"GO:0006094","count":5}]},{"hash":"1023905473959405021","title":"Neural development and cell polarity","description":"The top GO terms cluster around neural development (brain development, nervous system development, activation of bipolar cell growth) and cellular organization (nuclear envelope organization, establishment of epithelial cell polarity, protein localization to Golgi), with supporting hints from ER stress response and Golgi trafficking. This suggests a theme of neural tissue development coupled with maintenance of cellular architecture, though some terms are broader housekeeping processes. ","confidence":"Medium","size":11,"edges":14,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006998","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0009648","count":2},{"id":"GO:0001696","count":2},{"id":"GO:0045987","count":2}]},{"hash":"383756763415889221","title":"Neuronal Mitochondrial Transport and Hypoxia Response","description":"The top GO terms strongly point to mitochondrial movement and function in neurons (anterograde/axonal mitochondrial transport, regulation of mitochondrion organization, proton transport), along with cellular stress responses (hypoxia, apoptotic DNA fragmentation). While a chloroplast-related term appears, the dominant pattern is mitochondrial dynamics and transport in neurons, especially along axons, under hypoxic conditions.","confidence":"Medium","size":11,"edges":41,"triangles":76,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":3},{"id":"GO:0019684","count":3},{"id":"GO:1902600","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0010822","count":2}]},{"hash":"402275481286002986","title":"Innate Immunity and ECM-Driven Angiogenesis","description":"The top GO terms cluster around innate immune processes (innate immune response, complement activation) together with extracellular matrix remodeling (collagen fibril organization) and cell adhesion/angiogenic signaling (integrin-mediated signaling, sprouting angiogenesis). Additional terms point to lipid transport and immune regulation, suggesting a cohesive module where innate immunity interacts with ECM dynamics to promote vascular sprouting and tissue remodeling. Confidence: Medium","confidence":"","size":11,"edges":12,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0030199","count":10},{"id":"GO:0043277","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0018057","count":8}]},{"hash":"527718895884747320","title":"Embryogenesis and transcriptional regulation","description":"This cluster centers on developmental processes across multiple tissues (brain segmentation, neural crest migration, pancreas development, ureteric bud branching, osteoblast/osteoclast development) and features transcription by RNA polymerase II with both activation and repression, plus a minor note on host-mediated suppression of viral transcription. Together, these terms point to a cohesive theme of embryonic development governed by transcriptional control.","confidence":"High","size":11,"edges":49,"triangles":118,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043922","count":7},{"id":"GO:0045672","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0035284","count":5},{"id":"GO:0090190","count":5}]},{"hash":"1462801831843629500","title":"Unknown","description":"The top GO terms span a broad mix of functions\u2014from deubiquitination and histone modification to spliceosome dynamics, immune signaling, phagocytosis, apoptotic processes, translation, and even behavioral words\u2014without a single dominant pathway or function tying the proteins together. This apparent heterogeneity suggests there is no coherent, shared theme for the cluster, making a concise, representative label unreliable. Therefore, I cannot assign a specific functional label beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035871","count":3},{"id":"GO:0032735","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0036269","count":2}]},{"hash":"2223102764624853595","title":"Embryonic organ and neural development","description":"The top GO terms indicate development of nervous system components (medullary reticular formation, metencephalon, trigeminal nerve, cochlea) as well as morphogenesis of other organs and structures (facial nucleus, skeletal joints, nail plate, ureteric bud, metanephros, heart-related BMP signaling). This points to a broad embryonic morphogenesis theme across multiple tissues, rather than a single specific function, so a general label like embryonic organ and neural development fits well.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021723","count":11},{"id":"GO:0022037","count":11},{"id":"GO:0090103","count":11},{"id":"GO:1900212","count":11},{"id":"GO:0021754","count":11}]},{"hash":"284568791275543926","title":"Neuronal vesicle trafficking and axon development","description":"The top GO terms center on vesicle regulation and synaptic vesicle exocytosis, plus positive regulation of axon extension and neural signaling, suggesting a cohesive theme around neuronal vesicle dynamics and axon growth. Some terms (e.g., epidermis morphogenesis) are broader or less directly tied, but the dominant pattern points to neurons and vesicle-related processes.","confidence":"Medium","size":11,"edges":37,"triangles":66,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":11},{"id":"GO:0030011","count":11},{"id":"GO:0097494","count":11},{"id":"GO:0008283","count":11},{"id":"GO:1905451","count":11}]},{"hash":"1110065819921043131","title":"Unknown","description":"The GO terms span oxidative stress response, nucleic acid metabolism (DNA recombination, RNA-templated DNA biosynthesis, RNA hydrolysis), mitochondrial/apoptotic changes, cell cycle events, and host\u2013microbe interaction (symbiont/viral entry). There isn\u2019t a single cohesive function uniting these terms, so a specific, reliable label cannot be assigned.","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051725","count":2},{"id":"GO:0071451","count":2},{"id":"GO:0009399","count":2},{"id":"GO:0008637","count":1},{"id":"GO:0006278","count":1}]},{"hash":"269612746678664855","title":"Unknown","description":"The cluster shows thymus-related development terms (thymus morphogenesis, thymic T cell selection, migration into thymus) but also neural development and RNA-processing terms, suggesting a broad or mixed functional signal rather than a single coherent function. Therefore there isn't a clear, representative theme to assign a specific label, so Unknown.","confidence":"","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097536","count":2},{"id":"GO:1902232","count":2},{"id":"GO:0097535","count":2},{"id":"GO:0009749","count":2},{"id":"GO:0001834","count":2}]},{"hash":"49115447883482343","title":"Negative Regulation of Growth and Signaling","description":"This cluster shows a strong enrichment for terms describing inhibition across multiple pathways (negative regulation of cell proliferation, negative regulation of dendritic spine development, negative regulation of STAT tyrosine phosphorylation, etc.), along with related signaling contexts (insulin receptor signaling, endothelial barrier establishment). This suggests proteins that broadly dampen signaling and growth processes across tissues, rather than a single precise pathway.","confidence":"Medium","size":11,"edges":52,"triangles":141,"max_degree":10,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008285","count":10},{"id":"GO:0070433","count":10},{"id":"GO:0048671","count":10},{"id":"GO:0008286","count":10},{"id":"GO:0090557","count":10}]},{"hash":"1322276378848483015","title":"Unknown","description":"The top GO terms indicate a scattered mix of processes (phosphorylation; nucleotide and coenzyme A biosynthesis; epidermis morphogenesis; cell wall biosynthetic regulation; a neural differentiation term) with several obsolete entries. There is no coherent shared function or pathway that ties the proteins together, and the terms span metabolism, development, and structural processes. Because of this heterogeneity, there isn\u2019t a distinct theme to label the cluster beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0090334","count":2},{"id":"GO:1904948","count":2},{"id":"GO:0015937","count":1},{"id":"GO:1904251","count":1}]},{"hash":"1172380352170569315","title":"Endothelial Angiogenesis and Signaling","description":"This cluster centers on vascular biology, especially endothelial signaling and angiogenesis. Key terms include angiogenesis, regulation of endothelial cell survival, Tie signaling, plasminogen activation, and regulation of platelet aggregation\u2014collectively fundamental to blood vessel formation and remodeling. Additional terms reflect endothelial immune signaling and cell\u2013substrate interactions that influence vascular stability and remodeling. Overall, the proteins are best described as components of endothelial/vascular signaling and angiogenic regulation.","confidence":"High","size":11,"edges":24,"triangles":24,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":11},{"id":"GO:2000352","count":11},{"id":"GO:0002740","count":10},{"id":"GO:0090331","count":10},{"id":"GO:0044320","count":10}]},{"hash":"159996131719431599","title":"Hair Follicle Morphogenesis and Skin Development","description":"The top GO terms highlight hair cycle, hair follicle morphogenesis, and keratinocyte activation, pointing to skin/integumentary development as the central theme of this cluster. While other terms touch on nervous system differentiation, cardiac development, and autophagy regulation, their representation is less pronounced, so the core signal is skin and hair biology.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1904714","count":11},{"id":"GO:0055015","count":11},{"id":"GO:0097284","count":11},{"id":"GO:0042633","count":11},{"id":"GO:0001867","count":11}]},{"hash":"201287175419842379","title":"Transsulfuration and Cysteine Metabolism","description":"The GO terms cluster around sulfur-containing amino acid metabolism: transsulfuration, homocysteine catabolism, cysteine biosynthesis, and hydrogen sulfide biosynthesis, with additional related amine catabolism and detoxification (cyanide metabolism). Despite some obsolete terms, the core pattern points to a module focused on sulfur amino acid synthesis and processing, justifying a cohesive label.","confidence":"High","size":11,"edges":17,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":8},{"id":"GO:0070814","count":7},{"id":"GO:0043418","count":7},{"id":"GO:0042866","count":7},{"id":"GO:0070179","count":7}]},{"hash":"1232679680597880032","title":"Integrin signaling and actin cytoskeleton remodeling","description":"The top GO terms cluster around integrin-mediated signaling, cortical actin cytoskeleton organization, stress fiber assembly, and cell adhesion, indicating proteins that transmit extracellular signals to the cytoskeleton and control cell shape, polarity, and adhesion. While growth hormone receptor signaling and bone mineralization regulation appear, the predominant pattern is integrin-driven signaling coupled to actin dynamics.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0060396","count":9},{"id":"GO:0031532","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0007229","count":9},{"id":"GO:0030866","count":9}]},{"hash":"622893055982640947","title":"Oxidative stress response and ribosome quality control","description":"The prominent GO terms include cellular response to hydrogen peroxide and ribosome-associated ubiquitin-dependent protein catabolic processes, plus rescue of stalled cytosolic ribosomes, which together indicate a focus on oxidative stress handling and ribosome surveillance. Additional terms point to broader stress and signaling pathways (p53-mediated apoptosis, calcineurin-NFAT), while a few developmental annotations may be less connected. Overall, the core theme is oxidative stress response paired with ribosome quality control.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:1990116","count":1},{"id":"GO:0072344","count":1},{"id":"GO:1902167","count":1},{"id":"GO:0018937","count":1}]},{"hash":"1058784023063895299","title":"Cell Cycle Checkpoints and Proteostasis","description":"This cluster is dominated by GO terms related to cell-cycle control (mitotic G1/S transition, G1 DNA damage checkpoint signaling) and protein turnover via ubiquitination and proteasomal degradation (SCF-dependent ubiquitin\u2011proteasome pathway, polyubiquitination). Additional terms touch on circadian rhythm regulation and stress responses (oxidative stress-induced neuronal signaling, cadmium response), suggesting a broader theme of coordinating cell-cycle progression with protein homeostasis and cellular stress signaling. NOD2 signaling adds an immune/stress response angle but is less central to the core theme.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":7},{"id":"GO:0050966","count":4},{"id":"GO:0070431","count":4},{"id":"GO:0032088","count":4},{"id":"GO:1903378","count":4}]},{"hash":"1161448768990226460","title":"ER Protein Folding and Stress Response","description":"Dominant GO terms point to endoplasmic reticulum protein folding and ER stress response, with redox homeostasis and protein repair supporting the ER quality-control/chaperone role; some transcription-related terms may reflect stress-regulated regulation.","confidence":"Medium","size":11,"edges":51,"triangles":133,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034975","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0045454","count":9},{"id":"GO:0055114","count":9},{"id":"GO:0034976","count":9}]},{"hash":"1190926176555301264","title":"Developmental transcription regulation","description":"The cluster combines GO terms centered on transcription (DNA-templated transcription; regulation of RNA Pol II preinitiation complex assembly) with multiple tissue- and organ-development terms (trachea cartilage, Harderian gland, prostate gland, ovarian follicle growth, cardiac muscle proliferation). This points to a cohesive theme of transcriptional control during development across different tissues, rather than a single tissue-specific process.","confidence":"Medium","size":11,"edges":49,"triangles":126,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0060534","count":4},{"id":"GO:2000020","count":3},{"id":"GO:0017055","count":3},{"id":"GO:0070384","count":3}]},{"hash":"295626584582659035","title":"Immune signaling and antiviral defense","description":"The cluster centers on lymphocyte biology and immune signaling, including V(D)J recombination, regulation of signaling pathways like JNK, ubiquitin-mediated signaling (K63-linked), chemokine production, T cell differentiation, and defense against viruses, indicating a cohesive immune-focused functional theme.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0070512","count":2},{"id":"GO:1900095","count":2},{"id":"GO:0070534","count":2}]},{"hash":"1009301602126114662","title":"Multitissue Organ Morphogenesis and Wnt Signaling","description":"Based on the top GO terms, the cluster centers on developmental morphogenesis across multiple tissues (heart, inner ear, membranous septum), with activities in cochlea morphogenesis, left ventricle morphogenesis, and hematopoietic/osteoblast differentiation. A prominent theme is regulation of canonical Wnt signaling and planar cell polarity pathways, suggesting a shared developmental signaling module rather than tissue-specific processes. This supports a label of broad morphogenesis influenced by Wnt/PCP signaling.","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0002053","count":6},{"id":"GO:0060716","count":6},{"id":"GO:0090103","count":5},{"id":"GO:0090179","count":5}]},{"hash":"262088184556288150","title":"Neuroendocrine-immune signaling cluster","description":"The top GO terms point to hormonal regulation of muscle contraction (intestinal smooth muscle, heart) and hormone secretion, plus immune and neural signaling (IL-1beta regulation, neutrophil killing, morphine response, GDNF production) and endothelial barrier dynamics. Together they suggest a shared theme of neuroendocrine-driven signaling influencing inflammatory, neural, and vascular functions, rather than a single, unified pathway.","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":11},{"id":"GO:0070963","count":11},{"id":"GO:0046879","count":11},{"id":"GO:0001997","count":11},{"id":"GO:0071417","count":11}]},{"hash":"1483860278409561428","title":"Mitochondrial respiration and ciliary motility","description":"Top terms indicate strong mitochondrial energy metabolism (aerobic respiration; NADH dehydrogenase to ubiquinone; ubiquinol to cytochrome c; pyruvate import) alongside ciliary motor components (outer dynein arm assembly; cilium movement), with a metabolic regulation cue linked to insulin secretion. This suggests a module connecting mitochondrial energy production with ciliary motility machinery. ","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":2},{"id":"GO:0033617","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0036158","count":1},{"id":"GO:0003341","count":1}]},{"hash":"544604195569721427","title":"Adrenergic signaling and cardiovascular contraction","description":"The GO terms point to catecholamine-driven signaling (GPCRs activating adenylate cyclase) that modulates heart contraction, vascular tone, smooth muscle activity, and hormone secretion. Terms about epinephrine/norepinephrine-regulated heart force and blood pressure support a cardiovascular regulatory theme, with some related inflammatory/hormonal regulation; the electron transport chain term may reflect tissue energy needs but does not override the central adrenergic\u2013cardiovascular pattern.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0035025","count":8},{"id":"GO:0014827","count":6}]},{"hash":"2069165413784093993","title":"Neurodevelopment and Cytoskeletal Remodeling","description":"The top GO terms point to nervous system development (spinal cord and forebrain development) and cytoskeletal dynamics (actin cytoskeleton organization, microtubule-based movement), with supporting roles for transcriptional regulation and ubiquitination that often accompany developmental programs. While some terms reflect general cell cycle and stress responses (cell division, cadmium response, growth hormone signaling), the strongest signal is neural development intertwined with cytoskeletal remodeling, suggesting a cluster of proteins involved in shaping neural structures through cytoskeletal changes.","confidence":"Medium","size":10,"edges":10,"triangles":3,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0060416","count":3},{"id":"GO:0070979","count":2},{"id":"GO:0051301","count":2}]},{"hash":"594469242940037301","title":"Immunoregulation and leukocyte trafficking","description":"The top GO terms are dominated by immune-related processes: negative regulation of macrophage activation, negative regulation of interferon production, negative regulation of immunological synapse formation, monocyte extravasation, and gamma-delta T cell activation. While there are a few developmental terms in the list, they are less represented. This suggests the cluster primarily reflects proteins involved in damping immune responses and guiding leukocyte movement, justifying this label.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043031","count":2},{"id":"GO:0032689","count":1},{"id":"GO:0035418","count":1},{"id":"GO:2000521","count":1},{"id":"GO:0021785","count":1}]},{"hash":"1148008288160152114","title":"Vertebrate mesoderm and heart development","description":"The top GO terms overwhelmingly point to vertebrate embryogenesis, especially mesoderm patterning (paraxial and lateral mesoderm), notochord development, and heart tube morphogenesis, with a retinoic acid response integrated into these processes. A couple of terms related to fungal development appear in the list, which likely reflect annotation noise rather than a true cluster theme. Overall, the dominant signal supports mesodermal and cardiac development pathways linked with RA signaling.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":8},{"id":"GO:0070807","count":8},{"id":"GO:0048339","count":8},{"id":"GO:0010527","count":8},{"id":"GO:0003143","count":8}]},{"hash":"121311154655324937","title":"Carbohydrate catabolism","description":"The proteins appear linked to multiple sugar-processing pathways, including lactose catabolism via tagatose-6-phosphate, D-ribose and sucrose catabolic processes, glycolysis-related steps (fructose-6-phosphate), and other carbohydrate degradation routes (6-sulfoquinovose catabolism, carbohydrate phosphorylation). While a couple of terms are less related (heterooligomerization, obsolete redox), the overarching theme is diverse carbohydrate breakdown and energy-yielding metabolism, justifying the label.","confidence":"High","size":10,"edges":21,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0009744","count":2},{"id":"GO:1902777","count":2}]},{"hash":"1492139996742684075","title":"Innate Immune Signaling and NF-kappaB Regulation","description":"This cluster centers on innate immune responses and antiviral defense, as indicated by terms like innate immune response, defense response to virus, and T cell proliferation, with a hint of NF-kappaB pathway involvement. The positive regulation of proteasomal ubiquitin-dependent protein catabolic process also supports immune signaling through protein turnover. Microtubule localization could relate to intracellular trafficking in immune cells. Some terms (meiotic DNA double-strand break formation, hippocampus development, melanocyte migration) appear unrelated and may reflect annotation noise or multifunctional proteins, but the core signal is innate immunity and NF-kappaB-related regulation.","confidence":"Medium","size":10,"edges":26,"triangles":27,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0051092","count":5},{"id":"GO:0035372","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0042098","count":4}]},{"hash":"1122544271303145865","title":"Transcriptional Regulation and Stress Signaling","description":"The top GO terms point to transcriptional control (DNA-templated transcription) intertwined with regulation of signaling and protein turnover (proteasomal degradation, JNK, TORC1), and broader stress and immune responses (amino acid starvation, apoptosis, innate immunity). This suggests a cohesive module where transcriptional programs are coordinated with stress- and immune-signaling pathways and regulated degradation, with microtubule localization hinting at trafficking roles; the meiotic DSB formation term appears less tightly connected but may reflect shared DNA damage response processes.","confidence":"Medium","size":10,"edges":11,"triangles":3,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0032436","count":5},{"id":"GO:0046329","count":5},{"id":"GO:1903343","count":5},{"id":"GO:0034198","count":5}]},{"hash":"832628044693670436","title":"Neuromuscular signaling and muscle regeneration","description":"The cluster shows strong signals for glycine receptor clustering and GABA receptor clustering, pointing to synaptic receptor organization, together with denervation-induced regulation of muscle adaptation and skeletal muscle tissue regeneration. While there are also terms related to molybdenum cofactor biosynthesis and cochlea morphogenesis, the dominant theme appears to be neuromuscular signaling and muscle remodeling after nerve injury.","confidence":"Medium","size":10,"edges":24,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0014894","count":4},{"id":"GO:0043403","count":4},{"id":"GO:0032324","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0006777","count":2}]},{"hash":"2224656253565529538","title":"Immune defense and tissue remodeling","description":"This cluster centers on immune-related GO terms: humoral immune response, defense against virus, innate immune response, and T cell proliferation, suggesting a core theme of immune defense. Additional terms like host-mediated suppression of symbiont invasion and vascular wound healing point to coordinated tissue remodeling and inflammatory responses. The remaining terms (neuron projection development and hepatocyte apoptotic process) may reflect broader cellular processes or context-specific roles linked to immune signaling, but overall the cluster best reflects immune defense with associated tissue remodeling. ","confidence":"Medium","size":10,"edges":11,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002455","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045842","count":2}]},{"hash":"1668411335258345095","title":"Mitotic progression and development signals","description":"The terms point to mitosis control (G1/S, G2/M, spindle pole separation, re-entry) and DNA-templated transcription, with additional tissue-specific development terms (axonogenesis, Bergmann glia differentiation, cardiac development, mammary epithelium proliferation). This pattern suggests a cluster of proteins coordinating cell cycle progression with differentiation programs across multiple lineages.","confidence":"Medium","size":10,"edges":32,"triangles":54,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000082","count":4},{"id":"GO:0021952","count":4},{"id":"GO:0055015","count":3},{"id":"GO:0060020","count":3}]},{"hash":"2027742073966354112","title":"Developmental transcription regulators","description":"The cluster is enriched for developmental processes (endocrine pancreas development, somitogenesis, lens epithelial cell proliferation, male gonad development) and transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA polymerase II), suggesting a shared theme of developmental gene regulation. Some immune and host\u2013virus interaction terms are present but secondary to the main developmental transcriptional motif.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":6},{"id":"GO:0000122","count":6},{"id":"GO:2000020","count":6},{"id":"GO:0043923","count":5},{"id":"GO:0071353","count":5}]},{"hash":"118898869981009530","title":"Nuclear Envelope Remodeling and Lipid Metabolism","description":"This cluster links nuclear and ER-associated processes (nucleus organization, lamin depolymerization, transcription regulation by RNA polymerase II, mRNA processing) with lipid metabolism activities (fatty acid catabolism, triglyceride and galactolipid biosynthesis, lipid droplet organization), and includes apoptosis. The combination suggests coordinated membrane remodeling and lipid remodeling in response to stress, resulting in linkage between nuclear envelope dynamics and metabolic regulation. Confidence: Medium","confidence":"","size":10,"edges":26,"triangles":29,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0000289","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0009062","count":2},{"id":"GO:0034389","count":2}]},{"hash":"2069113004739304125","title":"Unknown","description":"The GO terms for this cluster cover a broad and disparate set of processes (insulin secretion, ergosterol biosynthesis regulation, neutrophil degranulation, tRNA export, phosphoinositide metabolism, receptor binding, microtubule localization, PI remodeling, synaptic plasticity, and B cell differentiation). There isn\u2019t a single clear biological function uniting these proteins, so a concise, representative label is not evident beyond Unknown.","confidence":"","size":10,"edges":5,"triangles":1,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0032024","count":7},{"id":"GO:0032443","count":6},{"id":"GO:0043314","count":5},{"id":"GO:2000238","count":5},{"id":"GO:0060304","count":5}]},{"hash":"952725440457646542","title":"Neurodevelopment and cytoskeletal regulation","description":"The cluster shows strongest signals for nervous system development and dendrite morphogenesis, coupled with cytoskeletal processes (stress fiber assembly) and Rho signaling, suggesting a role in neural development and cytoskeletal dynamics. Some terms are more general (cell cycle, ubiquitination) but do not outweigh the neural/cytoskeletal theme.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0050775","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0031016","count":2},{"id":"GO:0007160","count":2}]},{"hash":"1435383478947176109","title":"Calcium signaling regulation and kinase regulation","description":"Top GO terms point to calcium-dependent signaling and phosphorylation control, with highlights on voltage-gated calcium channel activity, calcineurin-NFAT signaling, and neuronal synaptic plasticity. The presence of terms about kinase/phosphatase regulation supports a unifying theme of signaling modulation by calcium and phosphorylation events, though a few terms touch on xenobiotic response or tissue differentiation, which are less central to the core theme.","confidence":"Medium","size":10,"edges":40,"triangles":84,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048168","count":6},{"id":"GO:0006469","count":6},{"id":"GO:0060487","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0097274","count":5}]},{"hash":"124605620132024205","title":"Embryonic neural development and body morphogenesis","description":"Top GO terms point to embryonic development and patterning, especially neural plate development, medulla oblongata development, embryonic body morphogenesis, and limb joint morphogenesis. The cluster also includes terms related to cytoskeletal localization and nuclear transport, which are common in developing cells, but the strongest signal is embryogenesis.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0001840","count":3},{"id":"GO:0021550","count":3},{"id":"GO:0072699","count":3},{"id":"GO:0032471","count":3}]},{"hash":"636468505885313272","title":"Unknown","description":"The top GO terms span very different cellular processes (protein transport, mitochondrial inner-mmembrane insertion, synapse localization, centrosome duplication, meiotic double-strand break regulation, and death-signaling complex assembly) with no single cohesive function tying the proteins together. This heterogeneity suggests no clear theme, so the label Unknown is appropriate.","confidence":"","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0032979","count":2},{"id":"GO:0035418","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0060484","count":2}]},{"hash":"1625769338771339055","title":"Cardiac and vascular smooth muscle regulation","description":"This cluster is dominated by terms related to cardiac muscle function and vascular smooth muscle behavior: sarcomere organization, cardiac muscle contraction, and heart-rate regulation by epinephrine, plus negative regulation of vascular smooth muscle cell migration/proliferation. A couple of outliers (spicule insertion, motile cilium assembly) appear as noise relative to the main cardio-vascular muscle theme, but the core signal centers on cardiovascular muscle structure and function.","confidence":"High","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1904753","count":9},{"id":"GO:1904706","count":9},{"id":"GO:0060298","count":9},{"id":"GO:0003065","count":9},{"id":"GO:0045214","count":9}]},{"hash":"2245319198359388618","title":"Neuronal ER-Golgi vesicle trafficking and localization","description":"The terms cluster around vesicle transport in the secretory pathway (ER-to-Golgi, COPII regulation, Golgi-to-plasma membrane), synaptic vesicle budding, and localization to neuronal/ciliary compartments, together with nervous system development signals, indicating a neuronal secretory trafficking module.","confidence":"High","size":10,"edges":23,"triangles":25,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":9},{"id":"GO:0034629","count":9},{"id":"GO:0045176","count":8},{"id":"GO:0097499","count":8},{"id":"GO:1902953","count":8}]},{"hash":"1585609686306745968","title":"Actin cytoskeleton remodeling and Golgi ribbon formation","description":"The top GO terms cluster around actin dynamics (actin filament-based movement, Arp2/3\u2013mediated nucleation, ruffle assembly) and cytoskeleton-guided membrane organization (Golgi ribbon formation). This suggests proteins in the cluster coordinate actin remodeling with Golgi/trafficking processes, consistent with roles in cytoskeletal rearrangements that underlie muscle-relevant contractile activity. Some terms are broader or less specific, but the dominant signal is actin cytoskeleton dynamics linked to Golgi organization.","confidence":"Medium","size":10,"edges":13,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0003009","count":4},{"id":"GO:0090161","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0051289","count":3},{"id":"GO:0090311","count":3}]},{"hash":"242461239458571896","title":"RNA Methylation and Processing","description":"Most terms point to RNA modification and processing (tRNA methylation, mitochondrial tRNA methylation, rRNA processing, 7-methylguanosine capping) and methylation of proteins and histones, indicating a cluster of RNA-modifying enzymes and chromatin modifiers. While there are some metabolic biosynthesis terms (cobalamin, antibiotics) that are less central, the dominant signal is RNA methylation and RNA processing.","confidence":"High","size":10,"edges":33,"triangles":50,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0030488","count":5},{"id":"GO:0070901","count":4},{"id":"GO:0006364","count":4}]},{"hash":"467705196176973571","title":"RNA Splicing and Translational Regulation","description":"The top GO terms cluster around mRNA splicing via the spliceosome (including splice-site recognition and alternative splicing) and small-subunit processome components, with additional signals of translational control (IRES-dependent initiation and regulation of translational initiation) and regulatory ncRNA\u2013mediated silencing. This points to a coherent module linking RNA processing/splicing to regulation of translation.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0048025","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0000380","count":3}]},{"hash":"1393073700012510858","title":"Glucocorticoid-responsive chromatin modifiers","description":"These proteins cluster around chromatin modification and transcription activation, as shown by GO terms for DNA-templated transcription, nucleosome assembly, histone methylation (H3-K36), peptidyl-lysine methylation, and positive regulation of RNA Pol II transcription. The presence of dexamethasone stimulus response and muscle/heart development terms suggests a role in glucocorticoid-mediated transcriptional reprogramming during muscle fiber and heart development. The overall pattern fits chromatin modifiers and transcriptional regulators that respond to steroid signaling.","confidence":"High","size":10,"edges":24,"triangles":35,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010452","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0018026","count":2},{"id":"GO:0018027","count":2}]},{"hash":"1369077902548672789","title":"Neuropeptide signaling in feeding and locomotor behavior","description":"The GO terms point to a cohesive theme of behavior regulation modulated by neuropeptide signaling, including locomotory behavior, appetite/feeding regulation, and grooming, with neuropeptide signaling as a central pathway linking these behaviors.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":1},{"id":"GO:0032100","count":1},{"id":"GO:0060259","count":1},{"id":"GO:0045777","count":1},{"id":"GO:0007218","count":1}]},{"hash":"1462495905451748691","title":"Developmental Regulation and Inflammation","description":"The terms center on regulatory processes in development across multiple tissues (megakaryocyte development, endocardial cushion development, tracheal branching, oenocyte delamination, anatomical structure regression) with an added inflammatory response term, suggesting a cluster tied to general developmental control with some immune signaling involvement. The diversity of contexts means the connection isn\u2019t narrowly focused, yielding a moderate confidence.","confidence":"Medium","size":10,"edges":30,"triangles":36,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035157","count":10},{"id":"GO:0045653","count":10},{"id":"GO:0060233","count":10},{"id":"GO:0007429","count":10},{"id":"GO:0035855","count":10}]},{"hash":"975182445659712147","title":"Unknown","description":"No shared functional terms are provided; the cluster has no edges or GO terms to link the proteins, so there's no clear functional theme to name it after. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1879178165473731891","title":"Neural development and drug response","description":"The cluster prominently includes neural-related terms: excitatory postsynaptic potential, nervous system development, Schwann cell development, and responses to cocaine and morphine, suggesting a neuronal signaling/development theme with drug-response components. There are also cell-cycle and kinetochore-related terms (e.g., G1/S transition, DNA replication, meiotic cell cycle, protein localization to kinetochore), which may reflect shared cellular machinery or annotation overlap. Overall, the dominant theme is neural development and signaling with drug-response features. ","confidence":"Medium","size":10,"edges":33,"triangles":50,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:0034501","count":6},{"id":"GO:0042220","count":6},{"id":"GO:0000082","count":6},{"id":"GO:0006260","count":6}]},{"hash":"910207718104655311","title":"Proteostasis and Cytoskeleton Maintenance","description":"The cluster is enriched for protein folding and chaperone-related terms (protein folding, chaperone-mediated complex assembly), proteostasis quality control (ubiquitin-proteasome system, macroautophagy regulation), and cytoskeletal organization (tubulin complex assembly, cortical microtubule organization). While some transcription-related terms appear, the strongest signal centers on maintaining protein homeostasis and cytoskeletal assembly, suggesting a functional module for proteostasis coupled to cytoskeleton maintenance.","confidence":"Medium","size":10,"edges":21,"triangles":19,"max_degree":7,"top_function":"protein folding","top_go_terms":[{"id":"GO:0032968","count":4},{"id":"GO:0006457","count":4},{"id":"GO:0007021","count":4},{"id":"GO:0051131","count":3},{"id":"GO:0043622","count":3}]},{"hash":"1781146629621325843","title":"Polarity and Vesicle Trafficking in Morphogenesis","description":"The cluster centers on processes that tie vesicle trafficking and cell polarity to tissue morphogenesis and remodeling, with terms for maintaining polarity, regulating vesicle size and exocytosis, epidermis morphogenesis, and axon extension, plus related phagocytic signaling. This points to a cohesive function around coordinated membrane trafficking and cellular organization during development and remodeling (with a note that bone resorption may reflect osteoclast-like secretory activity that also relies on vesicle dynamics).","confidence":"Medium","size":10,"edges":35,"triangles":59,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045453","count":10},{"id":"GO:0048730","count":9},{"id":"GO:0030011","count":9},{"id":"GO:0097494","count":9},{"id":"GO:0008283","count":9}]},{"hash":"1719104088155125260","title":"Apoptosis and lipid metabolism regulation","description":"The top GO terms center on apoptotic processes (thymocyte apoptotic process; apoptotic DNA fragmentation) and lipid handling (lipid storage; triglyceride storage; negative regulation of lipid catabolic process), with additional immune-modulatory terms (negative regulation of cytokine and TNF production) and stress response (response to stilbenoid). This suggests a functional group of proteins balancing cell death with lipid energy storage and inflammatory signaling, rather than a tightly connected interaction network (Edges 0). Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":2},{"id":"GO:0050995","count":2},{"id":"GO:0032720","count":2},{"id":"GO:0070242","count":2},{"id":"GO:0006309","count":2}]},{"hash":"1928590749020084788","title":"Angiogenesis and Innate Immunity Cluster","description":"Based on the top GO terms, the strongest signals are angiogenesis and regulation of angiogenesis, along with innate immune response, suggesting a group of proteins involved in vascular development and immune signaling, with some tissue-specific prostate development hints. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045765","count":2},{"id":"GO:0060742","count":1}]},{"hash":"1053162188751573167","title":"Embryonic Development and Organogenesis","description":"The terms cluster around developmental processes across multiple tissues\u2014placental/trophoblast differentiation, heart cushion EMT and outflow tract morphogenesis, cartilage formation, left-right patterning, pancreatic endocrine development, and broader endocrine system development\u2014along with transcription by RNA polymerase II, suggesting a cohesive role in embryogenesis and organ formation.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1944997171061788064","title":"Skeletal muscle, bone, cartilage, and cardiopulmonary development","description":"These proteins show strong enrichment for differentiation and development of mesenchymal-derived tissues: skeletal muscle, osteoblasts (bone), cartilage (tracheal/bronchial), and cardiopulmonary structures (cardiac ventricle and lung smooth muscle), linked by transcriptional regulation and signaling pathways such as TGF-beta. This suggests a cohesive theme of mesenchymal differentiation and organogenesis in thoracic tissues.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0060532","count":7},{"id":"GO:0061145","count":7},{"id":"GO:0071560","count":7},{"id":"GO:0001649","count":7}]},{"hash":"1482030108288393299","title":"Immune Activation and Regulation","description":"This cluster centers on immune response activation and its regulation, spanning innate (complement activation, phagocytosis) and adaptive (T cell activation, costimulation, cytokine production) processes, with regulatory checks (negative regulation of immunological synapse formation, cytotoxic T cell degranulation) and leukocyte trafficking (monocyte extravasation). The GI epithelium maintenance term likely reflects mucosal immune homeostasis rather than a GI-specific function.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030277","count":5},{"id":"GO:0006958","count":5},{"id":"GO:2000521","count":4},{"id":"GO:0046629","count":4},{"id":"GO:0035696","count":4}]},{"hash":"146550757151466541","title":"Innate and adaptive immune activation","description":"These terms collectively point to a centralized immune function: phagocytosis and recognition (innate defense), neutrophil degranulation and complement activation (innate effector processes), and B/T cell signaling, activation, and immunoglobulin production (adaptive responses). The presence of antigen presentation regulation via MHC II suggests modulation of antigen processing. Taken together, the proteins likely represent a cluster of immune activation and antigen-processing components.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1182439117606979324","title":"Cytoskeleton Dynamics and Growth Signaling","description":"This cluster centers on cytoskeleton remodeling (stress fibers, actin cytoskeleton reorganization, GTPase activity) intertwined with growth and survival signaling (growth hormone receptor pathway, Hippo signaling), affecting cell cycle and apoptosis, and extending to development and mitophagy. The combination suggests cytoskeletal dynamics modulating cell fate and proliferative signals during morphogenesis.","confidence":"Medium","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1311064763946771057","title":"ECM Remodeling and Monocyte Adhesion in Development","description":"The top GO terms point to extracellular matrix processes (hyaluronan catabolism, collagen fibril organization), cell-cell adhesion and monocyte aggregation/regulation, alongside developmental contexts (skeletal system and CNS development) and growth factor signaling. Together, these suggest a cohesive theme of extracellular matrix remodeling coupled with immune cell interactions during development. This label captures the central theme without overreaching beyond the data.","confidence":"High","size":10,"edges":38,"triangles":75,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030214","count":8},{"id":"GO:0050728","count":8},{"id":"GO:0044344","count":8},{"id":"GO:0070487","count":8},{"id":"GO:1900625","count":8}]},{"hash":"1562824540278100285","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000480","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1309010850011859045","title":"Unknown","description":"The terms cover host interaction, signaling, cell cycle, neuronal development, and synaptic activity with no single shared function, so a cohesive label can't be assigned.","confidence":"","size":9,"edges":29,"triangles":42,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2}]},{"hash":"574334380075274758","title":"Nuclear import and endosomal-lysosomal trafficking","description":"The cluster shows strong signals for nuclear transport processes (NLS-bearing protein import into the nucleus, ribosomal protein import, nuclear pore complex assembly) alongside endosomal and lysosomal trafficking (endosome transport and organization, lysosome organization, early-to-late endosome transport). A regulatory term for desumoylation and a GTPase activity regulator further support coordinated intracellular trafficking control. Together, these terms point to two related but distinct intracellular transport pathways, best captured by this label.","confidence":"Medium","size":9,"edges":21,"triangles":25,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060188","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006610","count":3}]},{"hash":"1549928060352628952","title":"Neural development with innate immune signaling","description":"This cluster shows neural development themes (corpus callosum development, axonogenesis, positive regulation of synapse assembly) together with innate immune pathways (innate immune response, LPS- and dsRNA-mediated signaling, interferon-beta production, defense against bacteria), suggesting neuro-immune cross-talk during development. ","confidence":"Medium","size":9,"edges":8,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022038","count":6},{"id":"GO:0061368","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0045359","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1691497832676560279","title":"Mitosis, Chromatin Assembly, and Microtubule Dynamics","description":"The top GO terms cluster around nuclear and mitotic functions: DNA-templated transcription, cell division, and specifically CENP-A\u2013containing chromatin assembly, along with microtubule severing, all pointing to chromosome maintenance and spindle dynamics during mitosis. While other terms like ER-Golgi transport and necroptotic processes appear, they seem less central to the core theme of chromosome segregation and chromatin organization, suggesting the primary function of this cluster centers on mitosis and chromatin assembly with supporting microtubule dynamics. ","confidence":"Medium","size":9,"edges":12,"triangles":3,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0034599","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051013","count":2}]},{"hash":"660540325431751658","title":"Ubiquitin-Linked Proteostasis and Stress Signaling","description":"These proteins cluster around ubiquitin-related processes (protein polyubiquitination, K11-linked ubiquitination, ERAD pathway) and signaling responses (growth hormone response, GCN2-mediated signaling). The presence of Arp2/3-mediated actin nucleation and transcription-related terms, along with cell cycle activity, suggests a broader role in proteostasis that integrates protein turnover with stress signaling, transcriptional regulation, and cytoskeletal dynamics. Overall, the dominant theme is ubiquitin-driven protein homeostasis connected to cellular signaling and regulation.","confidence":"Medium","size":9,"edges":18,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060416","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0060733","count":2},{"id":"GO:0000070","count":2}]},{"hash":"2253996884137725281","title":"Vertebrate neural development and synaptic plasticity","description":"This cluster is dominated by neural-development terms such as neural tube patterning and closure, and long-term synaptic potentiation, pointing to nervous system development and maturation. Supporting terms include cholesterol biosynthesis (membrane signaling) and broader vertebrate development (skeletal, lens), suggesting a developmental program with emphasis on neural tissues.","confidence":"Medium","size":9,"edges":26,"triangles":31,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0006695","count":3}]},{"hash":"1495651805518145982","title":"Chromatin-modifying transcription regulators","description":"The cluster centers on DNA-templated transcription and RNA polymerase II elongation, with multiple histone modification terms (acetylation/deacetylation, methylation), indicating involvement in chromatin state regulation of transcription. A few outlier terms (obsolete or autophagy-related) do not change the overall theme.","confidence":"High","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0006349","count":4},{"id":"GO:0032968","count":3},{"id":"GO:0016575","count":3},{"id":"GO:0043984","count":3}]},{"hash":"1144670616961985749","title":"Innate Immunity and Cytokine Signaling","description":"The top GO terms cluster around innate immune response, cytokine-related activities (interleukin-4 production, interleukin-7 response), and NK T cell differentiation, with additional hints of hematopoiesis. These suggest a shared theme of immune cell development and cytokine-mediated signaling, though a few terms like insulin signaling and heart development may reflect gene pleiotropy. Overall, the dominant immune-related terms justify this naming.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0043552","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0030097","count":3}]},{"hash":"877367553158766235","title":"Neuronal development and MAPK signaling","description":"This cluster is strongly enriched for nervous system and brain development terms, including nervous system development, brain development, and positive regulation of axon extension, suggesting roles in neuronal differentiation and axon growth. It also features regulation of JNK and ERK cascades, pointing to MAPK-mediated signaling as a core functional theme linking development and neuronal responses. The presence of cellular response to mechanical stimulus aligns with neuronal mechanotransduction, while a concurrent immune-related term may reflect cross-talk or annotation overlap rather than a primary function. Overall, the proteins appear to converge on neuronal development with MAPK signaling as a central mechanism.","confidence":"High","size":9,"edges":28,"triangles":42,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0046330","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0071260","count":8}]},{"hash":"1871782726502055293","title":"Immune signaling and hematopoietic development","description":"The terms point to both innate/adaptive immune signaling (NK cytotoxicity, B cell maturation and signaling, T cell receptor regulation, interferon signaling) and blood cell lineage processes (megakaryocyte development), plus related defense responses and regulatory pathways (STAT signaling, growth hormone signaling). This suggests a cohesive theme around immune activation/modulation and hematopoiesis.","confidence":"High","size":9,"edges":30,"triangles":51,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042267","count":9},{"id":"GO:0002344","count":8},{"id":"GO:0060337","count":8},{"id":"GO:0050853","count":8},{"id":"GO:0050860","count":8}]},{"hash":"1777714343461902363","title":"Hindbrain Development Signaling","description":"This cluster centers on hindbrain development and rhombomere morphogenesis, with notable enrichment for SMAD and Wnt signaling regulation, pointing to neural patterning pathways. The presence of ubiquitination, ERAD, miRNA transcription regulation, and interferon signaling terms likely reflects regulatory layers connected to these pathways rather than a different primary function. Overall, the dominant theme is neural development with active developmental signaling control.","confidence":"High","size":9,"edges":15,"triangles":9,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030902","count":3},{"id":"GO:0060395","count":3},{"id":"GO:0030111","count":3},{"id":"GO:0060340","count":2},{"id":"GO:0016567","count":2}]},{"hash":"623692634829530353","title":"Developmental Epigenetics and Neural Apoptosis","description":"This cluster'sGO terms point to developmental processes (skin and multicellular development), transcription regulation (DNA-templated transcription, histone methylation), and neural/glial apoptotic processes, suggesting a theme of developmental regulation and neural cell fate influenced by epigenetic mechanisms. Noise terms like defense response and nutrient signaling are present but less central, so the core idea remains development plus neural apoptosis with epigenetic regulation.","confidence":"Medium","size":9,"edges":21,"triangles":18,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0051402","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1413465782262406479","title":"Mesodermal Muscle and Bone Development with Hematopoiesis","description":"The top GO terms cluster around mesoderm-derived tissue differentiation: muscle development (sarcomerogenesis, heart contraction), bone formation (ossification, osteoblast differentiation), and hematopoietic lineages (definitive hemopoiesis, myeloid differentiation, cell maturation). While a broad term like DNA-templated transcription is included, the combination points to coordinated development of muscle/heart, bone, and blood lineages from mesoderm. Confidence: Medium","confidence":"","size":9,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:2000249","count":2},{"id":"GO:0001503","count":1},{"id":"GO:0035206","count":1},{"id":"GO:0060047","count":1}]},{"hash":"2093605650073739049","title":"RNA splicing and mRNA export machinery","description":"The cluster is enriched for spliceosome-related terms (splicing, splice-site recognition, alternative splicing) and mRNA export, with accompanying signals of translational regulation and ncRNA-mediated gene silencing, pointing to a cohesive role in RNA processing and expression control.","confidence":"High","size":9,"edges":15,"triangles":9,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":5},{"id":"GO:0048025","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0034462","count":4}]},{"hash":"1282975297033970807","title":"Plant organelle RNA editing and transcription","description":"This cluster is characterized by chloroplast- and mitochondria-focused RNA metabolism terms (chloroplast RNA modification, plastid transcription, mitochondrial mRNA processing, RNA editing) and chloroplast-nucleus signaling, suggesting a cohesive theme of plant organelle gene expression and inter-organellar communication. The embryo development term reflects plant-specific development but does not contradict the core theme. ","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902475","count":2},{"id":"GO:0008152","count":2},{"id":"GO:0000961","count":1},{"id":"GO:0016554","count":1},{"id":"GO:1900865","count":1}]},{"hash":"1763796180238743435","title":"Innate Immune Signaling and Inflammation","description":"Based on GO terms, this cluster is enriched for innate immune response, LPS and IL-1 signaling, NO response, and T cell receptor signaling, pointing to innate/and inflammatory signaling as the core function. While there are a few motifs related to apoptosis and neural development, the dominant pattern is immune activation and inflammatory pathways.","confidence":"High","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034351","count":6},{"id":"GO:0034198","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0071732","count":5}]},{"hash":"738464133723580976","title":"TGF-\u03b2/BMP Signaling Regulators and Development","description":"This cluster shows multiple GO terms focused on growth factor signaling (TGF-\u03b2 receptor signaling and BMP signaling) and networks that regulate these pathways, including negative regulation of signaling, alongside developmental processes like myotube differentiation and cerebellar granule cell precursor proliferation. While a couple of terms touch on behavior or immune homeostasis, the dominant theme is regulation of TGF-\u03b2/BMP signaling during development, suggesting a cohesive role for these proteins as modulators of growth factor\u2013mediated differentiation.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021936","count":2},{"id":"GO:0014902","count":2},{"id":"GO:0030512","count":2},{"id":"GO:0007179","count":2},{"id":"GO:0030514","count":2}]},{"hash":"3289786361126839","title":"Unknown","description":"The top GO terms cover membrane repair, ovarian follicle growth, brain ventricle development, cell migration, calcium transporter regulation, interferon production, ubiquitination, vitamin D response, and pancreatic cell apoptosis\u2014an extremely diverse set with no clear shared function. Because there isn't a unifying theme, a concise, representative cluster label cannot be confidently assigned.","confidence":"","size":9,"edges":10,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":4},{"id":"GO:0001545","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0021592","count":2},{"id":"GO:0006930","count":2}]},{"hash":"2001801118716199197","title":"Mitochondrial translation and tRNA charging","description":"Major signals are mitochondrial translation and tRNA charging, indicating a cluster of mitochondrial protein-synthesis machinery (glutaminyl-tRNA aminoacylation and transamidation). Lipid biosynthesis and splicing terms are present but less representative. Name reflects core function: mitochondrial translation and tRNA charging.","confidence":"High","size":9,"edges":15,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":2},{"id":"GO:0006425","count":2},{"id":"GO:0070681","count":2},{"id":"GO:0042759","count":2},{"id":"GO:0000398","count":2}]},{"hash":"521836415327365520","title":"Ubiquitin-Proteasome Pathways","description":"The cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent degradation, including various linkage types (K48, K11, K6), autoubiquitination, SCF-mediated degradation, and ERAD, with neddylation as a related modifier. While some terms touch on peroxisomal import and viral processes, the common theme is ubiquitin signaling governing proteasomal turnover and protein quality control, consistent with a cohesive functional cluster.","confidence":"High","size":9,"edges":31,"triangles":56,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0070979","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0051301","count":6}]},{"hash":"346792613611436905","title":"Unknown","description":"The cluster combines GO terms from diverse areas (innate immunity, metal ion response, mitotic cell cycle, synapse localization, imprinting regulation, lung mesenchyme development, meiotic DSB formation and repair, PI3K signaling, and centrosome duplication). There isn't a single coherent biological function that ties these terms together, so a concise, representative label can't be assigned.","confidence":"","size":9,"edges":13,"triangles":6,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0071276","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0035418","count":8},{"id":"GO:0006349","count":8}]},{"hash":"2280202758194908844","title":"Cardiac muscle regulation and neural signaling","description":"Based on the Top Terms, the cluster shows strong signals for heart and muscle function regulation (negative regulation of heart rate; positive regulation of the force of heart contraction; regulation of relaxation of muscle) and structural/motor components (myosin II filament assembly), complemented by neural-related processes (regulation of presynaptic calcium concentration; retina layer formation; long-term memory) and broad regulatory activities (negative regulation of transcription regulatory region DNA binding; negative regulation of protein kinase activity). This suggests a theme around regulation of cardiac/muscle function with broader neural development and signaling involvement, rather than a single cohesive pathway.","confidence":"Medium","size":9,"edges":15,"triangles":11,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0010459","count":5},{"id":"GO:0010842","count":5},{"id":"GO:0072286","count":5},{"id":"GO:2000678","count":5}]},{"hash":"1182913646516587193","title":"Actin Cytoskeleton Remodeling and Cell Spreading","description":"The cluster\u2019s top GO terms converge on actin cytoskeleton dynamics and membrane remodeling (ruffle assembly, actin polarity, cell spreading) and signaling pathways that regulate these processes (ephrin, Wnt, and GTPase activity). This implies a cohesive role in actin-driven remodeling and cell motility rather than a single enzyme or receptor, justifying a label focused on cytoskeleton remodeling and adhesion-related spreading.","confidence":"High","size":9,"edges":30,"triangles":51,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051291","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0043524","count":4},{"id":"GO:1902902","count":4},{"id":"GO:0034260","count":4}]},{"hash":"794831515161723089","title":"Mitotic cycle and vesicle trafficking regulation","description":"Explanation: The terms cluster around mitosis and cell cycle progression, coupled with vesicle trafficking and secretion machinery (ubiquitination, ER-to-Golgi transport, SNARE disassembly, exocytosis, and exosomal secretion). The inclusion of hemocyte migration hints at motility involving trafficking processes. Together, they point to coordinated control of mitosis with secretory pathways.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0035494","count":5}]},{"hash":"658554732541464601","title":"Receptor-Mediated Signaling and Endosome Transport","description":"These proteins cluster around cell-surface signaling and uptake pathways: receptor-mediated virion attachment, receptor internalization, and positive regulation of integrin signaling, plus endosome-to-melanosome transport and related cell-adhesion contexts. While some terms touch sensory or neural themes (visual perception, paranodal junctions), the dominant pattern is extracellular signal detection at the membrane followed by intracellular trafficking. Confidence: Medium","confidence":"","size":9,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:2000680","count":2},{"id":"GO:2000145","count":2},{"id":"GO:0007166","count":2},{"id":"GO:2001046","count":2}]},{"hash":"1812931998606731536","title":"Unknown","description":"The proteins span a highly diverse set of processes, including mitochondrial targeting, proton transport and vacuolar acidification, transcription regulation, arginine homeostasis, proteasome granule assembly, cell adhesion/migration, angiogenesis, and type III secretion. This broad mix lacks a single cohesive function or pathway that would justify a more specific label, so Unknown is most appropriate here.","confidence":"","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":"lipid metabolic process","top_go_terms":[{"id":"GO:0006626","count":6},{"id":"GO:0015991","count":4},{"id":"GO:0007035","count":4},{"id":"GO:0006353","count":3},{"id":"GO:0090465","count":3}]},{"hash":"1186010447059318642","title":"Neural development and chromatin/RNA regulation","description":"The top GO terms point to developmental processes across multiple tissues (neural structures like hippocampus and Bergmann glia, as well as melanocyte migration and heart development) along with mechanisms of gene expression control (chromatin remodeling, histone deacetylation regulation) and RNA processing (snoRNP assembly, snoRNA localization) as well as proteasomal degradation. Together these suggest a cluster centered on development with integrated gene regulation and protein turnover rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097324","count":2},{"id":"GO:0060020","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0055015","count":2}]},{"hash":"2169185111665073513","title":"Golgi-ER and endosomal vesicle trafficking","description":"This cluster centers on vesicle trafficking pathways involving the Golgi and endosomal system, including retrograde transport between Golgi and ER, ER-to-Golgi and Golgi-to-ER transport, endocytosis, and Golgi localization/inheritance. It also includes synaptic vesicle budding, suggesting neuronal vesicle dynamics. The convergence of these GO terms supports a coherent function: management of vesicle trafficking and Golgi-endosome cycling, likely comprising proteins that regulate vesicle budding, cargo sorting, and Golgi maintenance. The presence of a few organismal-level terms may reflect broader context but do not undermine the core trafficking theme.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":7},{"id":"GO:0042147","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0009615","count":6},{"id":"GO:0016185","count":6}]},{"hash":"951483175464308906","title":"Neuronal adhesion and synapse assembly","description":"The cluster centers on neural development and cell adhesion, with recurrent terms for neuron cell\u2013cell adhesion, heterophilic/homophilic adhesion, and positive regulation of synapse assembly, pointing to neural connectivity and synapse formation; a few terms like endodermal differentiation, ossification, and defense response are peripheral.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0007158","count":5},{"id":"GO:0007161","count":5},{"id":"GO:0034113","count":5},{"id":"GO:0043931","count":5}]},{"hash":"73690964840935665","title":"Muscle development and cytoskeletal remodeling","description":"This cluster shows a cohesive emphasis on muscle-related processes (skeletal muscle hypertrophy, smooth muscle differentiation) together with cytoskeletal and adhesion dynamics (Rho signaling, stress fiber and focal adhesion assembly, substrate adhesion-dependent spreading, EMT), suggesting a theme of muscle development linked with cytoskeletal remodeling.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":1},{"id":"GO:0035024","count":1},{"id":"GO:0014734","count":1},{"id":"GO:1900026","count":1},{"id":"GO:0010718","count":1}]},{"hash":"770158714538645786","title":"Unknown","description":"The GO terms point to disparate regulatory roles across immune response, reproduction, development, and sensory processes in different tissues; there is no unifying function or pathway that ties these proteins together, and the lack of edges supports no cohesive interaction. Therefore, I cannot assign a specific functional label beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":2},{"id":"GO:2000388","count":1},{"id":"GO:0055009","count":1},{"id":"GO:0003391","count":1},{"id":"GO:0007339","count":1}]},{"hash":"785807316348436335","title":"Neural development and synaptic regulation","description":"The top GO terms cluster around neuronal development and synaptic function, including neural plate axis specification, synaptic vesicle maturation, and regulation of synaptic plasticity. Supporting terms on cytoskeleton localization and lipid signaling reinforce neuronal trafficking and signaling. A few immune-related terms may reflect annotation noise, but the neuronal theme is dominant.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0021997","count":8},{"id":"GO:0043314","count":6},{"id":"GO:2000238","count":6},{"id":"GO:0060304","count":6},{"id":"GO:1900122","count":6}]},{"hash":"820485360588519166","title":"Stress and immune-response transcription cluster","description":"These proteins share GO terms pointing to cellular responses to various stimuli (LPS, virus, arsenite, ionomycin, phorbol esters) and transcriptional regulation (DNA-templated transcription) with apoptotic and angiogenic regulation. Together, these terms indicate a broad stress- and immune-response transcriptional program rather than a single specialized pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071222","count":3},{"id":"GO:1903936","count":3},{"id":"GO:1904637","count":3},{"id":"GO:0032088","count":3}]},{"hash":"678747904402707350","title":"Neural development and synaptic signaling","description":"These terms cluster around neural development (e.g., anterior lateral line development; pons maturation) and neural function (excitatory postsynaptic potential; intracellular signal transduction), with related behavioral aspects (forward locomotion; olfactory learning). Regulation of neuron apoptotic processes and molecular function also point to coordinated neural development and signaling, while environmental responses (fungicide, ethanol) may influence neural activity but do not override the central neural theme.","confidence":"High","size":9,"edges":20,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043056","count":7},{"id":"GO:0043523","count":7},{"id":"GO:0035556","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0048899","count":7}]},{"hash":"248331411874100443","title":"RNA and protein methyltransferases","description":"The cluster is enriched for GO terms tied to methylation in RNAs (tRNA/rRNA methylation, mRNA capping) and methylation of proteins (peptidyl-arginine/lysine dimethylation), plus biosynthetic steps like cobalamin and antibiotic biosynthesis that require methyltransferases. This suggests the proteins are methyltransferases or methyltransferase-associated enzymes involved in RNA modification and related biosynthetic pathways. Some terms such as nodulation and tellurium ion response are less directly connected and may reflect annotation noise, but the core theme of methylation enzymes remains strong.","confidence":"High","size":9,"edges":18,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":6},{"id":"GO:0009236","count":5},{"id":"GO:0019919","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0046690","count":4}]},{"hash":"353379148516807154","title":"Mitotic and meiotic cell cycle control","description":"This cluster centers on mitotic and meiotic cell cycle control (G1/S, G2/M, CDK activity, chromosome pairing) and DNA-templated transcription, with some development-related terms that may reflect broader roles.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":6},{"id":"GO:0000082","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0060749","count":4},{"id":"GO:0007595","count":4}]},{"hash":"45518541386297336","title":"Neural development and axon guidance","description":"This cluster\u2019s top GO terms are dominated by neural development and axon guidance (branchiomotor neuron axon guidance; sympathetic neuron projection extension) and FGFR signaling-related regulation, with several development/morphogenesis terms (lung mesenchyme, salivary gland branching). While a few terms (phagocytosis, T cell regulation) are outliers, the prominent theme is neural development and morphogenetic signaling, making this a reasonable label. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021785","count":7},{"id":"GO:0090080","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0090272","count":7},{"id":"GO:0060484","count":7}]},{"hash":"1498374710324702186","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":2},{"id":"GO:0034477","count":2},{"id":"GO:0030223","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007420","count":2}]},{"hash":"304924692964142766","title":"Lens development and morphogenesis","description":"The top GO terms are dominated by lens-related processes (lens epithelial cell proliferation, lens fiber cell differentiation) alongside broader epithelial and morphogenesis terms (axial mesoderm, nail development, thymus epithelium), suggesting a primary lens development theme with some general morphogenesis signals.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":7},{"id":"GO:0007095","count":7},{"id":"GO:0097536","count":7},{"id":"GO:2001111","count":7},{"id":"GO:0060013","count":6}]},{"hash":"1277349348103815897","title":"Organelle protein import and unfolded protein response","description":"This cluster centers on GO terms related to importing proteins into mitochondria (inner membrane and matrix) and chloroplasts (stroma) as well as a response to unfolded proteins, suggesting a common function in targeting/import machinery and organelle stress responses. Some terms like fatty acid metabolism and reproductive processes appear as outliers, but the core theme is organelle protein import and UPR. ","confidence":"Medium","size":9,"edges":23,"triangles":25,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0032094","count":2}]},{"hash":"180236903284691550","title":"Insect autophagy and organelle turnover","description":"This cluster centers on autophagy and related organelle turnover in insect cells, including mitophagy, nucleophagy, phagophore assembly, and the Cvt pathway, plus tissue-specific programmed cell death such as larval midgut and nurse cell apoptosis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035096","count":8},{"id":"GO:0034727","count":8},{"id":"GO:0034497","count":8},{"id":"GO:1903955","count":8},{"id":"GO:0000422","count":8}]},{"hash":"162186015113517497","title":"Vesicle Trafficking and Immune Cell Degranulation","description":"The cluster is strongly associated with GO terms for protein and vesicle transport, including Golgi-to-ER and endosome-to-Golgi retrograde trafficking, intra-Golgi transport, vesicle targeting, vacuole fusion, and degranulation in neutrophils and NK cells. This points to a common function in intracellular vesicle trafficking and exocytosis, particularly related to immune cell granule release. Some terms like triglyceride transport and dendrite morphogenesis appear as minor outliers, but do not override the dominant vesicle transport/degranulation theme.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0043312","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0043320","count":1},{"id":"GO:0006891","count":1}]},{"hash":"157335712309339730","title":"Secretory vesicle trafficking and calcium signaling","description":"The cluster centers on secretory and signaling processes, evidenced by sebaceous gland development, insulin secretion regulation, and cell surface receptor signaling, along with vesicle trafficking (vacuole fusion) and calcium-related regulation (mitochondrial calcium import and concentration). Palmitoylation of cysteine residues points to membrane-associated, trafficking-related proteins, reinforcing a theme of secretory pathway function tied to calcium signaling.","confidence":"Medium","size":9,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0018230","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0048733","count":2},{"id":"GO:0032024","count":2},{"id":"GO:0036444","count":2}]},{"hash":"1629674845913832025","title":"Angiogenesis and ECM Remodeling","description":"Top GO terms indicate strong involvement in angiogenesis and regulation of exocytosis, with collagen fibril organization also present, suggesting a theme of vascular development coupled with extracellular matrix remodeling and secretion. While other terms touch on stress response and epithelial differentiation, the common thread appears to be processes that drive vessel formation and ECM dynamics in tissue remodeling contexts.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045921","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0033689","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0045766","count":4}]},{"hash":"688056260389759078","title":"ER-Golgi trafficking and autophagy in remodeling","description":"The cluster includes terms for ER protein folding, ER-to-Golgi transport, and autophagosome assembly, pointing to secretory pathway and autophagy roles. Additional terms on cell adhesion, tissue regeneration, and vascular remodeling suggest involvement in tissue remodeling contexts, while mitochondrial import-related terms hint at broader organelle biogenesis connections. Overall, the proteins seem tied to intracellular trafficking and remodeling processes rather than a single narrowly defined function.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":1},{"id":"GO:0000045","count":1},{"id":"GO:0006888","count":1},{"id":"GO:2000269","count":1},{"id":"GO:0007155","count":1}]},{"hash":"1056072932590065680","title":"Immune-vascular inflammatory signaling","description":"The terms cluster around immune activation (monocyte differentiation; LPS response), vascular/permeability changes (positive regulation of vascular permeability), and stress/xenobiotic responses (epinephrine stimulus; cellular response to xenobiotic stimulus), with links to cardiac signaling. Taken together, they point to inflammation-related signaling in immune cells and the vasculature, including responses to microbial and chemical stimuli. Some terms (like dopamine metabolism regulation) are less cohesive, but do not overturn the predominant theme.","confidence":"Medium","size":8,"edges":23,"triangles":33,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042053","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0043117","count":7},{"id":"GO:0030224","count":7},{"id":"GO:1902160","count":7}]},{"hash":"1280566429787259394","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048260","count":2},{"id":"GO:0061481","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0048025","count":2},{"id":"GO:0022013","count":2}]},{"hash":"908852392943446021","title":"Chromatin remodeling and histone modification","description":"Top GO terms in this cluster are dominated by chromatin regulation and histone modification activities (negative regulation of heterochromatin formation; transcription initiation-coupled chromatin remodeling; N-terminal peptidyl-lysine acetylation), pointing to a shared function in modulating chromatin state and gene expression. Some other terms relate to metabolism and signaling (sucrose catabolic process, IL-6 production, biofilm-related adhesion, androgen receptor signaling), which may reflect broader or pleiotropic annotations, but they do not negate the central chromatin-centric theme.","confidence":"Medium","size":8,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031452","count":3},{"id":"GO:1900051","count":3},{"id":"GO:0022037","count":3},{"id":"GO:0005987","count":3},{"id":"GO:2000219","count":3}]},{"hash":"2064009158780295584","title":"Cell Cycle and DNA Replication","description":"The top terms cluster around mitotic and meiotic progression: G1/S transition, DNA replication, meiotic cell cycle, and the mitotic spindle assembly checkpoint signaling, with DNA-templated transcription also involved. These collectively point to cell-cycle control and genome duplication/segregation as the core theme. Some terms like excitatory postsynaptic potential, response to cocaine, Schwann cell development, and cardiac hypertrophy might reflect broader signaling roles or pleiotropy, but they do not override the dominant cell-cycle/ DNA metabolism signal.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0034501","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0006260","count":5}]},{"hash":"1236936130866142087","title":"Vertebrate embryonic development and tissue differentiation","description":"The cluster is dominated by GO terms related to early embryogenesis, spinal cord and mesoderm morphogenesis, and differentiation across multiple tissues (nail, lens, lung), with a few regulatory processes (EMT and IL-4 production). This pattern points to a broad developmental and differentiation program in vertebrates rather than a single pathway.","confidence":"High","size":8,"edges":18,"triangles":15,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0021517","count":5},{"id":"GO:0010719","count":5},{"id":"GO:0060013","count":4},{"id":"GO:0048319","count":4}]},{"hash":"1681250529900601164","title":"Nuclear mRNA and ribosomal export regulators","description":"The set is enriched for nuclear export processes, including ribosomal subunit export (small and large) and mRNA export, as well as import of RNA-binding/splicing factors. Additional terms touch on kinetochore localization and centrosome duplication, suggesting coordination between nuclear transport and cell-cycle-related processes. The dominant theme is proteins that shuttle RNA and ribosomal components between the nucleus and cytoplasm, with related regulatory roles.","confidence":"Medium","size":8,"edges":22,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0042176","count":6},{"id":"GO:0000055","count":6},{"id":"GO:0042493","count":6}]},{"hash":"1238730569569201272","title":"Embryonic heart and craniofacial development","description":"The cluster is enriched for heart development, embryonic cranial skeleton morphogenesis, organ induction, and related developmental processes, with supporting neural crest/multicellular development terms and regulatory signaling (STAT) components, indicating a cohesive role in embryonic cardiac and craniofacial morphogenesis. ","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001764","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0001759","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0003350","count":6}]},{"hash":"1957314712119768805","title":"Stress-responsive immune and vascular signaling","description":"The cluster\u2019s top GO terms point to responses to a variety of stimuli (TGF-beta, xenobiotic), monocyte differentiation, vascular permeability, and cardiac hypertrophy, with some translation initiation regulation. Together these suggest a broad signaling module related to stress and immune-vascular responses, rather than a single, narrow pathway.","confidence":"Medium","size":8,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0008283","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0042053","count":2}]},{"hash":"615113729094498638","title":"RNA Silencing and Chromatin Remodeling","description":"This cluster combines ncRNA- and miRNA-mediated gene silencing with chromatin remodeling/heterochromatin formation, plus oocyte maturation and oskar mRNA localization, indicating a developmentally coordinated program of transcriptional and post-transcriptional regulation.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071230","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0060213","count":3},{"id":"GO:0030466","count":3},{"id":"GO:0001556","count":3}]},{"hash":"1791198596546936213","title":"Cell Signaling Pathways","description":"These proteins appear enriched across diverse signaling pathways (nitric oxide response, insulin receptor signaling, growth hormone signaling, integrin signaling, T cell receptor signaling) and a mitotic checkpoint term, suggesting a broad role in signal transduction rather than a single pathway.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071732","count":4},{"id":"GO:0090282","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0060396","count":3}]},{"hash":"446737188104366980","title":"Ubiquitin-Dependent NF-kappaB/JNK Signaling","description":"The cluster is dominated by ubiquitination-related terms (autoubiquitination, ubiquitin-dependent proteolysis, protein ubiquitination) and signaling components (activation of NF-kappaB-inducing kinase, I-kappaB phosphorylation) with JNK cascade regulation also represented, pointing to a core theme of ubiquitin-mediated control of NF-kappaB and JNK signaling, with some ancillary links to chromatin modification. Confidence: High","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0033151","count":7},{"id":"GO:0046328","count":7},{"id":"GO:0070512","count":7}]},{"hash":"1416146299172522096","title":"Neuronal signaling and development","description":"The cluster is enriched for neuron development, protein localization to synapse, and MAPK/JUN signaling, alongside transcription regulation terms, suggesting a neural signaling and gene-regulatory program. Although terms like angiogenesis and insulin signaling appear, they likely reflect broader growth-signaling context that intersects with neural development, rather than a non-neural process. Overall, the dominant neural-related functions point to a neuronal signaling/development module.","confidence":"Medium","size":8,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0007258","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0048666","count":3}]},{"hash":"845775758084339361","title":"Neuronal development and synaptic connectivity","description":"This cluster centers on neural development and the establishment and modulation of synaptic connections, with GO terms covering optic nerve morphogenesis, axon fasciculation and regeneration, trans-synaptic signaling, and long-term synaptic plasticity. A few terms (e.g., T cell costimulation) are less directly tied to neurons, likely reflecting pleiotropy, but the dominant theme is neural connectivity and maturation.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021631","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0014012","count":2},{"id":"GO:2000525","count":2},{"id":"GO:0060035","count":2}]},{"hash":"876046990052496337","title":"Unknown","description":"The terms are scattered between small GTPase signaling regulation (Rap and Rho pathways), chromatin assembly and histone acetylation, and various development-related processes (cochlea morphogenesis, neural plate elongation) plus sporulation and cell fusion terms. There isn\u2019t a single clear, shared function uniting the cluster, so a coherent label isn\u2019t supported.","confidence":"","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032487","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1879588915564074756","title":"Ubiquitin-Proteasome Regulation and IFN Response","description":"The terms show ubiquitin tagging (K27/K11/K63) and SCF-proteasome\u2013dependent degradation, pointing to protein turnover; IFN-beta response and synapse assembly imply broader regulatory and signaling roles, with peroxisomal import suggesting additional trafficking context.","confidence":"High","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0044314","count":8},{"id":"GO:0070979","count":8},{"id":"GO:0070534","count":8},{"id":"GO:0035458","count":8},{"id":"GO:0051965","count":8}]},{"hash":"1559107163827292818","title":"Central carbon metabolism and vitamin K biosynthesis","description":"The GO terms show a strong emphasis on core carbon metabolism, with canonical glycolysis and gluconeogenesis, plus various catabolic processes such as amino acid and sugar catabolism. In addition, there are biosynthetic processes for phylloquinone and menaquinone (vitamin K1/K2), which commonly accompany energy metabolism in microbes. Some terms (skeletal muscle tissue regeneration, obsolete pathogenesis) appear to be misannotations or outliers. Overall, the cluster best reflects central metabolic pathways and vitamin biosynthesis.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":2},{"id":"GO:0042372","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0043403","count":2},{"id":"GO:0061621","count":2}]},{"hash":"1854723761996723056","title":"Detoxification and anti-inflammatory stress response","description":"The GO terms cluster around negative regulation of TNF and IL-1\u03b2 production and signaling, along with detoxification (glutathione metabolism, nitrogen compound detoxification) and stress responses (ethanol, LPS), plus DNA repair. This points to a coherent theme of cellular defense against toxins and inflammatory signaling, with maintenance of genome integrity.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032720","count":8},{"id":"GO:0006749","count":8},{"id":"GO:2001237","count":8},{"id":"GO:0006289","count":8},{"id":"GO:0032691","count":8}]},{"hash":"2394548514179344","title":"Mitotic spindle assembly and cytokinesis","description":"This cluster is dominated by GO terms tied to mitosis and spindle dynamics: spindle pole body duplication, microtubule nucleation, spindle midzone assembly, and mitotic cytokinesis. Additional terms like cell cycle and cell division reinforce a core theme of mitotic progression, with one outlier term related to cellular response to IL-4 suggesting a minor off-target signal. The combined functional signature points to proteins involved in organizing the mitotic spindle and driving cytokinesis.","confidence":"High","size":8,"edges":12,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903087","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0007020","count":5},{"id":"GO:1902408","count":5}]},{"hash":"706476707421722557","title":"Unknown","description":"The top terms are diverse (neuron maturation, RNA splicing, thiamine diphosphate biosynthesis, hormone biosynthesis regulation, megakaryocyte differentiation, ethanol and fungicide responses), and several entries are obsolete. There is no single cohesive function that ties these proteins together, so a meaningful, specific label isn\u2019t supported.","confidence":"","size":8,"edges":21,"triangles":25,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042135","count":5},{"id":"GO:0046886","count":4},{"id":"GO:0009229","count":4},{"id":"GO:0042551","count":4},{"id":"GO:0045654","count":4}]},{"hash":"1332383667648356378","title":"Ciliary assembly and renal development","description":"GO terms indicate cilium-related processes (cilium assembly, localization to cilium) and kidney-associated development (pronephros development, renal filtration), suggesting a cluster of proteins involved in ciliogenesis and renal function. Additional signals related to TORC1 and GCN2 reflect broader cell growth and nutrient sensing that can influence renal and ciliary biology, while cytoskeletal roles (Arp2/3, mitotic segregation) may support ciliary and kidney cell architecture. Overall, the theme centers on ciliogenesis with kidney development context.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":3},{"id":"GO:1904263","count":2},{"id":"GO:0048793","count":2},{"id":"GO:0061512","count":2},{"id":"GO:0045444","count":2}]},{"hash":"844413491729345342","title":"Carbohydrate Metabolism with Transcriptional Regulation","description":"The cluster centers on carbohydrate metabolism terms (galactose metabolic process, D-sorbitol biosynthetic process, inositol catabolic process) and includes regulatory terms (negative regulation of transcription by RNA polymerase II, negative regulation of kinase activity), suggesting proteins involved in carbohydrate metabolic pathways with transcriptional regulation. Some terms are obsolete, indicating potential annotation inconsistencies, but the metabolic/regulatory theme remains the best cohesive interpretation.","confidence":"Medium","size":8,"edges":10,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0042167","count":1},{"id":"GO:0006012","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1127289855402557438","title":"Virus-host interactions and virion assembly","description":"This cluster centers on multiple stages of the viral life cycle and virus\u2013host interplay: virion assembly and budding/release via ESCRT, entry into host cells and nucleus penetration, proviral latency, suppression of host gene expression, and host apoptosis activation, with an additional note on host mRNA splicing being co-opted. The shared theme is proteins involved in virus\u2013host interactions and virion formation rather than standard cellular processes.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0039702","count":3},{"id":"GO:0039657","count":2},{"id":"GO:0019068","count":2},{"id":"GO:0030260","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1141379813000107613","title":"Vascular signaling and ECM remodeling","description":"Top GO terms point to signaling pathways (Wnt, ERK cascade, calcium signaling) together with processes related to vascular biology (endothelial cell migration, collagen biosynthetic process, cell-matrix adhesion) and inflammatory tone (acute-phase response). While the terms span diverse areas, the recurring theme centers on signaling-driven vascular remodeling and extracellular matrix interactions, with some inflammatory context. The connection is plausible but not strong across all terms, so confidence is Low.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0010766","count":1},{"id":"GO:0045721","count":1},{"id":"GO:0032967","count":1},{"id":"GO:2000098","count":1}]},{"hash":"358387430035923658","title":"Male germ-line chromatin and translational control","description":"The top GO terms center on male germ-line development (subtelomeric heterochromatin formation; male meiosis chromosome segregation; male germ-line cyst formation) together with regulation of protein synthesis (translation, cap-dependent translation initiation, and negative regulation of translation) and cell-cycle progression (G1/S transition). This suggests a cluster tied to chromatin state and post-transcriptional control in male germ cells during division and meiosis. Some terms like viral process and dexamethasone response appear broader but do not override the main themes.","confidence":"Medium","size":8,"edges":15,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0007060","count":2},{"id":"GO:0045665","count":2},{"id":"GO:0048136","count":2}]},{"hash":"1027893773263233463","title":"Neuronal signaling and ion homeostasis","description":"The top GO terms show a clear neuronal/theme: action potentials and membrane hyperpolarization, mechanosensory touch, and optic nerve organization, along with potassium/magnesium ion handling. Additional terms reflect neuronal development and cytoskeletal dynamics (Rho signaling and stress fibers) and protein turnover, all of which fit a cluster of proteins involved in neural signaling, ion regulation, and structural maintenance. ","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0071286","count":3},{"id":"GO:0071435","count":3},{"id":"GO:0021759","count":3},{"id":"GO:0021633","count":3}]},{"hash":"1258530090066893035","title":"Cytoskeletal dynamics and vesicle trafficking","description":"The top GO terms cluster around actin-driven processes (filopodium assembly, cell migration), cytoskeletal regulation (Rho signaling), and intracellular trafficking events (endosomal transport, synaptic vesicle exocytosis). Together with neuronal signaling terms (tachykinin receptor signaling) and spinal cord development, this suggests a theme of coordinated cytoskeletal remodeling and vesicle trafficking underlying cell movement and neuronal signaling.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0016197","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0046847","count":4},{"id":"GO:2001275","count":4}]},{"hash":"673932846338484790","title":"Neural morphogenesis and patterning","description":"The cluster shows strong signals for neural development: dendrite development and morphogenesis, ephrin receptor signaling, and neuronal stem cell maintenance, indicating a core neural morphogenesis theme. There are also patterning terms related to adaxial/abaxial specification and leaf development, suggesting a broader developmental patterning context across tissues. Overall, the dominant neural morphogenesis signal justifies a label centered on neural development, with a note about cross-tertilization of patterning processes across species. ","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009955","count":4},{"id":"GO:0048366","count":4},{"id":"GO:1900170","count":4},{"id":"GO:0016358","count":4},{"id":"GO:0050775","count":4}]},{"hash":"488251455588707598","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0019509","count":3},{"id":"GO:0009088","count":3},{"id":"GO:0019284","count":3}]},{"hash":"741901855538631045","title":"Chaperone-assisted folding and membrane targeting","description":"This cluster is dominated by terms related to protein quality control and targeting: chaperone-dependent refolding, SRP- and post-translational targeting of proteins to membranes, and regulation of stress- and apoptosis-related pathways that dampen heat or ER stress responses. Together these point to processes ensuring proper protein folding and correct membrane localization, especially under stress, with some related but less cohesive terms (e.g., DNA replication, karyogamy) appearing as outliers. Overall, the common theme is chaperone-mediated folding and membrane targeting with protective stress regulation.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":8},{"id":"GO:0070389","count":8},{"id":"GO:0031204","count":8},{"id":"GO:0090084","count":8},{"id":"GO:0006260","count":8}]},{"hash":"1020708455137010155","title":"Complement and Fc receptor\u2013mediated immune signaling","description":"The top GO terms point to immune surveillance and inflammatory responses, including phagocytosis recognition, lectin pathway complement activation, Fc-gamma receptor signaling, and platelet activation, with arachidonate secretion indicating lipid-mediated inflammation. Some terms related to tissue development (cartilage condensation, lymph vessel morphogenesis) may reflect context, but the core signal across proteins is immune activation and inflammatory signaling.","confidence":"Medium","size":8,"edges":20,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":6},{"id":"GO:0090238","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0071226","count":5},{"id":"GO:0036303","count":5}]},{"hash":"1495635843014972482","title":"Axon growth and cytoskeleton regulation","description":"Based on GO term enrichment, the cluster highlights processes involved in neurite outgrowth and cytoskeletal remodeling, such as regulation of axon extension, positive regulation of filopodium assembly, and cytoskeleton organization. The metabolic catabolic terms are present but do not define the primary theme; the cytoskeleton/axon-related terms offer a cohesive functional thread.","confidence":"Medium","size":8,"edges":18,"triangles":16,"max_degree":7,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0005975","count":3},{"id":"GO:0019262","count":3},{"id":"GO:0043419","count":3},{"id":"GO:0019557","count":3},{"id":"GO:0006146","count":3}]},{"hash":"1724265969110296540","title":"Glycosylation and Developmental Patterning","description":"This cluster\u2019s top GO terms cluster around protein N-linked glycosylation and carbohydrate metabolism, alongside several developmental and patterning terms across different tissues (ovarian follicle development, intestinal epithelial development, hypochord development, imaginal disc-derived leg segmentation, and compartment pattern specification). The combination suggests a thematic link between glycoprotein processing and broader developmental regulation, though some terms (like immune differentiation) indicate broader, less cohesive functions. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":3},{"id":"GO:0006487","count":3},{"id":"GO:0001541","count":2},{"id":"GO:0060576","count":2},{"id":"GO:1902367","count":2}]},{"hash":"897952053340788980","title":"Unknown","description":"The GO terms span diverse themes: organ development (kidney, pharyngeal system), neural processes (axon diameter, olfactory learning), metabolism (creatinine and calcitonin), signaling/trafficking (cytokine response, receptor recycling), and ion homeostasis, with no single unifying function. Therefore no coherent cluster label can be assigned. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:0071345","count":2},{"id":"GO:0090399","count":2},{"id":"GO:0046449","count":2},{"id":"GO:0008355","count":2}]},{"hash":"340189666095096439","title":"Immune activation and cytokine signaling","description":"Top GO terms indicate strong immune-related activity, including immune response, LPS cellular response, T cell cytotoxicity, interferon production, GM-CSF production, and STAT phosphorylation, pointing to an immune signaling module. A few terms ( xenobiotic response, phosphatidylcholine biosynthesis) are present but appear ancillary to the core immune theme.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0048662","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0001916","count":2}]},{"hash":"130923254260575144","title":"Unknown","description":"The GO terms span very different biology with no single theme: cell cycle/DNA damage regulation and development terms coexist with bacterial biosynthetic pathways (enterobactin, quinolinate, fatty acids) and even obsolete annotations. Because there is no coherent functional thread tying these eight proteins together, a specific descriptive label is not supported.","confidence":"","size":8,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048146","count":2},{"id":"GO:0010389","count":2},{"id":"GO:2000001","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0001701","count":2}]},{"hash":"1246561788007764690","title":"Cardiac muscle contraction and sarcomere organization","description":"The highest-frequency terms are centered on cardiac muscle contraction (GO:0060048), sarcomere organization (GO:0045214), and regulation of heart rate by epinephrine (GO:0003065), indicating a core theme of sarcomere assembly and cardiac contractile function. Additional terms touch on vascular smooth muscle regulation and developmental processes, plus some neural-related terms that may be secondary annotations. Overall, the cluster is best described by cardiac muscle structure and contractile regulation, with supporting regulatory and developmental associations.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":8},{"id":"GO:0060298","count":8},{"id":"GO:0045214","count":8},{"id":"GO:0003065","count":8},{"id":"GO:1904753","count":8}]},{"hash":"1642938824698091121","title":"Plant gametogenesis and meiotic DNA repair","description":"The cluster is dominated by GO terms for plant gametophyte development (embryo sac and pollen development) alongside meiotic processes (reciprocal meiotic recombination and double-strand break repair), pointing to proteins involved in meiosis and gametophyte formation. Additional terms about DNA-templated transcription and chromatin localization to chromatin suggest chromatin- and transcription-level regulation during these processes, with some peripheral signals related to chromatin modification. Overall, the set aligns well with a theme of meiosis-focused chromatin regulation in plant gametogenesis.","confidence":"High","size":8,"edges":24,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009553","count":5},{"id":"GO:0007131","count":5},{"id":"GO:0006302","count":5},{"id":"GO:0009555","count":5},{"id":"GO:0045892","count":2}]},{"hash":"1475916909425265638","title":"Neural development and sensory organ formation","description":"This cluster is dominated by terms related to nervous system development, neural guidance, synaptic transmission, and sensory mechanisms (labyrinthine layer development and equilibrioception). The presence of serotonergic neuron axon guidance and cadherin-mediated adhesion supports neural connectivity and tissue organization in sensory structures. A single immune-related term appears as an outlier, but the primary theme centers on neural development and sensory system formation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0060711","count":3},{"id":"GO:0060989","count":3},{"id":"GO:0036515","count":3},{"id":"GO:0007268","count":3}]},{"hash":"1588458088031205060","title":"Chromatin organization and histone methylation","description":"This cluster centers on chromatin structure and histone modifications: H3K4 and H3K27 trimethylation, nucleosome assembly/positioning, heterochromatin organization, and localization to chromatin, all pointing to epigenetic regulation of chromatin state and nucleus architecture. A couple of peripheral terms (transcription regulation, antibiotic response) are present but do not define the core theme.","confidence":"High","size":8,"edges":23,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":7},{"id":"GO:0098532","count":7},{"id":"GO:0071169","count":7},{"id":"GO:0070828","count":7},{"id":"GO:0006334","count":7}]},{"hash":"680899388158676202","title":"Sensory Neuron Adhesion and Synapse Development","description":"The cluster is enriched for nervous system development, synapse assembly, neuron cell\u2013cell adhesion, serotonergic neuron axon guidance, and balance-related terms, suggesting a cohesive role in establishing neural circuits in sensory systems (including labyrinthine development) and chemical synaptic transmission.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0007158","count":8},{"id":"GO:0060711","count":6}]},{"hash":"654303585784516767","title":"Developmental signaling and cytoskeletal regulation","description":"The top GO terms point to roles in development (muscle and spinal cord) alongside signaling pathways (MyD88/TLR4, thrombin receptor) and cytoskeletal dynamics (filopodium assembly, microtubule movement, spindle orientation) and cell-cycle control. This suggests a broad cluster of proteins involved in developmentally linked signaling with cytoskeletal and mitotic regulation, though the connections are diverse and not tightly specific. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007527","count":3},{"id":"GO:0035660","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0070493","count":2}]},{"hash":"802614566814879219","title":"Metabolic redox signaling and DNA damage response","description":"The cluster combines metabolic processes (triglyceride/homeostasis, fatty acid oxidation, glucose response) with redox/oxidative stress pathways (ROS regulation, oxidant detoxification) and links to nutrient-sensing (TORC1) and DNA damage signaling (p53 mediator). These together point to a cohesive theme of metabolic and redox stress signaling intertwined with genome stability mechanisms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070328","count":2},{"id":"GO:1900182","count":2},{"id":"GO:0036091","count":2},{"id":"GO:1901031","count":2},{"id":"GO:1904262","count":2}]},{"hash":"313696998485310317","title":"NF-kB and ubiquitin-mediated antiviral signaling","description":"The cluster shows strong signals for positive regulation of canonical NF-kappaB signaling and K63-linked ubiquitination, with several terms tied to antiviral defense, suggesting a module centered on ubiquitin-dependent signaling that activates NF-\u03baB in response to viral threats. Additional terms touch on mitochondrial dynamics and apoptosis, which often intersect immune signaling under stress. A few developmental terms appear less connected and may reflect broader cellular processes or annotation noise. Overall, the group seems to reflect ubiquitin-regulated immune signaling, particularly NF-\u03baB\u2013mediated antiviral responses.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0010637","count":2},{"id":"GO:1901896","count":2},{"id":"GO:0070534","count":2}]},{"hash":"710765292185436719","title":"Unknown","description":"The GO terms are highly diverse, including bone-related regulation, immune signaling, cholesterol response, nail development, chemotaxis, Rho signaling, host-symbiont interaction, and apoptotic regulation. There is no single dominant shared function linking the proteins, so a cohesive label cannot be assigned.","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033690","count":2},{"id":"GO:0002430","count":1},{"id":"GO:0071397","count":1},{"id":"GO:0035878","count":1},{"id":"GO:0050919","count":1}]},{"hash":"866788699961464253","title":"Unknown","description":"The top GO terms span disparate processes across different organisms and biological contexts, including proteasomal degradation regulation, chromatin remodeling, muscle growth and homeostasis, leukocyte chemotaxis, autophagy regulation, sporulation membrane formation, seed dormancy maintenance, pronucleus assembly, and peptidyl-tyrosine dephosphorylation. The lack of a unifying function and the absence of network connectivity (Edges 0) suggest there is no coherent theme tying these proteins together. Therefore Unknown, with confidence None.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":3},{"id":"GO:0045815","count":2},{"id":"GO:0048633","count":2},{"id":"GO:0002233","count":2},{"id":"GO:1902902","count":2}]},{"hash":"1158773307312402628","title":"Ubiquitin-Dependent Signaling and Protein Degradation","description":"The cluster centers on ubiquitination processes\u2014multiple linkage types (K63, K6, linear) and autoubiquitination\u2014as well as ubiquitin-dependent degradation pathways (ERAD) and protein catabolism, with links to TNF signaling and NF-\u03baB activation, necroptosis regulation, and chromatin-related ubiquitination. This suggests a cohesive module of ubiquitin-mediated protein turnover that modulates inflammatory signaling and cell fate decisions.","confidence":"High","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:1903265","count":8},{"id":"GO:0042787","count":7},{"id":"GO:0070534","count":6},{"id":"GO:0060546","count":6},{"id":"GO:0043123","count":6}]},{"hash":"1960809590400276107","title":"Ventricular Action Potentials and Ion Channel Regulation","description":"GO terms point to cardiac electrophysiology, with emphasis on ventricular action potentials, heart rate regulation, and ion-channel activity (Ca2+ and K+), indicating proteins involved in membrane repolarization and action potential shaping. The xenobiotic response term is present but secondary to the core cardiac ion-channel\u2013based theme.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0086091","count":2},{"id":"GO:1902159","count":2},{"id":"GO:1905025","count":2},{"id":"GO:0086005","count":2}]},{"hash":"105204171061078214","title":"Transcription Regulation and Chromatin Modification","description":"The GO terms show a clear emphasis on DNA-templated transcription and regulation of transcription by RNA polymerase II, with an additional chromatin modification signal (H3K27 methylation), suggesting the cluster centers on gene expression control and chromatin state, despite some divergent terms related to differentiation and signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007289","count":2}]},{"hash":"1546604527722551131","title":"ER-Golgi vesicle trafficking and SNARE fusion","description":"This cluster centers on vesicle trafficking between the ER and Golgi and SNARE-mediated membrane fusion, as reflected by GO terms for Golgi organization, SNARE complex assembly, exocytic insertion at the postsynaptic membrane, and synaptic vesicle fusion. Additional terms on ER-Golgi retrograde transport and ER membrane fusion reinforce a cohesive theme of vesicle trafficking and fusion between these organelles, with related regulation of organelle assembly and ER organization supporting the trafficking machinery.","confidence":"High","size":8,"edges":22,"triangles":28,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1903358","count":4},{"id":"GO:0035493","count":4},{"id":"GO:0098967","count":4},{"id":"GO:0031629","count":4},{"id":"GO:0048279","count":3}]},{"hash":"537076591162122480","title":"Cellular stress and xenobiotic response","description":"The top GO terms cluster around responses to stressors and external stimuli, including hypoxia, xenobiotic and ethanol responses, and extrinsic apoptotic signaling, plus related signaling regulation. While terms like visual perception and lung epithelial differentiation are outliers, the dominant pattern points to cellular stress signaling and responses to foreign compounds rather than a single specialized function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0007601","count":2}]},{"hash":"98073192586654324","title":"Unknown","description":"The terms span mitochondrial metabolism (TCA cycle, mitochondrion inheritance, nitric oxide biosynthesis), lipid and sphingolipid pathways (unsaturated fatty acid biosynthesis, sphingolipid metabolism, ergosterol regulation), and even tissue-specific differentiation (CNS myelin maintenance, sebaceous gland differentiation) as well as nitrate assimilation. There is no coherent, single biological theme linking these terms, so an Unknown label is appropriate.","confidence":"","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0006675","count":1}]},{"hash":"1302912706475092532","title":"Immune signaling and phagocytosis regulation","description":"The top GO terms cluster around immune receptor signaling (B cell receptor, Fc-epsilon receptor), phagocytosis processes (recognition and engulfment) and regulation of immune cell activity (macrophage activation, cytotoxic T cell degranulation), with additional cell adhesion roles. The presence of spermatid development appears incidental but does not drive the main theme. Thus, the cluster seems best described as immune signaling and phagocytosis regulation.","confidence":"Medium","size":8,"edges":21,"triangles":27,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007286","count":5},{"id":"GO:0032516","count":5},{"id":"GO:0038095","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0043318","count":5}]},{"hash":"1612060671741355399","title":"Hormone Secretion and Muscle Contraction Regulation","description":"The top GO terms center on intestinal smooth muscle contraction, regulation of heart contraction by catecholamines, and hormone secretion, pointing to a core theme of physiological regulation through contractile activity and endocrine signaling. While there are additional immune and endothelial references, the strongest, most coherent signal is muscular and hormonal control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014827","count":8},{"id":"GO:0070963","count":8},{"id":"GO:0046879","count":8},{"id":"GO:0001997","count":8},{"id":"GO:0071417","count":8}]},{"hash":"732603810676909494","title":"Neuronal Ion Transport and Synaptic Signaling","description":"Based on the dominant GO terms, this cluster centers on potassium and sodium ion transmembrane transport, nerve impulse transmission, excitatory postsynaptic potentials, and membrane hyperpolarization, indicating roles in neuronal excitability and synaptic signaling. Additional terms point to membrane-cortex organization and trafficking, suggesting supporting membrane dynamics and cytoskeletal involvement relevant to synapses. Overall, the cluster reflects neuronal ion transport and synaptic signaling with related membrane processes.","confidence":"High","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0019226","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0060079","count":2}]},{"hash":"2153589799751075531","title":"Collagen-driven connective tissue development","description":"The cluster is enriched in collagen biosynthesis, collagen-activated signaling, and development terms for tendon, skin, and endochondral ossification, pointing to extracellular matrix production and connective tissue formation; peripheral terms like complement activation and aldosterone secretion are present but not central, so the label captures the main theme.","confidence":"Medium","size":8,"edges":15,"triangles":10,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000534","count":8},{"id":"GO:0035989","count":8},{"id":"GO:0001958","count":8},{"id":"GO:0043588","count":8},{"id":"GO:0035848","count":8}]},{"hash":"1993278494526912357","title":"Inflammation-driven endothelial adhesion and ECM remodeling","description":"Many GO terms point to immune activation and vascular remodeling: defense against Gram-positive bacteria, leukocyte tethering/rolling, endothelial barrier regulation, and cell adhesion. Plasminogen activation and collagen biosynthesis indicate extracellular matrix remodeling, while hypoxia response and growth-related terms reflect tissue remodeling under inflammatory conditions. Together, these suggest a cluster of proteins involved in inflammation-driven leukocyte recruitment and ECM-endothelium remodeling.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0051260","count":2}]},{"hash":"1188864339606598231","title":"Forebrain development and neural signaling","description":"The top GO terms center on neural development (forebrain development, neuron apoptotic process) along with growth signaling, transcriptional regulation, and cytoskeletal remodeling (TGF-beta response, serine/threonine kinase activity, DNA-templated transcription, and Arp2/3-mediated actin nucleation), suggesting a cluster of proteins involved in neural development and its signaling/cytoskeletal programs.","confidence":"Medium","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0071902","count":6},{"id":"GO:0030900","count":6},{"id":"GO:0060733","count":5}]},{"hash":"1717144134454102248","title":"Unknown","description":"The GO terms are too disparate\u2014neuron-related processes (synapse localization, axon extension) coexist with centrosome function, meiotic DSB formation/repair, and apoptosis signaling, plus some obsolete terms\u2014leaving no clear single theme to name the cluster with confidence.","confidence":"","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":6},{"id":"GO:0006349","count":6},{"id":"GO:0060484","count":6},{"id":"GO:1903343","count":6},{"id":"GO:2001033","count":6}]},{"hash":"1612828750582016116","title":"Oxidative stress response and signaling","description":"The cluster\u2019s top GO terms heavily feature cellular response to hydrogen peroxide, along with signaling-related activities (GTPase regulation, protein oligomerization) and muscle-related development (myotube formation). This points to a theme of oxidative-stress\u2013linked signaling that can influence muscle differentiation, though the presence of unrelated terms (plant defense signaling, odontogenesis) suggests some heterogeneity.","confidence":"Medium","size":7,"edges":19,"triangles":25,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0014904","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0010956","count":2},{"id":"GO:0032464","count":2}]},{"hash":"1807703893113898514","title":"Meiotic DSB Formation and Centrosome Duplication","description":"This cluster's strongest signals are meiotic processes and cell-cycle control: meiotic cell cycle, positive regulation of meiotic DNA double-strand break formation, and negative regulation of DSB repair via nonhomologous end joining point to coordination of double-strand breaks during meiosis and their processing. The inclusion of centrosome duplication further supports a role in chromosomal segregation and cell-cycle progression. A few terms (e.g., synapse localization and certain development terms) appear as outliers or less directly connected to meiosis, likely reflecting broader or indirect annotations in the dataset.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051321","count":4},{"id":"GO:0035418","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0060484","count":3},{"id":"GO:1903343","count":3}]},{"hash":"879413159546979001","title":"Immunological synapse and innate immune signaling","description":"This cluster is enriched for GO terms related to immunological synapse formation, innate immune response, and apoptotic cell clearance, indicating coordinated immune signaling at cell contacts; while a couple terms touch on neuronal synapses and receptor clustering, the dominant theme is immune-synapse biology.","confidence":"High","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001771","count":7},{"id":"GO:0043277","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0042512","count":6},{"id":"GO:0035418","count":6}]},{"hash":"1079611828728677670","title":"Olfactory system development and neuron migration","description":"This cluster centers on neural development in the olfactory system, with multiple GO terms for olfactory nerve formation, neuron migration (including interneuron migration in the olfactory bulb) and synapse localization. The presence of mesenchymal-epithelial signaling and other morphogenesis terms suggests broader tissue developmental roles, but the strongest signal ties to olfactory system development and neuronal migration.","confidence":"High","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035418","count":7},{"id":"GO:0090272","count":7},{"id":"GO:0060484","count":7},{"id":"GO:0060665","count":7},{"id":"GO:0021628","count":7}]},{"hash":"564867307518254548","title":"Ubiquitin-Mediated Regulation of Signaling and Cell Cycle","description":"The top GO terms point to ubiquitination (protein ubiquitination) as a central activity, with links to regulation of the cell cycle and various signaling pathways (JNK cascade and RIG-I signaling). Although some terms are obsolete and others touch on chromatin modification or dosage compensation, the common theme is ubiquitin-dependent control of protein turnover and signaling that impacts cell cycle processes. This suggests a cohesive cluster focused on ubiquitin-mediated regulatory mechanisms.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033151","count":7},{"id":"GO:0046328","count":7},{"id":"GO:0070512","count":7},{"id":"GO:1900095","count":7},{"id":"GO:0009048","count":7}]},{"hash":"1595361378973706803","title":"Developmental gene regulation and stress signaling","description":"This cluster centers on transcriptional control and signaling involved in development and stress responses: DNA-templated transcription, histone methylation, TGF-beta signaling, hypoxia response, GPCR pathways, and GTPase regulation, with reproductive and erythroid development also represented. A broad immune term appears but the dominant theme is regulatory and signaling functions linked to development and stress adaptation.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0014898","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0071456","count":3}]},{"hash":"1267665796447652982","title":"Protein quality control under oxidative and antibiotic stress","description":"The cluster highlights protein repair and modification (GO:0030091, GO:0006464) together with responses to oxidative stress (GO:0006979) and antibiotic exposure/catabolism (GO:0046677, GO:0017001). This pattern suggests a theme of maintaining and remodeling proteins to cope with stress and detoxification, rather than a single metabolic pathway. Some outliers (glucose homeostasis, ovarian ovulation) may reflect broader multifunctional annotations or annotation noise, but the core signals still point to stress-induced protein maintenance.","confidence":"Medium","size":7,"edges":9,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":3},{"id":"GO:0001542","count":2},{"id":"GO:0042593","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030091","count":2}]},{"hash":"646504358098157612","title":"Central carbon metabolism & biosynthesis","description":"GO terms point to core metabolism and biosynthesis: glucose metabolic process, pentose-phosphate shunt, TCA cycle, glyceraldehyde-3-phosphate biosynthesis, xylulose biosynthetic process, thiamine biosynthesis, and terpenoid biosynthetic process. A pair of terms for cell division and cellular response to paraquat are present but less representative. Overall, the cluster seems to group proteins involved in central carbon metabolism and biosynthetic pathways.","confidence":"High","size":7,"edges":13,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0072756","count":1},{"id":"GO:0005999","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0006006","count":1}]},{"hash":"988049012413702012","title":"RNA transcription and processing machinery","description":"The cluster centers on broad transcriptional activity across RNA polymerases I\u2013III (initiation, elongation, termination) and RNA-templated transcription, with supporting terms for ribosomal RNA transcription and mRNA splicing. Together, these terms point to a cohesive set of proteins involved in transcription and subsequent RNA processing rather than a single specialized pathway.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0001172","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006360","count":2},{"id":"GO:0006386","count":2}]},{"hash":"472716538389562541","title":"Developmental Growth and Cytoskeletal Regulation","description":"The top GO terms largely point to multicellular development and growth, reinforced by cytoskeletal remodeling via Arp2/3 and signaling through GTPase regulation, with supporting roles in transcription and ubiquitination. Although a few terms are obsolete, the recurring themes of development, cell signaling, actin nucleation, and cell cycle-related processes suggest a cluster of proteins involved in developmental growth and cytoskeleton regulation.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0043966","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0060733","count":3}]},{"hash":"1096228770358014668","title":"Cell cycle and cytoskeletal regulation","description":"Top GO terms cluster around cell proliferation and division (DNA-templated transcription, cell population proliferation, mitotic sister chromatid segregation) and cytoskeletal dynamics (Arp2/3 complex\u2013mediated actin nucleation, positive regulation of GTPase activity). Ubiquitination (K11-linked) and GCN2 signaling suggest protein turnover and stress-responsive regulation during growth, while retina development appears as a less central, tissue-specific annotation. Overall, the cluster seems driven by proliferative control and cytoskeletal regulation rather than a single specialized process.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0008283","count":4}]},{"hash":"1361941008559828676","title":"Vacuolar Targeting and Endosomal Trafficking","description":"This cluster centers on membrane trafficking and organelle interactions, highlighted by cytoplasm-to-vacuole targeting via the Cvt pathway, vacuole-ER tethering, and regulation of endosome transport, all linked by phosphatidylinositol-mediated signaling. While there are a few neuronal signaling terms (tachykinin signaling, synaptic plasticity) that seem less directly connected, the strongest pattern is intracellular trafficking and membrane dynamics during organelle coordination and morphogenesis. ","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032258","count":4},{"id":"GO:0000902","count":3},{"id":"GO:0036089","count":3},{"id":"GO:0031914","count":3},{"id":"GO:0007217","count":3}]},{"hash":"2034827701174887958","title":"Transcriptional Regulation and RNA Processing","description":"This cluster is dominated by terms related to transcriptional control (DNA-templated transcription and negative regulation of transcription by RNA polymerase II) and RNA processing (mRNA splicing via spliceosome). The presence of development-related terms and obsolete GO entries likely reflects broader co-regulation contexts, but the core theme centers on gene expression regulation at the transcription and RNA processing levels.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0010729","count":5},{"id":"GO:0070895","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0046022","count":5}]},{"hash":"1979735392154025747","title":"Mammary gland development and lactation","description":"The top GO terms are dominated by mammary-specific biology (mammary gland alveolus development; lactation; mammary gland epithelial cell proliferation) and related hormonal response (leptin), suggesting a cluster centered on mammary tissue development and lactation. While there are additional terms for general transcription and cell-cycle processes (e.g., DNA-templated transcription, CDK activity regulation, meiosis-related events), they appear secondary to the mammary-focused theme.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060749","count":2},{"id":"GO:0007595","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007129","count":2},{"id":"GO:0044321","count":2}]},{"hash":"662939796785949553","title":"Vesicle Trafficking and Cell Polarity","description":"The cluster is dominated by vesicle trafficking and membrane organization (regulation of vesicle size, synaptic vesicle exocytosis, phagocytosis signaling) and by cell polarity processes (epidermis morphogenesis, maintenance of polarity). These shared themes point to a functional group centered on vesicle dynamics driving morphogenesis and signaling in epithelial and neural contexts; androgen signaling may modulate related gene programs.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":7},{"id":"GO:0030011","count":7},{"id":"GO:0097494","count":7},{"id":"GO:0008283","count":7},{"id":"GO:1905451","count":7}]},{"hash":"1623560463064593538","title":"Differentiation-Linked Transcription Regulation","description":"The cluster combines transcription-related terms (RNA polymerase II preinitiation complex assembly; DNA-templated transcription; negative regulation of transcription) with differentiation-related terms (granulocyte differentiation; intestinal epithelial cell differentiation; blood circulation), suggesting proteins that coordinate gene expression during cell differentiation across immune and epithelial lineages. Some terms are obsolete, but the core theme is differentiation-associated transcription regulation.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":3},{"id":"GO:0030851","count":3},{"id":"GO:0008015","count":3},{"id":"GO:1902368","count":2},{"id":"GO:0036124","count":2}]},{"hash":"1832899423447223065","title":"Epithelial Polarity and Vesicle Trafficking","description":"The cluster\u2019s GO terms cluster around epidermis morphogenesis and maintenance of cell polarity, with vesicle size regulation and exocytosis also highlighted, pointing to a cohesive role in epithelial cell organization and vesicle trafficking. While mitotic spindle assembly and proliferation appear, the dominant theme centers on polarity and vesicle-mediated processes, suggesting a function in epithelial cell architecture and secretory trafficking. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:0048730","count":6},{"id":"GO:0030011","count":6},{"id":"GO:0097494","count":6},{"id":"GO:0008283","count":6}]},{"hash":"444841215285900282","title":"Multi-lineage differentiation programs","description":"This cluster's top GO terms are all about differentiation across diverse tissues and lineages (stomach neuroendocrine, pancreatic endocrine, mast cells, myoblast/muscle, hemangioblast/vascular, adrenal chromaffin, heart valve development, neural retina, renal fibroblasts). The common theme is developmental differentiation across multiple lineages rather than a single tissue, so a broad label of multi-lineage differentiation is most representative.","confidence":"High","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061106","count":7},{"id":"GO:0003329","count":7},{"id":"GO:0060375","count":7},{"id":"GO:1901741","count":7},{"id":"GO:0060217","count":7}]},{"hash":"1907797742504713203","title":"Unknown","description":"The top GO terms cover transcription, DNA repair regulation, multiple stress responses (arsenite, cadmium), various developmental processes (lens, Schwann cells), neuronal signaling, and distinct cell cycle transitions, with no single cohesive function tying the proteins. Hence there isn\u2019t a clear, representative label for this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:2001033","count":6},{"id":"GO:1903936","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0002088","count":6}]},{"hash":"339401006862329653","title":"Neural development and synaptic morphogenesis","description":"The GO terms center on nervous system development, dendrite morphogenesis, hippocampus development, axon extension, and synaptic signaling via ephrin and Wnt pathways, alongside excitatory synaptic activity. This pattern indicates proteins functioning together in neuronal development and the shaping of synaptic connections, especially in the hippocampus.","confidence":"High","size":7,"edges":17,"triangles":21,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":7},{"id":"GO:0045773","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0048013","count":7},{"id":"GO:0007399","count":7}]},{"hash":"602820306856052093","title":"Neural lipid metabolism and microtubule dynamics","description":"The top GO terms center on lipid metabolism (positive regulation of fatty acid biosynthesis, carnitine shuttle, triglyceride biosynthesis regulation) and microtubule regulation (negative regulation of microtubule depolymerization), with supporting neural development/learning terms (olfactory learning, neural plate and medulla oblongata development, cortical microtubule localization). This points to a theme where neuronal lipid metabolism intersects with cytoskeletal control during neural development and function.","confidence":"Medium","size":7,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":4},{"id":"GO:0045723","count":3},{"id":"GO:0006853","count":3},{"id":"GO:0010866","count":3},{"id":"GO:0051351","count":3}]},{"hash":"1898631090162056166","title":"Endochondral ossification and skeletal morphogenesis","description":"This cluster shows strong enrichment for skeletal system development, endochondral ossification, chondroblast differentiation, and facial morphogenesis (roof of mouth development, face morphogenesis), indicating a theme of cartilage-to-bone formation and skeletal shaping. ","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0007313","count":3},{"id":"GO:0030903","count":3},{"id":"GO:0060272","count":3}]},{"hash":"812793616969838542","title":"Hypoxia-Driven Angiogenesis and Cytoskeletal Remodeling","description":"This cluster centers on a coordinated response to low oxygen: promoting angiogenesis and remodeling cell\u2013cell junctions and the actin cytoskeleton, with accompanying regulation of protein synthesis and growth signaling (Akt). The combination of hypoxia response, angiogenesis, adherens junction organization, and actin dynamics, along with translation and rRNA transcription control, supports a unified theme of hypoxia-driven vascular and cytoskeletal adaptation.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0048662","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0009303","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0034332","count":3}]},{"hash":"1624145851719209859","title":"Neuroendocrine signaling and secretion","description":"The top GO terms cluster around neuropeptide signaling, endocrine hormone secretion (prolactin, insulin), and adenohypophysis development, with calcium import regulation supporting secretion. While cristae formation relates to mitochondria, the dominant theme is neuroendocrine signaling and pituitary hormone secretion, suggesting these proteins function in neuroendocrine processes. ","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":2},{"id":"GO:0042407","count":2},{"id":"GO:0051571","count":1},{"id":"GO:0070459","count":1},{"id":"GO:0090280","count":1}]},{"hash":"170220384181283769","title":"Neuronal development and synaptic localization","description":"Based on the top GO terms, the cluster is driven by processes related to targeting proteins to the synapse and promoting axon extension, which point to roles in neural development and synaptic connectivity. Some terms about apoptosis, cell cycle, or DNA repair may reflect broader cellular functions of the proteins but do not define a cohesive alternative theme; the dominant signal remains neuronal differentiation and synaptic localization.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":7},{"id":"GO:0006349","count":7},{"id":"GO:0060484","count":7},{"id":"GO:1903343","count":7},{"id":"GO:2001033","count":7}]},{"hash":"1669315061423415744","title":"TGF-\u03b2\u2013Driven Muscle Remodeling and Immune Signaling","description":"This cluster is characterized by strong enrichment for transforming growth factor beta receptor signaling, regulation of collagen biosynthesis, and myoblast fusion, which point to muscle development and extracellular matrix remodeling. The concurrent immune-related terms (granzyme A production, eosinophil migration, dexamethasone response) suggest concurrent immune modulation. Taken together, the data support a theme of TGF-\u03b2\u2013mediated muscle remodeling with immune signaling. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:2000513","count":7},{"id":"GO:0045653","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0008344","count":7},{"id":"GO:2000418","count":7}]},{"hash":"676100823411951414","title":"TLR-Mediated Innate Immunity and LPS Detection","description":"Based on the top GO terms, the strongest signals are Toll-like receptor signaling (TLR8/9), detection of lipopolysaccharide, and defense against Gram-negative bacteria, pointing to an innate immune sensing cluster. A few terms touch on neuronal or extracellular matrix processes, but they are less represented, so the core theme remains TLR-driven antibacterial immunity.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":7},{"id":"GO:0050929","count":7},{"id":"GO:0050829","count":7},{"id":"GO:0034162","count":7},{"id":"GO:0032497","count":7}]},{"hash":"1738384539131731989","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by terms related to translation and ribosome production, including translation (GO:0006412), ribosome biogenesis (GO:0042254), and subunit assembly and rRNA maturation terms, indicating proteins involved in ribosome assembly and protein synthesis. A minor outlier about interleukin-4 response does not override the central theme.","confidence":"High","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0090070","count":1}]},{"hash":"1457448889029371858","title":"Immune cell development and signaling","description":"The top GO terms converge on immune-related processes: NK T cell differentiation, interleukin-4 production, hematopoiesis, and responses to GM-CSF and prostaglandin, plus signaling pathways such as PI3K/AKT and GPCR desensitization with JNK cascade regulation. While apoptosis and placenta development appear, the dominant theme is immune cell development and signaling, often linked to cytokine responses and pathway modulation in hematopoietic lineages.","confidence":"High","size":7,"edges":7,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097194","count":7},{"id":"GO:0001893","count":7},{"id":"GO:0032633","count":7},{"id":"GO:0001865","count":7},{"id":"GO:0043491","count":7}]},{"hash":"1789764731233593295","title":"ER-Associated Lipid Synthesis and Membrane Protein Processing","description":"The GO terms cluster around lipid biosynthesis (ceramide, GPI anchors) and endoplasmic reticulum organization, plus protein processing and proteolysis in membrane contexts (amyloid-beta formation, membrane protein intracellular domain proteolysis). This points to a theme of lipid-modified membrane protein maturation and ER-related lipid metabolism, rather than a single narrow function. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046513","count":1},{"id":"GO:0007029","count":1},{"id":"GO:1904222","count":1},{"id":"GO:0006506","count":1},{"id":"GO:0031648","count":1}]},{"hash":"1759290499083749923","title":"Immune- and apoptotic signaling","description":"The GO terms show strong representation of apoptotic pathways (extrinsic, intrinsic, necroptotic) along with immune-related processes (B cell apoptosis, isotype switching, inflammatory response, IL-13 regulation), suggesting a cluster centered on programmed cell death within immune signaling contexts. A noisy odontogenesis term appears ancillary rather than defining.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0097192","count":7},{"id":"GO:0009786","count":7},{"id":"GO:0097527","count":7},{"id":"GO:0032464","count":7},{"id":"GO:0001783","count":7}]},{"hash":"494027219061776825","title":"Neuroendocrine-immune stimulus signaling","description":"This cluster combines GO terms related to neuroendocrine signaling (dopamine metabolism, epinephrine response) with immune and inflammatory responses (monocyte differentiation, LPS response, xenobiotic stimulus) and transcriptional regulation, plus vascular and cardiac signaling outcomes. The common thread is signaling and transcriptional changes in response to diverse stimuli, spanning neuroendocrine cues and immune/xenobiotic challenges. Confidence: Medium.","confidence":"","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010161","count":3},{"id":"GO:0042053","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0043117","count":3}]},{"hash":"824810377164442869","title":"Nuclear transcription initiation and chromatin remodeling","description":"The cluster centers on transcription initiation at RNA polymerase II promoters and promoter clearance, paired with chromatin remodeling, and includes nuclear transport components such as NLS-mediated import, nuclear pore complex assembly, and ribosomal protein import. This combination suggests a coherent group of proteins involved in nuclear transcriptional regulation and chromatin dynamics, with ancillary roles in nuclear transport.","confidence":"High","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":2},{"id":"GO:0006367","count":2},{"id":"GO:0001111","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0060188","count":2}]},{"hash":"1137903162159471020","title":"Developmental Transcriptional Regulation and Stress Signaling","description":"The top GO terms point to transcriptional control (negative regulation of RNA Pol II), development (in utero embryonic development) and cell proliferation, plus stress and signaling connections (osmotic stress, JNK cascade regulation) and even V(D)J recombination. This mix suggests proteins that coordinate transcriptional regulation during development and integrate stress signaling, despite some older/obsolete annotations. ","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0006970","count":2},{"id":"GO:0033151","count":1}]},{"hash":"2160419946303144103","title":"DNA Replication and Genome Maintenance","description":"The strongest signals are DNA-templated DNA replication, sister chromatid cohesion, and UV-damage excision repair, pointing to genome maintenance and chromatin dynamics. Supporting terms like chaperone-mediated assembly and proteasome assembly suggest concurrent protein quality control during replication/repair, while a few terms hint at mitochondria and Golgi roles as peripheral functions. Overall, core theme centers on genome integrity rather than a single, narrow process.","confidence":"Medium","size":6,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":4},{"id":"GO:0051131","count":4},{"id":"GO:0016485","count":2},{"id":"GO:0048219","count":2},{"id":"GO:0070914","count":2}]},{"hash":"499554227334741485","title":"Light sensing with chromophore-binding proteins","description":"This cluster is centered on light perception and chromophore association: terms like red/far-red phototransduction, detection of visible light, and protein-tetrapyrrole/chromophore linkage dominate, with xenobiotic response as a secondary stress-related signal. The combination suggests proteins involved in photosensory or light-responsive pathways that rely on chromophore prosthetic groups.","confidence":"High","size":6,"edges":8,"triangles":3,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0009585","count":3},{"id":"GO:0018298","count":3},{"id":"GO:0017006","count":3},{"id":"GO:0006355","count":3}]},{"hash":"940465409634876154","title":"Mitotic spindle and microtubule dynamics","description":"Based on the top GO terms, the cluster centers on microtubule dynamics during cell division and related plant cell processes: plus-end and cytoplasmic microtubule depolymerization, spindle pole body separation, kinetochore attachment, and regulation of microtubule-based processes. The inclusion of chloroplast movement and cell plate cytokinesis further ties these functions to microtubule-driven intracellular organization, suggesting a cohesive theme of spindle and microtubule remodeling.","confidence":"High","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":2},{"id":"GO:0032487","count":2},{"id":"GO:0070462","count":2},{"id":"GO:0010938","count":2},{"id":"GO:0000073","count":2}]},{"hash":"96417140260777878","title":"Ubiquitin-Proteasome System","description":"This cluster is dominated by GO terms for protein polyubiquitination and ubiquitin-dependent proteasomal degradation, including ERAD and SCF-mediated proteolysis, indicating a core association with ubiquitin\u2013proteasome\u2013mediated protein turnover. Some linked terms on cell cycle regulation and histone modification may reflect downstream effects of degradation processes. Overall, the group appears to center on the ubiquitin-proteasome pathway.","confidence":"High","size":6,"edges":12,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0031146","count":3},{"id":"GO:0033151","count":3},{"id":"GO:0046328","count":3}]},{"hash":"3277188623151406","title":"Neuronal morphogenesis and synaptic signaling","description":"This cluster centers on neuron projection morphogenesis and AMPA receptor clustering, with regulation of JNK and Wnt pathways and GTPase activity, pointing to neuronal development and synaptic organization. Apoptosis and TGF-\u03b2 regulation terms may reflect broader cell fate and remodeling aspects but do not override the dominant neuronal morphogenesis/synaptic signaling theme.","confidence":"High","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0046328","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0048812","count":4}]},{"hash":"1278412213037612952","title":"Cell Cycle and Division","description":"The top GO terms are cell cycle and cell division, each appearing in four proteins, indicating a cohesive set of proteins involved in cell-cycle progression. Other terms (protein refolding, TGF-beta signaling, and heart morphogenesis) are present but less represented, so the primary theme of the cluster is cell-cycle biology.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:1901710","count":2},{"id":"GO:0042026","count":2},{"id":"GO:0007179","count":2}]},{"hash":"151528065085003983","title":"Epithelial Polarity and Vesicle Trafficking","description":"This cluster centers on processes that govern cell polarity and vesicle dynamics, notably epidermis morphogenesis, maintenance of cell polarity, and vesicle size/exocytosis regulation. While there are a few outliers related to signaling pathways (androgen receptor signaling, Fc receptor\u2013mediated phagocytosis), the dominant themes tie to epithelial cell organization and vesicle trafficking, supporting this label.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048730","count":6},{"id":"GO:0030011","count":6},{"id":"GO:0097494","count":6},{"id":"GO:0008283","count":6},{"id":"GO:1905451","count":6}]},{"hash":"446222677121638603","title":"Cerebellar neuron migration and architecture","description":"The most represented terms point to cerebellar structural organization (granular layer and Purkinje cell layer) together with microtubule-based processes (nuclear migration and vesicle transport), suggesting a cluster centered on cerebellar neuron arrangement and microtubule dynamics. Other terms such as apoptotic process and transcription appear but are secondary to this core theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0030473","count":4},{"id":"GO:0032487","count":3},{"id":"GO:0021685","count":3},{"id":"GO:0072383","count":3}]},{"hash":"480298494408609776","title":"Growth factor signaling and cell cycle/EMT regulation","description":"Many of the terms point to growth factor\u2013driven signaling (BMP, EGFR) that influences cell fate and proliferation, while others relate to cell cycle progression (G1/S transition, metaphase chromosome alignment) and EMT (epithelial to mesenchymal transition). The combination suggests a cluster whose function is to integrate signaling with proliferation and EMT/mitotic regulation. Therefore, the name Growth factor signaling and cell cycle/EMT regulation captures the core theme.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030509","count":1},{"id":"GO:0045104","count":1},{"id":"GO:0007173","count":1},{"id":"GO:0051310","count":1},{"id":"GO:1902808","count":1}]},{"hash":"1633271007414563450","title":"Actin Cytoskeleton Remodeling and Lamellipodium Formation","description":"The cluster is dominated by GO terms for actin dynamics\u2014filament polymerization, nucleation, barbed-end capping, and bundle assembly\u2014plus lamellipodium assembly and dendritic spine morphogenesis. This points to proteins that regulate actin polymerization and organization to drive membrane protrusions and cytoskeletal remodeling. A related term for vacuole inheritance is less central to actin remodeling but may reflect actin-dependent intracellular transport. Overall, this cluster represents actin cytoskeleton remodeling with lamellipodium-related processes.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":5},{"id":"GO:0051016","count":4},{"id":"GO:0045010","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0051017","count":3}]},{"hash":"1553717121740480947","title":"Growth factor signaling and actin remodeling","description":"These proteins appear to participate in signaling cascades driven by growth factors (PDGF, TGF-beta, retinoic acid) that regulate GTPase activity and actin filament polymerization, driving cellular responses such as migration and branching morphogenesis in mammary tissue. ERK/PI3K-related regulation and cytoskeletal remodeling together explain the cluster's GO terms, with a minor note on the bacterium entry term being less central.","confidence":"High","size":6,"edges":11,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0036120","count":3},{"id":"GO:0060444","count":3},{"id":"GO:0090630","count":3}]},{"hash":"1701279034961451447","title":"Rac-driven phagocytosis and cytoskeletal remodeling","description":"This cluster is dominated by GO terms for Rac protein signal transduction, phagocytosis/engulfment, and cytoskeletal rearrangement involved in phagocytosis, indicating a shared function in Rac-mediated cytoskeletal changes during uptake. Some immune signaling terms (e.g., B cell\u2013related processes) appear, but they do not override the core phagocytosis/cytoskeletal theme; a few outlier terms may reflect annotation noise.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0016601","count":5},{"id":"GO:0006911","count":4},{"id":"GO:0016042","count":4},{"id":"GO:0060097","count":4},{"id":"GO:0002322","count":4}]},{"hash":"991024145618470725","title":"Unknown","description":"The terms show a mix of neuronal-related processes (synapse localization, axon extension) with unrelated roles in centrosome duplication, meiotic DSB formation, and DNA repair, plus several obsolete annotations, suggesting there is no single coherent function tying these proteins together. ","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":6},{"id":"GO:0006349","count":6},{"id":"GO:0060484","count":6},{"id":"GO:1903343","count":6},{"id":"GO:2001033","count":6}]},{"hash":"845383270652655242","title":"Unknown","description":"The Top Terms are highly diverse, spanning lung differentiation, xenobiotic response, iron/heme metabolism, neural plasticity, reproduction, cell division, and calcium signaling, with no clear shared function or pathway. Given the small cluster size and lack of coherent theme, labeling as Unknown is most appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060487","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0033212","count":2},{"id":"GO:0042167","count":2},{"id":"GO:0048168","count":2}]},{"hash":"178429435363274319","title":"Dendritic Spine Development and Synaptic Signaling","description":"Converges on neuronal synapse formation and signaling: dendritic spine morphogenesis and protein localization to synapse indicate synaptic development; ERK1/2 cascade and PI3K/AKT signaling point to activity-dependent plasticity; behavioral response to cocaine hints at neural circuit involvement in learning/response to drugs; overall theme is synapse-focused development and signaling in neurons.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0060997","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0051897","count":6}]},{"hash":"789867795915927279","title":"Fatty acid and sphingolipid biosynthesis","description":"The top GO terms cluster around lipid production and modification, including fatty acid elongation, very long-chain fatty acid biosynthesis, sphingolipid biosynthetic process, and related steps (3-keto-sphinganine metabolism, mycolic acid biosynthesis, estrogen biosynthesis). This suggests a coherent theme of lipid biosynthesis/metabolism, especially fatty acids and sphingolipids, with some related tissue-context terms like retinal and lung development that can be influenced by lipid pathways.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0006666","count":6},{"id":"GO:0030497","count":6},{"id":"GO:0017000","count":6}]},{"hash":"1932378625649923814","title":"Diverse organic compound catabolism and detoxification","description":"The GO terms indicate catabolic processing of diverse substrates (cellulose, uracil, aromatics like phenylpropionates and stilbenes, halogenated compounds) through pathways such as beta-ketoadipate, together with cellular oxidant detoxification. This suggests a cluster of proteins specialized in environmental organic-substrate degradation and oxidative stress management.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":4},{"id":"GO:0042952","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0019260","count":3},{"id":"GO:0006212","count":3}]},{"hash":"309935346790531636","title":"Insulin signaling and glucose metabolism","description":"The proteins here show a clear enrichment for insulin receptor signaling, IGF receptor signaling, and glycogen biosynthesis regulation (GO:0008286, GO:0048009, GO:0045725), suggesting a metabolic signaling cluster centered on insulin/glucose metabolism. Additional developmental terms (forebrain and ventricular septum development) and other functions may reflect pleiotropy or broad annotations, but the strongest shared theme is insulin-mediated signaling and glycogen-related metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0048009","count":3},{"id":"GO:0010748","count":3}]},{"hash":"327589327289428988","title":"Embryonic development and organ morphogenesis","description":"The top GO terms are dominated by multicellular organism development and tissue- and organ-specific development (cerebral cortex, lens, thyroid gland, cranial skeleton), along with transcription-related and cell-cycle processing terms. This pattern suggests the proteins act as regulators coordinating development and morphogenesis across several tissues, with some involvement in transcriptional control and growth signaling. Confidence: Medium","confidence":"","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0048701","count":2}]},{"hash":"770426832040065685","title":"Immune activation and cell trafficking","description":"Based on the Top Terms, the proteins appear enriched for immune-related processes: gamma-delta T cell activation; monocyte extravasation; phagocytosis recognition; regulation of immunological synapse formation; and interleukin-10 production. A few terms related to growth factor signaling and development are present but only as single annotations, so the dominant theme is immune cell signaling and movement, suggesting these proteins function in immune activation and trafficking.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000521","count":1},{"id":"GO:0021785","count":1},{"id":"GO:0046629","count":1},{"id":"GO:0035696","count":1},{"id":"GO:0090080","count":1}]},{"hash":"290332653855610050","title":"Proteostasis and stress response","description":"The cluster centers on protein quality control and stress-related pathways: ubiquitination and proteasome assembly point to protein turnover; mitochondrial depolarization and extrinsic apoptotic signaling indicate cellular stress responses; ribosome biogenesis suggests links to protein synthesis, potentially adjusted during stress. The combination implies a cohesive theme of maintaining proteostasis under stress, with some added signaling ties to innate immunity. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051901","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0032088","count":2}]},{"hash":"892898639272971356","title":"Ubiquitin-Dependent Regulation of Signaling and Growth","description":"The top GO terms point to protein ubiquitination (autoubiquitination and K48-linked ubiquitination) and regulatory roles in signaling and growth-related pathways, including NF-kappaB, Toll-like receptor signaling, cell cycle, and Wnt receptor turnover. This suggests a common mechanism where ubiquitination modulates immune signaling and cell proliferation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0034121","count":2},{"id":"GO:0071157","count":2}]},{"hash":"2095523278711395744","title":"Unknown","description":"The GO terms span diverse developmental contexts (heart, megakaryocytes, oenocytes, tracheal system) and include inflammatory response and nuclear body organization, with no single cohesive function tying them together; thus no specific label can be reliably assigned.","confidence":"","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035157","count":2},{"id":"GO:0045653","count":2},{"id":"GO:0060233","count":2},{"id":"GO:0007429","count":2},{"id":"GO:0035855","count":2}]},{"hash":"1563951194018479953","title":"Unknown","description":"The top terms span very diverse processes across different organisms (bacterial cobalamin biosynthesis, plant lignin and coumarin biosynthesis, animal auditory development, neurotransmitter metabolism, transcription, and methylation). There is no single cohesive function linking these terms, so a unified label is not reliable.","confidence":"","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0009809","count":2},{"id":"GO:0060117","count":2}]},{"hash":"631241258901070295","title":"Core cellular growth and development signals","description":"The top GO terms cover mitosis, actin cytoskeleton remodeling, transcription, ubiquitination, and developmental processes (gastrulation, neuronal apoptosis), indicating broad regulation of cell growth, division, gene expression, and differentiation rather than a single narrow function.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060733","count":1},{"id":"GO:0000070","count":1},{"id":"GO:1905705","count":1},{"id":"GO:0034314","count":1},{"id":"GO:0006351","count":1}]},{"hash":"1833784450946071869","title":"Neuronal signaling and migration","description":"This cluster is dominated by GO terms about dopamine receptor signaling via adenylate cyclase and G-protein cycling, neuronal electrical responsiveness, interneuron migration to the cortex, and regulation of dendrite development, which together point to neuronal signaling and development. Some terms (ABA signaling, hepatocyte apoptosis, skeletal development) are peripheral or cross-species, but the core themes align with neurons.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007191","count":6},{"id":"GO:0031684","count":6},{"id":"GO:0003380","count":6},{"id":"GO:0021830","count":5},{"id":"GO:0071257","count":5}]},{"hash":"707612847044014333","title":"Glycinergic Synaptic Transmission & Glycine Transport","description":"The top GO terms are dominated by glycinergic synaptic transmission and glycine transport/import/export, including glycine secretion and glycine import across membranes. This points to a cohesive theme of glycine-mediated neurotransmission and glycine handling in the nervous system, with some brain development context that may reflect related neural tissue processes. Confidence: High","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060092","count":4},{"id":"GO:0051583","count":4},{"id":"GO:0042066","count":4},{"id":"GO:0021794","count":4},{"id":"GO:0015824","count":4}]},{"hash":"34313508948366183","title":"Eicosanoid biosynthesis and T cell regulation","description":"The cluster shows enrichment for leukotriene biosynthesis, arachidonic acid metabolism, and various lipid remodeling processes (phosphatidic acid, phosphatidylinositol, phosphatidylcholine, and phospholipase activity), together with immune-regulatory terms such as inhibition of T cell proliferation and regulatory T cell differentiation, and antibacterial humoral response. This points to a cohesive theme of lipid mediator (eicosanoid) production driving immune signaling and modulation.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019370","count":4},{"id":"GO:0042130","count":4},{"id":"GO:0006654","count":4},{"id":"GO:0010884","count":4},{"id":"GO:0019731","count":4}]},{"hash":"1095938860619829774","title":"Neural Signaling and Mitochondrial Transport","description":"The cluster centers on neural processes (synaptic transmission, learning, fear response) and mitochondrial ion handling (calcium import into mitochondrion, mitochondrial matrix protein import, monoatomic ion transport and related transmembrane transport), with a note on ROS regulation. Ancillary terms like cilium assembly and fin regeneration appear less central, but do not override the core theme of neural signaling linked to mitochondrial ion homeostasis.","confidence":"Medium","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006820","count":3},{"id":"GO:0036444","count":3},{"id":"GO:0007270","count":3},{"id":"GO:1902017","count":3},{"id":"GO:0031101","count":3}]},{"hash":"1867762306009863101","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around broad developmental processes across multiple tissues (pronephros and endoderm development; neural crest formation; neural tube patterning; optic nerve and antennal morphogenesis). The inclusion of DNA-templated transcription supports a general regulatory role in embryogenesis, rather than a single molecular function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0048800","count":5},{"id":"GO:0043367","count":5},{"id":"GO:2000594","count":5},{"id":"GO:0039003","count":5}]},{"hash":"566978936724330864","title":"Complement and Phagocyte Immunity","description":"The top GO terms center on innate immune defense: complement activation (lectin pathway), Fc-gamma receptor signaling, and phagocytosis, plus responses to fungal origin and inflammatory signaling like arachidonic acid secretion and cell adhesion molecule production. Platelet activation and lymphatic involvement further tie to inflammation and immune cell trafficking, supporting a cohesive immune/inflammatory cluster.","confidence":"High","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0090238","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0071226","count":4},{"id":"GO:0036303","count":4}]},{"hash":"692589531870860879","title":"Mitotic progression and ubiquitin-mediated proteolysis","description":"Based on the top GO terms, the cluster is driven by cell division and mitotic transitions (cell division; metaphase/anaphase transition) and by ubiquitin-related proteolysis (K11-linked ubiquitination; ubiquitin-dependent protein catabolic process; ERAD), suggesting involvement in mitotic control via targeted protein degradation. While terms like snoRNP assembly and interferon response appear, they are less central to the core theme. Therefore, the label reflects the dominant pattern of mitosis linked to the ubiquitin-proteasome system.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000492","count":3},{"id":"GO:0071357","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0070979","count":2}]},{"hash":"2241703000865296860","title":"Genome maintenance and cell cycle regulation","description":"The dominant GO terms point to DNA double-strand break formation and repair regulation, plus centrosome duplication and apoptosis signaling, suggesting a cluster centered on genome integrity and cell cycle control. A few terms refer to neural development, which may reflect annotation noise. Overall, the core theme is genome maintenance during cell division.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0060484","count":2},{"id":"GO:1903343","count":2},{"id":"GO:2001033","count":2}]},{"hash":"290261034937506695","title":"Innate immune signaling and transcriptional regulation","description":"This cluster is dominated by GO terms related to innate immunity and transcriptional control, including DNA-templated transcription and defense responses to Gram-positive bacteria, as well as cellular responses to dsRNA and lipopolysaccharide, and regulation of interferon-beta production. These suggest a core theme around immune signaling and transcriptional regulation. There are also a couple of non-immune terms (fat cell differentiation, corpus callosum development) that may reflect annotation noise or pleiotropy, but the overarching signal points to innate immune response and transcriptional control.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0045359","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0022038","count":2}]},{"hash":"383526073533022798","title":"Rho-Driven Actin Remodeling and JNK Signaling","description":"Most frequent terms center on actin cytoskeleton organization and regulation of Rho protein signaling, with regulation of the JNK cascade also prominent. This points to proteins coordinating cytoskeletal dynamics under Rho-family signaling and related MAPK (JNK) pathways. Some other GO terms appear as noise or cross-species annotations, but the core theme is actin remodeling governed by Rho and JNK signaling.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0035023","count":2},{"id":"GO:2000821","count":2}]},{"hash":"21504945798023877","title":"Chromatin remodeling and histone exchange","description":"This cluster is dominated by GO terms related to chromatin dynamics: nucleosome mobilization, chromatin remodeling, histone exchange, and transcription initiation-coupled remodeling, indicating proteins involved in regulating chromatin structure and transcription. A few terms (e.g., metencephalon development, sucrose catabolic process) seem peripheral or unrelated, likely annotation noise, but the core signal points to chromatin remodeling functions.","confidence":"High","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":4},{"id":"GO:0042766","count":4},{"id":"GO:0043044","count":4},{"id":"GO:1900051","count":3},{"id":"GO:0022037","count":3}]},{"hash":"739663804141410885","title":"Complement- and cytokine-mediated immune regulation","description":"The top GO terms cluster around immune signaling (complement pathways, IL-10 production, T cell homeostasis) and cell adhesion/migration (integrin activation, sprouting angiogenesis), with proteolysis as a general process, suggesting a focus on immune regulation and cell-adhesion rather than unrelated processes.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060244","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0046013","count":2},{"id":"GO:0090050","count":2},{"id":"GO:0002430","count":2}]},{"hash":"452797543716027929","title":"Unknown","description":"These terms are dispersed across mitochondrial and chloroplast RNA processing and energy metabolism, but also include bone resorption and various development processes, with no single dominant function tying all terms together. The cluster lacks a cohesive theme to support a specific, concise label, so Unknown is appropriate. ","confidence":"","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:1902775","count":1},{"id":"GO:0045333","count":1},{"id":"GO:1901259","count":1},{"id":"GO:0000963","count":1}]},{"hash":"771686569791159269","title":"DNA replication and cell cycle machinery","description":"This cluster shows the strongest support for DNA replication and cell division (DNA replication and cell division terms), suggesting proteins involved in genome duplication and cell cycle progression. While there are additional terms related to transcription initiation, protein processing, and some stress-related processes, the replication/division signals are most prominent, forming the core theme. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0016485","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0070370","count":2},{"id":"GO:0061738","count":2}]},{"hash":"490541889416098355","title":"Endomembrane trafficking and polarity","description":"These proteins cluster around endomembrane trafficking and membrane organization. GO terms point to vesicle transport (ER\u2192Golgi, late endosome to lysosome, lysosomal membrane organization, synaptic vesicle budding), the secretory pathway (lipoprotein assembly), and regulation of polarity (establishment of epithelial cell polarity). Small GTPases as regulators and podosome-associated actin remodeling further tie membrane dynamics to cytoskeletal changes. Taken together, a coherent theme is endomembrane trafficking and cell polarity.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0034379","count":3},{"id":"GO:0007264","count":3}]},{"hash":"557726259439769085","title":"Neuronal synapse formation and AMPA receptor regulation","description":"The top GO terms cluster around synapse organization, neuron\u2013cell adhesion, neuroblast differentiation, and particularly regulation of AMPA receptor activity, all pointing to proteins involved in synaptic development and excitatory synaptic function. A few metabolic terms appear ancillary rather than central to the theme. ","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050808","count":4},{"id":"GO:0007158","count":4},{"id":"GO:0016042","count":3},{"id":"GO:0030245","count":3},{"id":"GO:0050783","count":3}]},{"hash":"521736582166502274","title":"APC/C-Driven Mitotic Ubiquitination","description":"The terms strongly point to mitosis and ubiquitin-mediated proteolysis: mitotic cell cycle, anaphase-promoting complex-dependent catabolic process, and mitotic sister chromatid segregation, along with K11-linked ubiquitination. This suggests the cluster centers on proteins involved in APC/C-driven ubiquitination that regulates progression through mitosis, with a few obsolete histone methylation terms and stress responses being less central. ","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0051301","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0061087","count":4},{"id":"GO:0071276","count":4}]},{"hash":"883121757322909491","title":"Unknown","description":"The listed GO terms span translation signaling (GCN2), cell cycle (mitotic sister chromatid segregation), actin nucleation (Arp2/3), transcription regulation, imprinting regulation, neuronal apoptosis, gastrulation, cell proliferation, taste perception, and prostate gland development. This mix suggests no single cohesive function or theme binding all five proteins, so a precise functional label is not justifiable. Therefore, Unknown is the most appropriate name.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060733","count":5},{"id":"GO:0000070","count":5},{"id":"GO:0034314","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006349","count":5}]},{"hash":"189217568918633538","title":"Protein Folding and Stress Response","description":"This cluster mainly centers on proteostasis activities: protein refolding, chaperone-mediated folding, and protein stabilization, plus physiological responses to heat and ischemia. These terms point to maintaining protein integrity under stress, which provides a coherent theme despite a few outlier GO terms (RNA localization, sperm binding, pore assembly) that appear less related.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":5},{"id":"GO:0042026","count":5},{"id":"GO:0051086","count":5},{"id":"GO:0007339","count":5},{"id":"GO:1901998","count":5}]},{"hash":"504135279133608586","title":"Innate Immune TNF-NF-\u03baB-JNK Signaling","description":"The cluster is led by innate immune response and inflammatory signaling terms (TNF signaling, NF-\u03baB activity, JNK cascade) and includes ubiquitination, which together point to intracellular immune signaling and its regulation. Some unrelated terms (V(D)J recombination, vitamin D response, dosage compensation) appear, but they are secondary to the main theme.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0033209","count":3},{"id":"GO:0033151","count":2}]},{"hash":"648991800288858267","title":"Developmental Differentiation and DNA Endoreduplication","description":"This cluster combines terms tied to developmental processes (forebrain development, sprouting angiogenesis, trophoblast giant cell differentiation) with DNA-centric processes (DNA-templated transcription, DNA endoreduplication and its positive regulation, and apoptotic signaling in response to DNA damage). The overlap suggests proteins involved in developmental differentiation that also regulate DNA replication dynamics and stress responses, including endoreduplication. Some plant-specific terms (glucosinolate metabolism) may reflect cross-species annotations but do not undermine the core theme.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0008630","count":3},{"id":"GO:0042023","count":3}]},{"hash":"284304675203051829","title":"Cytoskeleton dynamics and cell polarity","description":"This cluster is driven by GO terms centered on cytoskeletal organization and cell polarity (Rho signaling, regulation of cell shape/epithelial polarity, and calcium-linked regulation of muscle contraction), indicating a common functional theme of structural regulation rather than a single tissue-specific process. Some terms (chromatin formation, neural organization) appear peripheral.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016203","count":5},{"id":"GO:0021629","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0014809","count":5},{"id":"GO:2000769","count":4}]},{"hash":"1807427305383629543","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":4},{"id":"GO:0060013","count":3},{"id":"GO:0035947","count":3},{"id":"GO:0048319","count":3},{"id":"GO:0035878","count":3}]},{"hash":"355594275684678457","title":"Embryonic organogenesis and tissue development","description":"The cluster includes terms tied to development of multiple organs (heart: ventricular septum and right ventricle morphogenesis; kidney: nephric duct formation, ureteric bud formation) and broader tissue organization (cell number homeostasis). It also features endocrine and immune signaling elements (estrogen response, parathyroid hormone secretion, T cell selection, IL-13 production, TGF-beta regulation), suggesting a theme of organogenesis with hormonal and immune modulation. Confidence: High","confidence":"","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032911","count":3},{"id":"GO:0035898","count":3},{"id":"GO:0003281","count":3},{"id":"GO:0048873","count":3},{"id":"GO:0072107","count":3}]},{"hash":"660671230486848480","title":"Ubiquitin-Proteasome Regulation of Apoptosis","description":"These proteins appear to participate in ubiquitin-mediated protein turnover and degradation, as evidenced by SCF-dependent proteasomal ubiquitin-dependent catabolic process and multiple ubiquitin linkage terms (K27, K11, K63). The apoptotic process term plus interferon-beta response and synapse assembly regulation suggest roles in signaling pathways that control cell fate and immune response through proteasome-mediated regulation. Overall, the common theme is ubiquitin tagging and proteasomal degradation driving apoptosis and immune signaling.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0044314","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0035458","count":4}]},{"hash":"630131154235684812","title":"Insulin/IGF signaling and metabolic regulation","description":"This cluster is enriched in insulin receptor signaling, IGF receptor signaling, glycogen biosynthesis, and fatty acid metabolism terms, indicating a cohesive role in insulin-driven metabolic control. A few development-related terms appear but seem downstream or pleiotropic.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":3},{"id":"GO:0010748","count":3},{"id":"GO:0045725","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0008286","count":3}]},{"hash":"878331446865114097","title":"Membrane Receptor Signaling & Internalization","description":"This cluster centers on cell-surface receptor signaling and their trafficking, as highlighted by GO terms for cell surface receptor signaling, integrin signaling, regulation of cell motility, receptor internalization, and receptor-mediated virion attachment. Additional terms point to adhesion and membrane-associated transport processes (e.g., endosome-to-melanosome transport and paranodal junction assembly), supporting a theme of membrane signaling coupled to endocytic/trafficking events. Some terms appear unrelated (visual perception, rubidium transport) but do not override the central membrane signaling/endocytosis pattern.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000680","count":3},{"id":"GO:2000145","count":3},{"id":"GO:0007166","count":3},{"id":"GO:2001046","count":3},{"id":"GO:0030913","count":3}]},{"hash":"1657754621309640500","title":"Neurodevelopment and sensory organ formation","description":"The GO terms show a clear emphasis on nervous system development, Schwann cell differentiation, and sensory-related processes (olfactory behavior, cholinergic synaptic transmission, GPCR-cGMP signaling), plus cornea/eye and lung development. These together point to a cluster centered on neural and sensory organ formation, with signaling pathways linking development to sensory function. An outlier term about female meiosis is present but does not redefine the main theme.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0061303","count":3},{"id":"GO:0016321","count":3},{"id":"GO:0014037","count":3}]},{"hash":"285709098947593531","title":"Rho GTPase-mediated actin dynamics","description":"The top terms cluster around actin cytoskeleton organization and regulation of Rho/GTPase signaling, indicating cytoskeletal remodeling driven by Rho-family GTPases, which governs cell shape and motility. Additional terms about integrin activation and related signaling support a motility/adhesion theme, with some organismal phenotype hints. Overall, the core function is actin dynamics controlled by Rho GTPases.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0090630","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0032094","count":4},{"id":"GO:0035023","count":4}]},{"hash":"956614031638815095","title":"Virus-Host Membrane Entry and Budding","description":"This cluster is dominated by GO terms related to viruses and symbionts entering or exiting host cells and membrane-associated processes (plasma membrane localization, PI biosynthesis, ESCRT-driven budding), suggesting a focus on virus/symbiont interactions with host membranes. Peripheral terms like myelination and differentiation are less central to this theme, but the membrane-traffic and host-entry/budding signals are strong.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:0090002","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0046854","count":2},{"id":"GO:0045892","count":1}]},{"hash":"1934183454497149993","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070914","count":1},{"id":"GO:0000717","count":1},{"id":"GO:0006294","count":1},{"id":"GO:0000715","count":1},{"id":"GO:0035518","count":1}]},{"hash":"1203433287798386268","title":"Plant chromatin modification and transcription regulation","description":"The top terms heavily emphasize histone modifications (deacetylation and methylation) and transcriptional regulation, with additional plant-specific signaling (cytokinin) and chlorophyll/flavonol biosynthesis links, suggesting a plant-focused module of chromatin state control influencing gene expression and related DNA processes.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0070933","count":4},{"id":"GO:0010380","count":4},{"id":"GO:1990414","count":4},{"id":"GO:0009736","count":4},{"id":"GO:0051574","count":4}]},{"hash":"705941863487675988","title":"Unknown","description":"The terms span neuronal processes (synapse localization, axon extension) but also cell-cycle/DNA repair and apoptosis, with several items obsolete, giving no single unifying function for the cluster. Confidence: None. ","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035418","count":5},{"id":"GO:0006349","count":5},{"id":"GO:0060484","count":5},{"id":"GO:1903343","count":5},{"id":"GO:2001033","count":5}]},{"hash":"1964520555016151436","title":"Regulatory signaling and transcription control","description":"The top GO terms point to a mix of signaling and gene-regulatory processes: canonical NF-kappaB signaling, regulation of Rap signaling, voltage-gated sodium channel activity modulation, cyclic nucleotide biosynthesis, miRNA processing, transcription elongation regulation, chromatin silencing, and regulation of DNA replication initiation. This suggests the proteins collectively participate in broader regulatory circuits controlling transcription and signaling rather than a single, cohesive pathway. Therefore, a concise label focusing on regulatory roles in signaling and transcription fits best.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045190","count":4},{"id":"GO:0034244","count":4},{"id":"GO:0009190","count":4},{"id":"GO:1903468","count":4},{"id":"GO:0007249","count":4}]},{"hash":"2133029554120909628","title":"Transmembrane Ion and Water Transport","description":"The GO terms cluster around movement of ions (chloride, potassium, nitrate, iron, monoatomic anions), transepithelial water transport, and pH/volume regulation, pointing to a membrane transport/epithelial function theme. A single edge among a few proteins suggests a loose connection, but the shared emphasis on ion and water transport supports this naming with moderate confidence.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903959","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0035377","count":3},{"id":"GO:1902600","count":3},{"id":"GO:0010447","count":3}]},{"hash":"2086537864112204508","title":"Unknown","description":"The go terms span virus defense, development, and protein turnover with no cohesive shared function, and no edges connect the proteins, so a concise cluster label cannot be inferred.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":1},{"id":"GO:0006697","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0021678","count":1},{"id":"GO:0051436","count":1}]},{"hash":"1310707087069352987","title":"mRNA processing and translation control","description":"Dominant terms focus on post-transcriptional gene expression: regulation of translation initiation/termination and poly(A)+ mRNA export, with auxiliary hints of cell-cycle signaling, suggesting the cluster represents a module of gene expression control and related processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061178","count":2},{"id":"GO:2000053","count":2},{"id":"GO:0048263","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0006449","count":2}]},{"hash":"570709372083637250","title":"Plant wax and suberin biosynthesis","description":"The cluster\u2019s top GO terms cluster around lipid- and phenylpropanoid-based biosynthesis: ether lipid, wax, suberin, and phenylpropanoid biosynthesis, which are all involved in producing protective plant barriers such as cuticle and suberin-containing tissues. A few terms (e.g., B cell chemotaxis, lumen formation in open tracheal system) seem unrelated or obsolete and may reflect annotation noise. Overall, the proteins appear to be linked by a common function in barrier lipid biosynthesis in plants.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008611","count":2},{"id":"GO:0010025","count":2},{"id":"GO:0035002","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1902987","count":2}]},{"hash":"777557952867585675","title":"Ubiquitination and NF-\u03baB Regulation","description":"The dominant GO terms point to ubiquitin-related processes (protein ubiquitination, autoubiquitination, ubiquitin-dependent ERAD) and signaling via NF-\u03baB (positive regulation of I-kappaB phosphorylation) along with JNK cascade regulation. Some terms (V(D)J recombination, dosage compensation, histone modifications) appear obsolete or noisy, but the core pattern suggests a cluster of proteins involved in ubiquitin-mediated regulation of NF-\u03baB/JNK signaling. ","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033151","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0070512","count":4},{"id":"GO:1900095","count":4},{"id":"GO:0009048","count":4}]},{"hash":"2038738726652904386","title":"NF-kappaB signaling and transcription regulation","description":"The terms center on NF-kappaB pathway activation (IKK activity, I-kappaB phosphorylation) and transcriptional control (negative regulation of RNA Pol II, ubiquitination-related regulation, cell cycle control, and chromatin modification hints). This suggests a cluster of proteins involved in signal transduction that culminates in transcriptional regulation, particularly via NF-kappaB, making the theme cohesive despite some broader or less-related terms like V(D)J recombination and dosage compensation. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0009048","count":2},{"id":"GO:0071157","count":2}]},{"hash":"123143435283838068","title":"Skin Immune Signaling and Cell Adhesion","description":"The cluster shows immune-related processes (neutrophil degranulation, regulation of IL-1 and IL-8, T cell proliferation) together with epidermal biology terms (keratinocyte differentiation, cell\u2013cell adhesion, membrane raft assembly), suggesting a module of skin-associated immune signaling and adhesion.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043312","count":2},{"id":"GO:0098609","count":2},{"id":"GO:0001765","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0070459","count":2}]},{"hash":"1386146239890047356","title":"Immune Signaling Cluster","description":"Top GO terms are dominated by immune signaling processes (T cell receptor signaling, LPS response, IL-1 signaling, GM-CSF response). While a few terms point to nervous system development and other processes, the strongest signal across the cluster is immune-related, with some annotations that may be noise or pleiotropic. Overall, the cluster centers on immune signaling pathways.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0086004","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0014044","count":2}]},{"hash":"1385078935143105573","title":"Nucleotide metabolism and RNA editing","description":"The cluster is enriched for nucleotide-related processes (cytosine and guanine metabolism, uridine biosynthesis, UMP salvage, deoxycytidine catabolic) and RNA editing (tRNA wobble A-to-I), suggesting a cohesive theme around nucleotide metabolism and RNA processing, with a few outliers like antibiotic response and cell-matrix adhesion terms.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0019858","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0006147","count":1},{"id":"GO:0046109","count":1}]},{"hash":"989742889421954596","title":"Unknown","description":"The GO terms across the four proteins are highly diverse, including metal/ion transport (iron, arsenate), various catabolic processes (lignin, cellulose, nitrate assimilation), sporulation, and even platelet activation. There isn\u2019t a single coherent function that ties these terms together, and the mixture also includes processes like FtsZ-dependent cytokinesis, suggesting no unified cluster function.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0033215","count":2},{"id":"GO:1901684","count":2},{"id":"GO:0034755","count":2},{"id":"GO:0046274","count":2}]},{"hash":"923356239366538023","title":"Phosphoinositide Biosynthesis and PI3P Signaling","description":"The top GO terms are dominated by phosphatidylinositol phosphate biosynthesis and phosphatidylinositol-3-phosphate biosynthesis, pointing to a lipid signaling theme centered on phosphoinositides, with secondary hints of signaling regulation and developmental processes. This suggests the proteins form a cluster tied to PI metabolism rather than a single tightly defined biological function, hence the labeling reflects the core PI biosynthesis/signaling theme.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001553","count":4},{"id":"GO:0042512","count":3},{"id":"GO:0046854","count":3},{"id":"GO:0036092","count":3},{"id":"GO:1903997","count":3}]},{"hash":"415465712699958276","title":"Neural commissure formation via SMAD/TGF-\u03b2 signaling","description":"This cluster centers on neural commissure development (commissural neuron axon guidance and anterior commissure morphogenesis) and TGF-\u03b2/SMAD signaling, with accompanying transcriptional regulation (DNA-templated transcription) including miRNA transcription regulation. The convergence of axon guidance terms with SMAD and TGF-\u03b2 pathway regulation, plus miRNA transcription control, suggests a coherent theme of neural development guided by SMAD/TGF-\u03b2 signaling and transcriptional regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902894","count":4},{"id":"GO:1902895","count":4},{"id":"GO:0071679","count":3},{"id":"GO:0021960","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2055306257768453231","title":"Innate immune signaling and adherens junction regulation","description":"The cluster's top GO terms include innate immune response and cellular response to TGF-beta stimulus, indicating immune signaling involvement. Auxiliary terms point to cell-adhesion dynamics (protein localization to adherens junctions) and membrane/phosphoinositide signaling (PI biosynthesis, AMPA receptor clustering), suggesting a broader theme of signaling that connects immune pathways with cell\u2013cell junction regulation. This makes \"Innate immune signaling and adherens junction regulation\" a concise, representative label.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042512","count":1},{"id":"GO:1904717","count":1},{"id":"GO:0046854","count":1}]},{"hash":"1810658518887877088","title":"Histone ubiquitination and chromatin regulation","description":"This cluster is dominated by GO terms related to ubiquitination and histone modification (protein ubiquitination, histone H2A ubiquitination), and mentions X chromosome inactivation. While some terms touch on development and immune cell proliferation, the shared theme is epigenetic regulation of chromatin, especially histone ubiquitination, which justifies the label.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":3},{"id":"GO:0009048","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0036353","count":2},{"id":"GO:0033092","count":2}]},{"hash":"1033434830568733083","title":"Embryonic Morphogenesis","description":"The proteins in this cluster are annotated with GO terms centered on embryonic development and morphogenesis across multiple tissues (brain regions like metencephalon/medullary reticular formation, cochlea, facial nucleus, ureteric bud, skeletal joints, nail plate). The common thread is developmental morphogenesis rather than a single tissue-specific function, so the label captures the shared theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021723","count":4},{"id":"GO:0022037","count":4},{"id":"GO:0090103","count":4},{"id":"GO:1900212","count":4},{"id":"GO:0021754","count":4}]},{"hash":"1209789273136320527","title":"Unknown","description":"The top GO terms span diverse biology: protein homooligomerization alongside nervous system development, skeletal muscle cell differentiation, germinal center formation, circadian rhythm, and even plant-specific metabolism. There is no single coherent process or function that ties these terms together, suggesting a mixed or noisy cluster rather than a unified biological theme.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0045496","count":3},{"id":"GO:0035914","count":3},{"id":"GO:2000312","count":3}]},{"hash":"1916974681404527886","title":"Unknown","description":"The terms span animal development (olfactory bulb development, gastrulation, multicellular organism development, angiogenesis) and extracellular matrix/signaling (FGFR signaling, heparan sulfate proteoglycan biosynthesis) plus plant cell wall processes and host-symbiont interaction, with no evident shared function or interaction among the proteins, so a coherent label isn\u2019t supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021772","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0045766","count":2}]},{"hash":"2097255997896174418","title":"Cross-species development and morphogenesis","description":"The top GO terms span developmental processes across diverse species (phloem, haltere, nephron, cervix, pole plasm) and include actomyosin organization, suggesting a shared theme of development and morphogenesis rather than a single pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010088","count":2},{"id":"GO:0046013","count":2},{"id":"GO:0031032","count":2},{"id":"GO:0048735","count":2},{"id":"GO:2000691","count":2}]},{"hash":"125563973965986252","title":"Mitotic actin contractile ring assembly and cytoskeleton regulation","description":"The top GO terms center on actin filament polymerization and mitotic contractile ring assembly, including actomyosin ring formation and actin bundle assembly. Additional terms reference regulation of stress fibers and ruffle assembly, reflecting broader actin remodeling during cell division and cell movement. This combination points to a cluster of proteins coordinating mitotic actin structures and cytoskeletal dynamics.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:1903475","count":3},{"id":"GO:1903477","count":2},{"id":"GO:1900028","count":2},{"id":"GO:0071689","count":2}]},{"hash":"946535490479341137","title":"Ubiquitination Pathways","description":"The cluster is dominated by GO terms for protein ubiquitination (GO:0016567), monoubiquitination (GO:0006513), and K63-linked ubiquitination (GO:0070534) plus an ERAD association (GO:0030433), pointing to involvement in tagging proteins for degradation or regulatory signaling via ubiquitin. While some terms (vitamin D response, imprinting regulation, placental morphogenesis) appear more peripheral, they do not override the central ubiquitination theme. Therefore, labeling this cluster as ubiquitination-related pathways best reflects its core function.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0033280","count":3},{"id":"GO:2000653","count":2},{"id":"GO:0070534","count":2}]},{"hash":"272915276504044572","title":"Unknown","description":"Top terms include nervous system development, skeletal muscle differentiation, germinal center formation, B cell receptor signaling, regulation of circadian rhythm, plant flowering and glucosinolate metabolism, swimming, and protein homooligomerization. The terms are highly heterogeneous, spanning multiple kingdoms and contexts, with no single cohesive function or pathway evident, so a meaningful label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":1},{"id":"GO:0035914","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0002467","count":1},{"id":"GO:0036268","count":1}]},{"hash":"155904409570331267","title":"Mitotic DNA Replication Machinery","description":"The top GO terms point to DNA replication initiation and progression during mitosis, including preinitiation complex assembly (GINS), replication initiation and elongation, and overall DNA replication, with a cluster reference to break-induced replication repair. This indicates the proteins function together as mitotic DNA replication machinery.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902969","count":1},{"id":"GO:1902977","count":1},{"id":"GO:0001833","count":1},{"id":"GO:0071165","count":1},{"id":"GO:0032508","count":1}]},{"hash":"172806649578783923","title":"Organogenesis and Morphogenesis","description":"The proteins are linked to diverse developmental and morphogenetic processes across tissues (lung/alveolus development, muscle organ morphogenesis, mesenchymal-to-epithelial transitions in kidney development, decidualization, trophoblast differentiation). The presence of a STAT tyrosine phosphorylation term suggests regulatory signaling during development. Overall, the cluster reflects a general theme of organogenesis and tissue morphogenesis rather than a single tissue-specific function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048286","count":2},{"id":"GO:0060707","count":1},{"id":"GO:0042508","count":1},{"id":"GO:0048644","count":1},{"id":"GO:0048266","count":1}]},{"hash":"1309064148047618950","title":"Bacterial fatty acid and menaquinone biosynthesis","description":"The cluster is dominated by GO terms for menaquinone biosynthesis, long-chain and medium-chain fatty-acid metabolism, and related pathways (siderophore biosynthesis, acetate fermentation), which collectively point to bacterial lipid/quinone metabolism. Some plant-related terms (seed coat development, seed germination) appear as outliers, likely annotation noise. This supports a cohesive interpretation centered on microbial lipid and vitamin K2 biosynthesis activity.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0010214","count":3},{"id":"GO:1902987","count":3},{"id":"GO:0001676","count":3},{"id":"GO:0019654","count":3}]},{"hash":"1801574501545582747","title":"Neuro-placental development and immune signaling","description":"The top GO terms span embryonic development (in utero, placental branching), immune activation (complement pathways), and neural plasticity, with additional hints of lipid/trafficking regulation. This suggests a broad theme of neuro-immune development in the context of placental and embryonic growth, rather than a single, precise function. Therefore, a name reflecting neuro-placental development with immune signaling is appropriate, though the connections are somewhat indirect.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048168","count":3},{"id":"GO:0060672","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0001970","count":3},{"id":"GO:0006957","count":3}]},{"hash":"2160483367308235769","title":"Hormone-Linked DNA Repair and Stress Response","description":"The terms point to hormone-related processes (estrogen metabolism, aldosterone response, female gonad development) alongside stress/damage and DNA maintenance (protein auto-ADP-ribosylation, single-strand break repair, lagging strand elongation, cellular response to amyloid-beta). This suggests a theme where hormone signaling interfaces with genome integrity and stress response pathways, justifying a label that captures both aspects.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070213","count":2},{"id":"GO:0008210","count":2},{"id":"GO:1904762","count":2},{"id":"GO:1904646","count":2},{"id":"GO:1904743","count":2}]},{"hash":"1555125679276458803","title":"Interneuron migration and dendritic spine development","description":"The top GO terms point to neural development and connectivity, notably interneuron migration to the cortex, regulation of dendrite and spine development, and neuronal electrical responsiveness, all suggesting a cohesive theme of neuronal maturation and circuitry formation. A few terms related to BBB establishment and ion transport support a neurovascular/excitability context but do not override the neuronal focus.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021830","count":4},{"id":"GO:0071257","count":4},{"id":"GO:0097284","count":4},{"id":"GO:2000171","count":4},{"id":"GO:0009789","count":4}]},{"hash":"1675783768412571524","title":"Synaptic Localization and AMPA Receptor Clustering","description":"The top GO terms are dominated by protein localization to synapses and regulation of AMPA receptor clustering, with additional but weaker links to adherens junction localization. This points to a functional theme of proteins targeted to synaptic sites and involved in organizing glutamate receptor assemblies, despite a few unrelated terms likely reflecting broad annotations. Confidence: Medium","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":3},{"id":"GO:0032911","count":3},{"id":"GO:1904717","count":3},{"id":"GO:1904528","count":3},{"id":"GO:1904703","count":3}]},{"hash":"1977464238244511567","title":"Ubiquitin-Dependent Nuclear Signaling and Chromatin Regulation","description":"The terms predominantly point to ubiquitination and regulation of signaling pathways (I-kappaB phosphorylation, JNK cascade) along with cell cycle control, and hints of chromatin modification (histone methylation/acetylation) and genome-related processes (V(D)J recombination, dosage compensation). This suggests a cluster of nuclear proteins coordinating ubiquitin-mediated signaling and chromatin state, rather than a single organelle-specific function.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0070512","count":4},{"id":"GO:1900095","count":4},{"id":"GO:0009048","count":4}]},{"hash":"2102219541411182823","title":"Transcriptional Regulation and RNA Processing","description":"This cluster is dominated by GO terms related to chromatin organization and negative regulation of transcription by RNA polymerase II, suggesting a core role in transcriptional control. Additional terms point to RNA metabolism and processing, including mRNA decay, snoRNA splicing, and mRNA localization, as well as translation and ubiquitination, indicating a broader link between transcriptional regulation and RNA processing/quality control. A few terms (e.g., collagen catabolic process) are less central and may reflect broader cellular connectivity rather than a specific shared function. Overall, the cluster appears to center on transcriptional regulation with connected RNA processing activities.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034724","count":2},{"id":"GO:0034396","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0035551","count":2},{"id":"GO:0000122","count":2}]},{"hash":"661995595719460675","title":"Inflammation and vascular stress response","description":"The GO terms converge on immune and vascular signaling under stress: responses to LPS and xenobiotics, monocyte differentiation, and increased vascular permeability, alongside cardiac remodeling signals. While a dopamine regulation term is less connected, the overall pattern supports an inflammation/vascular stress cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042053","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0043117","count":3},{"id":"GO:0030224","count":3},{"id":"GO:1902160","count":3}]},{"hash":"1757775835724871640","title":"Tubulin assembly and microtubule dynamics","description":"The cluster shows multiple GO terms tied to tubulin folding and assembly, microtubule polymerization regulation, intraciliary transport and cilium assembly, and neuroblast polarity maintenance, indicating a cohesive theme around cytoskeleton organization and cell polarity. Some junction-related and nuclear import terms are present but appear ancillary to the main signal.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034333","count":1},{"id":"GO:0006610","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0006607","count":1}]},{"hash":"856242517929870987","title":"Commissural Neuron Development and TGF-\u03b2 Signaling","description":"These proteins are linked to neural commissure formation (axon guidance and anterior commissure morphogenesis) and to TGF-\u03b2/SMAD signaling, a pathway often coordinating morphogenesis. The combination points to a cohesive theme of neural development regulated by TGF-\u03b2 signaling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071679","count":3},{"id":"GO:0021960","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0003251","count":3},{"id":"GO:2000223","count":3}]},{"hash":"1929092575350947951","title":"Nuclear import and NPC assembly","description":"This cluster is defined by GO terms related to transporting proteins into the nucleus (NLS-bearing import, ribosomal protein import) and assembling the nuclear pore complex, with related regulation of desumoylation and GTPase activity. A few neural development terms appear but are peripheral; overall, the dominant theme is nuclear transport machinery.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0060188","count":3}]},{"hash":"1770982688362733819","title":"Nucleotide Metabolism and RNA Processing","description":"The cluster\u2019s GO terms are dominated by nucleotide metabolism activities (uridine biosynthesis, UMP salvage, cytidine/cytosine turnover and deoxycytidine catabolism) and RNA-level regulation/editing (tRNA wobble A-to-I editing), suggesting a shared theme around nucleic acid metabolism and processing. A few terms like proteolysis and antibiotic response are present but appear as minor outliers rather than core functions. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0046677","count":1},{"id":"GO:0006147","count":1},{"id":"GO:0046109","count":1},{"id":"GO:0006217","count":1}]},{"hash":"39412491410620600","title":"Membrane Ion Transport","description":"The strongest shared GO annotations are two ion transmembrane transport terms (potassium and sodium), suggesting the cluster centers on membrane ion transport activity. The other terms (cellulose catabolic process, symbiont entry, T cell activation, etc.) are sparse and diverse, implying the core signal is modest and possibly influenced by annotation noise or multi-function proteins. There are no edges linking the proteins, which supports a label based on limited common function rather than a tightly co-regulated module.","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0030245","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0042110","count":1}]},{"hash":"552976285839371791","title":"DNA replication initiation and cell cycle","description":"Top GO terms point to core replication machinery, with DNA replication (GO:0006260), pre-replicative complex assembly (GO:0006267), and DNA replication initiation (GO:0006270) indicating origin licensing and replication during the cell cycle. The other terms (lateral root development, response to sucrose, neural precursor cell proliferation) appear peripheral, likely reflecting broader developmental contexts rather than the cluster\u2019s primary function. Therefore, the cluster is best described as focusing on DNA replication initiation and cell cycle processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048527","count":1},{"id":"GO:0006267","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0009744","count":1}]},{"hash":"762565195433942348","title":"Unknown","description":"The GO terms span multiple unrelated pathways: cofactor/nucleotide biosynthesis (thiamine, thiazole, GMP, NAD+), tRNA wobble uridine thiolation, histidine catabolic processes (obsolete terms), sporulation, and a neuronal injury response. There is no clear, cohesive function linking all members, so this cluster cannot be confidently named beyond Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019557","count":2},{"id":"GO:0019556","count":2},{"id":"GO:0048678","count":2},{"id":"GO:0030435","count":1},{"id":"GO:0009229","count":1}]},{"hash":"2145205923274593293","title":"Meiosis and homologous recombination","description":"This cluster\u2019s terms are dominated by meiotic processes and recombination/double-strand break repair (reciprocal meiotic recombination, homologous chromosome pairing at meiosis, mating type switching, replication-born DSB repair via sister chromatid exchange, mitotic recombination-dependent replication fork processing), pointing to a meiosis-recombination theme despite a few unrelated terms. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006488","count":1},{"id":"GO:0007131","count":1},{"id":"GO:1990414","count":1},{"id":"GO:0007533","count":1},{"id":"GO:0007129","count":1}]},{"hash":"1112064161056431178","title":"Membrane Ion and Metabolite Transporters","description":"The GO terms show multiple explicit transport activities across membranes, especially ion transport (potassium, sodium) and metabolite transport (malate, citrate, succinate, arsenite), plus general transmembrane transport. This suggests the proteins are linked by a membrane transport function, despite a few unrelated terms. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0015743","count":1},{"id":"GO:0006814","count":1}]},{"hash":"1102917285616954767","title":"TGF-beta/SMAD signaling in development","description":"This cluster shows strong representation for GO terms involving transforming growth factor beta receptor signaling, regulation of SMAD signaling, and endocardial/heart morphogenesis, with an additional note of commissural neuron axon guidance. The common thread appears to be developmental signaling pathways centered on TGF-beta/SMAD signaling rather than a single tissue-specific function, justifying a label focused on this pathway in development.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071679","count":3},{"id":"GO:0021960","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0003251","count":3},{"id":"GO:2000223","count":3}]},{"hash":"1450069202548094290","title":"Cardiac Stretch Signaling and Hypertrophy","description":"Top GO terms indicate mechanical and chemical cues converging on cardiac muscle, including response to muscle stretch, epinephrine and electrical stimulus, and activation of calcineurin-NFAT signaling that can promote cardiac hypertrophy. This points to a theme of cardiac mechanotransduction and hypertrophic signaling. Other terms such as cholesterol biosynthesis and intracellular pH responses appear less specific and may reflect broader cellular processes present in the cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035994","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0051453","count":1},{"id":"GO:0071468","count":1}]},{"hash":"938316359454776337","title":"Mitochondrial protein import and genome maintenance","description":"The GO terms point to processes centered on mitochondria, including protein insertion into the mitochondrial inner membrane, protein assembly, and regulation of mitochondrial DNA replication, suggesting a focus on mitochondrial protein handling and genome maintenance. While there are outliers related to Golgi transport and photosynthesis, the core signals cluster around mitochondrial protein processing and DNA maintenance.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000733","count":3},{"id":"GO:0016485","count":2},{"id":"GO:0048219","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070914","count":2}]},{"hash":"267160816210363687","title":"Iron uptake and homeostasis","description":"This cluster centers on iron transport and intracellular iron management (iron ion import, intracellular iron ion homeostasis, transferrin transport) and uptake pathways (receptor-mediated endocytosis). The presence of inflorescence meristem regulation and other housekeeping processes likely reflects broader cellular roles or annotation noise. Overall, the dominant theme is iron acquisition/trafficking and maintenance, with ancillary processes contributing less directly. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010081","count":1},{"id":"GO:0033572","count":1},{"id":"GO:0007039","count":1},{"id":"GO:0042135","count":1},{"id":"GO:0017186","count":1}]},{"hash":"215277560628633999","title":"Ubiquitin-Driven Signaling and Chromatin Regulation","description":"This cluster centers on regulatory processes involving ubiquitin signaling and chromatin modification: protein ubiquitination, histone modifications (H4-K20 methylation, H4-K16 acetylation), and signaling pathway regulation (I-kappaB phosphorylation/NF-kB, JNK cascade) along with cell cycle control. Although several GO terms are obsolete, the core pattern points to regulation of gene expression through ubiquitin-mediated signaling and chromatin remodeling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0070512","count":3},{"id":"GO:1900095","count":3},{"id":"GO:0009048","count":3}]},{"hash":"167764999551507660","title":"TGF-\u03b2/BMP Signaling in Development","description":"This cluster is dominated by GO terms around transforming growth factor beta receptor signaling, SMAD signaling, and BMP pathway regulation, all key to morphogenesis. Supporting terms also point to heart (endocardial differentiation, heart morphogenesis) and neural development (commissural neuron axon guidance, anterior commissure morphogenesis). Together, these indicate a coherent theme of developmental signaling controlling tissue morphogenesis in multiple lineages, with TGF-\u03b2/BMP pathways as central players.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071679","count":3},{"id":"GO:0021960","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0003251","count":3},{"id":"GO:2000223","count":3}]},{"hash":"2281938373907862511","title":"Ubiquitin-Dependent Signaling and Cell Cycle Regulation","description":"GO terms cluster around ubiquitination processes (autoubiquitination, ubiquitin-dependent ERAD) and signaling/cell-cycle control (I-kappaB phosphorylation, JNK cascade, regulation of cell cycle), with some chromatin modification terms appearing peripherally. This points to a cohesive theme of ubiquitin-mediated regulation of signaling and cell-cycle processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0070512","count":2},{"id":"GO:1900095","count":2},{"id":"GO:0009048","count":2}]},{"hash":"1251206771957085429","title":"Actin-PI3P signaling at adherens junctions","description":"The GO terms cluster around actin filament regulation (barbed-end capping), phosphatidylinositol phosphate biosynthesis (PI3P), and protein localization to adherens junctions, tying cytoskeletal dynamics to membrane trafficking at cell\u2013cell junctions. There is also a neuronal angle via AMPA receptor clustering, which can relate to synaptic organization where actin and PI lipids play key roles. Taken together, the core theme is cytoskeletal remodeling and membrane localization at junctions, with PI3P signaling bridging these processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042512","count":3},{"id":"GO:1904717","count":3},{"id":"GO:0046854","count":3},{"id":"GO:1904703","count":3},{"id":"GO:0060022","count":3}]},{"hash":"615052087051878811","title":"NF-kappaB\u2013driven immune signaling and apoptosis","description":"The top GO terms cluster around canonical NF-kappaB activation, extrinsic and necroptotic apoptotic pathways, inflammatory response, B cell apoptotic processes, and IgG isotype switching. This points to a theme of immune signaling intertwined with cell-death pathways in immune cells, reflecting inflammation and B cell\u2013related regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:2001240","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0009786","count":2},{"id":"GO:0097527","count":2}]},{"hash":"2086082689687851928","title":"Angiogenesis and Integrin Signaling","description":"The cluster\u2019s terms cluster around vascular development and cell adhesion: sprouting angiogenesis and positive regulation of integrin-mediated signaling point to endothelial adhesion and vascular remodeling, while receptor-mediated endocytosis and lipoprotein transport fit into cellular uptake processes common in vascular tissues. Some terms (pregnancy, somite development) reflect broader developmental contexts, which can accompany angiogenesis. The small cluster size and mixed terms lead to a moderate level of confidence that this cluster centers on angiogenesis/integrin signaling rather than a single, narrowly defined process.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904808","count":2},{"id":"GO:0032461","count":2},{"id":"GO:0007565","count":1},{"id":"GO:0018057","count":1},{"id":"GO:2001046","count":1}]},{"hash":"927876533711836837","title":"Meiosis and chromosome segregation","description":"The top terms cluster around meiotic processes: reciprocal meiotic recombination, meiotic mismatch repair, meiotic metaphase I chromosome alignment, and female/male meiosis chromosome segregation, indicating proteins involved in meiotic chromosome dynamics and repair. A couple of outliers (protein folding, xenobiotic response) exist but don\u2019t override the primary meiosis signal, so a label focused on meiosis and chromosome segregation fits best.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045190","count":2},{"id":"GO:0007131","count":1},{"id":"GO:0043060","count":1},{"id":"GO:0000710","count":1},{"id":"GO:0006457","count":1}]},{"hash":"1613152029545403556","title":"RNA processing and mitotic regulation","description":"The top terms cluster around RNA-level control (regulatory ncRNA-mediated gene silencing; positive regulation of mRNA splicing) and mitotic processes (mitotic cell cycle; cleavage furrow formation), suggesting a shared theme of coordinating RNA processing with cell division. Some other terms (endosome transport, pinocytosis) are present but less central. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0045022","count":1},{"id":"GO:0006654","count":1}]},{"hash":"1328040238545953044","title":"Bacterial sporulation and cell-wall remodeling","description":"The top GO terms point to sporulation leading to spore formation, along with multiple cell-wall related processes such as peptidoglycan biosynthesis and catabolism, and cell wall organization. This combination suggests a bacterial cluster centered on spore formation and dynamic cell-wall remodeling; a few chitin-related terms may reflect broader stress or environmental response annotations, but the core theme is sporulation coupled with cell-wall metabolism.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0009252","count":3},{"id":"GO:1902083","count":3},{"id":"GO:0009253","count":3}]},{"hash":"55039213893177802","title":"Metabolic Biosynthesis and Renal Regulation","description":"The proteins here show enrichment for diverse biosynthetic processes (glutathione, pyridoxal, retinal and bile acid-related biosynthesis) along with kidney-associated terms (renal system development, regulation of urine volume), suggesting a broad metabolic cluster with a renal regulatory component.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":3},{"id":"GO:0030573","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006750","count":3},{"id":"GO:2000224","count":3}]},{"hash":"468369883482571848","title":"Intrinsic Apoptosis Signaling and Regulation","description":"The top GO terms are centered on programmed cell death, especially intrinsic apoptosis driven by mitochondrial membrane changes and DNA damage\u2014including intrinsic apoptotic signaling, mitochondrial permeability, and neuron/B cell apoptotic processes. A few terms touch on tissue homeostasis and growth, but the dominant theme is apoptosis regulation, suggesting a compact module of proteins that modulate cell death pathways. Confidence: High","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:1902110","count":3},{"id":"GO:0097296","count":3},{"id":"GO:0002904","count":3},{"id":"GO:0008630","count":3},{"id":"GO:0097202","count":3}]},{"hash":"143917653842119640","title":"Cell cycle and transcription regulation","description":"Based on the top GO terms, the cluster centers on core processes of cell proliferation and division (mitotic sister chromatid segregation, cell population proliferation) and gene expression control (DNA-templated transcription, GCN2-mediated signaling, ubiquitination). The presence of actin nucleation (Arp2/3) and ubiquitin-related processes suggests broader regulation of cellular growth and structure, rather than a single, specific pathway. This points to a general theme of coordinating cell cycle progression with transcriptional control, hence the label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060733","count":3},{"id":"GO:0000070","count":3},{"id":"GO:1905705","count":3},{"id":"GO:0034314","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1020039661352044258","title":"Histone methylation and heterochromatin formation","description":"This cluster is driven by GO terms for histone methylation (H3 and H4 marks) and rDNA heterochromatin formation, with additional signals about chromatin silencing regulation. The strongest, coherent theme across terms is chromatin modification and heterochromatin formation, suggesting these proteins function in histone modification and chromatin state control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0034773","count":1},{"id":"GO:0045746","count":1},{"id":"GO:1900477","count":1}]},{"hash":"472856309089242121","title":"Regulation of cell signaling and immune responses","description":"The GO terms cluster around regulation of signaling cascades (nerve growth factor receptor activity, MAPK, TGF-beta signaling), hormone responses (progesterone and estrogen), and immune modulation (T cell costimulation, necroptosis regulation), with nitric oxide homeostasis also highlighted.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051394","count":2},{"id":"GO:0033484","count":2},{"id":"GO:0030512","count":2},{"id":"GO:0032570","count":2},{"id":"GO:0043627","count":2}]},{"hash":"1112013589359137256","title":"Ether lipid synthesis and phospholipid remodeling","description":"The top GO terms center on ether lipid biosynthesis and remodeling of phospholipids (ether lipids, CDP-diacylglycerol pathway, phosphatidylcholine and cardiolipin remodeling, platelet activating factor biosynthesis). While there are a few immune and developmental terms present, the lipid metabolism signals dominate, supporting this label as representative.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008611","count":3},{"id":"GO:0016024","count":3},{"id":"GO:0070970","count":3},{"id":"GO:0021587","count":3},{"id":"GO:0036151","count":3}]}]