[{"hash":"46710879978331543","title":"Neuronal Signaling and Visual Learning","description":"Most enriched GO terms point to neural communication and plasticity: dopaminergic synaptic transmission, visual perception and visual learning, and ERK signaling, plus behavioral responses to cocaine and prostaglandin-related signaling. While there are a few non-neural terms (heart development, macrophage chemotaxis), the dominant theme is neuronal signaling and learning, with dopaminergic pathways and sensory processing at the core.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0006468","count":14},{"id":"GO:0001963","count":14},{"id":"GO:0071380","count":14}]},{"hash":"237492535404833851","title":"Developmental signaling and proliferation","description":"The cluster centers on developmental processes across tissues (endocrine pancreas development, nervous system development) and on cell proliferation (cell population proliferation, lens epithelial cell proliferation, mitotic cell cycle). It also includes signaling pathways (insulin receptor signaling, TGF-beta stimulus response) and a broad transcriptional theme (DNA-templated transcription). An outlier term like neutrophil clearance suggests some noise, but the dominant signals point to growth and development regulation. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097350","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1734578749035407015","title":"Neural Crest and Craniofacial Development","description":"This cluster is dominated by GO terms tied to neural and craniofacial development, including neural crest cell migration, midbrain development, inner ear formation, and cranial skeleton morphogenesis, plus locus ceruleus development. While a few terms touch broader embryonic organogenesis, the recurring theme is coordinated neural/craniofacial patterning and morphogenesis, suggesting a cohesive developmental program governing head and brain structures. The transcription-related term likely reflects shared regulatory mechanisms controlling these processes.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":10},{"id":"GO:0001755","count":8},{"id":"GO:0090190","count":8},{"id":"GO:0048839","count":8}]},{"hash":"506426582039473813","title":"Neural and vascular lipid signaling","description":"The top GO terms cluster around brain development, synaptic plasticity, and calcium signaling, with lipid-related processes such as diacylglycerol metabolism and lipid phosphorylation, along with vascular development and thrombin receptor signaling. Together these points suggest a theme of lipid-mediated signaling coordinating neural (brain development and synaptic activity) and vascular processes. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0045987","count":5},{"id":"GO:0019722","count":5},{"id":"GO:0046834","count":5},{"id":"GO:2000064","count":5}]},{"hash":"1835012822752333088","title":"Steroid Hormone Biosynthesis and Detoxification","description":"This cluster is dominated by GO terms for steroidogenesis (aldosterone and cortisol biosynthesis) and cholesterol catabolic processes, pointing to cholesterol-derived steroid hormone production. Complementary terms indicate detoxification and metabolism of organic compounds (coumarin and camphor catabolism, organofluorine metabolism) and responses to vitamin D and metal stress, suggesting a broader theme of steroid-related metabolism linked with xenobiotic detox pathways. Overall, the core signal appears to be steroid hormone biosynthesis with associated aromatic compound metabolism.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032342","count":7},{"id":"GO:0034651","count":7},{"id":"GO:0071280","count":7},{"id":"GO:0046226","count":6},{"id":"GO:0033280","count":6}]},{"hash":"2184354404378435890","title":"Neural lineage specification and organogenesis","description":"This cluster\u2019s top GO terms center on neural development (GABAergic interneuron differentiation, spinal cord motor neuron and oligodendrocyte fate specification, subpallium neuron fate commitment) but also include endocrine pancreas development, bronchiole development, osteoblast and skeletal muscle differentiation, and transcription by RNA polymerase II. The shared theme is developmental differentiation programs across tissues, with a clear emphasis on neural lineage specification. ","confidence":"High","size":29,"edges":365,"triangles":2726,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0031018","count":16},{"id":"GO:0021892","count":14},{"id":"GO:0060435","count":14},{"id":"GO:0060766","count":14}]},{"hash":"1231592488159298602","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms cluster around chromatin biology and transcription control: heterochromatin formation, transcription initiation-coupled chromatin remodeling, establishment/localization of proteins to chromatin, and dosage compensation. These indicate a shared function in regulating chromatin state and transcription, often via multi-protein complexes. A few terms touch RNA surveillance and signaling, but the dominant signal is chromatin-associated regulation of transcription.","confidence":"High","size":29,"edges":400,"triangles":3497,"max_degree":28,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051290","count":21},{"id":"GO:0000122","count":21},{"id":"GO:0071169","count":18},{"id":"GO:0070481","count":14},{"id":"GO:0000183","count":14}]},{"hash":"1428621355076012877","title":"Transcriptional Regulation in Development and Immunity","description":"The top GO terms include both positive and negative regulation of transcription by RNA polymerase II, plus several development-related terms (midbrain development, lens fiber cell differentiation, biomineral tissue development) and immune-related processes (defense response to Gram-positive bacteria, response to lipopolysaccharide, phagolysosome assembly, coagulation), suggesting a cluster of proteins that regulate gene expression during development and also participate in innate immune and phagocytic pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0035264","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0030194","count":6},{"id":"GO:0045944","count":6}]},{"hash":"535265774269299845","title":"Immune Signaling and Cell Migration","description":"This cluster is dominated by GO terms related to intercellular signaling and immune cell movement, including cell-cell signaling, neutrophil chemotaxis, M-CSF stimulus, and TGF-beta stimulus, with additional signals such as calcium-mediated signaling and responses to insulin and retinoic acid. A developmental cue is also present (branching in mammary gland duct morphogenesis), suggesting broader roles in signaling-driven migration and tissue remodeling. Overall, the common theme is signaling pathways that regulate immune cell behavior and related developmental processes.","confidence":"High","size":29,"edges":304,"triangles":1806,"max_degree":27,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007267","count":26},{"id":"GO:0014911","count":26},{"id":"GO:0050850","count":26},{"id":"GO:0030593","count":26},{"id":"GO:0036006","count":26}]},{"hash":"670786840980998927","title":"Neural development and innate immunity","description":"The cluster includes neural-development terms such as axonal fasciculation, myelination, synapse assembly, and embryonic cranial skeleton morphogenesis, alongside immune-related terms like innate immune response and defense responses to Gram-positive bacteria and lipopolysaccharide. This suggests proteins involved in developmental neurobiology with immune signaling components, so the label reflects the primary neural-development theme while noting the immune annotations.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":11},{"id":"GO:0001822","count":11},{"id":"GO:0007520","count":11},{"id":"GO:0007413","count":11},{"id":"GO:0014068","count":11}]},{"hash":"6967279283141963","title":"Unknown","description":"The Top Terms span translation, multiple biosynthetic processes (histidine, THF, thiamine, polyphosphate), DNA repair/recombination, apoptosis, and embryonic development, with no clear shared function or interaction pattern (Edges/Triangles are zero), so a cohesive label cannot be inferred.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0000105","count":2},{"id":"GO:0046653","count":2},{"id":"GO:0009228","count":2}]},{"hash":"209061644038016463","title":"Embryogenesis and tissue morphogenesis","description":"GO terms center on embryonic development, tissue morphogenesis, and lineage differentiation (placenta/trophoblast, cartilage, left-right patterning, endocardial EMT, pancreatic cell development), generally driven by DNA-templated transcription. A couple of terms (myelin assembly, phosphatidylinositol dephosphorylation) are less specific but can appear in developmental programs, so the overall theme is embryogenesis and organ differentiation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0060806","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2}]},{"hash":"2275615238541080509","title":"Cartilage ECM remodeling and inflammatory signaling","description":"The cluster is dominated by terms related to collagen biosynthesis and fibril organization, ECM-integrin signaling, and regulatory pathways affecting chondrocyte differentiation, along with inflammatory cues (TNF, IL-1) and vascular-related signals (VEGF, BMP). Together, these indicate a module focused on cartilage extracellular matrix remodeling with associated inflammatory and angiogenic signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032331","count":13},{"id":"GO:1900748","count":13},{"id":"GO:0071356","count":12},{"id":"GO:0032964","count":12},{"id":"GO:0007229","count":12}]},{"hash":"99832288992705288","title":"Developmental and Immune Signaling","description":"The top GO terms span metabolic/cardiac signaling (insulin receptor pathway, PI3K/AKT signaling, muscle contraction) as well as developmental and immune processes (placental development, NK T cell differentiation, IL-4 and IL-7 responses, and apoptosis). This suggests the cluster groups proteins involved in broad signaling networks that intersect development, metabolism, and immunity rather than a single precise function. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:2001275","count":21},{"id":"GO:0008286","count":21},{"id":"GO:0060048","count":20},{"id":"GO:0043491","count":20},{"id":"GO:0001893","count":20}]},{"hash":"1475856196276821579","title":"Neural signaling and vision proteins","description":"Dominant GO terms point to neuronal communication and sensory processing: regulation of synaptic vesicle endocytosis and exocytosis, excitatory postsynaptic potential, visual perception, and phototransduction. The presence of substantia nigra development suggests neural development involvement as well. While terms like cardiac muscle contraction, xenobiotic response, and ossification are present, they are less representative of the cluster\u2019s core theme, making 'Neural signaling and vision proteins' a concise, accurate label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060048","count":14},{"id":"GO:1900242","count":10},{"id":"GO:0000278","count":10},{"id":"GO:2000300","count":10},{"id":"GO:0035690","count":10}]},{"hash":"639136629511032162","title":"Unknown","description":"The GO terms span cell cycle, signaling pathways (including GPCR-related and general intracellular signaling), lipid catabolism, chloroplast thylakoid membrane protein import, immune-related regulation, ubiquitination, and chromosome telomere localization. This broad, cross-species mix lacks a single cohesive function or pathway tying all 29 proteins together, making a specific, intuitive label inappropriate. Therefore, Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":13},{"id":"GO:0007205","count":13},{"id":"GO:0046475","count":12},{"id":"GO:0045038","count":12},{"id":"GO:1901594","count":12}]},{"hash":"1597461529150860175","title":"Male germline development and piRNA regulation","description":"The strongest, cohesive signal is in piRNA processing, male gonad development, and male meiotic division, pointing to germline-specific transcriptional and developmental regulation. Additional terms related to transcriptional control and apoptosis may reflect broader developmental regulation but do not outweigh the germline/meiosis theme.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902042","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0043046","count":5},{"id":"GO:0000122","count":5}]},{"hash":"38710840909687612","title":"Unknown","description":"The proteins span diverse processes including interferon responses, bone development, neuromuscular/posture control, synaptic vesicle clustering, intracellular trafficking, glucose transport in response to insulin, and general biotic host responses. There is no single cohesive function uniting these terms, so a precise, specific label cannot be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":6},{"id":"GO:0035455","count":5},{"id":"GO:0060349","count":5},{"id":"GO:0099638","count":5},{"id":"GO:0035456","count":5}]},{"hash":"1164680006373404130","title":"Innate immune signaling and inflammatory response","description":"The top terms cluster around innate immunity and inflammatory signaling: innate immune response, cellular response to LPS, TLR9 signaling, defense against Gram-positive bacteria, NF-kappaB activity, and NO/ROS production, along with IL-17 regulation. These collectively point to a module of pattern-recognition and pro-inflammatory signaling driving ROS/NO production, despite a couple of outlier development terms. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032930","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0007406","count":2},{"id":"GO:0060347","count":2},{"id":"GO:0045429","count":2}]},{"hash":"1423200686843501193","title":"Dendritic cell activation and antigen processing","description":"The cluster\u2019s top GO terms emphasize dendritic cell antigen processing and presentation, type 2 immune response, and inflammatory signaling (NF-kappaB), alongside actin cytoskeleton remodeling, cell migration, and polarity, suggesting a coordinated DC activation/inflammation program. Ubiquitination and proteasomal degradation further support antigen processing and protein turnover. Overall, the proteins appear linked to dendritic cell\u2013driven immune responses rather than a single non-immune process.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0016567","count":7},{"id":"GO:0031146","count":7},{"id":"GO:0043124","count":7},{"id":"GO:0030335","count":7}]},{"hash":"42375643999239474","title":"Ubiquitin-mediated degradation in immunity and muscle development","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, autoubiquitination, and ERAD, indicating a strong focus on ubiquitin-proteasome\u2013driven protein turnover. Additional terms point to defense and innate immune responses, while several terms relate to skeletal muscle development, suggesting these proteins function at the intersection of ubiquitination with immune signaling and muscle biology. This combination supports a cohesive theme around ubiquitin-regulated degradation in immunity and muscle development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0051607","count":6},{"id":"GO:0045087","count":6}]},{"hash":"1811452219786015608","title":"Unknown","description":"The proteins show a mix of functions: defense and innate immune responses (Gram-positive bacterial defense, innate immune response), development in the brain (forebrain and brain development), general transcription activity (DNA-templated transcription), and cell cycle/stress-related processes (mitotic cell cycle, cellular responses to cadmium and ER stress\u2013mediated apoptosis). With Edges: 0 and no clear shared pathway, there isn\u2019t a coherent single theme tying these terms together, suggesting this set does not form a unified functional cluster in this context.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0061087","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1754341804710676862","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"This cluster centers on ubiquitination and ubiquitin-dependent protein degradation, with terms for protein ubiquitination, ubiquitin-dependent proteolysis, and even histone ubiquitination, plus autoubiquitination. It also includes signaling-related terms such as regulation of JNK cascade and activation of NF-kappaB-inducing kinase, indicating a cohesive theme of ubiquitin-mediated degradation and signaling. A vitamin D response term is present but secondary to the dominant ubiquitination theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0033280","count":12},{"id":"GO:0030433","count":12},{"id":"GO:0016567","count":11},{"id":"GO:0036205","count":11}]},{"hash":"147391499557848950","title":"Chromatin regulation and transcription control","description":"The top GO terms cluster mainly around transcription regulation and chromatin-related processes: negative regulation of transcription by RNA polymerase II, regulation of DNA-templated transcription, and nucleosome assembly. While there are related terms pointing to cell-cycle/nuclear dynamics (spindle assembly, cell growth) these appear ancillary to the central theme of chromatin organization and transcription control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0051225","count":3}]},{"hash":"292963566830948106","title":"Ion transport and stimulus-responsive signaling","description":"This cluster is dominated by potassium ion transport, with multiple GO terms pointing to cellular responses to diverse stimuli (muscle stretch, glucose, dsRNA, PMA) alongside related processes like chemotaxis and rhythmic activity. While there are some outliers (cerebral cortex development, obsolete gene silencing), the consistent thread is a set of proteins involved in ion transport and signaling triggered by various external or internal cues, suggesting a cohesive theme of membrane transport coupled to stimulus-responsive signaling.","confidence":"Medium","size":28,"edges":206,"triangles":649,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":18},{"id":"GO:0035994","count":16},{"id":"GO:0071333","count":15},{"id":"GO:0043330","count":15},{"id":"GO:0048240","count":15}]},{"hash":"959848478069463475","title":"Neural sensory processing and temperature responses","description":"Proteins in this cluster show strong enrichment for neural and sensory GO terms\u2014sensory perception of pain and visual perception/learning\u2014paired with temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and stimulus-driven behaviors (dopaminergic synaptic transmission, behavioral response to cocaine, prostaglandin signaling). ERK1/ERK2 cascade regulation also appears, suggesting signaling integration in sensory processing and behavioral responses. The common theme is neural sensory processing with temperature- and stimulus-related signaling rather than a purely metabolic or developmental function.","confidence":"High","size":28,"edges":7,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0002024","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0007601","count":14},{"id":"GO:0001963","count":14}]},{"hash":"1184669090347109080","title":"Chromatin regulation and neural plasticity","description":"The cluster is dominated by transcriptional repression and heterochromatin formation terms, indicating chromatin-based gene regulation. The presence of long-term synaptic potentiation, memory, and astrocyte activation terms suggests a link to neural plasticity and CNS function, while xenobiotic response and other terms may reflect broader regulatory roles of these proteins. Overall, the core theme ties chromatin control to neural gene expression and plasticity.","confidence":"Medium","size":28,"edges":44,"triangles":10,"max_degree":11,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":18},{"id":"GO:0051290","count":15},{"id":"GO:0030466","count":10},{"id":"GO:0042493","count":9},{"id":"GO:0048143","count":9}]},{"hash":"2179033176307289223","title":"Angiogenesis and immune signaling","description":"Top GO terms indicate vascular development (angiogenesis, endothelial/angioblast migration) together with immune processes (neutrophil chemotaxis, adaptive immune response, lectin pathway complement activation) and signaling pathways (ERK, PI3K). This suggests a cohesive module where vascular remodeling is linked with immune signaling and response to pathogens. ","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":14},{"id":"GO:0043536","count":12},{"id":"GO:0043552","count":11},{"id":"GO:0071226","count":11},{"id":"GO:0030593","count":11}]},{"hash":"571668939566189937","title":"Neuronal development and synaptic vesicle trafficking","description":"The cluster centers on neuronal development and synaptic signaling, with strong ties to endocytosis and vesicle transport (endocytosis, Golgi-ER transport), and regulation of synaptic transmission, plus ephrin signaling. The presence of brain development terms and pathways involved in neuronal survival and stress responses (ER stress, autophagy regulation) suggests a cohesive theme around neuronal maturation, synaptic function, and vesicle trafficking with survival regulation.","confidence":"High","size":28,"edges":166,"triangles":573,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":8},{"id":"GO:0043524","count":8},{"id":"GO:0006897","count":8},{"id":"GO:0034260","count":7},{"id":"GO:1902236","count":7}]},{"hash":"1031004621695750221","title":"Musculoskeletal and craniofacial development","description":"The terms cluster around development and differentiation of skeletal muscle, cartilage (bronchus/trachea), bone (osteoblast differentiation), heart (ventricle formation), and craniofacial structures (roof of mouth), with TGF-beta signaling as a regulatory thread. This points to a shared developmental program governing musculoskeletal and craniofacial formation, making this label representative of the cluster\u2019s function.","confidence":"High","size":28,"edges":280,"triangles":1575,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0035914","count":13},{"id":"GO:0060532","count":11},{"id":"GO:0061145","count":11},{"id":"GO:0003211","count":11}]},{"hash":"1900283265645156386","title":"Neural development and lipid metabolism","description":"The most informative terms point to neural lineage specification and embryonic patterning (neuron differentiation, anterior head development), while other terms emphasize lipid metabolism (fatty acid biosynthesis) and hormone signaling (glucocorticoid pathway). Although some redox/ubiquitous terms are present, the dominant theme across multiple terms is neural development with accompanying lipid metabolism/signaling, justifying the chosen label.","confidence":"Medium","size":28,"edges":169,"triangles":354,"max_degree":18,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0006633","count":7},{"id":"GO:0043113","count":5},{"id":"GO:0090179","count":5},{"id":"GO:0019417","count":5}]},{"hash":"229118215962744828","title":"Regulation of actin dynamics and cell signaling","description":"The cluster is enriched for actin cytoskeleton regulation (Arp2/3 nucleation and its negative/positive regulation), GTPase activity signaling, and broad phosphorylation events (serine/threonine and tyrosine, including autophosphorylation), plus associations with mitotic cell cycle, hypoxia response, mRNA transport, and development. This points to a cohesive module coordinating cytoskeletal remodeling with cell-cycle signaling and developmental responses. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034316","count":18},{"id":"GO:0043547","count":18},{"id":"GO:0000278","count":17},{"id":"GO:0071902","count":16},{"id":"GO:0071456","count":16}]},{"hash":"1726458847443038703","title":"Neural development, Wnt signaling, and cell cycle regulation","description":"The cluster shows strong signals for neural development (neural plate, dorsal root ganglion development), limb morphogenesis, and both positive/negative regulation of Wnt signaling, accompanied by cell cycle\u2013related terms (centriole/centromere cohesion). This suggests a cohesive embryonic program where neural patterning and organogenesis are coordinated by Wnt signaling while cell division processes ensure proper development.","confidence":"High","size":28,"edges":322,"triangles":2126,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":18},{"id":"GO:0001840","count":17},{"id":"GO:0071681","count":17},{"id":"GO:0061324","count":17},{"id":"GO:0030997","count":17}]},{"hash":"1464304146395648162","title":"Mitochondrial Translation and Fe-S Biogenesis","description":"The cluster is enriched for translation-related GO terms (cytoplasmic and mitochondrial translation, and maturation of SSU rRNA) alongside mitochondrial-specific processes (mitochondrial translation and electron transport) and iron-sulfur cluster assembly, suggesting a cohesive set of proteins involved in mitochondrial protein synthesis and the biogenesis of Fe-S-containing respiratory complexes.","confidence":"High","size":28,"edges":374,"triangles":3178,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006123","count":3},{"id":"GO:0032543","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0000462","count":2}]},{"hash":"1164946929583227946","title":"Gene Expression and Genome Maintenance","description":"This cluster shows strong signals for translation and tRNA charging (protein synthesis) as well as DNA replication/repair and telomere-related localization, with mitochondrial import terms indicating a mitochondrial component. Together these represent core housekeeping functions that couple gene expression with genome integrity, including mitochondrial involvement.","confidence":"Medium","size":28,"edges":4,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0045041","count":3},{"id":"GO:0072581","count":2}]},{"hash":"358011119402050988","title":"Ribosome Biogenesis and rRNA Maturation","description":"Top GO terms are dominated by ribosome biogenesis, cytosolic ribosome assembly, LSU rRNA maturation, and preribosome large subunit assembly, highlighting a cohesive theme of ribosome assembly and RNA processing. Some other terms (mitochondrial translation regulation, sterol biosynthesis) appear less central, but the core signal points to ribosome biogenesis pathways.","confidence":"Medium","size":28,"edges":242,"triangles":853,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":4},{"id":"GO:1901006","count":3},{"id":"GO:0016126","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0070475","count":2}]},{"hash":"1583455821679266167","title":"Neural development and axon guidance signaling","description":"This cluster is dominated by neural development terms: nervous system development, retina morphogenesis, dendrite self-avoidance, and key signaling pathways like smoothened (SHH) and Roundabout (ROBO), all of which are central to neuron patterning and axon guidance. While there are a couple of terms related to kidney development or immune signaling, the shared theme centers on neurodevelopment and axon guidance.","confidence":"High","size":28,"edges":274,"triangles":1350,"max_degree":27,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042517","count":12},{"id":"GO:0007224","count":11},{"id":"GO:0001822","count":11},{"id":"GO:0035385","count":11},{"id":"GO:0007399","count":11}]},{"hash":"1164806828814245579","title":"Innate Immunity and Cell Adhesion","description":"The cluster is dominated by innate immune terms (complement activation classical pathway, innate immune response, phagocytosis recognition) and cell adhesion terms (heterophilic and homophilic cell-cell adhesion), suggesting a cohesive theme around immune defense coupled with cell-cell interactions. Some developmental and signaling terms (myelination, synapse assembly, ossification, heart rate regulation, symbiont entry) may reflect broader signaling roles but do not override the central immune/adhesion theme.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":15},{"id":"GO:0045087","count":15},{"id":"GO:0007157","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0006910","count":13}]},{"hash":"2169917458350590110","title":"RNA Splicing and Translation Regulation under Stress","description":"The dominant GO terms center on mRNA splicing by the spliceosome, translation initiation/regulation, and mRNA stability in response to stress, with additional signals from ncRNA-mediated gene silencing and ubiquitin-related pathways. This suggests a cohesive cluster of proteins that coordinate RNA processing and translation control under cellular stress (including hypoxia), rather than a single metabolic process. Ubiquitination/ERAD terms may reflect proteostasis coupling under stress but do not redefine the core theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0048025","count":5}]},{"hash":"1714621252233091049","title":"Ubiquitin-Driven Antiviral NF-kappaB Signaling","description":"Top GO terms indicate a focus on ubiquitin-mediated processes and innate antiviral defense: ubiquitin-dependent protein catabolic process, protein ubiquitination, and autoubiquitination (including K6-linked ubiquitination). This is accompanied by innate immune/defense-to-virus terms and activation of NF-kappaB-inducing kinase, pointing to a role for these proteins in regulating antiviral signaling pathways through ubiquitin modification and NF-kappaB/TNF signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0045087","count":13},{"id":"GO:0051865","count":12},{"id":"GO:1903265","count":12},{"id":"GO:0051607","count":12}]},{"hash":"2173032306063549289","title":"Phosphorylation-driven signaling and mitotic cell cycle control","description":"This cluster centers on GO terms for regulation of phosphorylation (positive and negative), cAMP response, NF-kappaB signaling, and mitotic cell cycle processes such as cytokinesis. Together these points suggest proteins involved in phosphorylation-dependent signaling that modulates the cell cycle.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051591","count":4},{"id":"GO:0032465","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0043123","count":3}]},{"hash":"754877581965378695","title":"Unknown","description":"The top GO terms span a wide array of metabolic and biosynthetic processes (aromatic compound degradation, lipid and carbohydrate metabolism, proteolysis, biotin and antibiotic biosynthesis, detoxification), with no clear single function tying all proteins together. The lack of edges or cohesive pathway signal further suggests there is no common theme to name a specific cluster function.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":5},{"id":"GO:2000124","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0009102","count":4}]},{"hash":"1753715970597103924","title":"Xenobiotic and lipid/steroid metabolism","description":"The terms cluster around metabolism of xenobiotics (coumarin, camphor, organofluorine) and lipid/steroid substrates (cholesterol, triglyceride, testosterone) with related vitamin D and stress responses. This pattern suggests a metabolic enzyme group specialized in processing diverse organic compounds, especially xenobiotics and lipid/steroid pathways.","confidence":"Medium","size":28,"edges":57,"triangles":42,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0046226","count":19},{"id":"GO:0033280","count":19},{"id":"GO:0048565","count":19},{"id":"GO:0006707","count":19},{"id":"GO:0035902","count":19}]},{"hash":"666936392890138676","title":"Filopodium dynamics and cell migration signaling","description":"The cluster is enriched for actin cytoskeleton remodeling and filopodium assembly/regulation, along with positive regulation of GTPase activity and fibroblast migration, plus ERK pathway regulation and endosome localization. Together these terms point to coordinated control of filopodial protrusions and cell migration, supported by ubiquitination and signaling cross-talk.","confidence":"High","size":28,"edges":27,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":11},{"id":"GO:0046847","count":10},{"id":"GO:0051489","count":10},{"id":"GO:0043547","count":9},{"id":"GO:0036010","count":9}]},{"hash":"429046678648061765","title":"Unknown","description":"The terms are highly diverse, including glycerophospholipid catabolism, chloroplast thylakoid membrane protein import, ubiquitination, intracellular signaling, telomere localization, cell growth, immune regulation, and even pain/sensory detection. The absence of edges and the heterogeneous GO terms suggest there is no single cohesive function defining this cluster, so a non-specific Unknown label is appropriate.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046475","count":7},{"id":"GO:0045038","count":7},{"id":"GO:1901594","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0045083","count":7}]},{"hash":"1449108200118932477","title":"Neural signaling and behavior","description":"The cluster is dominated by neural-related GO terms: GABA signaling, excitatory postsynaptic potential, sensory perception of sound, locomotory behavior, and conditioned taste aversion, along with ion transmembrane transport (sodium/potassium) and neural cell adhesion/junctions. Together these indicate proteins involved in neuronal communication, synaptic activity, and related behavior, making a label centered on neural signaling and behavior appropriate. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000187","count":8},{"id":"GO:0050910","count":8},{"id":"GO:0030913","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0060079","count":7}]},{"hash":"373591581246152676","title":"Chromatin remodeling and DNA repair","description":"This cluster\u2019s top GO terms cluster around chromatin dynamics (chromatin remodeling, nucleosome mobilization, histone modification) and genome maintenance (DNA repair, UV-C response, replication regulation), with additional transcription-related and developmental terms possibly reflecting broader nuclear roles. The core shared function appears to be chromatin regulation coupled to DNA damage response, justifying this label.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030730","count":3},{"id":"GO:0030707","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0071494","count":3},{"id":"GO:0006281","count":2}]},{"hash":"512726790822130778","title":"Neural sensory perception and reward signaling","description":"This cluster is dominated by GO terms related to visual perception and dopaminergic synaptic transmission, along with visual learning, ERK signaling, and behavioral responses to cocaine, all pointing to neuronal circuits involved in sensory processing and reward. Protein phosphorylation supports active signaling modulation in these pathways, making a neural perception/reward theme the most coherent explanation despite a few peripheral terms.","confidence":"High","size":27,"edges":290,"triangles":1647,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":21},{"id":"GO:0001963","count":21},{"id":"GO:0071380","count":21},{"id":"GO:0048148","count":21},{"id":"GO:0070374","count":21}]},{"hash":"1592906964600968810","title":"Chemical stress response and DNA repair","description":"These proteins seem tied to cellular defense against chemical stress and DNA damage. Top GO terms include responses to xenobiotics, ethanol, and estradiol, plus base-excision and DNA alkylation repair, along with acute inflammatory response and apoptosis regulation. Together they point to a cohesive theme of handling chemical challenges, repairing DNA damage, and modulating cell survival during inflammation.","confidence":"Medium","size":27,"edges":85,"triangles":142,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0042493","count":5},{"id":"GO:0006307","count":5},{"id":"GO:0045471","count":5},{"id":"GO:0051593","count":5}]},{"hash":"1684718002031023073","title":"Enteric nervous system development and gut motility regulation","description":"The top GO terms overwhelmingly point to the enteric nervous system and its control of gut movements (peristalsis, development). Additional terms reflect signaling regulation (ERK cascade, GTPase activity) and responses that can tie to GI neural signaling and vascular/renal context, but the strongest cluster centers on gut neural development and motility, suggesting a functionally coherent group in GI regulation.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":17},{"id":"GO:0030432","count":17},{"id":"GO:0090026","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0042493","count":17}]},{"hash":"1024646240882117489","title":"Cardiovascular Hormonal Regulation of Blood Pressure","description":"The top GO terms center on blood pressure regulation and cardiovascular signaling, including blood coagulation, vasopressin- and angiotensin-mediated vasodilation/vasoconstriction, renin secretion, and modulation of heart contraction by catecholamines. While a few terms touch on digestion or development, the dominant pattern is hormonal control of cardiovascular function and blood pressure, justifying a label focused on that theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":26},{"id":"GO:0060160","count":26},{"id":"GO:1900134","count":26},{"id":"GO:0001698","count":26},{"id":"GO:0001992","count":26}]},{"hash":"1750103728688734408","title":"Transmembrane Transporters for Xenobiotics and Ions","description":"The cluster is enriched for transmembrane transport GO terms, including xenobiotic, vitamin, sugar (arabinose, xylose, D-xylose), nitrite, potassium and sodium-dependent organic cation transport, plus neurotransmitter loading into vesicles\u2014indicating a cohesive group of membrane transporter proteins handling diverse substrates.","confidence":"High","size":27,"edges":310,"triangles":2044,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":27},{"id":"GO:0035461","count":27},{"id":"GO:0042891","count":26},{"id":"GO:0042908","count":25},{"id":"GO:0071805","count":25}]},{"hash":"1211597934527113295","title":"Signaling and Polarity Regulators","description":"In this cluster, the dominant GO terms point to cellular signaling (cAMP-mediated signaling, JNK cascade regulation, receptor clustering) and to the establishment and regulation of cell polarity (apical/basal polarity, centrosome localization). While some terms reflect broader phenotypes (vocalization and exploration behavior) or immune/metabolic processes (opsonization, bile acid secretion), they can be downstream readouts or multifunctional members of signaling networks. Together, the data suggest a core theme of signaling governance and cellular polarity.","confidence":"Medium","size":27,"edges":123,"triangles":260,"max_degree":21,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0071625","count":22},{"id":"GO:0019933","count":20},{"id":"GO:0046328","count":19},{"id":"GO:0032416","count":19},{"id":"GO:0045198","count":19}]},{"hash":"979902572903818904","title":"Tissue development and metabolic signaling","description":"This cluster combines terms tied to tissue differentiation (myoblast and brown fat), cell adhesion and junction formation, and major signaling pathways (insulin signaling, kinase regulation), with metabolic and retinoid processes (retinol metabolism, visual perception) that can tie eye/retina biology to broader development. The presence of immune/xenobiotic responses adds context for stress-related regulation, suggesting a cohesive theme of development and metabolism in tissues rather than a single pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0045445","count":2},{"id":"GO:0090528","count":2}]},{"hash":"1280545900747047591","title":"Embryonic Organ Morphogenesis","description":"This cluster is dominated by embryonic development and morphogenesis terms spanning multiple organs (eye, heart, hindlimb, placenta, gonads, brain habenula, prostate). The recurring theme is morphogenetic processes during development, with transcriptional activity (RNA polymerase II) underpinning these events. Thus the label reflects a general developmental morphogenesis program rather than a single tissue.","confidence":"High","size":27,"edges":116,"triangles":138,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":12},{"id":"GO:0060527","count":9},{"id":"GO:0021986","count":9},{"id":"GO:0035116","count":9},{"id":"GO:2000288","count":9}]},{"hash":"785863760514431513","title":"Broad developmental differentiation","description":"These terms cover embryonic patterning, multiple organ and tissue development, and immune cell differentiation, plus transcriptional regulation. The shared theme is broad developmental and lineage-specification roles rather than a specific pathway, so a generalized 'broad developmental differentiation' label fits.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0090009","count":7},{"id":"GO:0003323","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0042475","count":5}]},{"hash":"450907479938385511","title":"Coagulation and ECM remodeling regulation","description":"This cluster centers on blood coagulation, fibrinolysis regulation, and related vascular remodeling processes (e.g., plasminogen activation and ECM secretion). The recurring terms for coagulation/fibrinolysis and extracellular matrix regulation, along with associated signaling pathways (BMP/TGF-beta/SMAD), suggest a cohesive theme of coagulation control and matrix remodeling in the vasculature.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0051918","count":4},{"id":"GO:0002018","count":4},{"id":"GO:0003331","count":4},{"id":"GO:0042730","count":4}]},{"hash":"707713174308879813","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster centers on transcription control (DNA-templated transcription, negative regulation of RNA polymerase II) and chromatin remodeling, with strong hints of germline-related processes (piRNA processing, DNA methylation in gamete generation) and somatic stem cell maintenance. The included morphogenesis terms (neural crest migration, ureteric bud branching, embryonic digestive tract development) suggest the overarching role of transcriptional and chromatin state dynamics in developmental processes and germline integrity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0043046","count":10},{"id":"GO:1902262","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0043044","count":8}]},{"hash":"368775210908434114","title":"Hippocampal development and synaptic signaling","description":"This cluster is dominated by neural-related GO terms: hippocampus development, nervous system development, excitatory postsynaptic potential, and ephrin receptor signaling, along with calcium-dependent exocytosis, all pointing to neuronal development and synaptic communication. While there are a few cell cycle/DNA replication terms present, the neural/synaptic theme is clearly the primary signal.","confidence":"High","size":27,"edges":106,"triangles":141,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":25},{"id":"GO:0000278","count":24},{"id":"GO:0007399","count":24},{"id":"GO:0033138","count":23},{"id":"GO:0021766","count":23}]},{"hash":"2251931850768369517","title":"Bacterial lipid and cofactor biosynthesis","description":"The top GO terms cluster around fatty acid biosynthesis, lipoteichoic acid biosynthesis, and menaquinone (cofactor) biosynthesis, with supporting acetyl-CoA\u2013related pathways and nonribosomal peptide biosynthesis typical of bacterial metabolism. Some plant-related seed terms appear but do not dominate, so the core theme aligns with bacterial lipid and cofactor production.","confidence":"Medium","size":27,"edges":306,"triangles":2003,"max_degree":26,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006633","count":16},{"id":"GO:1902987","count":15},{"id":"GO:0070395","count":13},{"id":"GO:0043041","count":12},{"id":"GO:0090410","count":12}]},{"hash":"361026495301359148","title":"Steroid and lipid biosynthesis","description":"The proteins cluster around multiple GO terms for biosynthesis and metabolism of steroids (testosterone, estrogen, androgen metabolism) and diverse lipids (retinol, sphingolipids, very long-chain fatty acids, mycolic acids), indicating a cohesive role in lipid and hormone biosynthesis. Some unrelated terms exist, but the dominant signal points to lipid/hormone biosynthetic processes.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0042572","count":5}]},{"hash":"1118870685165138607","title":"Inflammation and Angiogenesis Signaling","description":"The top GO terms center on inflammatory responses (inflammatory response, response to lipopolysaccharide, T cell apoptosis) and angiogenesis-related processes (sprouting angiogenesis, endothelial cell proliferation, cell migration), with supporting roles in extracellular matrix remodeling (hyaluronan biosynthesis) and adhesion. This points to a cluster of immune-driven inflammation coupled with tissue remodeling and vascular formation, justifying a label focused on inflammation and angiogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2001241","count":17},{"id":"GO:0006924","count":17},{"id":"GO:0032496","count":17},{"id":"GO:0006954","count":17},{"id":"GO:0071260","count":17}]},{"hash":"590284758081431847","title":"Ribosome Biogenesis and Translation Initiation","description":"The cluster is driven by GO terms for ribosome assembly and translation initiation, including translation reinitiation, preinitiation complex formation, ribosomal large subunit biogenesis, and overall ribosome biogenesis, along with rRNA maturation. These core themes align with proteins involved in ribosome production and initiation of translation, with additional terms referencing RNA modification and ER-Golgi trafficking that may reflect concurrent cellular processes. Overall, the dominant signal points to ribosome biogenesis and protein synthesis initiation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0042273","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0036265","count":5}]},{"hash":"370953364954560416","title":"RNA processing and translation regulation","description":"This cluster is dominated by RNA processing and translation control processes: nonsense-mediated decay, mRNA cap binding/translation initiation, stress granule assembly, and regulation of translational initiation; together these terms point to roles in RNA metabolism and translational regulation, potentially linked to cellular stress.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000507","count":2},{"id":"GO:0034063","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0010801","count":2},{"id":"GO:1905612","count":2}]},{"hash":"290299971240124519","title":"Female gonad development and prostaglandin metabolism","description":"The top GO terms point to female gonad development and prostaglandin biosynthesis, with additional signals for androgen metabolism and apoptotic signaling, suggesting a reproductive development and signaling theme. Some other terms (e.g., histone methylation, DNA methylation regulation) appear as noisy or obsolete annotations. Thus, naming this cluster around gonad development with prostaglandin signaling best captures the dominant functions. ","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":5},{"id":"GO:0097190","count":5},{"id":"GO:0001516","count":4},{"id":"GO:0008209","count":4},{"id":"GO:0046232","count":4}]},{"hash":"636199957039428248","title":"RNA Pol II transcription initiation machinery","description":"This label is driven by multiple GO terms tied to transcription initiation by RNA polymerase II, including DNA-templated transcription, transcription initiation at RNA Pol II promoter, transcription preinitiation complex assembly, and core promoter binding. The presence of related terms suggests these proteins function as part of the initiation machinery; secondary terms for cell division and vesicle trafficking may reflect broader roles or annotation bleed-over, but the dominant signal is transcription initiation. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0006367","count":2}]},{"hash":"1690379028556896857","title":"Neuronal actin remodeling and proteostasis","description":"Based on the GO terms, the cluster is centered on actin cytoskeleton organization and dendritic spine morphogenesis, pointing to neuronal actin remodeling. Activation of GTPase activity aligns with Rho-family signaling driving spine shape changes, while ubiquitin-dependent protein catabolic process and proteasome assembly indicate coordinated protein turnover accompanying remodeling. Intracellular protein transport and regulation of JNK cascade suggest signaling and trafficking relevant to neuronal plasticity. Overall, this cluster reflects a module of neuronal cytoskeletal dynamics linked to proteostasis and signaling.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0090630","count":5},{"id":"GO:0060997","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0000122","count":4}]},{"hash":"181013668098889252","title":"GTPase-driven actin remodeling and translation regulation","description":"This cluster centers on small GTPase\u2013mediated signaling that governs cytoskeletal dynamics (barbed-end actin capping, actin polymerization, filopodium assembly) and is complemented by components involved in translation initiation and reinitiation, suggesting coordinated control of protein synthesis with cytoskeletal changes. Additional GO terms (cellular response to TGF-beta, positive regulation of peptidyl-tyrosine phosphorylation, apoptosis, NK cell cytotoxicity regulation) point to broader signaling and stress responses that often accompany cytoskeletal remodeling and translational control. Overall, the data indicate a theme of signaling-driven cytoskeletal remodeling linked with translation regulation, warranting a cohesive label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0050731","count":5}]},{"hash":"610674112888158294","title":"ER-Golgi transport and cell cycle regulation","description":"This cluster centers on ER-to-Golgi vesicle transport and Golgi ribbon formation, with related signaling (ERK cascade) and processes tied to DNA replication and cell division, suggesting a theme of vesicular trafficking coordinated with growth signaling and cell cycle control. Immune-related terms appear as secondary signals, likely due to multifunctional proteins or annotation overlap. Confidence: Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0042130","count":5},{"id":"GO:0090161","count":5},{"id":"GO:0051301","count":3},{"id":"GO:0051977","count":3}]},{"hash":"723790578742565162","title":"Cerebellar development and neural signaling","description":"This cluster is strongly enriched for GO terms tied to cerebellar biology\u2014cerebellar cortex formation and Bergmann glial cell differentiation\u2014along with broader neural development and signaling processes such as axon regeneration and insulin receptor signaling. The convergence on cerebellar structure formation and glial differentiation makes this label representative, though some terms (like T cell receptor signaling) may reflect broader shared pathways or annotation overlap.","confidence":"High","size":27,"edges":341,"triangles":2683,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008285","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0014850","count":14},{"id":"GO:0030948","count":13},{"id":"GO:2001275","count":13}]},{"hash":"398676173308461105","title":"Transcriptional Regulation and Developmental Differentiation","description":"This cluster centers on regulatory gene expression processes: DNA-templated transcription and its negative regulation, plus RNA processing (mRNA splicing), all underpinning development, as suggested by differentiation terms such as cerebellar granule cell differentiation, trophoblast giant cell differentiation, and hair follicle morphogenesis. The mix points to a theme of transcriptional control and signaling guiding developmental differentiation. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060707","count":4}]},{"hash":"216467657552676871","title":"Developmental signaling and differentiation","description":"The top GO terms cluster around developmental processes and signaling, including positive regulation of Notch signaling, imaginal disc-derived leg segmentation, ovarian follicle development, female meiotic nuclear division, and marginal zone B cell differentiation, suggesting a theme of development and cell differentiation across tissues. A few DNA repair terms appear but are not representative of the cluster's primary function. Confidence in this as the main theme is Moderate, given the clear developmental signals amid some noise. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006284","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0016267","count":3},{"id":"GO:0032092","count":3},{"id":"GO:0036011","count":3}]},{"hash":"638198161711312446","title":"Meiosis and Cell Cycle Regulation","description":"The top GO terms emphasize meiotic processes (meiotic sister chromatid cohesion, female meiotic nuclear division) and regulation of DNA replication, complemented by signals related to cell growth (TORC1 signaling) and centrosome-associated structures (ciliary basal body docking). Additional terms touch on GTPase regulation, ceramide metabolism, and apoptotic signaling, suggesting a broader context of cell-cycle control, meiosis, and associated signaling/metabolic adjustments. This combination best fits a label focused on meiosis and cell-cycle regulation rather than a single narrow function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0051754","count":7},{"id":"GO:0051901","count":7},{"id":"GO:2001241","count":6},{"id":"GO:0006672","count":6}]},{"hash":"1434712267738774192","title":"Cardiac and neural development signaling","description":"The top terms cluster around developmental processes in cardiac and neural tissues (spinal cord development, heart development, germ cell development) and cardiac muscle contraction, together with major signaling pathways (TORC1/mTOR, PI3K/AKT, Rho) and stimulus responses (prostaglandin E, GM-CSF). This pattern suggests a cohesive group of proteins involved in developmental signaling that links heart and nervous system development with growth and cytoskeletal signaling, as well as tissue-specific responses. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0007281","count":2},{"id":"GO:0060048","count":2}]},{"hash":"1294105221078449011","title":"Regulated signaling and morphogenesis across tissues","description":"The Top Terms cluster around regulation of signaling pathways (NF-kappaB, GPCR, GTPase) and developmental processes, including skin (keratinocyte proliferation, hair follicle morphogenesis) and nervous system (cerebellar granule cell differentiation), with related processes like mitochondrial calcium regulation and coagulation. This points to a broad theme of cross-tissue signaling control and morphogenetic regulation rather than a single, cohesive pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0050774","count":4},{"id":"GO:0051561","count":3}]},{"hash":"1216367345096198551","title":"Actin cytoskeleton remodeling and cell polarity","description":"The prominent GO terms center on actin dynamics (contractile ring assembly, cortical patch localization, cytoskeleton reorganization) and regulation of cell shape/polarity via Rho signaling, with spermatid development suggesting cytoskeletal roles in reproductive cells. While there are some immune-related terms, the strongest signal is about actin-mediated structural remodeling and polarity, making this an appropriate cluster label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:1903475","count":2},{"id":"GO:0051666","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1475277349473155730","title":"Immune signaling and cell adhesion","description":"This cluster is dominated by immune-related functions: adaptive and innate immune responses, B cell receptor signaling, and cytokine production, with cell adhesion often involved in immune cell interactions. Although a couple terms like heart development are present, the core signal is immune signaling and adhesion.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0043552","count":4}]},{"hash":"594866763868449274","title":"Thermogenesis and Cardiovascular GPCR-cAMP Signaling","description":"This cluster combines temperature-related processes (diet-induced thermogenesis, cellular response to temperature) with GPCR-mediated activation of adenylyl cyclase and cAMP signaling, pointing to autonomic cardiovascular regulation (e.g., blood pressure). The presence of electron transport chain and membrane potential terms suggests energy metabolism and neuronal excitability, while pain perception and dopamine signaling imply sensory modulation. Overall, the common theme is temperature-linked metabolic signaling integrated with GPCR-cAMP pathways in cardiovascular and neural contexts.","confidence":"Medium","size":26,"edges":40,"triangles":3,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0019233","count":17},{"id":"GO:0010579","count":14},{"id":"GO:0007190","count":14}]},{"hash":"1352261240391854778","title":"Thermal Stress GPCR-ERK Inflammatory Signaling","description":"The GO terms cluster around temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and signaling pathways (positive regulation of GPCR signaling, ERK1/2 cascade), with accompanying inflammatory and neuromodulatory processes (inflammatory response, blood coagulation, dopamine receptor signaling). This suggests a cohesive theme of temperature-driven GPCR-ERK signaling intersecting with inflammatory and dopaminergic regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0043547","count":14},{"id":"GO:0045745","count":14}]},{"hash":"2290835226586677292","title":"Fungal budding and actin remodeling","description":"This cluster\u2019s top GO terms cluster around fungal morphogenesis (cell budding, ascospore formation) and cytoskeletal dynamics (actin cytoskeleton organization, lamellipodium assembly), suggesting proteins involved in growth and shape changes in fungi and related motility. Some terms like T cell homeostasis and responses to xenobiotics or drugs appear, but they appear to be incidental or broad annotations rather than core drivers of the cluster\u2019s function. Overall, a theme of morphogenesis coupled with actin remodeling fits most of the prominent terms.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0007114","count":3},{"id":"GO:0030437","count":3},{"id":"GO:0035690","count":3}]},{"hash":"68134521065193845","title":"Broad Multitissue Developmental Morphogenesis","description":"This cluster is enriched for a broad range of developmental GO terms across multiple tissues and organs (heart, retina, hindlimb, habenula, osteoblasts, myoblasts, prostate structure) as well as transcription-related terms, suggesting proteins involved in general developmental regulation and organogenesis rather than a single tissue-specific pathway.","confidence":"Medium","size":26,"edges":289,"triangles":1852,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0060041","count":11},{"id":"GO:0021986","count":11},{"id":"GO:2000288","count":11}]},{"hash":"1000754052809888514","title":"Vertebrate embryonic organogenesis and neural crest development","description":"This cluster centers on transcriptional regulation by RNA polymerase II and related transcriptional control, paired with multiple embryonic morphogenesis terms (brain segmentation, rhombomere development, neural crest migration, lung and pancreas morphogenesis, ureteric bud branching, etc.). The proteins likely act as transcriptional regulators coordinating diverse vertebrate developmental programs, especially neural crest\u2013derived processes and organogenesis. ","confidence":"High","size":26,"edges":184,"triangles":453,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0000122","count":15},{"id":"GO:0035284","count":13},{"id":"GO:0021571","count":12},{"id":"GO:0090190","count":12}]},{"hash":"843364766727285932","title":"Craniofacial and neural crest development","description":"This cluster is dominated by GO terms related to craniofacial morphogenesis and neural crest derivatives, including roof of mouth development, neural crest cell migration, cartilage development, and inner ear/cochlea morphogenesis, as well as associated head region development like forebrain proliferation and thyroid formation. The convergence on facial skeletal and sensory organ development strongly supports a craniofacial/Neural crest\u2013driven functional theme.","confidence":"High","size":26,"edges":15,"triangles":6,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":18},{"id":"GO:0000122","count":14},{"id":"GO:0001755","count":14},{"id":"GO:0051216","count":14},{"id":"GO:0021846","count":14}]},{"hash":"2148344064963220671","title":"Glutathione-Driven Redox Detoxification","description":"This cluster is strongly enriched for oxidant detoxification, redox homeostasis, and glutathione metabolism terms, indicating a core function in managing oxidative stress and detoxification. Additional links to toxin catabolic processes, metabolism (aromatic amino acids), and DNA repair support a broader stress-response/metabolic theme, with calcium signaling in muscle contraction appearing as a secondary thread. Overall, the glutathione/oxidative balance perspective best captures the dominant signal.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":23},{"id":"GO:0045454","count":19},{"id":"GO:0014810","count":18},{"id":"GO:0009407","count":18},{"id":"GO:0006749","count":18}]},{"hash":"640787692961635321","title":"Immune recognition and inflammatory signaling","description":"The cluster is dominated by immune-related terms: cellular response to fungal origin, complement activation (lectin pathway), phagocytosis recognition, Fc-gamma receptor signaling, basophil activation, positive regulation of platelet activation, and arachidonate (eicosanoid) secretion, all pointing to innate and adaptive immune responses and inflammatory signaling. A few terms like cartilage condensation or adhesion molecule production may be ancillary or context-specific, but the core signal clearly centers on immune recognition and inflammatory effector functions.","confidence":"High","size":26,"edges":309,"triangles":2266,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":25},{"id":"GO:0060355","count":25},{"id":"GO:0001502","count":25},{"id":"GO:0010572","count":25},{"id":"GO:0051873","count":25}]},{"hash":"579045600397057920","title":"Cardiac development and transcriptional regulation","description":"Top GO terms cluster around DNA-templated transcription and heart development, including atrial septum morphogenesis and Wnt signaling, suggesting these proteins largely function in transcriptional control during cardiac development. While other terms (liver regeneration, IgA isotype switching, spindle assembly, apoptosis) point to broader developmental and cellular processes, the strongest signal ties to transcription regulation in heart development.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0003289","count":4},{"id":"GO:0097421","count":4}]},{"hash":"982198937053141399","title":"Neural development and synaptic signaling","description":"The cluster centers on neural development and synaptic processes, with strong enrichment for axonogenesis, excitatory synaptic activity (excitatory postsynaptic potentials, long-term potentiation), visual perception, Schwann cell development, and angiogenesis. A few mitotic cell cycle terms likely reflect proliferative states during development, but the core theme is neurodevelopment and synaptic maturation. ","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":14},{"id":"GO:0000278","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0060291","count":12},{"id":"GO:0014850","count":12}]},{"hash":"485580315454032284","title":"Neural and sensory organ morphogenesis","description":"The top GO terms cluster around development of neural and sensory tissues (cochlea, retina, brain) and overall multicellular development, with a note on Wnt signaling regulation. This points to a cohesive developmental program governing morphogenesis of sensory and neural organs, rather than a single pathway, making \"Neural and sensory organ morphogenesis\" a concise, representative label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0030111","count":3}]},{"hash":"544720669551575502","title":"Angiogenesis and immune cell signaling","description":"These terms cluster around blood vessel biology and immune cell activity: VEGF-induced responses, regulation of blood vessel remodeling and vasoconstriction, platelet activation and integrin-mediated adhesion, and cell motility (lamellipodium assembly). They also include adaptive immunity (B cell affinity maturation) and T cell activation/death, and cholinergic GPCR signaling, indicating coordinated vascular-immune signaling and cell interactions. The common theme is signaling that coordinates vascular remodeling with immune cell function and adhesion.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035924","count":18},{"id":"GO:0043314","count":18},{"id":"GO:0002344","count":18},{"id":"GO:0030032","count":18},{"id":"GO:0060313","count":18}]},{"hash":"405662218338944010","title":"Adaptive immune activation and phagocytosis","description":"The cluster is dominated by GO terms tied to adaptive immunity (B cell signaling and activation, T cell costimulation, and immune receptor-related adhesion) along with phagocytosis and endocytic processes (recognition/engulfment and receptor-mediated endocytosis). This pattern suggests proteins involved in antigen-specific immune communication and uptake, with a minor outlier term on muscle cell fusion. Confidence: High.","confidence":"","size":26,"edges":158,"triangles":298,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":8},{"id":"GO:0050853","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0050871","count":7}]},{"hash":"1460095136011540072","title":"Neural-ocular and organ development","description":"Top GO terms point to nervous system and eye formation (brain development, visual perception, retinal bipolar neuron differentiation, neural crest formation) along with broader organ development (heart, gonads, multicellular organism development) and related processes (VEGF signaling regulation, nuclear import). This suggests a cluster of proteins involved in embryonic developmental programs across neural/visual lineages and other organs, hence the label. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0014029","count":2},{"id":"GO:0060040","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1096908610769155035","title":"Spliceosome Regulation and RNA Silencing","description":"The top GO terms cluster around regulation of mRNA splicing via the spliceosome (positive/negative regulation, alternative splicing, cis splicing, subunit processome assembly) and RNA silencing pathways (ncRNA- and miRNA-mediated silencing), indicating a module centered on post-transcriptional RNA processing control and RNA-based gene silencing.","confidence":"High","size":26,"edges":92,"triangles":79,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":16},{"id":"GO:0048026","count":15},{"id":"GO:0031047","count":15},{"id":"GO:0048025","count":13},{"id":"GO:0006378","count":13}]},{"hash":"334568060704597118","title":"Ribosome Biogenesis and Cell Cycle Regulation","description":"This cluster prominently features GO terms for maturation of SSU/LSU rRNA and ribosome biogenesis, alongside DNA replication and the centrosome cycle, suggesting a core theme of coordinating ribosome assembly with cell cycle/ DNA replication during development. Some developmental terms (multicellular organism development, neural tube closure) may reflect broader roles or pleiotropy rather than a separate function. ","confidence":"Medium","size":26,"edges":229,"triangles":1208,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0000463","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0001843","count":4}]},{"hash":"1357179411094578330","title":"Neurodevelopment and Synaptic Vesicle Exocytosis","description":"The cluster\u2019s top terms cluster around nervous system development, brain/substantia nigra development, and regulation of synaptic vesicle exocytosis, with supporting hints from calcium-dependent exocytosis and Golgi-to-plasma membrane transport. While mitotic cell cycle terms appear, the dominant theme is neural development and synaptic function, suggesting these proteins work together in neural maturation and neurotransmitter release.","confidence":"High","size":26,"edges":118,"triangles":169,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051301","count":6},{"id":"GO:2000300","count":5}]},{"hash":"1360360408442387767","title":"MAPK/ERK signaling regulation in neural development","description":"The cluster centers on regulation of signaling pathways, especially negative regulation of the ERK/MAPK cascade (peptidyl-tyrosine dephosphorylation and ERK inhibition), coupled with neural development indicators (neuron development, Bergmann glial cell differentiation) and related pathways such as insulin signaling. While some GO terms touch broader signaling regulation (e.g., T cell signaling, proteasomal pathways), the strongest theme is coordinated control of MAPK/ERK signaling linked to neural differentiation.","confidence":"Medium","size":26,"edges":204,"triangles":779,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":14},{"id":"GO:0000200","count":11},{"id":"GO:0070373","count":11},{"id":"GO:0050860","count":11},{"id":"GO:0032435","count":11}]},{"hash":"1072818494474567309","title":"Synapse formation and growth signaling","description":"This cluster centers on synaptic components and signaling pathways that regulate growth and organization. The top GO terms include positive regulation of canonical Wnt signaling and Hippo signaling, along with protein localization to synapse and dendritic spine morphogenesis, pointing to coordinated control of synapse formation and cellular growth. Receptor clustering and Rho-mediated signaling further support dynamic cytoskeletal and synaptic assembly processes. A few terms reference broader proliferation or non-neuronal differentiation, suggesting some broader roles, but the dominant theme is synapse-associated signaling governing development and proliferation restraint.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":21},{"id":"GO:0035418","count":20},{"id":"GO:0007266","count":20},{"id":"GO:0035329","count":20},{"id":"GO:0043113","count":20}]},{"hash":"822635943998254037","title":"Energy metabolism and transport","description":"The top GO terms point to mitochondrial electron transport, NADH to ubiquinone transfer, proton transmembrane transport, and aerobic respiration, all central to cellular energy production and membrane transport. While some terms (bradykinin catabolic process, nitrate assimilation, photosynthesis) seem peripheral, the core theme is energy metabolism linked to membrane transport, giving a concise cluster label. ","confidence":"Medium","size":26,"edges":72,"triangles":100,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":5},{"id":"GO:1902600","count":5},{"id":"GO:0009060","count":4},{"id":"GO:0006120","count":3},{"id":"GO:0051289","count":3}]},{"hash":"601901106966515796","title":"Triglyceride Metabolism and Lipid Processing","description":"The cluster shows strong signals for triglyceride catabolic processes and regulation of triglyceride storage, along with related lipid remodeling activities (phospholipid and phosphatidylserine catabolism, glucuronoside catabolism) and redox/detoxification processes. This combination suggests a cohesive theme around lipid metabolism and lipid remodeling, with ancillary oxidative balance aspects. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":6},{"id":"GO:0055114","count":4},{"id":"GO:0048146","count":4},{"id":"GO:0010890","count":4},{"id":"GO:0006660","count":3}]},{"hash":"1723384446565726847","title":"Neuronal signaling and energy metabolism","description":"The top GO terms center on aminergic neurotransmitter loading into synaptic vesicles, calcium-mediated signaling, and behavioral responses (response to morphine, anesthesia-resistant memory, thermotaxis), pointing to neural communication. The inclusion of the TCA cycle reinforces a metabolic context supporting neuronal activity. A couple of terms are obsolete or peripheral, but the core theme is neural signaling with associated metabolism.","confidence":"Medium","size":26,"edges":277,"triangles":1645,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0006099","count":6},{"id":"GO:0043278","count":6},{"id":"GO:0043052","count":5},{"id":"GO:0007615","count":5}]},{"hash":"1926003494870227035","title":"Neural Development and Synapse Formation","description":"This cluster is dominated by GO terms related to nervous system development, synapse assembly, and transmission of nerve impulses, with supporting roles in cell adhesion that are essential for neural connectivity. While there are also terms tied to immune response and bone maturation, the core theme centers on neural development and synaptic organization, suggesting these proteins function together in neural tissue formation and signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0043931","count":6}]},{"hash":"1982815346897328121","title":"Rho GTPase\u2013driven cytoskeleton remodeling and adhesion","description":"The cluster is dominated by GO terms for Rho and small GTPase signaling and cytoskeletal assembly (lamellipodium, microspike) as well as cell adhesion and tight junction processes, pointing to coordinated actin remodeling and cell\u2013surface interactions governed by Rho-family GTPases. Developmental terms like heart development and retinoic acid response appear as secondary associations.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0007264","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0030035","count":6},{"id":"GO:0030032","count":6}]},{"hash":"2127146800831611653","title":"Neural development and synaptic signaling","description":"Most terms point to neural development and synaptic biology: nervous system development, dendrite morphogenesis, hippocampus development, axon extension, excitatory postsynaptic potential, and cellular response to dopamine, indicating synaptic signaling and plasticity in neurons. While mitotic cell cycle appears, the dominant themes are neuronal morphology and signaling, so this label reflects the cluster\u2019s core function.","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":26},{"id":"GO:0033138","count":25},{"id":"GO:0021766","count":25},{"id":"GO:0031647","count":25},{"id":"GO:0060079","count":25}]},{"hash":"2269595709566178859","title":"LPS-driven innate inflammatory signaling","description":"This cluster centers on innate immune activation in response to bacterial lipopolysaccharide (LPS) and related inflammatory signaling. The prominent GO terms\u2014cellular response to lipopolysaccharide, lipopolysaccharide-mediated signaling pathway, innate immune response, inflammatory response, and positive regulation of canonical NF-kappaB signaling\u2014along with defense against bacteria and interferon-related responses (interferon-beta production, dsRNA response) point to a cohesive PRR-triggered NF-kappaB\u2013driven inflammatory module with antiviral components. This makes the label a representative and specific summary of the cluster\u2019s function.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071222","count":8},{"id":"GO:0006954","count":8},{"id":"GO:0051092","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0071260","count":6}]},{"hash":"1074452369800040089","title":"Vasculogenesis and vascular regulation","description":"The top GO terms are dominated by vasculogenesis, its positive regulation, and regulation of blood pressure, indicating a cohesive theme of vascular development and endothelial function. Supporting terms related to secretory processing and glycosylation likely reflect protein processing in vascular or secretory pathways but do not overshadow the vascular-focused signal.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071472","count":2},{"id":"GO:0008217","count":2},{"id":"GO:2001214","count":2},{"id":"GO:0001570","count":2},{"id":"GO:0019348","count":1}]},{"hash":"2259302623675196317","title":"Unknown","description":"The top GO terms span sensory processes (taste, hearing), development (skin, male gonad), immunity (defense against Gram-positive bacteria), phagolysosome assembly, transcription, and cytoskeletal regulation (GTPase activity, actin filament capping). With no network edges and diverse functions, there isn\u2019t a single cohesive function tying these proteins together.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0050909","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1012789523129968309","title":"Intracellular signaling and actin cytoskeleton dynamics","description":"Most terms point to intracellular signal transduction, actin filament assembly, cell migration, and epithelial polarity, suggesting a module that coordinates signaling with cytoskeletal remodeling and tissue organization. While there are outliers related to membrane trafficking and ubiquitination, the dominant theme is signaling linked to cytoskeletal dynamics. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":9},{"id":"GO:0050966","count":9},{"id":"GO:0016477","count":9},{"id":"GO:0051017","count":9},{"id":"GO:0035544","count":9}]},{"hash":"109882283071342399","title":"Neural Signaling and Sensory Perception","description":"Based on top GO terms, the cluster centers on neural signaling and sensory processing: pain and visual perception, dopaminergic synaptic transmission, visual learning, cocaine response, and ERK pathway modulation\u2014all hallmark of brain signaling and plasticity. Some terms (heart development, macrophage chemotaxis) are less central here, but they don't override the dominant neural theme.","confidence":"High","size":25,"edges":141,"triangles":167,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0007601","count":20},{"id":"GO:0001963","count":20},{"id":"GO:0071380","count":20},{"id":"GO:0048148","count":20}]},{"hash":"288693574715839272","title":"Dopaminergic neural signaling","description":"The top GO terms cluster around dopaminergic synaptic transmission, GPCR signaling with cGMP, ERK cascade modulation, and stimulant/behavioral responses (e.g., cocaine), with additional sensory perception terms (vision, pain). This indicates a central dopamine-mediated neural signaling module governing stimulus-response pathways, despite some peripheral sensory annotations.  ","confidence":"High","size":25,"edges":206,"triangles":701,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":18},{"id":"GO:0019233","count":18},{"id":"GO:0002024","count":16},{"id":"GO:0006468","count":16},{"id":"GO:0071502","count":16}]},{"hash":"2249051079625004200","title":"Neural Visual Perception and Cocaine Response","description":"This cluster is dominated by GO terms for visual and sensory perception, dopaminergic synaptic transmission, visual learning, and cocaine-related behavioral responses, with supporting signaling pathways (ERK cascade, GTPase regulation). Although a few terms like heart development appear, the shared pattern points to a neural vision/reward module.","confidence":"Medium","size":25,"edges":124,"triangles":140,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0007601","count":17},{"id":"GO:0001963","count":17},{"id":"GO:0071380","count":17},{"id":"GO:0043547","count":17}]},{"hash":"2080076001125006224","title":"Cardiovascular Regulation and Blood Pressure Signaling","description":"The top GO terms are dominated by cardiovascular and circulatory regulation: vasopressin- and angiotensin-mediated control of systemic arterial blood pressure, renin secretion, regulation of heart contraction by catecholamines, and related coagulation processes. This points to a cohesive theme around cardiovascular signaling and blood pressure homeostasis, with a few outliers (e.g., midgut development, cytolysis) that may reflect multifunctional proteins or annotation noise. Overall, the cluster appears to represent cardiovascular regulation mechanisms.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":22},{"id":"GO:0060160","count":22},{"id":"GO:1900134","count":22},{"id":"GO:0001698","count":22},{"id":"GO:0001992","count":22}]},{"hash":"1360516625760034459","title":"ERK signaling in inflammation and tissue remodeling","description":"The top GO terms center on positive regulation of the ERK1/ERK2 cascade together with LPS signaling, wound healing, endothelial proliferation, osteoblast differentiation, and responses to mechanical stimuli and vitamin D, suggesting an integrated program where ERK-driven signaling coordinates immune responses with tissue repair and development across multiple tissues (bone, vasculature, nervous system). ","confidence":"High","size":25,"edges":11,"triangles":3,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0031663","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0060670","count":4},{"id":"GO:0033280","count":4}]},{"hash":"2153716581644162636","title":"Immune activation and antibody production","description":"The Top Terms show strong representation of immune system processes: heterophilic cell-cell adhesion (likely leukocyte interactions), complement activation (classical pathway), B cell receptor signaling, innate immune response, and immunoglobulin production. While a few terms touch on cardiac electrophysiology or host cell symbiosis, the dominant signal is immune functions spanning innate and adaptive humoral immunity, justifying a label centered on immune activation and antibody production.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0002377","count":5}]},{"hash":"916007788967508255","title":"Developmental differentiation and transcription regulation","description":"The cluster includes multiple developmental process terms (skeletal system, lens fiber, pancreatic development, axis specification) and both positive and negative regulation of transcription by RNA Pol II, suggesting a group of proteins involved in coordinating gene expression with tissue development and differentiation. Some terms (digestion, wound healing, muscle homeostasis) reflect broader developmental and homeostatic roles.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0003323","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0007586","count":6},{"id":"GO:0042060","count":5}]},{"hash":"1817774103009693261","title":"Heat-stress protein folding and quality control","description":"This cluster centers on proteostasis under heat stress, featuring terms for response to heat, unfolded protein response, ER protein folding, and ubiquitin-proteasome\u2013mediated nuclear quality control, all pointing to protein folding and QC mechanisms activated by heat stress. Some terms are broader or older (e.g., tRNA import, ATP-dependent activity regulation) but do not shift the main theme away from heat-related protein quality control. ","confidence":"High","size":25,"edges":62,"triangles":43,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":5},{"id":"GO:0006626","count":5},{"id":"GO:0006986","count":5},{"id":"GO:0071630","count":5},{"id":"GO:0009408","count":5}]},{"hash":"1458016930276970220","title":"Embryonic morphogenesis and neural development","description":"This cluster centers on embryonic development processes, with multiple GO terms for organ morphogenesis (eye, digestive tract, ureteric bud, lung) and neural development (neural crest migration, motor neuron guidance, PNS neuron development, primitive streak). A strong signal for transcription by RNA polymerase II and its negative regulation suggests coordinated transcriptional control during these developmental programs.","confidence":"High","size":25,"edges":9,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0006366","count":10},{"id":"GO:0001755","count":9},{"id":"GO:0060441","count":9},{"id":"GO:0008045","count":9}]},{"hash":"2186611421405088550","title":"CDK-regulated cell cycle and differentiation signals","description":"Top GO terms point to core cell-cycle control (G1/S transition, CDK activity, mitosis, spindle separation, cell division) and DNA-templated transcription, with additional differentiation cues for mammary alveolus, Leydig cells, and multi-ciliated epithelia. This suggests a cluster centered on cell-cycle regulation with accompanying lineage differentiation signals, rather than a single, narrow pathway.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0060749","count":11},{"id":"GO:0033327","count":11},{"id":"GO:0000082","count":11},{"id":"GO:0045737","count":10}]},{"hash":"233070885985689857","title":"Cytokine-driven immune signaling","description":"This cluster's top GO terms cluster around immune communication and signaling: cellular response to GM-CSF stimulus, positive regulation of type II interferon production, cellular response to TGF-beta stimulus, and T cell receptor signaling. Together these point to cytokine- and T cell\u2013mediated immune regulation, with neutrophil homeostasis also represented. A couple of terms (phototransduction, dopamine metabolic regulation) are less connected, but the dominant theme is immune signaling, so the label is appropriate.","confidence":"High","size":25,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097011","count":12},{"id":"GO:0032729","count":12},{"id":"GO:0071560","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0042053","count":12}]},{"hash":"64303196279238235","title":"Immune Signaling and Cell Cycle Regulation","description":"The terms show strong immune-related signals (lipopolysaccharide response, GM-CSF stimulus, T cell receptor signaling) alongside mitotic control (G1/S, G2/M transitions) and signaling pathway connections (GTPase activity, insulin receptor signaling, angiogenesis), suggesting a cluster of proteins that tie inflammatory signaling to cell cycle and vascular responses.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0046626","count":4}]},{"hash":"248722727967599644","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around developmental processes across diverse tissues (pancreatic, skeletal muscle, placental, endocrine), patterning and morphogenesis (left/right formation, EMT), plus regulatory signaling and protein turnover. This suggests a broad theme of development and tissue morphogenesis rather than a single specific pathway.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1529457489251142535","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":292,"triangles":2137,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":25},{"id":"GO:0006260","count":25},{"id":"GO:0071038","count":24},{"id":"GO:0071051","count":24},{"id":"GO:1990416","count":24}]},{"hash":"2011782550947467557","title":"Steroid and lipid biosynthesis","description":"The top GO terms cluster around biosynthetic processes for lipids and steroid-related compounds (estrogen, testosterone, glucocorticoid biosynthesis; sphingolipids; very long-chain fatty acids; mycolic acids; poly-hydroxybutyrate), indicating a shared theme of lipid and steroid molecule production. Although one term notes a drug response, the dominant signal is diverse lipid/steroid biosynthesis, justifying a specific label rather than a generic biosynthesis category.","confidence":"High","size":25,"edges":126,"triangles":257,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":20},{"id":"GO:0055114","count":20},{"id":"GO:0006703","count":19},{"id":"GO:0030148","count":19},{"id":"GO:0031427","count":19}]},{"hash":"1639836049281474742","title":"Leukocyte activation and adhesion","description":"The top GO terms cluster around T cell activation and costimulation, integrin-mediated cell adhesion, and endothelial migration, indicating a theme of leukocyte activation and trafficking. While terms for proteolysis and cellular detoxification are present, they do not override the dominant immune-activation/adhesion pattern.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0006508","count":7},{"id":"GO:0031295","count":6},{"id":"GO:0033632","count":6},{"id":"GO:0007155","count":6}]},{"hash":"2029233152052740638","title":"Transcriptional Regulation and Microtubule Dynamics","description":"The top GO terms center on transcription control (DNA-templated transcription and negative regulation of transcription by RNA Pol II, plus histone deacetylation) while other terms highlight cytoskeletal and mitotic processes (microtubule polymerization, centrosome separation, mitotic cytokinesis, and locomotion). This suggests a cohesive cluster of proteins that link gene expression regulation to cell division and cytoskeletal remodeling, possibly in proliferating hematopoietic or immune cells. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0030851","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0000281","count":2}]},{"hash":"704787992285504981","title":"Complement activation and immune cell adhesion","description":"The cluster is dominated by immune-related GO terms: classical complement activation, and both heterophilic and homophilic cell-cell adhesion, plus regulatory activities on NK and T cell functions and dendritic cell differentiation. This points to a cohesive theme of immune surveillance involving complement pathways and cell\u2013cell interactions, with skeletal development appearing incidental. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":17},{"id":"GO:0007157","count":17},{"id":"GO:1904604","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0001501","count":14}]},{"hash":"232446591511007361","title":"Innate Immune Signaling and Epithelial Cytoskeleton","description":"These proteins are enriched for innate immune terms (innate immune response, MyD88-dependent TLR signaling, defense response to virus) and epithelial/cytoskeletal processes (actin filament bundle assembly, cell migration, epithelial polarity, EGFR signaling). The combination points to a module involved in epithelial innate immune signaling with cytoskeletal remodeling. Although the network edges are absent, the functional themes cohere well, supporting the label.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0060348","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0007173","count":5},{"id":"GO:0016477","count":5}]},{"hash":"1115020672406734707","title":"Unknown","description":"The top GO terms are highly diverse, including cell division and cell cycle, metabolism (glycolysis and TCA), multiple developmental processes (prostate gland, thalamus, male differentiation), steroid receptor assembly, interferon response, and metal detoxification. This lack of a single, cohesive biological theme suggests no specific shared function for the cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006096","count":3},{"id":"GO:0030850","count":3},{"id":"GO:0046661","count":3},{"id":"GO:0006463","count":3}]},{"hash":"1143899558797610875","title":"Neural adhesion and myelination with immune signaling","description":"The terms are dominated by neural-developmental processes (heterophilic cell-cell adhesion, axonal fasciculation, synapse assembly, myelination) with an added innate immune component (innate immune response, complement activation). This points to a cluster of proteins involved in neural tissue connectivity and maturation that may also engage immune signaling; other bone/ear morphogenesis terms appear as ancillary developmental roles. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0007413","count":12},{"id":"GO:0014068","count":12},{"id":"GO:0042552","count":12},{"id":"GO:0006958","count":11}]},{"hash":"115074081069919480","title":"Developmental Signaling and Organogenesis","description":"The cluster shows enrichment across nervous system development, heart and kidney development, angiogenesis, and multiple signaling pathways (T cell receptor, Hedgehog/Smoothened, ROBO, prolactin), suggesting proteins that coordinate developmental signaling for organogenesis rather than a single specific process.","confidence":"High","size":25,"edges":201,"triangles":759,"max_degree":23,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0050852","count":10},{"id":"GO:0007224","count":9},{"id":"GO:0045162","count":9},{"id":"GO:0001525","count":9}]},{"hash":"24040764689171699","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitin tagging and proteolysis (ubiquitin-dependent proteolysis, K48- and K6-linked ubiquitination, autoubiquitination, ERAD), along with histone catabolic processes. Additional terms touch on circadian regulation and signaling pathways (TNF, JNK) and growth control, all of which are commonly connected to ubiquitin-mediated protein turnover and proteostasis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0051865","count":10},{"id":"GO:0070936","count":10},{"id":"GO:0085020","count":9},{"id":"GO:0036205","count":9}]},{"hash":"220795327969915665","title":"Neural mechanosensory signaling and ion transport","description":"Top terms cluster around neural signaling and ion transport: mechanosensory detection (sound), excitatory and GABAergic synaptic transmission, and sodium/potassium/calcium transport across membranes. Behavioral terms like locomotion and conditioned taste aversion reflect neural circuit outputs, suggesting a cohesive role in nervous system signaling and ion-channel function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":14},{"id":"GO:0035725","count":12},{"id":"GO:0060079","count":11},{"id":"GO:0007214","count":11},{"id":"GO:0001661","count":11}]},{"hash":"1629827257230268800","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development processes such as placenta formation, cartilage morphogenesis, left-right patterning, trophoblast differentiation, and EMT in heart-related structures, indicating a cohesive theme of embryogenesis and tissue morphogenesis; the accompanying RNA processing terms appear secondary. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0060806","count":13},{"id":"GO:0060536","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060707","count":13},{"id":"GO:0035270","count":13}]},{"hash":"515880594706373886","title":"RNA modification and cofactor biosynthesis","description":"The cluster is dominated by GO terms for RNA modification (tRNA queuosine biosynthesis, rRNA base methylation) and multiple cofactor/biosynthetic pathways (menaquinone, PQQ, biotin, protoporphyrinogen IX), plus translation-related terms. This suggests a cohesive theme around RNA nucleotide modification and the production of small-molecule cofactors, common in bacterial metabolism; the antibiotic response term is less central to the main theme but may reflect stress-related transcriptional changes.","confidence":"High","size":25,"edges":13,"triangles":1,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0046677","count":6},{"id":"GO:0006412","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0018189","count":4},{"id":"GO:0055114","count":3}]},{"hash":"1253278625793378363","title":"Motor neuron development and axon guidance","description":"The terms cluster around motor neuron development, migration, and axon pathfinding (lateral motor column migration, motor neuron axon guidance, axonogenesis), with supporting adhesion and cytoskeletal processes (cell-matrix adhesion, actin filament bundle assembly, receptor clustering, hemidesmosome assembly). This suggests a cohesive role in motor neuron differentiation and the establishment of neural connectivity.","confidence":"High","size":25,"edges":276,"triangles":1808,"max_degree":24,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070527","count":13},{"id":"GO:0097477","count":13},{"id":"GO:0008045","count":11},{"id":"GO:0007160","count":11},{"id":"GO:0048936","count":11}]},{"hash":"1734082515319001269","title":"Actin Cytoskeleton Dynamics and Mitosis","description":"The cluster is dominated by terms about cytoskeleton organization and remodeling, including mitotic spindle assembly, stress fiber and microspike assembly, and regulation of Rho signaling, indicating a cohesive focus on actin cytoskeleton dynamics and cell division. A few other terms point to metabolism/signaling that may be secondary associations, but the core theme remains cytoskeletal remodeling during mitosis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0015758","count":3},{"id":"GO:0008286","count":3}]},{"hash":"1172511851351177201","title":"RNA Splicing and mRNA Stability Regulation","description":"The cluster is dominated by GO terms emphasizing mRNA processing and splicing (spliceosome, splice site recognition, regulation of alternative splicing, small-subunit processome) and mRNA stability in stress response, plus post-transcriptional regulation like miRNA-mediated silencing. This points to a cohesive theme of post-transcriptional control through splicing and mRNA turnover. ","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":21},{"id":"GO:0006378","count":17},{"id":"GO:0048025","count":15},{"id":"GO:1905663","count":15},{"id":"GO:0045292","count":15}]},{"hash":"639293754592055116","title":"Neuronal development and vesicle trafficking","description":"This cluster is driven by terms related to neural development (interneuron migration, neuron fate determination) and vesicle trafficking components (exocyst localization, Cvt pathway) and protein regulation (ubiquitination). While some terms are less obviously linked (e.g., cytogamy, yeast autophagy-related targeting), the strongest and most coherent signal centers on neuronal development coupled with components of membrane trafficking and protein regulation.","confidence":"Medium","size":25,"edges":184,"triangles":673,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":25},{"id":"GO:0032966","count":25},{"id":"GO:0021830","count":25},{"id":"GO:0032258","count":25},{"id":"GO:0060178","count":25}]},{"hash":"1976779772367766198","title":"Embryonic organogenesis and neural development","description":"The cluster shows enrichment across organogenesis (brain, liver, placenta, kidney) and neural differentiation (axon extension, synapse assembly, motor neuron differentiation) with related transcriptional regulation, implying a developmental program rather than a specialized pathway.","confidence":"Medium","size":25,"edges":32,"triangles":30,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031424","count":8},{"id":"GO:0000122","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0001889","count":4},{"id":"GO:0030516","count":4}]},{"hash":"135530920107303032","title":"Innate and B Cell Immune Activation","description":"The cluster is dominated by GO terms related to innate immunity (innate immune response, phagocytosis recognition, complement activation) and adaptive immunity (B cell receptor signaling, positive regulation of B cell activation). This suggests a cohesive immune defense module with both innate and B cell\u2013mediated signaling. A few terms about axonal fasciculation and synapse assembly appear as outliers or pleiotropic components rather than defining the cluster's core function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0007413","count":11},{"id":"GO:0046718","count":10},{"id":"GO:0050853","count":10},{"id":"GO:0006910","count":10}]},{"hash":"495444529880454690","title":"Cell signaling and transcription regulation","description":"The top GO terms point to intracellular signaling via GTPases and related pathways (small GTPase signaling, regulation of GTPase activity, insulin receptor signaling, BDNF receptor signaling) alongside processes tied to DNA-templated transcription and DNA replication, suggesting a broad role in signaling coupled to gene expression and cell-cycle-related functions. Since the terms span several related but distinct processes (signaling, trafficking, transcription, cell division) without a single dominant pathway, this label captures the shared theme without over-committing to one function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1217600340148601017","title":"Cross-tissue Development & Morphogenesis","description":"The GO terms cluster around developmental processes across multiple tissues (pancreatic cell development, outflow tract morphogenesis, sympathetic and neural development, endothelial barrier formation, and vascular branching), with some lipid storage/organization terms that can accompany developmental energy storage. This mix points to a broad organogenesis/morphogenesis theme rather than a single pathway, hence a cross-tissue developmental label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0034389","count":2},{"id":"GO:0010344","count":2},{"id":"GO:0019915","count":2}]},{"hash":"1376523301081794358","title":"Neural and skeletal development with cytoskeletal signaling","description":"The cluster shows a mix of neural development (neuron projection development, long-term synaptic potentiation, cell adhesion) and bone lineage markers (bone development, osteoblast fate commitment), supported by cytoskeletal regulation terms (microspike assembly, regulation of Rho signaling). The inclusion of apoptosis and dendritic cell chemotaxis hints at broader remodeling contexts, but the common theme appears to be developmental programs driven by cytoskeletal dynamics and cell interactions across neural and skeletal lineages.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030035","count":4},{"id":"GO:0001878","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0007155","count":3}]},{"hash":"658219832828743826","title":"Taste receptor GPCR signaling","description":"The top GO terms emphasize chemosensory functions\u2014taste perception, chemical stimulus detection, and bitter-taste signaling\u2014along with the adenylate cyclase-activating GPCR pathway, pointing to gustatory chemosensation through GPCR signaling as the cluster's main theme. Some additional terms (electronic transport, peristalsis, blood pressure regulation) may reflect broader physiological contexts that utilize similar signaling, but the dominant signal is taste-related GPCR activity.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":8},{"id":"GO:0050909","count":7},{"id":"GO:0019236","count":7},{"id":"GO:0007606","count":7},{"id":"GO:0001580","count":7}]},{"hash":"148797771543791166","title":"Developmental signaling and mitotic cell cycle","description":"The cluster includes strong signals for both cell division (mitotic cell cycle, mitotic spindle assembly) and developmental processes (skeletal system development, neural tube closure, multicellular organism development), with supporting involvement in TGF-beta signaling and regulation of signaling-related processes (GTPase activity, tyrosine phosphorylation) and apoptosis. This suggests a group of proteins that coordinate growth, development, and cell division. Confidence: Medium","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0001501","count":5}]},{"hash":"113221125698160681","title":"Immune Signaling and Cell Migration","description":"This cluster centers on immune-related signaling (GM-CSF response, T cell receptor signaling) and downstream pathways (JNK, PI3K-AKT, Rho), plus processes linked to cell adhesion/migration (tight junction assembly, fibroblast migration) and centrosome localization. The diversity of terms suggests a shared theme of signal transduction coordinating cell movement and interactions across immune and stromal contexts, though a few terms related to cardiac function are less directly connected.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0046328","count":3},{"id":"GO:0051660","count":3},{"id":"GO:0060048","count":3}]},{"hash":"190148311780215243","title":"Cytokinesis and Cell Morphogenesis Regulation","description":"The top GO terms cluster around mitotic cell cycle, cleavage furrow formation, and regulation of GTPase activity, all core to cytokinesis and cytoskeletal remodeling. Additional terms emphasize cell morphogenesis and cell polarity, supporting a broader theme of cell shape changes during division. Some developmental and chromatin/immune terms appear as outliers, but the dominant signal points to cytokinesis and morphogenesis control. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0006348","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0000902","count":6}]},{"hash":"230892015176346275","title":"Gene Expression and Genome Maintenance","description":"The cluster\u2019s top terms cluster around core gene expression processes (translation GO:0006412, DNA-templated transcription GO:0006351) and genome maintenance (homologous recombination GO:0000724, nucleotide-excision repair GO:0006289), with regulatory signaling that links to stress responses and translation control (GCN2-mediated signaling GO:0060733). While some terms point to development or reproductive biology (skeletal system development GO:0001501, regulation of male/female reproductive processes), the dominant theme ties to transcription/translation regulation and DNA repair. This suggests a cohesive, overarching function in gene expression coupled with genome integrity maintenance, with the dev/repro terms likely reflecting broader roles or annotation noise. Confidence: Medium.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0060733","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0001501","count":3}]},{"hash":"1179423777243495422","title":"Immune signaling and development","description":"The top GO terms are dominated by adaptive immune response, B cell receptor signaling, and phagocytosis recognition, indicating a core immune signaling theme. Additional terms point to mitotic cell cycle, brain development, BMP signaling, ERK cascade, Rho signaling and cell adhesion, suggesting broader roles in cell signaling and development. Overall, this cluster appears to group proteins involved primarily in immune signal transduction, with secondary involvement in developmental and cell-division processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3}]},{"hash":"111038982509947811","title":"Secretory signaling in neural and immune cells","description":"This cluster centers on secretory and signaling processes: neurotransmitter secretion, platelet degranulation, and Fc-epsilon receptor signaling point to regulated exocytosis in neural and immune cells, while kinase autophosphorylation and related terms reflect signaling cascades. Memory hints at neural plasticity, tying the theme to neural-immune secretory functions.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007269","count":4},{"id":"GO:0002576","count":4},{"id":"GO:0097274","count":4},{"id":"GO:0071902","count":4},{"id":"GO:0008284","count":4}]},{"hash":"1177815134623628467","title":"GPCR-cAMP Signaling in Thermogenesis","description":"This cluster is dominated by GO terms pointing to GPCR-mediated signaling that activates adenylate cyclase and raises cAMP (GO:0010579, GO:0007190), including prostaglandin E signaling (GO:0071380) and temperature-related responses (GO:0071502, GO:0002024). The presence of diet-induced thermogenesis and blood pressure regulation reinforces a theme of thermogenic and energy-regulating signaling. Some terms like visual perception and pain perception may reflect broader sensory GPCR roles, but the core signal integrates GPCR-cAMP pathways with thermogenesis and cardiovascular signaling.","confidence":"High","size":24,"edges":50,"triangles":8,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0010579","count":17},{"id":"GO:0002024","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0045777","count":17}]},{"hash":"2302595295483177961","title":"Multisystem Organogenesis with Immune Signaling","description":"The cluster shows development-related GO terms across multiple organs (retina, pituitary, pancreas, bone) and processes linked to immune modulation (IL-4 response, MHC II biosynthesis) as well as vascular remodeling, suggesting a cohesive theme of organogenesis with immune-endocrine regulation. The presence of transcription by RNA polymerase II underscores gene regulation during development.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0060041","count":10},{"id":"GO:0002076","count":9},{"id":"GO:0002087","count":9},{"id":"GO:0035470","count":7}]},{"hash":"1149056372844921559","title":"Inflammation-driven transcription and MAPK signaling","description":"The cluster shows strong representation of DNA-templated transcription and the p38 MAPK cascade, along with cellular response to lipopolysaccharide, pointing to inflammation-associated transcriptional regulation. Some developmental terms are also present, suggesting broader roles, but the core theme is transcriptional responses in inflammatory signaling. ","confidence":"Medium","size":24,"edges":42,"triangles":32,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0071222","count":16},{"id":"GO:2001275","count":16},{"id":"GO:0038066","count":16},{"id":"GO:0043433","count":16}]},{"hash":"1494801612367283266","title":"Actin Cytoskeleton Dynamics and Cell Adhesion","description":"The dominant terms cluster around actin filament assembly, actin filament depolymerization regulation, and integrin-mediated signaling (including platelet aggregation), pointing to cytoskeletal remodeling and cell\u2013matrix adhesion as the core theme. Some outlier terms (hormonal signaling or plant morphogenesis) are present but do not override the primary actin/adhesion focus.","confidence":"High","size":24,"edges":35,"triangles":38,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":22},{"id":"GO:0051017","count":18},{"id":"GO:2001046","count":18},{"id":"GO:0021937","count":18},{"id":"GO:0097067","count":18}]},{"hash":"1827972445371195685","title":"Craniofacial and head morphogenesis","description":"These GO terms cluster around embryonic development of head- and neural crest\u2013derived structures\u2014midbrain, inner ear, cranial skeleton morphogenesis, neural crest migration, and roof of the mouth\u2014pointing to a group of proteins involved in craniofacial and neural morphogenesis. Some terms reflect broader organogenesis, but the dominant theme is developmental morphogenesis with regulatory control, including transcriptional regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":9},{"id":"GO:0048839","count":9},{"id":"GO:0048565","count":7},{"id":"GO:0001755","count":7}]},{"hash":"87569779738198335","title":"Unfolded Protein Response and ER Stress Signaling","description":"This cluster is dominated by GO terms tied to ER stress and the unfolded protein response (UPR), including intrinsic apoptotic signaling in response to ER stress and ER to Golgi trafficking, indicating a functional theme around how cells sense and signal under ER stress and regulate transcription accordingly. While some terms are broader (DNA-templated transcription, cell division), the ER stress/UPR signals provide a coherent and specific core function for the protein group. ","confidence":"High","size":24,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006990","count":4},{"id":"GO:0043923","count":4},{"id":"GO:0070306","count":4}]},{"hash":"1174921225717242808","title":"Lysine-linked deubiquitination in development","description":"The cluster is dominated by GO terms for protein K29-, K6-, K48-, and K63-linked deubiquitination, indicating a set of enzymes that remove ubiquitin chains. The accompanying terms\u2014long-term synaptic potentiation, visual perception, Schwann cell development, myoblast fusion, axonogenesis, and heart development\u2014suggest roles in neural and developmental processes. With no reported edges, the coherence is best explained by a shared regulatory mechanism (deubiquitination) rather than direct interactions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035523","count":6},{"id":"GO:0044313","count":6},{"id":"GO:0060291","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0014044","count":5}]},{"hash":"740249602403047832","title":"Craniofacial and cardiac development","description":"GO terms in this cluster point to embryonic morphogenesis across craniofacial structures (face, palate, inner ear) and heart development (endocardial cushion), with extracellular matrix remodeling (collagen catabolic process) and transcriptional regulation as supporting processes. This combination suggests a coherent theme of early developmental programs shaping craniofacial features and cardiac formation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0035987","count":5},{"id":"GO:0030574","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0030194","count":5}]},{"hash":"364627007865501948","title":"Unknown","description":"The terms span cell-matrix adhesion, immune complement activation, metabolic regulation (glucose import and glycogen synthesis), signaling regulation, development (oocyte development), and even sensory perception, with no single coherent function unifying the cluster. The lack of edges and the diversity of terms suggest no shared molecular role for these proteins, so a cautious Unknown label is appropriate.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0034392","count":4},{"id":"GO:0046326","count":3},{"id":"GO:0031953","count":3},{"id":"GO:0045725","count":3}]},{"hash":"1521908425235216306","title":"Neuronal synaptic plasticity and signaling","description":"The cluster is enriched for GO terms tied to synaptic function and plasticity, including long-term potentiation/depression, learning, and regulation of synapse structural plasticity, along with signaling pathways such as ephrin receptor and integrin signaling. Protein ubiquitination also appears, which commonly modulates synaptic protein turnover and receptor trafficking. While some terms (apoptosis, defense responses) are broader, the convergent theme is neuronal synaptic signaling and its regulation, suggesting these proteins participate in plasticity-related processes. The lack of edges does not undermine the functional coherence inferred from GO annotations.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0048013","count":3}]},{"hash":"1333682439292571152","title":"Unknown","description":"The terms include apoptosis regulation, tight junction assembly, AMPA receptor clustering, regulatory ncRNA-mediated gene silencing, transcriptional regulation, viral translation initiation, JNK pathway regulation, and bone/osteoblast development. This mix spans multiple distinct cellular processes (neuronal signaling, epithelial junctions, transcriptional control, viral translation, and bone development) with no single unifying function, so a cohesive cluster label isn\u2019t evident.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0097113","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0000122","count":2}]},{"hash":"230851209753610408","title":"Endocrine and vascular regulation","description":"Despite some outliers, most top GO terms point to hormonal/endocrine control over cardiovascular and digestive functions. Terms like regulation of systemic arterial blood pressure by vasopressin, negative regulation of renin secretion, angiotensin-mediated vasodilation, and gastrin-induced gastric acid secretion suggest endocrine signaling that modulates blood pressure and digestion. Additional terms related to ovarian follicle growth and dopamine receptor signaling indicate broader neuroendocrine regulation. The presence of unrelated terms (posterior midgut development, cytolysis, viral release) likely reflects annotation breadth or noise, but the dominant theme is endocrine/vascular regulation.","confidence":"Medium","size":24,"edges":97,"triangles":190,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0060160","count":7},{"id":"GO:1900134","count":7},{"id":"GO:0001698","count":7}]},{"hash":"1165635091564448876","title":"Organogenesis Signaling Network","description":"The top GO terms cluster around developmental signaling pathways (Smoothened, Roundabout/Slit, prolactin, T cell receptor) and organogenesis processes (kidney development, nervous system development, bone ossification), suggesting proteins involved in coordinating signaling during tissue patterning and organ formation.","confidence":"High","size":24,"edges":274,"triangles":1980,"max_degree":23,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007224","count":13},{"id":"GO:0001822","count":13},{"id":"GO:0035385","count":13},{"id":"GO:0050852","count":13},{"id":"GO:0007399","count":13}]},{"hash":"633361469900519536","title":"Skeletal and connective tissue development","description":"The top GO terms converge on connective tissue formation and tissue morphogenesis\u2014collagen fibril organization, cartilage condensation, intramembranous ossification, skin development/morphogenesis, and vascular smooth muscle/ossification-related morphogenesis\u2014suggesting a core theme of ECM remodeling and skeletal/dermal tissue development. Innate immune response and coagulation likely reflect repair processes accompanying development, but the dominant signal is connective tissue and skeletal morphogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0001957","count":4},{"id":"GO:0001502","count":4}]},{"hash":"2270313111912936269","title":"Innate Immune and Antiviral Signaling","description":"This cluster is dominated by GO terms for LPS response, dsRNA response, defense against bacteria, and interferon-beta production, indicating innate immune and antiviral signaling; additional terms on angiogenesis regulation, apoptosis, and neural signaling suggest broader regulatory roles.","confidence":"High","size":24,"edges":4,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071222","count":9},{"id":"GO:0043330","count":9},{"id":"GO:0016525","count":9},{"id":"GO:0001324","count":8},{"id":"GO:0050830","count":8}]},{"hash":"603808298782461104","title":"DNA Damage Response and Transcription Regulation","description":"This cluster centers on transcriptional control by RNA polymerase II and DNA damage response to UV damage, including transcription-coupled repair and pyrimidine dimer repair, with associated cell cycle regulation and development cues such as eye morphogenesis.","confidence":"Medium","size":24,"edges":42,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0071157","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0061178","count":2},{"id":"GO:0040034","count":2}]},{"hash":"645787692770773361","title":"Neural adhesion and synapse formation","description":"Proteins in this cluster are enriched for cell\u2013cell adhesion (heterophilic and homophilic) and neural development processes, including nerve impulse transmission, synapse assembly, and neural crest migration, plus specialized heart conduction tissue adhesion. This points to a cohesive group of adhesion molecules and synaptic organizers shaping neural connectivity, with some ancillary links to immune complement and ossification pathways.","confidence":"Medium","size":24,"edges":172,"triangles":479,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0043931","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0007399","count":7}]},{"hash":"233415249602453065","title":"Chromatin regulation in neural development","description":"This cluster centers on chromatin and transcription control as well as neural lineage differentiation, with GO terms for nucleosome assembly, DNA-templated transcription, and negative regulation of RNAP II, plus nervous system development and glial/neuronal differentiation. While metal ion response terms appear, the dominant signal ties chromatin remodeling and transcriptional regulation to neural development.","confidence":"High","size":24,"edges":25,"triangles":0,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0071280","count":2}]},{"hash":"2274571611148572422","title":"Mitotic Progression and Protein Homeostasis","description":"The cluster shows a strong emphasis on cell division, with multiple terms for metaphase/anaphase transition and general cell division, pointing to mitotic regulation. Supporting signals related to protein quality control and RNA-processing complexes (response to unfolded protein, snoRNP assembly, histone modification, and protein complex assembly) suggest coordinated management of protein folding and RNA processing during mitosis. Some additional terms about signaling and immune responses appear but do not define the core theme. Overall, the dominant theme appears to be mitotic progression with accompanying protein homeostasis mechanisms.","confidence":"Medium","size":24,"edges":28,"triangles":3,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007091","count":6},{"id":"GO:0051291","count":6},{"id":"GO:0006986","count":6},{"id":"GO:0051301","count":6},{"id":"GO:2000324","count":6}]},{"hash":"1607472782614238630","title":"Ubiquitin-Mediated Antiviral Defense","description":"The cluster is dominated by GO terms for ubiquitination and ubiquitin-dependent protein degradation (ubiquitin-dependent protein catabolic process, protein ubiquitination, K63-linked ubiquitination, autoubiquitination) together with antiviral and innate immune responses (defense response to virus, innate immune response, suppression of viral release, negative regulation of intracellular transport of viral material). A peripheral term on circadian rhythm is present but the core signal is ubiquitin-mediated regulation of antiviral defense and protein turnover.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0051607","count":10},{"id":"GO:0030433","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0016567","count":8}]},{"hash":"1528175164349791478","title":"Nuclear RNA processing and transcription regulation","description":"These proteins cluster around nuclear-focused RNA metabolism: DNA-templated transcription, mRNA splicing, and both deadenylation-dependent and independent decay, plus negative regulation of RNA Pol II transcription, indicating a core theme of transcription control and RNA processing. Some terms like p53-mediated apoptotic signaling and lipid catabolism appear less central and may reflect broader cellular roles or noise.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0031086","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0000288","count":5},{"id":"GO:0000122","count":4}]},{"hash":"1876025872429376596","title":"Signaling and Nuclear Transport Regulators","description":"Top GO terms indicate regulation of GTPase activity, Wnt signaling, cell migration, apoptosis, and cell proliferation, along with nuclear import and RNA transport. Together these points suggest a set of proteins that function as regulators of signaling and transport pathways, governing cell behavior and cell-cycle related processes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0090090","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0008285","count":5}]},{"hash":"1046521615533562859","title":"Ribosome biogenesis and RNA splicing with cell cycle regulation","description":"The cluster is enriched for RNA processing: mRNA splicing via spliceosome and maturation of LSU/5.8S rRNA, pointing to ribosome biogenesis. Additional terms related to mitotic cell cycle, APC-dependent catabolic processes, and ubiquitination suggest coordination with cell cycle control, supporting a label centered on RNA processing and ribosome assembly linked to cell division.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0061087","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1484016189526979632","title":"Vascular Tone Signaling and Blood Pressure Regulation","description":"GO terms predominantly point to vascular signaling and contractility (vasoconstriction, smooth muscle contraction, blood pressure regulation, Rho and GPCR pathways) with involvement of coagulation and inflammatory responses. The electron transport chain term and LPS response appear as secondary associations, possibly reflecting energy needs and inflammation in vascular contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0045986","count":11},{"id":"GO:0051482","count":10},{"id":"GO:0007596","count":10}]},{"hash":"1417306953885821587","title":"Cytoskeletal dynamics and cell adhesion","description":"These proteins cluster around cytoskeletal remodeling and adhesion processes, with GO terms like podosome and microspike assembly, Rho signal regulation, mitotic spindle assembly, and general cell adhesion, suggesting a shared role in cytoskeletal dynamics and cell\u2013substrate interactions. Some terms (ribosome biogenesis, COPII cargo loading) are broader housekeeping functions that are less central to the main theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0007338","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0071803","count":2}]},{"hash":"1347881304987352936","title":"Actin remodeling and mechanotransduction","description":"The top terms cluster around Rho-mediated signaling, responses to mechanical stimuli, microspike assembly, and pinocytosis\u2014all of which are driven by actin cytoskeleton dynamics and mechanotransduction. Immune signaling terms (NOD2, IL-12 regulation, follicular dendritic cell differentiation) appear but are less central to the core theme. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0071260","count":6},{"id":"GO:0048549","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0030035","count":5}]},{"hash":"160139603918163382","title":"Ribosome biogenesis and translation","description":"This cluster's top GO terms cluster around ribosome production and protein synthesis (ribosome biogenesis, cytoplasmic translation, translation, tRNA modification, ribosomal subunit export). The presence of both small and large subunit biogenesis terms and ribosomal export suggests assembly and maturation of ribosomes, while translation-related terms indicate ongoing protein synthesis. Some cell cycle/division terms may reflect growth coordination rather than a separate function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0006400","count":4},{"id":"GO:0051301","count":4}]},{"hash":"866522242030110332","title":"Mitotic Chromatin Modification","description":"This cluster centers on mitosis and chromatin regulation; GO terms include mitotic cell cycle, cell division, spindle assembly, and histone acetylation/methylation with regulation. Together these point to proteins coordinating chromosome condensation/segregation and epigenetic changes during cell division, making the chromatin-modifying, mitotic theme representative. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0051096","count":2}]},{"hash":"1874229170012228651","title":"Meiosis: spindle dynamics and chromatid cohesion","description":"Dominant GO terms point to meiotic processes, including female meiotic nuclear division, meiotic spindle elongation, and meiotic sister chromatid cohesion, centromeric, indicating a meiosis-centric cluster. Additional terms reflect broader cell-cycle signaling, but do not override the primary meiotic theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:2001241","count":3},{"id":"GO:0006672","count":3},{"id":"GO:0006275","count":3},{"id":"GO:0097711","count":3}]},{"hash":"548661388692328236","title":"Signaling Pathways and Telomere Regulation","description":"The terms cluster around signaling cascades (Wnt, ephrin receptor, GPCR signaling) and telomere maintenance/regulation (telomerase-associated maintenance, telomere length control), with related chromosomal localization and ADP-ribosylation processes, suggesting a theme of signaling intersecting with genome/telomere regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0098907","count":7},{"id":"GO:0070198","count":6},{"id":"GO:1900383","count":6},{"id":"GO:0070212","count":6}]},{"hash":"2113807704480805959","title":"Thermogenic GPCR Signaling and Vascular Regulation","description":"The top GO terms cluster around diet-induced thermogenesis and temperature response, centered on GPCR-mediated adenylate cyclase activation, which ties into energy metabolism (electron transport chain, membrane potential) and downstream vascular effects (blood pressure, coagulation). Pain perception and other nervous-system signals may reflect broader signaling crosstalk, but the dominant theme is thermogenesis coupled with GPCR signaling influencing vascular function.","confidence":"High","size":23,"edges":22,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0010579","count":14},{"id":"GO:0007190","count":14}]},{"hash":"2146994938500858950","title":"Dopaminergic signaling and drug-response cluster","description":"Most terms point to neuronal GPCR signaling and drug-evoked behaviors (dopaminergic transmission, cocaine response, ERK cascade), with supporting brain-related processes (visual perception/learning) and prostaglandin signaling. The dominant theme is dopaminergic neuromodulation linked to drug responses.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0035025","count":10},{"id":"GO:0008542","count":10},{"id":"GO:0022900","count":10}]},{"hash":"1285629537936789718","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0042619","count":7},{"id":"GO:1902987","count":6},{"id":"GO:0046677","count":5}]},{"hash":"1750016119198920743","title":"Calcium-Dependent Cardiac Muscle Contraction and Neural Signaling","description":"Rationale: The top GO terms concentrate on calcium ion binding and calcium-regulated cardiac muscle contraction, including release of sequestered calcium, plus skeletal muscle development and heart contraction. The neural terms (long-term memory and long-term potentiation) suggest calcium-driven signaling roles in neurons as well. Overall, the cluster appears to center on calcium-mediated muscle function (cardiac/skeletal) and neural signaling.","confidence":"Medium","size":23,"edges":91,"triangles":122,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0005513","count":17},{"id":"GO:0048741","count":17},{"id":"GO:0010881","count":17},{"id":"GO:0001837","count":15},{"id":"GO:0060048","count":15}]},{"hash":"290559381438466184","title":"Pain and Temperature Neuronal GPCR Signaling","description":"This cluster is strongly enriched for sensory perception of pain, temperature-related responses, diet-induced thermogenesis, and neuropeptide signaling, along with GPCR-mediated pathways and calcium signaling. These together point to a neuronal signaling module controlling nociception and thermoregulation via neuropeptides and GPCRs (including prostaglandin responsiveness and Rho signaling). ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0007218","count":10},{"id":"GO:0010579","count":10}]},{"hash":"1295718491411504517","title":"GPCR Signaling and Cardiovascular Regulation","description":"This cluster centers on GPCR-mediated signaling, highlighted by adenylate cyclase-activating GPCR pathways and positive GPCR signaling, with associated cardiovascular terms like blood pressure regulation and coagulation. It also touches on metabolism and thermogenesis (electron transport chain, diet-induced thermogenesis) and temperature response, suggesting a broader role in metabolic regulation alongside cardiovascular signaling. The presence of a pain perception term adds flankers to nociception but does not dominate the theme. Overall, the dominant signal is GPCR-driven control of cardiovascular and metabolic processes.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0006486","count":4},{"id":"GO:0035025","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0010579","count":4}]},{"hash":"2111123638493705624","title":"Neural development and signaling","description":"The top GO terms are neuron development and cerebral cortex development, which strongly point to a neural-development theme. Additional terms involving cellular signaling (PMA response, LPS response), chemotaxis, and tight junction regulation fit within neural development contexts and associated regulatory processes. Overall, the cluster appears to aggregate proteins involved in neural development with related signaling and regulatory activities.","confidence":"High","size":23,"edges":24,"triangles":8,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048666","count":23},{"id":"GO:0032435","count":23},{"id":"GO:0006935","count":22},{"id":"GO:1904628","count":22},{"id":"GO:0048511","count":22}]},{"hash":"68488702810337122","title":"Angiogenesis and leukocyte migration signaling","description":"The terms cohere around vascular remodeling and immune cell movement: PDGF receptor signaling, sprouting angiogenesis, leukocyte migration in inflammatory response, chemotaxis, and receptor clustering suggest a module of proteins coordinating blood vessel formation and immune cell trafficking. Some terms like aging or L-serine biosynthesis appear incidental. Overall, the cluster likely represents proteins involved in angiogenic signaling and inflammatory cell migration.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0043113","count":5},{"id":"GO:0007568","count":5},{"id":"GO:0050919","count":4},{"id":"GO:0048146","count":4}]},{"hash":"499781410303687869","title":"GPCR signaling and neural development","description":"The top GO terms cluster around G protein-coupled receptor signaling and neural maturation, with supporting processes like positive regulation of gene expression and Golgi to plasma membrane transport, suggesting a group of proteins involved in membrane-initiated signaling that guides neural development. Some terms also reflect broader cellular functions (immune response, nuclear envelope organization, cell cycle, mechanosensing), but the dominant theme appears to be GPCR-mediated signaling connected to neural development and membrane trafficking.","confidence":"Medium","size":23,"edges":49,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":5},{"id":"GO:0007186","count":5},{"id":"GO:0014041","count":5},{"id":"GO:0042088","count":5},{"id":"GO:0006998","count":5}]},{"hash":"1257846954135117812","title":"Developmental morphogenesis across tissues","description":"The dominant GO terms point to neural and organ development (axonal fasciculation, nerve branching morphogenesis, heart and inner ear development, bone development) with regulatory processes (transcriptional control, ubiquitination) and mechanosensing, suggesting a theme of broad developmental morphogenesis across multiple tissues; innate immunity appears secondary.","confidence":"Medium","size":23,"edges":31,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:2000172","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0016567","count":2}]},{"hash":"817298542640334565","title":"Embryonic organogenesis and neural differentiation","description":"The top GO terms cluster around development and morphogenesis across multiple tissues (forelimb, digestive tract, kidney) with a strong emphasis on neural development (peripheral nervous system neuron development, spinal cord differentiation, Purkinje cell differentiation, neuromuscular processes). This suggests a protein set involved in embryonic organogenesis with a focus on nervous system differentiation.","confidence":"High","size":23,"edges":48,"triangles":25,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":23},{"id":"GO:0048935","count":23},{"id":"GO:0048565","count":23},{"id":"GO:0072283","count":23},{"id":"GO:0060133","count":23}]},{"hash":"1866136384175093433","title":"Embryonic organ morphogenesis","description":"The proteins are linked to GO terms spanning development and organ formation in multiple tissues (heart, placenta, eyes, limbs, gonads, brain regions like the habenula). The presence of diverse, tissue-wide morphogenesis terms suggests a common theme of embryonic development programs rather than a tissue-specific function; estrogen signaling also aligns with developmental regulation, supporting a broad embryonic morphogenesis role.","confidence":"Medium","size":23,"edges":49,"triangles":27,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030520","count":21},{"id":"GO:0060527","count":21},{"id":"GO:0021986","count":21},{"id":"GO:0035116","count":21},{"id":"GO:2000288","count":21}]},{"hash":"607462162784304862","title":"Fc receptor\u2013mediated phagocytosis and basophil activation","description":"This cluster is dominated by GO terms related to antibody-dependent immune functions: phagocytosis recognition, Fc-gamma receptor signaling, basophil activation, and inflammatory signaling via arachidonic acid. Additional terms touch on immune cell trafficking and modulation, suggesting an overall theme of Fc receptor\u2013mediated immune activation, with a few developmental terms likely representing broader tissue contexts. ","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":23},{"id":"GO:0045575","count":23},{"id":"GO:0038094","count":23},{"id":"GO:0090238","count":23},{"id":"GO:0072177","count":23}]},{"hash":"1415018949642282984","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051796","count":23},{"id":"GO:1902354","count":23},{"id":"GO:0061146","count":23},{"id":"GO:1904071","count":23},{"id":"GO:0055096","count":23}]},{"hash":"860028594908763721","title":"Vertebrate developmental morphogenesis and SMAD signaling","description":"The top terms indicate broad developmental roles across multiple tissues (CNS, skeletal, heart/right ventricle, lens/eye, cartilage) and active SMAD/TGF-beta signaling, along with transcriptional regulation. This pattern suggests a cluster of proteins involved in coordinated developmental differentiation and morphogenesis, mediated in part by SMAD signaling pathways.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007417","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0060686","count":5},{"id":"GO:0048632","count":4}]},{"hash":"664720067785515222","title":"Diverse Biosynthetic Pathways","description":"This cluster shows enrichment for several biosynthetic processes (heme, protoporphyrinogen IX, cobalamin, L-aspartate, sphingomyelin), suggesting a core theme around biomolecule synthesis. While there are additional terms related to transcription and stress/response (e.g., insulin signaling, antibiotic response, fruit ripening, viral replication), the strongest signal is metabolic biosynthesis, justifying a label focused on diverse biosynthetic pathways.","confidence":"Medium","size":23,"edges":208,"triangles":1025,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0009236","count":7},{"id":"GO:0032869","count":7},{"id":"GO:0006782","count":6},{"id":"GO:0006783","count":6}]},{"hash":"626629815277995790","title":"Ribosome Biogenesis and Translation","description":"This cluster centers on translation and ribosome biogenesis, with strong signals for translation (GO:0006412) and ribosome biogenesis (GO:0042254), plus maturation of rRNA and ribosomal subunits, indicating involvement in ribosome assembly and protein synthesis.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0042254","count":8},{"id":"GO:0000462","count":6},{"id":"GO:0031118","count":4},{"id":"GO:0031120","count":4}]},{"hash":"924609951964778847","title":"Axon Growth and Guidance","description":"Most GO terms in this cluster center on neuronal development and neurite outgrowth\u2014axonogenesis, positive regulation of axon extension and regeneration, and fasciculation of sensory neuron axons\u2014paired with receptor clustering and substrate adhesion-dependent spreading, all indicative of axon growth, guidance, and connectivity. While there are some less directly related terms (angiogenesis, subtelomeric heterochromatin formation, imprinting regulation) that introduce broader regulatory or chromatin-related context, the dominant signal points to axon growth-related processes. This makes \u201cAxon Growth and Guidance\u201d a concise, representative label for the cluster.","confidence":"Medium","size":23,"edges":8,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":9},{"id":"GO:0018003","count":7},{"id":"GO:0043113","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0006349","count":5}]},{"hash":"1011189051157323498","title":"Neural development and axon guidance","description":"The cluster\u2019s predominant GO terms center on brain development, neuron migration and axon guidance (Roundabout signaling, chemorepulsion), synapse assembly, and myelination, indicating a cohesive theme of neural circuit formation, with a few outliers like heart development.","confidence":"High","size":23,"edges":16,"triangles":6,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042552","count":10},{"id":"GO:0030199","count":10},{"id":"GO:0007169","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0021836","count":10}]},{"hash":"1200521947918633795","title":"SNARE-mediated vesicle trafficking and synaptic exocytosis","description":"This cluster is dominated by GO terms for ER-to-Golgi and intra-Golgi vesicle transport, SNARE complex assembly, Golgi ribbon formation, and vesicle fusion with Golgi and plasma membranes, including exocytic insertion of neurotransmitter receptors and motifs linked to synaptic potentiation. While there are a few immune-related terms, the core signal points to vesicle trafficking and membrane fusion machinery, especially in neurons and secretory pathways.","confidence":"High","size":23,"edges":47,"triangles":92,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0090161","count":12},{"id":"GO:0035493","count":12},{"id":"GO:0006891","count":12}]},{"hash":"211587648543174111","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":30,"triangles":56,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0001731","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0006406","count":3}]},{"hash":"1322230843956533177","title":"Neuronal actin remodeling and spine morphogenesis","description":"The top GO terms cluster around actin cytoskeleton dynamics and synaptic structure, including filopodium and microspike assembly, actin polymerization, and dendritic spine morphogenesis, with subsynaptic organization indicating postsynaptic architecture. Supporting terms like retinoic acid response and insulin signaling suggest signaling pathways that regulate these cytoskeletal changes. Thus, the proteins are best described as involved in neuronal actin remodeling and spine formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046847","count":7},{"id":"GO:0071300","count":6},{"id":"GO:0030041","count":6},{"id":"GO:0060997","count":6},{"id":"GO:1990255","count":6}]},{"hash":"1276176128448621552","title":"Mitochondrial respiration and protein import","description":"The cluster is strongly enriched for mitochondrial-specific processes: electron transport, mitochondrial translation, and protein import into both the mitochondrial matrix and intermembrane space, alongside proton transmembrane transport and aerobic respiration. These core mitochondrial activities define the primary theme, with ancillary terms like xenobiotic and tyrosine catabolism suggesting broader mitochondrial metabolism. Thus the proteins most plausibly form a cohesive set of mitochondrial energy production and protein trafficking functions.","confidence":"High","size":23,"edges":252,"triangles":1750,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006123","count":4},{"id":"GO:0032543","count":3},{"id":"GO:1902600","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0030150","count":2}]},{"hash":"415092817517682747","title":"Visual perception and neural signaling","description":"This cluster is dominated by GO terms for visual perception, retina development, visual learning, and dopaminergic synaptic transmission, with related signaling (ERK cascade) and behavioral responses (cocaine); together they indicate neural processing in the visual system and associated signaling pathways. A few terms (heart development, macrophage chemotaxis) are less central but may reflect broader signaling contexts. ","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0001963","count":9},{"id":"GO:0071380","count":9},{"id":"GO:0048148","count":9}]},{"hash":"136936683017056187","title":"Mitochondrial translation & respiration","description":"The terms point to mitochondrial processes: NADH-to-ubiquinone electron transport, Complex II assembly, mitochondrial translation and tRNA aminoacylation, and pyruvate import into mitochondria; the insulin secretion term further ties to mitochondrial metabolism in glucose response. This suggests a cohesive cluster of mitochondrial gene expression and energy production functions.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":2},{"id":"GO:0034553","count":2},{"id":"GO:0006438","count":1},{"id":"GO:0006431","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1309929955348295049","title":"RNA processing and translation initiation","description":"This cluster groups proteins associated with RNA metabolism, including splicing (spliceosome components and regulation of alternative splicing), mRNA processing events (export, polyadenylation), and translation initiation steps (reinitiation and preinitiation complex formation), suggesting coordinated control of RNA maturation and translation.","confidence":"High","size":23,"edges":247,"triangles":1653,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":14},{"id":"GO:0001731","count":14},{"id":"GO:1901407","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13}]},{"hash":"1105907993553488265","title":"Cytoskeletal dynamics and epithelial polarity","description":"The top GO terms cluster around actin cytoskeleton organization, actin filament bundle assembly, Rho signaling, centrosome localization, and establishment of epithelial cell apical/basal polarity, plus tight junction and microvillus assembly. These collectively define a module controlling cell shape, polarity, and junctions through the actin cytoskeleton and related signaling. Some terms (e.g., synapse plasticity) reflect broader signaling connections but do not override the core cytoskeletal-polarity theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0051660","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0051017","count":3}]},{"hash":"1873489250205808797","title":"Epithelial polarity and tight junction assembly","description":"This cluster centers on epithelial cell polarity establishment and tight junction assembly, with strong signals for actin cytoskeleton remodeling, cell spreading, and adhesion. The presence of Wnt signaling modulation and podosome-related terms suggests coordinated cytoskeletal dynamics that support junction formation and cell movement, tying together polarity, adhesion, and actin dynamics in a cohesive epithelial junction/growth context.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090162","count":9},{"id":"GO:0070830","count":8},{"id":"GO:0090263","count":7},{"id":"GO:0071803","count":7},{"id":"GO:0051835","count":7}]},{"hash":"1044421904375662170","title":"Mitochondrial and chloroplast energy metabolism","description":"The top GO terms cluster around energy production and membrane-associated processes, including mitochondrial electron transport, proton transmembrane transport, and protein insertion into the mitochondrial inner membrane, along with photosynthesis and nonphotochemical quenching\u2014pointing to energy metabolism in organelles. Some outlier terms (aromatic compound catabolism) may reflect annotation noise or broader redox roles, but the central theme ties to organelle-powered energy generation and membrane transport.","confidence":"Medium","size":23,"edges":32,"triangles":4,"max_degree":12,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006122","count":3},{"id":"GO:0042203","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0046232","count":3},{"id":"GO:0010196","count":3}]},{"hash":"2206532041024248495","title":"Mitochondrial Lipid Biosynthesis and Fusion","description":"The top GO terms point to mitochondrial-specific lipid metabolism (cardiolipin and phosphatidic acid biosynthesis, lipid catabolic processes) and mitochondrial dynamics (positive regulation of mitochondrial fusion), plus a mitochondrial translation term (mitochondrial threonyl-tRNA aminoacylation). This combination suggests a cohesive module centered on mitochondrial membrane lipid biosynthesis and fusion, with translation within mitochondria as a related activity; a single outlier term (P granule organization) is likely noise. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0046944","count":2},{"id":"GO:0048017","count":1},{"id":"GO:0016042","count":1}]},{"hash":"2137290748111165221","title":"Unknown","description":"The top terms span apoptotic processes, Rho signaling, bile acid secretion, angiogenesis, chemotaxis, xenobiotic response, transcription regulation, and placenta development, indicating a highly heterogeneous set with no single shared function or pathway. With no edges or interaction structure, there\u2019s insufficient unity to define a specific label apart from Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0032782","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0006935","count":2}]},{"hash":"1223788145086533985","title":"Lymphocyte Activation and Immune Signaling","description":"The top GO terms are heavily centered on immune function: adaptive and innate immune responses, B cell receptor signaling, immunoglobulin production, and regulation of T cell proliferation, indicating a cluster enriched for lymphocyte activation and immune signaling. A few terms related to cardiac electrophysiology appear, but the overarching pattern is immune-related.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":7},{"id":"GO:0002250","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0046007","count":7},{"id":"GO:0002377","count":6}]},{"hash":"461238098254581168","title":"Cell growth regulation and developmental signaling","description":"Top GO terms point to regulation of cell cycle and growth, signaling via PI3K/AKT, and developmental processes including immune cell differentiation and neural morphogenesis. This suggests a broad theme of signaling networks coordinating proliferation, differentiation, and development across multiple cell types, rather than a single tissue-specific function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":18},{"id":"GO:0008285","count":18},{"id":"GO:0060997","count":18},{"id":"GO:0043491","count":17},{"id":"GO:0046638","count":17}]},{"hash":"525254707173231162","title":"Heart development and endothelial differentiation","description":"Based on the GO terms, several entries point to cardiac morphogenesis (right atrium) and Notch signaling in heart-field regulation, together with venous endothelial differentiation, suggesting a cardiovascular development theme. The presence of cellular responses to mechanical stimulus aligns with mechanotransduction in heart and vessels, while ubiquitination and lysosome targeting indicate regulatory control of signaling and protein turnover within this context. Vitamin D response appears ancillary but may reflect broader regulatory networks affecting development. Overall, the cluster seems best described as heart/vascular development with mechanotransduction features.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0071901","count":3},{"id":"GO:0003270","count":3}]},{"hash":"403026296849309451","title":"Neural development signaling and axonogenesis","description":"The cluster shows enrichment in terms tied to neural development and signaling: axonogenesis, Wnt signalosome assembly, cellular responses related to dopamine, and cAMP/PKN signaling regulation, all pointing to neuronal growth and signaling pathways. The presence of branching morphogenesis of a nerve reinforces a neural architecture theme, with some immune-related terms likely incidental. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007190","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007409","count":3},{"id":"GO:1904887","count":3},{"id":"GO:0035751","count":3}]},{"hash":"1382732975186875294","title":"Clathrin-mediated endocytosis and trafficking","description":"The top terms are dominated by clathrin-dependent processes: clathrin-dependent endocytosis, receptor-mediated endocytosis, and clathrin coat assembly, indicating membrane trafficking as the core function. Additional terms related to filopodium assembly suggest linked cytoskeletal dynamics, while a few development-associated terms appear noise relative to the main endocytic theme. This supports labeling the cluster with a trafficking-centric name.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0072583","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0048268","count":2}]},{"hash":"1594602467102645078","title":"Liver-energy metabolism during starvation","description":"The core GO terms point to liver-centric metabolic pathways and energy balance under fasting. Gluconeogenesis, ketone body biosynthesis, and pyruvate and leucine catabolic processes indicate hepatic glucose production and ketogenesis during starvation. Mitochondrion organization supports oxidative metabolism, while sodium ion transport reflects cellular homeostasis in metabolically active liver tissue. Together, these terms define a liver-focused energy metabolism and fasting response cluster.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0001889","count":11},{"id":"GO:0042594","count":11},{"id":"GO:0046951","count":10},{"id":"GO:0006552","count":8},{"id":"GO:0006094","count":8}]},{"hash":"2130294322391144522","title":"Chemosensory GPCR Signaling and Taste Perception","description":"Top GO terms are dominated by chemical-sensing activities: response to pheromone, sensory perception of chemical stimulus, sensory perception of taste, and detection of chemical stimulus involved in bitterness. The presence of adenylate cyclase-activating GPCR signaling further supports a chemosensory, GPCR-driven function. Although electron transport chain, immune response, bone remodeling, and blood pressure regulation appear among terms, they are less central to chemosensation and may reflect protein multifunctionality. Overall, the cluster seems best characterized by chemosensory GPCR signaling tied to taste and pheromone detection.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019236","count":6},{"id":"GO:0007606","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0006955","count":5},{"id":"GO:0046849","count":5}]},{"hash":"1799998477266934907","title":"Lipid Metabolism and Membrane Trafficking Regulators","description":"The cluster centers on lipid-related processes (protein depalmitoylation; fatty acid metabolic process) and control of protein trafficking to the plasma membrane (negative regulation of Golgi to plasma membrane transport), suggesting roles in lipid modification and membrane trafficking. Other terms like xenobiotic response and neurotransmitter-related processes may reflect broader signaling roles or noise, but the core themes point to lipid metabolism and membrane trafficking. ","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002084","count":4},{"id":"GO:0042997","count":4},{"id":"GO:0006631","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0009086","count":3}]},{"hash":"1430628308524159080","title":"Sensory Signaling and Thermal Response","description":"The top GO terms point to sensory processes (pain and vision) together with temperature-related responses (diet-induced thermogenesis, cellular response to temperature) and core signaling mechanisms (calcium release, protein phosphorylation, adenylate cyclase activation). This suggests a cluster of proteins involved in sensory signal transduction and temperature-related signaling, likely across skin and neural contexts, though the terms span multiple related pathways rather than a single cohesive function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0043588","count":7},{"id":"GO:0008284","count":7}]},{"hash":"373285443543260493","title":"Unknown","description":"The terms are heterogeneous, spanning mitochondrial respiration, Golgi retention, translation, and various B cell\u2013related immune processes. There is no clear cohesive pathway or function linking all proteins, and the lack of edges supports treating this asUnknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":2},{"id":"GO:1904669","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0002455","count":1},{"id":"GO:0045082","count":1}]},{"hash":"1671642154726385943","title":"GPCR-GTPase Signaling and Proliferation","description":"The cluster is dominated by GO terms pointing to G protein-coupled receptor signaling (including adenylate cyclase-activating pathways) and GTPase/Rho signaling, along with positive regulation of cell proliferation. These suggest a cohesive theme of signaling networks that regulate growth and cellular responses, with supplementary connections to metabolic/temperature-related responses. The retina development term appears as an outlier but does not override the central GPCR-GTPase signaling/proliferation pattern.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":12},{"id":"GO:0043547","count":12},{"id":"GO:0008283","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0002024","count":12}]},{"hash":"733429785158721528","title":"Developmental patterning and organogenesis","description":"These GO terms cluster around embryonic development and tissue formation across organs (heart, cranial skeleton, uterus) and body axes (anterior/posterior), plus lineage specification and regulatory signaling (e.g., TGF-beta). The theme is cohesive: developmental patterning and organogenesis, with a few outliers related to transcription regulation and immune signaling.","confidence":"High","size":22,"edges":25,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":8},{"id":"GO:0009952","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0071560","count":6}]},{"hash":"325799735719128428","title":"Multi-lineage Developmental Differentiation","description":"The cluster shows enrichment for transcription by RNA polymerase II and diverse differentiation terms spanning heart (sinoatrial node, second heart field), neural (hindbrain morphogenesis, oculomotor nerve development), melanocytes, and osteoclasts, indicating roles in broad developmental programs across tissues rather than a single pathway. ","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":20},{"id":"GO:0048712","count":18},{"id":"GO:2001038","count":18},{"id":"GO:0060921","count":17},{"id":"GO:0003266","count":17}]},{"hash":"1910049364642677924","title":"Eye development and visual perception","description":"This cluster\u2019s top GO terms are dominated by eye-related processes: embryonic eye morphogenesis, camera-type eye development, and visual perception, with supporting neural-development terms like midbrain and habenula development. These recurring annotations point to a cohesive function in the formation and function of the visual system, making \u201cEye development and visual perception\u201d a concise, representative label. Some transcription regulation terms appear but do not define the primary theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0048048","count":8},{"id":"GO:0007601","count":7},{"id":"GO:0060527","count":7},{"id":"GO:0030901","count":7}]},{"hash":"211942994106477333","title":"Embryogenesis and Transcriptional Regulation","description":"This cluster is dominated by GO terms about transcription by RNA polymerase II and its negative regulation, coupled with diverse embryonic development processes (pituitary gland, digestive tract, hindlimb and eye morphogenesis, male gonad development, outflow tract morphogenesis, primitive streak formation, and dopaminergic neuron differentiation). The combination suggests a group of proteins that function as transcriptional regulators steering embryonic tissue patterning and lineage specification. The shared theme is regulation of gene expression during development rather than a single tissue-specific function.","confidence":"High","size":22,"edges":34,"triangles":2,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0021983","count":12},{"id":"GO:0048565","count":11},{"id":"GO:0006366","count":11},{"id":"GO:0035116","count":11}]},{"hash":"1761095222533771772","title":"Developmental Regulation and Proteostasis","description":"The top GO terms cluster around development (brain/forebrain/retina, fertilization, gonad, multicellular organism development) and protein turnover (polyubiquitination, SCF-dependent proteasomal degradation) as well as transcriptional regulation, suggesting proteins that coordinate developmental programs through regulated protein degradation and gene expression.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0030900","count":3}]},{"hash":"400154348819890191","title":"Proteostasis via ubiquitin, autophagy, and quality control","description":"The cluster shows strong representation of ubiquitin-related processes (protein deubiquitination, autoubiquitination, ERAD), protein degradation pathways, and autophagy (aggrephagy). It also includes endocytosis regulation and protein processing (deglycosylation). While there are other broad functions like transcription regulation and ribosome assembly present, the dominant theme is cellular protein quality control and turnover through ubiquitin-proteasome and autophagic pathways.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016579","count":8},{"id":"GO:0034140","count":8},{"id":"GO:0006357","count":7},{"id":"GO:0000028","count":7}]},{"hash":"1653875766799542054","title":"Keratinocyte differentiation and skin barrier formation","description":"The most represented GO terms are keratinocyte activation, regulation of keratinocyte differentiation, and establishment of the skin barrier, pointing to an epidermal differentiation/barrier program. Other terms include cytoskeletal organization (microtubule polarity, neurofilament assembly), suggesting structural remodeling in epidermal cells. Overall, the cluster seems centered on epidermal development and barrier maintenance with associated cytoskeletal dynamics.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":16},{"id":"GO:0055015","count":14},{"id":"GO:0035105","count":14},{"id":"GO:0010625","count":14},{"id":"GO:0033693","count":14}]},{"hash":"1211373228599785943","title":"Fc receptor\u2013mediated immune activation and leukocyte trafficking","description":"The top terms cluster around Fc receptor signaling, phagocytosis recognition, basophil activation, and NK cell chemotaxis regulation, indicating immune cell activation and communication. Additional terms on lymph vessel morphogenesis and cartilage condensation suggest related developmental and vascular remodeling contexts that commonly accompany immune responses. Overall, the dominant theme is Fc receptor\u2013driven immune activation and leukocyte movement, with secondary developmental cues.","confidence":"Medium","size":22,"edges":190,"triangles":892,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":22},{"id":"GO:0045575","count":22},{"id":"GO:0038094","count":22},{"id":"GO:0090238","count":22},{"id":"GO:0072177","count":22}]},{"hash":"1199202657900097304","title":"Axon Guidance and Neurovascular Development","description":"The dominant GO terms describe axon extension and guidance (including commissural axon guidance and axon extension), retina layer formation, and neural crest migration, with supporting vascular signals (endothelial chemotaxis and VEGF receptor signaling). This points to a cohesive role in coordinated neural and vascular development, especially axon pathfinding tied to neurovascular maturation.","confidence":"High","size":22,"edges":36,"triangles":14,"max_degree":13,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0035767","count":10},{"id":"GO:0048842","count":10},{"id":"GO:0010842","count":9},{"id":"GO:0048010","count":9},{"id":"GO:1900242","count":9}]},{"hash":"1118452886133128796","title":"Embryonic development and organ morphogenesis","description":"The top GO terms span various embryonic formation processes across tissues (roof of mouth, cartilage morphogenesis, left/right patterning, placental differentiation, endocardial EMT, midbrain development, pancreatic cell development, endocrine system development). This points to a common theme of morphogenesis and organogenesis during development, with the transcriptional regulation term reflecting regulatory control of these programs.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0060806","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060707","count":6}]},{"hash":"1839443966454104898","title":"Xenobiotic degradation and detoxification","description":"Many GO terms point to breakdown and detoxification of xenobiotics and toxic compounds (beta-ketoadipate, 1,2-dichloroethane, glucuronoside catabolic processes; cellular oxidant detoxification; response to toxic substance). Others indicate lipid catabolism and redox metabolism. Together these suggest a metabolic cluster focused on xenobiotic degradation and detoxification, with some lipid catabolism involvement.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0042952","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0019433","count":6}]},{"hash":"1628175243053883698","title":"Neuronal signaling and development regulation","description":"The top terms point to modulation of signaling pathways (Wnt, phosphorylation), regulation of gene expression, and neuronal development processes (axonogenesis, dopamine response, focal adhesion), suggesting a cohesive role in neuronal signal transduction and development rather than a single biochemical activity. ","confidence":"High","size":22,"edges":162,"triangles":623,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":14},{"id":"GO:0010628","count":13},{"id":"GO:0055091","count":13},{"id":"GO:0050771","count":13},{"id":"GO:0090263","count":12}]},{"hash":"1448346257690463656","title":"Neural development and synapse formation","description":"The dominant terms cluster around nervous system development (including peripheral nervous system), cell adhesion, and synapse assembly, with signals related to axon guidance (Roundabout pathway) and ERK cascade modulation, pointing to proteins involved in neural development and connectivity. Some terms such as ossification and mast cell chemotaxis appear as outliers but do not override the core neural theme.","confidence":"Medium","size":22,"edges":20,"triangles":1,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007422","count":4}]},{"hash":"1088517703656666028","title":"Vertebrate developmental transcription regulators","description":"Based on GO terms, the proteins appear to be involved in transcriptional regulation during embryonic development, with emphasis on nervous system development, somite formation, cardiac chamber development, and synapse assembly. The cluster thus points to regulators of DNA-templated transcription that influence multiple developmental lineages, rather than a single pathway, justifying a label of vertebrate developmental transcription regulators.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0003205","count":2},{"id":"GO:0033601","count":2},{"id":"GO:1903263","count":2}]},{"hash":"2187232105316184352","title":"Neural Development and Synapse Formation","description":"Dominant GO terms point to nervous system development, synapse assembly, and neural signaling (ERK cascade, GTPase activation, ion-channel clustering, and cell adhesion). Although a few terms relate to bone and kidney development, the cluster is best characterized by neural development and synaptic organization.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0007155","count":3},{"id":"GO:0071639","count":3}]},{"hash":"1853184743922245310","title":"Rho-driven adhesion and cytoskeletal remodeling","description":"This cluster centers on Rho-regulated signaling and actin cytoskeleton dynamics, with GO terms for lamellipodium and microspike assembly and multiple cell\u2013cell adhesion/junction processes (including bicellular tight junction and synapse assembly). The shared theme is cytoskeletal remodeling linked to adhesion and junction formation, spanning developmental and synaptic contexts.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0030032","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0070830","count":4}]},{"hash":"867561079351142183","title":"Immune Regulation and Cell Adhesion","description":"This cluster is dominated by immune-related functions, including heterophilic/homophilic cell adhesion and various immune regulation processes (negative regulation of NK and T cell activities, macrophage activation, and complement activation) along with immunoglobulin production. There is also a signal transduction element (STAT phosphorylation). An ossification term appears as an outlier, suggesting a possible osteoimmunology link, but the overall theme is immune signaling and cell-cell interactions.","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0007156","count":10},{"id":"GO:0086072","count":10},{"id":"GO:0002859","count":10},{"id":"GO:0043031","count":10}]},{"hash":"701103200116416827","title":"Actin cytoskeleton remodeling and cell polarity","description":"The dominant enrichment centers on actin filament bundle assembly, cell migration, and establishment of epithelial cell polarity, indicating a cohesive role in actin-driven cytoskeletal dynamics and directional movement with polarity. Other terms (peroxisome docking, tRNA methylation, unfolded protein response) are present but less representative of the main theme. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0016560","count":2}]},{"hash":"1095690303569887946","title":"Innate Immune Signaling and Tissue Development","description":"The GO terms show a core enrichment for innate immune response and defense against virus, with additional signals related to immunoglobulin regulation and general signaling (GTPase activity, serine phosphorylation). Developmental terms (bone and skin development) and responses to stimuli (mechanical, amino acid) suggest a broader immune-tissue signaling role rather than a single, narrow function, hence a label emphasizing both immune signaling and tissue development context.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1920085449178021931","title":"Neural and digestive system development","description":"The top GO terms point strongly to nervous system formation (forebrain development, neural tube closure, neural crest cell migration, enteric nervous system development) and digestive tract development, with broader developmental signals like cardiac differentiation and cytoskeletal signaling. This suggests a cohesive theme of neural crest\u2013related and gut/nerve organogenesis, justifying a label focused on neural and digestive system development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":7},{"id":"GO:0001843","count":6},{"id":"GO:0048484","count":5},{"id":"GO:0048565","count":5},{"id":"GO:0060065","count":5}]},{"hash":"514602488948916022","title":"Ribosome biogenesis and RNA processing","description":"The cluster\u2019s top GO terms cluster strongly around translation, ribosome biogenesis, and RNA maturation/splicing (translation, ribosome biogenesis, mRNA splicing, rRNA processing). These indicate a core theme of protein synthesis machinery assembly and RNA processing, with supplementary signals related to growth and cell cycle that align with ribosome-related regulation. ","confidence":"High","size":22,"edges":136,"triangles":405,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0045292","count":3},{"id":"GO:0000462","count":2},{"id":"GO:2001241","count":2}]},{"hash":"1669001948562951149","title":"GPCR-Mediated Neuroendocrine Signaling","description":"This cluster centers on G protein-coupled receptor signaling and hormone/neurotransmitter\u2013related responses (adenosine receptor signaling, gastrin- and epinephrine-regulated processes, serotonin and amphetamine responses) with immune signaling (IL-10). Some terms about epithelial transport and endothelial barrier are peripheral, but the dominant theme is neuroendocrine signaling networks across tissues.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001698","count":10},{"id":"GO:0007497","count":10},{"id":"GO:0030321","count":10},{"id":"GO:1903141","count":10},{"id":"GO:0001996","count":10}]},{"hash":"1220571431371307269","title":"Vesicle trafficking and membrane targeting","description":"The cluster is dominated by GO terms for Golgi to endosome transport, endocytosis, exocytosis (calcium-dependent), and protein localization to the plasma membrane, indicating a cohesive function in intracellular vesicle trafficking and membrane targeting. Some outliers (sporulation-related assembly, interferon production) may reflect species-specific roles or broader annotations, but the main signal points to vesicle transport processes. ","confidence":"Medium","size":22,"edges":13,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031321","count":6},{"id":"GO:0032258","count":5},{"id":"GO:0033138","count":5},{"id":"GO:0006895","count":5},{"id":"GO:0042088","count":5}]},{"hash":"1228942384231518067","title":"Rho GTPase Signaling and Actin Remodeling","description":"This cluster is enriched for GO terms about regulation of GTPase activity, especially Rho signaling, plus actin-based processes like microspike assembly and adhesion-dependent cell spreading, pointing to a coherent theme of cytoskeletal dynamics and signal transduction driving cell movement and adhesion. Some terms (bone development and adaptive immunity) appear, but the strongest signals center on GTPase-regulated cytoskeletal remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0060348","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0002250","count":4}]},{"hash":"425474572521448969","title":"Multi-lineage differentiation regulators","description":"This cluster's GO terms emphasize regulation of development and differentiation across several tissues (neural, muscle, bone, immune, and pigment cells), rather than a single pathway, indicating proteins that broadly modulate lineage specification and maturation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0030318","count":2}]},{"hash":"2113884938951576525","title":"Rho GTPase\u2013driven actin remodeling and endocytosis","description":"Among the top GO terms, several point to Rho signaling, GTPase activity, and actin cytoskeleton organization, complemented by endocytosis and cell migration processes. This suggests a core theme of cytoskeletal dynamics regulated by Rho GTPases, with associated vesicle trafficking, and ancillary roles in adhesion and signaling. Thus the label captures the central function of the cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0030036","count":3}]},{"hash":"483997443635459391","title":"Neuronal actin dynamics and vesicle trafficking","description":"The terms cluster around actin/microtubule dynamics (Rho signaling, lamellipodium assembly, microtubule-based movement) and synaptic vesicle processes (budding, recycling), plus developmental and behavioral nervous system roles (spinal cord development, adult locomotion). Mitochondrial fission also fits with neuron-specific organelle dynamics. This combination supports a theme of neuronal cytoskeleton remodeling coupled to vesicle trafficking and synaptic function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0030032","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3}]},{"hash":"121566263961296115","title":"Developmental signaling and cytoskeletal remodeling","description":"This cluster is driven by GO terms such as regulation of Rho protein signal transduction, heart and multicellular organism development, TGF-beta stimulus response, and filopodium assembly, indicating a theme of coordinated signal transduction with cytoskeletal remodeling during development. The presence of centrosome localization and transcription-related terms suggests integration of signaling with cell polarity, division, and gene regulation. Innate immune and antibacterial defense terms appear, but the dominant signal remains developmental signaling and cytoskeletal dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051660","count":3},{"id":"GO:0071560","count":3}]},{"hash":"532636188744254346","title":"Cytoskeletal dynamics and cell migration","description":"The terms point to regulation of Rho signaling, cell adhesion and migration, and responses to mechanical stimulus, suggesting the proteins collectively govern cytoskeletal dynamics and cell movement.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043314","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0008344","count":3}]},{"hash":"1835118471669027765","title":"Organ development and ECM remodeling","description":"The GO terms point to development across multiple organs (kidney, lung, male gonad) with processes like angiogenesis, collagen fibril organization, myelination, and synapse assembly, alongside signaling regulation (ERK cascade). Together this suggests a general theme of tissue morphogenesis and extracellular matrix\u2013related remodeling rather than a single organ-specific function. Some immune-related terms appear as outliers but do not define the cluster\u2019s core theme. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0001525","count":4}]},{"hash":"1841224063829645487","title":"Unknown","description":"Top terms span mechanical stimulus response, several signaling pathways (Wnt, ephrin, synaptic regulation), telomere maintenance, and ADP-ribosylation. No single cohesive function emerges, and there are no interactions between proteins, so a generic Unknown label is most appropriate.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":6},{"id":"GO:0050966","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0070198","count":5}]},{"hash":"2217616420570858770","title":"Multisubstrate Membrane Transporters","description":"Top GO terms point to transmembrane transport of diverse substrates (xenobiotics, vitamins, sugars, nitrite, ions) and vesicular neurotransmitter loading, indicating a broad transporter family rather than a single substrate-specific function.","confidence":"","size":21,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":19},{"id":"GO:0035461","count":19},{"id":"GO:0042908","count":15},{"id":"GO:0071805","count":15},{"id":"GO:0042891","count":14}]},{"hash":"530634647968860199","title":"Glycosylation and host interaction processes","description":"The top GO terms are dominated by glycosylation-related biosynthetic processes (glycosphingolipid biosynthesis, protein and lipid glycosylation) and carbohydrate metabolism, with a subset addressing host interaction events such as formation of infection structures and penetration of the zona pellucida, along with acute inflammatory response and wound-healing angiogenesis. This suggests a theme around glycosylation-driven surface properties and their roles in host interaction and tissue responses, hence the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006688","count":6},{"id":"GO:0075015","count":6},{"id":"GO:0006486","count":5},{"id":"GO:0008542","count":4},{"id":"GO:0030259","count":3}]},{"hash":"1588755363635502992","title":"Neurovascular and cardiac development","description":"The cluster shows strong enrichment for nervous system development, neurogenesis, heart development, and angiogenesis, indicating coordinated development across neural, vascular, and cardiac tissues. PI3K-AKT signaling and positive regulation of differentiation further support growth and lineage specification, making a developmental, multi-tissue theme the most representative. Some terms (e.g., vaginal development, T cell signaling, apoptotic processes) are broader signaling or developmental contexts, but the dominant pattern is embryonic organogenesis and tissue differentiation.","confidence":"Medium","size":21,"edges":204,"triangles":1220,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0001525","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0022008","count":7},{"id":"GO:0008284","count":7}]},{"hash":"1826428874928098843","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms tied to ribosome production and function, including ribosome biogenesis (GO:0042254, GO:0042274), ribosomal subunit export from the nucleus (GO:0000055), and cytoplasmic translation (GO:0002181), plus tRNA modification (GO:0006400). The presence of cell cycle and cell division terms (GO:0007049, GO:0051301) suggests a link between ribosome assembly/translation and cellular proliferation. This pattern points to proteins involved in the protein synthesis machinery and ribosome assembly.","confidence":"High","size":21,"edges":15,"triangles":0,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006400","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0002181","count":9},{"id":"GO:0007049","count":9},{"id":"GO:0000055","count":9}]},{"hash":"790941979089319372","title":"Osteogenesis and MSC proliferation","description":"The dominant GO terms point to bone development, including bone trabecula formation and osteoblast differentiation, along with positive regulation of mesenchymal stem cell proliferation and cell\u2013matrix/heterophilic adhesion. ECM-related processes such as hyaluronan biosynthesis and SMO signaling further support roles in skeletal formation and matrix interactions. A heart development term (endocardial cushion formation) appears related via mesenchymal/EMT pathways, but the overall signal centers on osteogenesis and MSC-driven remodeling.","confidence":"High","size":21,"edges":100,"triangles":192,"max_degree":18,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":16},{"id":"GO:0007160","count":14},{"id":"GO:0060346","count":14},{"id":"GO:0045669","count":13},{"id":"GO:0007275","count":13}]},{"hash":"2077347635688323624","title":"Embryonic tissue differentiation","description":"The terms cluster around developmental differentiation across multiple tissues (neural crest derivatives like melanocytes and nerves; heart development including sinoatrial node and heart field cardioblasts; hindbrain morphogenesis; astrocyte and osteoclast differentiation). This points to a common theme of embryonic organogenesis and lineage specification, hence the label.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":21},{"id":"GO:2001038","count":21},{"id":"GO:0060921","count":20},{"id":"GO:0003266","count":20},{"id":"GO:0030318","count":20}]},{"hash":"479197286145536953","title":"Immune and developmental regulation","description":"The cluster features transcriptional control and broad regulatory roles spanning immune signaling (IL-4 response, interferon production, macrophage differentiation) and development/differentiation processes (segmental/dorsal identity, hepatocyte proliferation, erythrocyte differentiation), plus ER stress responses, suggesting a set of regulators coordinating immune function with tissue development and repair.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0035470","count":11},{"id":"GO:0071353","count":11},{"id":"GO:0043353","count":10},{"id":"GO:2000016","count":10}]},{"hash":"1553577891151176213","title":"Neural development and brain patterning","description":"The top GO terms cluster around neural development and brain regionalization (retina development, rhombomere 5 development, brain segmentation, cerebral cortex GABAergic interneuron differentiation), with additional terms for pituitary, bronchiole, and osteoblast development that point to broader organogenesis. Overall, the dominant signal is neural development and patterning in multiple tissues.","confidence":"Medium","size":21,"edges":209,"triangles":1311,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0060041","count":7},{"id":"GO:0021571","count":7},{"id":"GO:0035284","count":7},{"id":"GO:0002076","count":6}]},{"hash":"932630945232541226","title":"Embryonic organogenesis and transcriptional regulation","description":"The proteins are enriched for vertebrate developmental processes across multiple organs (pancreas, digestive tract, neural crest, hypothalamus, pituitary, inner ear, spinal cord) and for transcriptional activity/regulation (RNA polymerase II). This suggests a cohesive module of factors coordinating embryonic tissue morphogenesis through gene regulation, justifying the label.","confidence":"High","size":21,"edges":136,"triangles":442,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0031018","count":13},{"id":"GO:0048557","count":12},{"id":"GO:0001755","count":12},{"id":"GO:0090190","count":12}]},{"hash":"1303074524077073228","title":"Neurodevelopment and organogenesis","description":"The cluster is dominated by terms related to nervous system development, neurogenesis, and organ morphogenesis (retina, kidney, vagina) with associations to cell adhesion and regulation of gene expression, suggesting a cohesive theme of tissue development rather than a narrow process. Lipopolysaccharide response and apoptotic terms appear but do not define the cluster.","confidence":"Medium","size":21,"edges":112,"triangles":207,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0022008","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0001822","count":4}]},{"hash":"2082271232145079281","title":"Ubiquitin-regulated signaling and immunity","description":"Most prominent GO term is protein deubiquitination, suggesting ubiquitin-removal is a central activity in this cluster. The presence of both positive and negative regulation of canonical Wnt signaling supports a theme of ubiquitin-mediated control of signaling pathways. Additional terms hint at immune and stress-related processes (antigen processing via MHC class I, plant hypersensitive response, salt stress) that are often tied to ubiquitin pathways and cell-cycle regulation, indicating a broader role for ubiquitin-dependent regulation of signaling, defense, and growth.","confidence":"Medium","size":21,"edges":202,"triangles":1191,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016579","count":10},{"id":"GO:0090263","count":8},{"id":"GO:0090090","count":8},{"id":"GO:0010363","count":7},{"id":"GO:0051436","count":7}]},{"hash":"248490714205096276","title":"Ubiquitin-Driven Protein Quality Control and Autophagy","description":"This cluster centers on ubiquitin-mediated processes: ubiquitin-dependent ERAD, deubiquitination, deglycosylation, aggrephagy, and regulation of endocytosis, collectively pointing to maintenance of protein homeostasis and trafficking through ubiquitin signals. While a few terms touch other pathways (e.g., transcription regulation), the predominant theme is protein quality control via ubiquitin- and autophagy-related mechanisms.","confidence":"Medium","size":21,"edges":171,"triangles":756,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0016579","count":4},{"id":"GO:0010950","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0006357","count":3}]},{"hash":"1560898272709944500","title":"Developmental signaling and tissue development","description":"This cluster is enriched for terms tied to development and growth, including midbrain development, post-embryonic development, multicellular organism growth, and biomineral tissue development, as well as the Wnt signaling pathway, suggesting a cohesive theme of developmental signaling and tissue formation. Some terms (digestion, defense responses) are peripheral but do not dominate the cluster\u2019s function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007586","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0050830","count":6}]},{"hash":"2279812235537233348","title":"Ephrin signaling in cardiovascular morphogenesis","description":"This cluster centers on ephrin receptor signaling, endothelial differentiation, Notch signaling in heart development, and cytoskeletal remodeling (cell migration, actin bundle assembly) with epithelial polarity and mechanosensitive responses, indicating a cohesive theme of cardiovascular morphogenesis and tissue organization. Some terms related to neural synaptic function appear but do not dominate the set. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048013","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0051017","count":7},{"id":"GO:0090162","count":7},{"id":"GO:0033280","count":6}]},{"hash":"222284994063461096","title":"Splicing Regulation and ncRNA Silencing","description":"The cluster is dominated by terms related to spliceosome-mediated mRNA splicing, its regulation (positive/negative), mRNA stability in stress, and ncRNA- and miRNA-mediated gene silencing, indicating a cohesive group centered on post-transcriptional RNA processing and regulation by non-coding RNAs.","confidence":"High","size":21,"edges":172,"triangles":763,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":15},{"id":"GO:0010610","count":14},{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0045292","count":13}]},{"hash":"1712533620868296754","title":"Neural development and synapse assembly","description":"The cluster is dominated by terms related to nervous system development, synapse assembly, and neuronal signaling (e.g., nervous system development; positive regulation of synapse assembly; clustering of voltage-gated sodium channels). Additionally, Rho-mediated cytoskeletal regulation and PI3K/AKT signaling are involved, which fit neurite outgrowth and synaptic formation processes. Some terms about osteoblast differentiation and skin development may reflect broader developmental roles, but the strongest and most coherent signal is neural development and synapse organization.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":4},{"id":"GO:0034113","count":4},{"id":"GO:0051897","count":4},{"id":"GO:0001649","count":4},{"id":"GO:0045162","count":4}]},{"hash":"1310961108631269159","title":"Wnt-PI3K-AKT Signaling and Cell Migration","description":"This cluster\u2019s top GO terms converge on growth-factor signaling pathways (canonical Wnt signaling, PI3K/AKT, insulin receptor signaling) and processes related to cell movement (cell migration, fibroblast migration) plus ECM-related activity (hyaluronan metabolism). The dominant pattern is signaling cascades that drive cell migration, with some developmental and apoptotic terms providing context but not outweighing the migration-focused theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0006915","count":16},{"id":"GO:0097011","count":15},{"id":"GO:2001275","count":14},{"id":"GO:0043491","count":14}]},{"hash":"723689536327448657","title":"Unknown","description":"The listed GO terms include ubiquitin-dependent protein catabolic process, phototropism, skeletal muscle development, B cell receptor signaling, and various development-related processes. The mix spans plant- and animal-associated functions with no single cohesive theme, and there are no edges to indicate a shared interaction network. This makes a consistent, specific label inappropriate, so the cluster is Unknown with None confidence.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0009638","count":6},{"id":"GO:0007519","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0032764","count":6}]},{"hash":"1444400807178780352","title":"Developmental processes and chromatin regulation","description":"The top terms cluster around multicellular development (somitogenesis, ossification, general development) with supportive cues from cilium assembly, acetylcholine transport, and calcium-channel regulation, suggesting developmental signaling. Chromatin-related terms (positive regulation of chromatin binding, subtelomeric heterochromatin formation) point to epigenetic control integrated into development, supporting a broad developmental biology theme for this cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0035563","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0044458","count":2},{"id":"GO:0006622","count":2}]},{"hash":"1935588732071983333","title":"Neural adhesion and axon guidance","description":"This cluster is dominated by GO terms for cell\u2013cell adhesion (heterophilic and homophilic) and nervous system development, including axonal fasciculation and trigeminal nerve organization, plus synapse assembly. Those signals point to roles in neural connectivity and guidance, with a few outlier terms (complement activation, ossification, symbiont entry) that are less central to the main theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0046718","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0043931","count":9}]},{"hash":"959940570731156601","title":"Immune signaling and actin cytoskeleton remodeling","description":"The top GO terms point to signaling pathways (Rho, Ras, insulin receptor) that regulate GTPase activity, combined with actin cytoskeleton organization, cell migration, and immune-related processes (NK T cell differentiation, IL-4 production, responses to IL-7). This suggests a cluster of proteins coordinating immune signaling with cytoskeletal dynamics and cell movement.","confidence":"High","size":21,"edges":21,"triangles":1,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0008286","count":8},{"id":"GO:0046580","count":7},{"id":"GO:1900026","count":7},{"id":"GO:0001865","count":7}]},{"hash":"2070787469072652449","title":"Lipid Metabolism and Skin/Gland Development","description":"These proteins cluster around lipid processing activities (cholesterol esterification, fatty acid response, sphinganine metabolism) and tissues associated with lipid-rich structures (sebaceous/glandular tissues, tarsal glands; and links to myelin maintenance). The presence of related but obsolete GO terms suggests some noise, but a central theme of lipid metabolism with skin/gland differentiation is still evident. ","confidence":"Medium","size":21,"edges":33,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0010873","count":4},{"id":"GO:0034435","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0070542","count":3}]},{"hash":"757103405965380977","title":"Spermatogenesis and acrosome formation","description":"This cluster prominently features GO terms tied to male germ cell development and sperm function (flagellated sperm motility, acrosome assembly, spermatid nucleus differentiation), with secondary signals related to reproductive physiology (luteinizing hormone secretion). Immune and nervous system terms appear less frequently and may reflect annotation overlap; the dominant theme is spermatogenesis and acrosome formation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030317","count":3},{"id":"GO:0050829","count":2},{"id":"GO:0043032","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0051497","count":2}]},{"hash":"1107834982569254962","title":"Arabinogalactan protein glycosylation and mucilage biosynthesis","description":"The top GO terms cluster around glycan biosynthesis and Arabinogalactan Protein (AGP) metabolism, including AGP glycosylation, mucilage production, and related polysaccharide pathways, suggesting a cohesive theme of cell-wall glycan modification; a few non-glycan terms appear as outliers, but the dominant signal points to AGP-related glycosylation and mucilage biosynthesis.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0080147","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0030311","count":2}]},{"hash":"1457650549967399219","title":"Sensory perception and GPCR-cGMP signaling","description":"The cluster centers on sensory and neural signaling, highlighted by visual perception, temperature- and pain-related responses, and GPCR signaling tied to cGMP with membrane potential regulation. This suggests a core theme around sensory/neural processing and phototransduction, with some peripheral GPCR-regulated processes such as coagulation and gastric secretion reflecting broader regulatory roles across tissues.","confidence":"Medium","size":20,"edges":171,"triangles":843,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":16},{"id":"GO:0007601","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0007199","count":16}]},{"hash":"1717583582216145709","title":"Neuronal development and synaptic signaling","description":"This cluster centers on neuronal development and synaptic signaling: terms point to hippocampus development, axon extension, ephrin receptor signaling, and Wnt pathways, all linked to neuron connectivity and growth. It also includes calcium-dependent exocytosis and excitatory postsynaptic potentials, reflecting neurotransmitter release and synaptic activity. A few terms are more general (protein stability, cell cycle), but the predominant pattern is neuronal development and synaptic communication.","confidence":"High","size":20,"edges":22,"triangles":4,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":20},{"id":"GO:0021766","count":20},{"id":"GO:0048013","count":20},{"id":"GO:0045956","count":20},{"id":"GO:0031647","count":20}]},{"hash":"160372844995227981","title":"Tissue Morphogenesis and Immune Regulation","description":"Among the top GO terms, the strongest signals are in tissue development and morphogenesis (bone development, cornea development, nerve branching morphogenesis, and regulation of angiogenesis), suggesting a theme of morphogenetic processes across multiple tissues. Supplementary terms indicate immune modulation (positive regulation of type 2 immune response, dendritic cell antigen processing), implying the cluster includes proteins involved in immune signaling alongside development. The presence of kidney size regulation and dopamine response hints at broader signaling roles, reinforcing a label focused on tissue morphogenesis with immune involvement.","confidence":"Medium","size":20,"edges":41,"triangles":1,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006407","count":6},{"id":"GO:0060348","count":6},{"id":"GO:2000172","count":6},{"id":"GO:0061303","count":6},{"id":"GO:0002830","count":6}]},{"hash":"6986778808940386","title":"Mitochondrial apoptosis regulation","description":"This cluster centers on mitochondrial-based control of apoptosis, evidenced by cytochrome c release, regulation of mitochondrial depolarization, and mitochondrial inner membrane protein insertion, with several entries showing negative regulation of apoptotic pathways and calcium release. The presence of xenobiotic response also fits cellular stress links to mitochondria. The common theme is modulation of mitochondrial apoptosis signaling.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":5},{"id":"GO:0001836","count":3},{"id":"GO:0051902","count":3},{"id":"GO:2001240","count":3},{"id":"GO:0043524","count":3}]},{"hash":"1271035700519535908","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The dominant GO terms are about spliceosome-mediated mRNA splicing and its regulation (positive/negative regulation, alternative splicing, cis splicing, and processome assembly), indicating a cluster focused on the spliceosome machinery and its control of RNA processing; ancillary terms about ncRNA- and miRNA-mediated silencing are present but secondary to the splicing theme.","confidence":"High","size":20,"edges":133,"triangles":535,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":16},{"id":"GO:0031047","count":16},{"id":"GO:0000381","count":14},{"id":"GO:0000380","count":14},{"id":"GO:0048025","count":13}]},{"hash":"2095486753788200679","title":"Notch signaling in vertebrate neural development","description":"The cluster is dominated by terms tied to Notch signaling and neural development, including floor plate development, spinal cord neuron and oligodendrocyte fate specification, and interneuron differentiation. While there are also terms for endocrine pancreas and bronchiole development, these align with broader Notch-regulated organogenesis in vertebrates. This suggests a cohesive theme of Notch-driven neural development with supporting roles in other tissues.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0031018","count":14},{"id":"GO:0033504","count":13},{"id":"GO:0007219","count":13},{"id":"GO:0043433","count":13}]},{"hash":"1813264282757304813","title":"Neural crest and craniofacial development TFs","description":"This cluster is enriched for transcription-related GO terms (DNA-templated transcription, transcription by RNA polymerase II, regulation of transcription) and developmental processes such as neural crest formation, rhombomere development, cranial skeleton morphogenesis, habenula development, and pituitary gland development. Taken together, these proteins appear to act as transcriptional regulators coordinating embryonic neural crest\u2013craniofacial and adjacent organ development, justifying a label focused on developmental transcription factors with neural crest/craniofacial relevance.","confidence":"High","size":20,"edges":170,"triangles":823,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000122","count":7},{"id":"GO:0006366","count":6},{"id":"GO:0021571","count":5},{"id":"GO:0048701","count":5}]},{"hash":"907642445310329577","title":"RNA Pol II Transcriptional Repression","description":"The top GO term is negative regulation of transcription by RNA polymerase II (12), suggesting the proteins predominantly act as transcriptional repressors. Other terms cover development, immune responses, and coagulation, which may reflect broader roles of transcriptional regulators rather than a single pathway. Overall, the strongest shared signal is transcriptional repression by RNA Pol II, giving a moderate level of confidence.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":10},{"id":"GO:0030194","count":7},{"id":"GO:0044130","count":7},{"id":"GO:0031214","count":7}]},{"hash":"412074219017104935","title":"DNA damage repair and mitotic cell cycle control","description":"This cluster centers on DNA repair pathways (global genome nucleotide-excision repair, translesion synthesis), chromatin maintenance (subtelomeric heterochromatin formation), and core mitotic progression (G2/M transition, exit from mitosis, chromosome segregation), with alignment to protein degradation via SCF\u2013proteasome. The combination suggests a coordinated program of DNA damage response, chromatin regulation, and timely mitotic regulation, in which proteolysis helps enforce checkpoints. Outliers like viral process and abscisic acid response appear as broader stress associations but do not override the core theme.","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":20},{"id":"GO:0031146","count":20},{"id":"GO:0000086","count":20},{"id":"GO:0010458","count":20},{"id":"GO:0016032","count":20}]},{"hash":"1448760436481353519","title":"Xenobiotic and lipid-steroid metabolism","description":"The top GO terms cluster around xenobiotic processing (coumarin, camphor catabolism; organofluorine metabolism), lipid and steroid metabolism (cholesterol and triglyceride catabolism; testosterone biosynthesis), and related responses (vitamin D). Together these indicate a shared function in metabolizing foreign compounds and lipid-derived molecules, including hormone synthesis pathways.","confidence":"Medium","size":20,"edges":18,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046226","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0048565","count":5},{"id":"GO:0006707","count":5},{"id":"GO:0035902","count":5}]},{"hash":"764013310863865662","title":"Chromatin Regulation and CNS Development","description":"This cluster centers on transcriptional control and chromatin modification (DNA-templated transcription, histone deubiquitination, histone methylation) together with neural development processes (CNS morphogenesis, nuclear cortical migration) and neuron-associated functions (adult feeding behavior). The inclusion of ubiquitin-dependent proteolysis and ERAD-related terms suggests a link between chromatin regulation and protein turnover in neural contexts. Together, these terms point to a coherent theme of chromatin-mediated transcriptional regulation in CNS development and neuronal function, with proteostasis involved.","confidence":"Medium","size":20,"edges":27,"triangles":8,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0021551","count":4},{"id":"GO:0008343","count":4},{"id":"GO:0070537","count":4}]},{"hash":"1448730327656819251","title":"Microtubule Dynamics, Polarity, and Spindle Orientation","description":"The terms converge on microtubule-based processes: plus-end dynamics, directed microtubule sliding, establishment/maintenance of microtubule cytoskeleton polarity, and chromosome alignment/spindle orientation during mitosis and meiosis. Additional terms point to microtubule-dependent transport in neurons and structural organization of neural tissue, all tying to microtubule function as a central theme.","confidence":"High","size":20,"edges":140,"triangles":560,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070462","count":16},{"id":"GO:0098971","count":16},{"id":"GO:0000743","count":16},{"id":"GO:0021685","count":16},{"id":"GO:0000742","count":16}]},{"hash":"746376180618470013","title":"Platelet-immune signaling","description":"The top GO terms cluster around platelet-related processes (platelet degranulation, integrin-mediated signaling) and immune signaling (Fc-epsilon receptor signaling), with calcium/NFAT pathway regulation and responses to mechanical stimuli. This points to a cohesive theme of platelet activation and signal transduction in immune and vascular contexts. Some terms (axonogenesis, estradiol and insulin responses) broaden the signaling scope but can reflect hormonal modulation and mechanotransduction in platelets, supporting a single functional theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":12},{"id":"GO:0038095","count":11},{"id":"GO:0007229","count":11},{"id":"GO:0002576","count":10},{"id":"GO:0032355","count":10}]},{"hash":"1844122144385045125","title":"Vesicle Trafficking and Secretion Regulation","description":"The cluster is dominated by GO terms tying to intracellular transport and secretion, including positive regulation of ER-to-Golgi and Golgi-to-transport vesicle processes and late endosome-to-lysosome trafficking, as well as calcium-dependent exocytosis and small GTPase\u2013mediated signaling. These collectively point to vesicle biogenesis/trafficking as the core theme, with a few terms (podosome assembly, hepatocyte apoptosis) likely reflecting related cellular processes rather than core functions.","confidence":"Medium","size":20,"edges":33,"triangles":8,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":6},{"id":"GO:1902824","count":5},{"id":"GO:1902953","count":5},{"id":"GO:0055108","count":5},{"id":"GO:0045956","count":5}]},{"hash":"2113887682472014790","title":"Developmental Regulation and Angiogenesis","description":"The cluster shows a clear emphasis on development-related processes: angiogenesis, trophoblast giant cell differentiation, midbrain development, and pancreatic cell development, complemented by transcriptional regulation and proteolysis. This suggests proteins involved in developmental signaling and tissue remodeling, with angiogenesis as a central theme, even though other terms (immune defense, coagulation) are also present. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0007596","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0045944","count":5}]},{"hash":"260291837800294681","title":"Cytoskeletal Remodeling and Cell Adhesion in Morphogenesis","description":"This cluster centers on cytoskeletal organization and cell-adhesion processes (stress fiber and focal adhesion regulation, integrin-mediated adhesion) and ties into broader morphogenesis events across tissues (muscle development, EMT, angiogenesis, brush border and photoreceptor differentiation, equilibrioception), implying a cohesive role in remodeling cell architecture during development and tissue specialization.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007527","count":11},{"id":"GO:0001837","count":10},{"id":"GO:0051835","count":10},{"id":"GO:1904970","count":10},{"id":"GO:0001751","count":10}]},{"hash":"1340893174360539039","title":"Neuronal adhesion and axon projection","description":"The top GO terms cluster around neuron and nerve-related processes: heterophilic and homophilic cell\u2013cell adhesion, trigeminal nerve structural organization, sympathetic neuron projection extension, and localization to the juxtaparanode region of the axon, as well as synapse assembly. These collectively point to neural development, axon guidance, and maintenance of neural connectivity, with ossification and innate immunity terms likely peripheral or incidental. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0010863","count":5}]},{"hash":"18793320333322311","title":"Developmental gene expression and cell cycle regulation","description":"The top terms include mRNA splicing via spliceosome and DNA replication, along with developmental processes such as mesoderm development, placental development, and palate formation, and regulatory activities like negative regulation of protein kinase activity and GTPase activation. This suggests proteins that participate in core gene expression and cell cycle control, coupled with signaling and extracellular matrix changes during development. Since the set spans multiple related but not tightly linked processes, the label aims to reflect overarching themes of gene expression regulation and developmental progression rather than a single specific pathway.","confidence":"Medium","size":20,"edges":19,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000393","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0080182","count":2}]},{"hash":"2201858471994106770","title":"Immune signaling and cytoskeletal regulation","description":"This cluster centers on cytokine signaling and STAT activation (IL-27 signaling, Th2 cytokine production) together with Rho and PI3K\u2013AKT pathways, indicating regulation of cytoskeletal dynamics, cell shape, and movement. The presence of myoblast fusion and slit diaphragm assembly hints at junctional/cytoskeletal remodeling, and negative regulation of cell migration ties these processes together. Overall, the proteins likely function in immune signaling linked to cytoskeletal dynamics.","confidence":"Medium","size":20,"edges":168,"triangles":826,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":11},{"id":"GO:0035023","count":10},{"id":"GO:0042517","count":9},{"id":"GO:0070106","count":9},{"id":"GO:0035745","count":9}]},{"hash":"902306809218674605","title":"Synaptic Signaling and Lipid Metabolism","description":"The cluster is enriched for terms related to neuronal communication and signaling (long-term synaptic potentiation, synapse assembly, presynapse signaling) along with lipid signaling processes (inositol trisphosphate biosynthesis, phosphatidylinositol metabolic process, phospholipid catabolic process) and small GTPase regulation (Rho and Ras). Together, these point to coordinated synaptic signaling and lipid-mediated regulation of synaptic function, with intracellular transport supporting trafficking to synapses. The presence of follicular B cell differentiation is less aligned and may reflect cross-talk or annotation noise. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0006886","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0009395","count":9},{"id":"GO:0002316","count":9}]},{"hash":"1102672720984589911","title":"RNA Processing and Splicing","description":"The strongest signals are mRNA processing and splicing-related terms, including deadenylation-dependent and -independent mRNA decay, cis-splicing via spliceosome, and snoRNA splicing, suggesting a core function in RNA maturation and turnover. Other terms related to development and adhesion are present but less central to the cluster\u2019s main theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0031086","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0060710","count":4},{"id":"GO:0000288","count":4}]},{"hash":"1899740661500250073","title":"Transcription Initiation & DNA Damage Response","description":"This cluster\u2019s top GO terms cluster around RNA polymerase II promoter activities (open complex formation and promoter clearance), pointing to transcription initiation. The presence of nonsense-mediated decay and DNA damage/repair\u2013related terms (SOS response, UV protection) suggests an associated role in RNA quality control and cellular stress responses, linking transcription initiation with damage response pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":8},{"id":"GO:0006268","count":8},{"id":"GO:0001666","count":8},{"id":"GO:0009432","count":7},{"id":"GO:0006269","count":7}]},{"hash":"1418850829189712440","title":"Organelle protein import and energy metabolism","description":"The cluster centers on GO terms about importing proteins into mitochondrial and peroxisomal matrices, ATP synthesis and electron transport, and related vesicle trafficking, suggesting a common theme of organelle biogenesis, protein trafficking, and metabolism.","confidence":"Medium","size":20,"edges":175,"triangles":893,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0006814","count":2}]},{"hash":"1718385689661555855","title":"Immune and developmental signaling pathways","description":"The top GO terms point to diverse signaling cascades (B cell receptor signaling, PI3K-Akt, Wnt, insulin signaling) and stress/immunity responses (lipopolysaccharide response, nitric oxide response) along with development-related processes (placenta development, Wnt signaling) and apoptosis. This suggests the proteins act as a broad signaling network connecting immune function, development, and cell fate, rather than a single specific pathway. ","confidence":"Medium","size":20,"edges":79,"triangles":149,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":11},{"id":"GO:0050853","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0060044","count":10},{"id":"GO:0008286","count":10}]},{"hash":"1075175432902736586","title":"Immune signaling and chemotaxis","description":"The cluster is enriched for chemotaxis, LPS response, T cell differentiation, and PI3K/AKT signaling, with a PMA-responsive (PKC) signal as well, pointing to a core theme of immune cell activation and migration; a few outlier terms (neurodevelopment, rhythmic process, budding growth) exist but do not override the dominant immune signaling pattern.","confidence":"High","size":20,"edges":176,"triangles":909,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":20},{"id":"GO:1904628","count":20},{"id":"GO:0048511","count":20},{"id":"GO:0060968","count":20},{"id":"GO:0021987","count":20}]},{"hash":"1242871960662287892","title":"Spliceosome-mediated mRNA processing and translation control","description":"The top GO terms center on mRNA splicing via the spliceosome, regulation of mRNA stability under stress, and both positive/negative control of splicing, alongside components of translation initiation and reinitiation (including IRES-dependent viral initiation). This combination points to a cluster of proteins coordinating RNA processing and subsequent translation regulation, with a nod to viral translation mechanisms. The overall theme is RNA metabolism and gene expression control at splicing and translational levels.","confidence":"High","size":20,"edges":182,"triangles":1002,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":11},{"id":"GO:0010610","count":11},{"id":"GO:0006378","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10}]},{"hash":"918896105381338134","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":28,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007169","count":3},{"id":"GO:0019076","count":2},{"id":"GO:0071031","count":2},{"id":"GO:0039702","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1550226626302352346","title":"Neuronal ion transport and synaptic signaling","description":"This cluster centers on ions moving across membranes (Na+, K+, Ca2+), membrane depolarization, and synaptic transmission (including glycinergic signaling) as well as related neural sensory functions (e.g., mechanosensory defensing in sound). Paranodal junction assembly and nicotinic receptor\u2013linked responses further tie to neuronal communication and excitability, suggesting a cohesive neuronal signaling theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":7},{"id":"GO:0051899","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0071805","count":7},{"id":"GO:2001046","count":7}]},{"hash":"66674879637473102","title":"Endocytosis and vesicle trafficking","description":"This cluster centers on membrane trafficking processes, including endocytosis, endocytic recycling, and Golgi-to-endosome transport, as well as regulation of exocytosis and actin-driven membrane remodeling. The presence of ruffle assembly and cytoskeleton reorganization terms supports a role in vesicle formation and trafficking, with some signaling-linked terms (Wnt) likely modulated by receptor trafficking. Confidence reflects the cohesive trafficking theme across GO terms.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:0031384","count":3},{"id":"GO:2000300","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0010796","count":3}]},{"hash":"1589725906361791834","title":"Hormonal Regulation of Blood Pressure","description":"The top GO terms strongly point to systemic cardiovascular control through hormonal signaling: vasopressin-regulated blood pressure, angiotensin-mediated vasodilation, renin secretion regulation, and modulation of heart contraction by epinephrine/norepinephrine. A few terms (gastrin-induced acid secretion, ovarian follicle growth) appear unrelated and may reflect annotation noise, but the core pattern is clear: a cluster tied to hormonal regulation of blood pressure and cardiac function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":18},{"id":"GO:0060160","count":18},{"id":"GO:1900134","count":18},{"id":"GO:0001698","count":18},{"id":"GO:0001992","count":18}]},{"hash":"1836547365382379638","title":"Unknown","description":"The terms span innate immunity, brain development, transcription, signaling, centrosome localization, germ cell death, and both positive and negative regulation of cell proliferation, with no single dominant function or pathway tying the cluster together. This diversity suggests no cohesive theme to label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090344","count":2}]},{"hash":"1297025653591064248","title":"Cytoskeletal remodeling and mechanotransduction","description":"The terms center on cytoskeletal dynamics and cell signaling: positive regulation of GTPase activity, adhesion-dependent cell spreading, podosome assembly, and cellular response to mechanical stimulus all point to actin remodeling and mechanotransduction; other terms like GABAergic signaling or heart development appear peripheral to this core theme.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0032729","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0097284","count":6},{"id":"GO:1900026","count":6}]},{"hash":"1833704618870698033","title":"Actin cytoskeleton remodeling and development signaling","description":"The cluster is dominated by actin-related processes (organization and polymerization) and Rho signaling, with links to dendritic spine morphogenesis, plus development terms for muscle and bone and several signaling pathways. This points to proteins coordinating cytoskeletal dynamics with developmental signaling across tissues.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903526","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0007015","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0007266","count":2}]},{"hash":"846911498302993176","title":"Vesicle trafficking and autophagy during the cell cycle","description":"The top GO terms cluster around vesicle formation (intralumenal vesicles, autophagosome maturation) and membrane targeting (SRP-dependent), with ties to ribosome export and cell cycle processes (DNA replication, mitotic cycle), suggesting a module coordinating trafficking, translation targeting, and quality control during cell division.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0097352","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1824617076450713731","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms are strongly centered on ribosome-related processes: translation reinitiation, formation of the translation preinitiation complex, and maturation of SSU rRNA, which together point to ribosome assembly and the initiation of protein synthesis. While other terms in the cluster (ubiquitination, GPCR signaling, Golgi-to-ER transport) reflect broader cellular regulation, the core theme here is ribosome biogenesis and initiation of translation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006890","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0000209","count":6}]},{"hash":"47002362569412966","title":"Cytoskeleton remodeling and tight junction signaling","description":"The cluster centers on actin cytoskeleton organization and regulation of Rho/JNK/Ras signaling, along with processes tied to cell\u2013cell junctions and barrier establishment (endothelial/intestinal), centrosome localization, and related signaling pathways. This points to a cohesive theme of coordinated cytoskeletal dynamics and junctional integrity that governs barrier function and signaling cross-talk.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090557","count":5},{"id":"GO:0030036","count":5},{"id":"GO:0046328","count":4},{"id":"GO:0051660","count":4}]},{"hash":"1831109169919270448","title":"Hormonal Regulation of Blood Pressure","description":"Based on the GO terms, the cluster is dominated by hormonal control of cardiovascular physiology: vasopressin- and angiotensin-mediated regulation of blood pressure, renin secretion, and epinephrine/norepinephrine\u2013driven heart function. A few terms touch other endocrine processes (gastric acid secretion, ovarian follicle growth) but the core theme is hormonal regulation of cardiovascular function.","confidence":"High","size":19,"edges":164,"triangles":859,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":19},{"id":"GO:0060160","count":19},{"id":"GO:1900134","count":19},{"id":"GO:0001698","count":19},{"id":"GO:0001992","count":19}]},{"hash":"274806280468584335","title":"Vertebrate organ development and neuroendocrine signaling","description":"The cluster shows strong signals for eye/retina and heart development alongside neuroendocrine and vascular regulatory processes (dopamine signaling, renin and vasopressin pathways, gastrin secretion). This suggests a group of proteins involved in coordinating development of multiple organs with hormonal regulation in vertebrates, rather than a single, narrow pathway.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0060041","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0007626","count":14},{"id":"GO:0007596","count":13}]},{"hash":"2204234882133294305","title":"Glycosylation and immune cell development","description":"The cluster shows enrichment for glycosylation-related GO terms (fucosylation, Lewis antigen biosynthesis) together with immune cell processes (leukocyte migration, regulatory T cell differentiation) and some development-related terms. This points to a theme where glycan modification and biosynthesis influence immune cell behavior and development, despite some terms being old/obsolete. ","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0001892","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0097150","count":1}]},{"hash":"2184051396409694536","title":"Neural and Eye Development","description":"The top GO terms indicate development and patterning of neural/visual systems (forebrain development, retina development, visual perception, motor neuron axon guidance) along with general multicellular organism development and transcriptional regulation, suggesting a cohesive theme of neural/eye development. Some terms like cadmium response or anoikis regulation are broader or secondary, but do not override the central pattern. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030900","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0006349","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0001501","count":6}]},{"hash":"295278190905973209","title":"Steroid and Xenobiotic Metabolism","description":"This cluster centers on metabolic processing of steroids and lipids (testosterone biosynthesis, androgen metabolism, cholesterol catabolism) and includes xenobiotic degradation terms (camphor, coumarin, organofluorine metabolism) as well as vitamin D response. Together these suggest proteins involved in endogenous hormone biosynthesis and foreign compound metabolism, with some additional miscellaneous associations like stress response that may be secondary.","confidence":"Medium","size":19,"edges":34,"triangles":5,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0046226","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0048565","count":4}]},{"hash":"2020380762582040300","title":"Cytoskeletal dynamics and endocytosis","description":"This cluster centers on cytoskeletal processes: positive regulation of actin filament polymerization, sarcomere organization, and receptor-mediated endocytosis that involves cholesterol transport, pointing to coordinated cytoskeletal remodeling and membrane trafficking. Other terms (translation, transcription regulation, thymus development, T cell signaling modulation) are present but appear less defining for the cluster.","confidence":"Medium","size":19,"edges":34,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030838","count":3},{"id":"GO:0050860","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051865","count":2},{"id":"GO:1905602","count":2}]},{"hash":"532539820776639180","title":"Transcriptional Regulators of Immunity and Coagulation","description":"The dominant term is negative regulation of transcription by RNA polymerase II, suggesting a core set of transcriptional regulators. The presence of multiple innate immune terms (response to LPS, defense against Gram-positive bacteria, neutrophil-mediated killing of fungi, IL-8 regulation) along with coagulation-related terms implies these proteins modulate gene expression in inflammatory and hemostatic contexts. Although some terms touch on development and digestion, the shared theme points to transcriptional control underpinning immune and coagulation responses, making the label concise and representative.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":10},{"id":"GO:0044130","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0050830","count":7}]},{"hash":"727166459134938760","title":"Hypoxia- and circadian-regulated transcription","description":"The cluster is dominated by transcription-related GO terms, especially DNA-templated transcription, HIF-1alpha signaling, circadian regulation of gene expression, and xenobiotic response, pointing to a core function in regulating gene expression under hypoxic and environmental-stress cues, with some developmental and tissue remodeling terms that may reflect ancillary roles or broader co-expression patterns.","confidence":"Medium","size":19,"edges":147,"triangles":711,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":17},{"id":"GO:0097411","count":17},{"id":"GO:0000160","count":17},{"id":"GO:0032922","count":17},{"id":"GO:0009410","count":17}]},{"hash":"836014776287348330","title":"Embryonic organogenesis","description":"The top GO terms indicate development across multiple organs and tissues (pituitary, cartilage, pancreas, ureteric bud, gonads, pharyngeal system, uterus, brain segmentation, digestive tract) plus transcriptional regulation, pointing to a broad theme of embryonic organ formation rather than a single tissue-specific process.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0051216","count":7},{"id":"GO:0003309","count":7},{"id":"GO:0072107","count":7}]},{"hash":"1340140460902844367","title":"Developmental differentiation and morphogenesis","description":"Most top GO terms cluster around developmental processes and tissue morphogenesis, including neuron differentiation (medial motor column neuron differentiation, spinal cord association neuron differentiation), metanephric renal vesicle morphogenesis, anterior head development, haltere morphogenesis, and cervix development. There is also emphasis on transcriptional regulation (DNA-templated transcription) and miRNA-mediated gene silencing, which are common regulatory mechanisms during development. An outlier term (sulfur oxidation) likely reflects incidental annotation rather than a core theme. Overall, the cluster seems to capture genes involved in developmental differentiation and morphogenesis, with regulatory gene expression control as a central feature.","confidence":"Medium","size":19,"edges":15,"triangles":3,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0019417","count":4},{"id":"GO:2000324","count":4},{"id":"GO:0072283","count":4},{"id":"GO:0021526","count":4}]},{"hash":"2018999413690265104","title":"Vitamin A, lipid, and steroid metabolism","description":"The cluster is enriched for retinol/retinal (vitamin A) metabolism, cholesterol and testosterone biosynthesis, and related metabolic processes (e.g., glutathione biosynthesis), suggesting a shared theme of vitamin, lipid, and steroid metabolism with detox/homeostatic roles. ","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042572","count":11},{"id":"GO:0046370","count":10},{"id":"GO:0042574","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0007586","count":7}]},{"hash":"272802472786602447","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The cluster is dominated by terms tied to actin cytoskeleton organization, cell migration, integrin activation, and signaling pathways (PI3K/AKT, Rho, Ras) that regulate cytoskeletal dynamics and motility, including immune and organismal movement. This cohesive theme suggests proteins cooperating in motion and its signaling control rather than a diverse, unrelated set of functions.","confidence":"High","size":19,"edges":9,"triangles":7,"max_degree":4,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":13},{"id":"GO:0030036","count":13},{"id":"GO:0008344","count":13},{"id":"GO:2001275","count":13},{"id":"GO:0043491","count":13}]},{"hash":"2280210440577148921","title":"Unknown","description":"The top GO terms are highly diverse (neural development, cell division, drug response, unfolded protein response, glucocorticoid signaling, UV-A response, histone methylation, plant hormone signaling, antiviral defense, and leptin signaling), with no single coherent biological theme. There are no edges in the cluster, so there is no shared functional basis to assign a specific label beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021756","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0006986","count":4},{"id":"GO:2000324","count":4}]},{"hash":"1968039761386273166","title":"Cell cycle control and transcription regulation cluster","description":"This cluster centers on mitotic cell cycle and transcriptional regulation, with links to chromatin remodeling and GTPase signaling, plus membrane trafficking and insulin signaling components. The mix suggests a network of proteins coordinating cell growth, division, and gene expression, rather than a single pathway. Some terms are obsolete, but the core theme remains cell-cycle\u2013 and transcription-focused regulation.","confidence":"Medium","size":19,"edges":42,"triangles":17,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0035948","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0006355","count":3}]},{"hash":"1907385115123588410","title":"Neuronal development and synaptic adhesion","description":"The cluster is dominated by GO terms related to neural development, nerve impulse transmission, synapse assembly, and cell-cell adhesion (both heterophilic and homophilic), pointing to proteins involved in establishing and maintaining neural connections and peripheral nervous system development. While terms like ossification and classical complement appear, the strongest signals center on neuronal connectivity and synaptic organization.","confidence":"High","size":19,"edges":56,"triangles":45,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007156","count":11},{"id":"GO:0035584","count":10},{"id":"GO:0019226","count":10},{"id":"GO:0051965","count":9}]},{"hash":"1611609965788988147","title":"Lipid metabolism and signaling","description":"The top GO terms are dominated by lipid-related catabolic processes (monoacylglycerol, phosphatidylserine, 3-phenylpropionate catabolism) and detox/oxidant responses, with a supporting signal-regulatory term in endocannabinoid signaling. While there are a few biosynthetic terms present, the recurring theme linking many proteins is lipid metabolism and lipid-mediated signaling pathways, which supports labeling the cluster as lipid metabolism and signaling. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0055114","count":6},{"id":"GO:2000124","count":6},{"id":"GO:0019433","count":6},{"id":"GO:0009102","count":5}]},{"hash":"1340531714735447797","title":"Wnt-Mediated Neural and Limb Development","description":"This cluster focalizes on neural development (neural plate development; dorsal root ganglion development), limb morphogenesis (embryonic skeletal limb joint morphogenesis), and modulation of the Wnt signaling pathway (both positive and negative regulation). There is also strong signals for cell-cycle regulation, consistent with proliferative processes during development. Taken together, the predominant theme is Wnt-regulated developmental programs in neural and limb contexts.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":15},{"id":"GO:0001840","count":13},{"id":"GO:0071681","count":13},{"id":"GO:0061324","count":13},{"id":"GO:0030997","count":13}]},{"hash":"810787951177320999","title":"Proteostasis and trafficking under stress","description":"This cluster centers on protein quality control and turnover (proteasome assembly, ubiquitination, RNA quality control) and vesicle trafficking (SNARE disassembly), with accompanying stress-response and energy metabolism signals (oxidative stress response, ATP biosynthesis). A few terms (viral replication, transformation competence) seem less directly connected, but the dominant themes point to proteostasis and trafficking during stress.","confidence":"Medium","size":19,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070682","count":6},{"id":"GO:0006541","count":6},{"id":"GO:0070651","count":5},{"id":"GO:2001171","count":5},{"id":"GO:0016567","count":5}]},{"hash":"1114608830773768767","title":"Adaptive Immune Signaling and Adhesion","description":"This cluster centers on adaptive immune processes such as T cell activation, B cell receptor signaling, and affinity maturation, and it is complemented by cell adhesion and migration functions (integrin signaling, substrate adhesion-dependent spreading, endothelial migration) as well as hyaluronan metabolism and coagulation, suggesting an integrated immune activation context with extracellular matrix interactions.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":7},{"id":"GO:0034446","count":7},{"id":"GO:0043536","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0002291","count":6}]},{"hash":"1343521162255722326","title":"Actin-Dependent Innate Immunity and Endocytosis","description":"This cluster is dominated by GO terms linking actin cytoskeleton dynamics (actin filament organization, actin cortical patch localization) with membrane trafficking (endocytosis) and immune signaling (innate immune response, regulation of IL-2 production). The inclusion of cell polarity, Rho signaling, and synapse assembly suggests cytoskeleton-driven remodeling underlying immune cell interactions, such as immunological synapse formation, and endocytic processes. While apoptotic process and insulin signaling appear, the strongest common thread is cytoskeleton-associated regulation of immune-related pathways, supporting a label of Actin-dependent innate immunity and endocytosis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0007015","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0051666","count":4}]},{"hash":"1562428340235023472","title":"RNA Processing and Gene Expression Regulation","description":"The cluster is dominated by RNA metabolism terms: multiple lines for rRNA, mRNA, tRNA, and siRNA processing (and related catabolic/processing processes), which points to a core function in RNA maturation and regulation of gene expression. While a few terms relate to neural morphogenesis or signaling regulation, the strongest and most frequent signals are RNA processing activities, suggesting these proteins assemble a processing/regulatory RNA machinery, potentially with tissue-specific roles in neural development.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0044387","count":8},{"id":"GO:0016075","count":8},{"id":"GO:0006397","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0008033","count":8}]},{"hash":"1826088426064957486","title":"Developmental and Immune Signaling","description":"This cluster is enriched for developmental processes (nervous system and kidney development, ossification, mechanotransduction) and immune-related signaling (T cell receptor signaling, Th1 response), alongside core pathways like Smoothened and Roundabout signaling and MAPK cascades (ERK/JNK). The proteins appear to participate in broad signaling networks that influence both development and immune function, rather than a single niche process. Thus the label reflects the dual emphasis on developmental signaling and immune signaling. ","confidence":"Medium","size":19,"edges":121,"triangles":337,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0007224","count":8},{"id":"GO:0001822","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0070374","count":8}]},{"hash":"381157315869255740","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitination and ubiquitin-dependent proteolysis (ubiquitin-dependent protein catabolic process, K6-linked ubiquitination, autoubiquitination) and histone catabolic processes, suggesting a cluster of proteins involved in tagging and degrading substrates. Some terms (phototropism, skeletal muscle development) appear as noise or broader regulatory links; however, the core theme centers on protein ubiquitination and proteolysis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0085020","count":7},{"id":"GO:0036205","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1903265","count":7}]},{"hash":"1029633272270648489","title":"RNA processing and splicing regulation","description":"The terms are dominated by mRNA processing, regulation of alternative splicing via the spliceosome, and helicase activity regulation, pointing to RNA metabolism and post-transcriptional control. Some apoptotic terms appear but do not define the main theme; overall, RNA processing/splicing is the strongest signal.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":3},{"id":"GO:0010835","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0006919","count":2},{"id":"GO:1904876","count":2}]},{"hash":"257387728073983291","title":"Spliceosome-Driven mRNA Splicing and Processing","description":"This cluster is dominated by GO terms related to mRNA splicing via the spliceosome, including regulation of splicing (positive and negative), regulation of mRNA stability in response to stress, and subunit processome assembly, plus ncRNA-mediated silencing terms. The convergence on spliceosome activity and RNA processing suggests a cohesive function in RNA maturation and regulation, with additional RNA silencing pathways accompanying these processes.","confidence":"High","size":19,"edges":160,"triangles":804,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":13},{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0045292","count":12},{"id":"GO:0010610","count":12}]},{"hash":"1750247292925851194","title":"Spliceosome-driven mRNA processing and translation initiation","description":"The top GO terms are dominated by spliceosome-mediated mRNA processing and its regulation (positive/negative regulation of mRNA splicing, mRNA splicing via spliceosome, cis splicing, and small-subunit processome assembly). There are also terms linking to mRNA stability under stress and to formation of the translation preinitiation complex, suggesting a cluster centered on RNA processing with connections to translation initiation. This combination points to a cohesive theme around RNA splicing/processing with ancillary ties to translation readiness.","confidence":"High","size":19,"edges":59,"triangles":57,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:1901407","count":9},{"id":"GO:0010610","count":9},{"id":"GO:0006378","count":8}]},{"hash":"1674295752144056735","title":"Angiogenesis and ECM remodeling","description":"This cluster centers on sprouting angiogenesis, endothelial proliferation, and EMT-related processes, with strong signals for extracellular matrix (ECM) organization (fibronectin fibril organization) and integrin signaling. The presence of endocytosis and proteolytic activation (zymogen activation) suggests active ECM remodeling and vascular maturation, while spinal cord development may reflect CNS vascularization contexts. Collectively, the terms point to vascular development with ECM remodeling as the unifying theme.","confidence":"High","size":19,"edges":33,"triangles":20,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002040","count":10},{"id":"GO:2001046","count":9},{"id":"GO:0021510","count":9},{"id":"GO:0018057","count":9},{"id":"GO:0006898","count":9}]},{"hash":"1950179028912140476","title":"Immune signaling and chemotaxis","description":"The top GO terms cluster around immune-related signaling and cell movement: chemotaxis, cellular response to lipopolysaccharide, positive regulation of T cell differentiation, and the PI3K/AKT signaling axis (phosphatidylinositol 3-kinase/protein kinase B). The PMA responsiveness suggests PKC-mediated signaling, reinforcing a theme of signal transduction in immune or inflammatory contexts. Some terms (rhythmic process, cerebral cortex development, tight junction regulation) are broader or pleiotropic and may reflect additional roles of the proteins, but the dominant pattern points to signaling pathways governing immune responses and cell migration.","confidence":"Medium","size":19,"edges":155,"triangles":760,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":19},{"id":"GO:1904628","count":19},{"id":"GO:0048511","count":19},{"id":"GO:0060968","count":19},{"id":"GO:0021987","count":19}]},{"hash":"360286072349176677","title":"Immune Signaling and Development Cues","description":"Based on the top GO terms, the proteins seem to participate in signaling pathways linked to immune responses (chemotaxis, cellular response to LPS, T cell differentiation) and core signaling modules (PI3K/AKT, PMA response). Additional terms point to development and tissue organization (cerebral cortex development, tight junction assembly) and rhythmic regulation, suggesting a broader theme of signaling that governs immune activation and developmental processes. Because the terms are diverse and do not map to a single pathway, the label emphasizes a general signaling/development theme rather than a specific function.","confidence":"Medium","size":19,"edges":63,"triangles":47,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":19},{"id":"GO:1904628","count":19},{"id":"GO:0048511","count":19},{"id":"GO:0060968","count":19},{"id":"GO:0021987","count":19}]},{"hash":"89191292867761597","title":"Nuclear transcription and ribosome biogenesis","description":"The top GO terms point to core nuclear processes: RNA polymerase II preinitiation complex assembly, ribosome biogenesis and ribosomal subunit biogenesis, and rRNA processing, with supporting terms for cell cycle regulation (G1/S and G2/MI transitions) and DNA repair. This suggests a cohesive theme of nuclear gene expression and ribosome production, tied to genome maintenance, rather than a single tightly linked pathway. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0007140","count":1},{"id":"GO:0008315","count":1},{"id":"GO:0000082","count":1}]},{"hash":"1081725244941847180","title":"Translation and ribosome biogenesis","description":"This cluster is dominated by translation-related GO terms (general translation and mitochondrial translation) along with ribosomal large subunit biogenesis, indicating a core theme around ribosome function and protein synthesis. The presence of transcription-related and DNA damage response terms appears ancillary, possibly reflecting broader regulatory links, but the strongest signal centers on translation and ribosome assembly.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0032543","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0006977","count":3},{"id":"GO:1904803","count":3}]},{"hash":"1838222058093046647","title":"Actin Cytoskeleton Remodeling and Dendritic Spine Morphogenesis","description":"The cluster is dominated by GO terms related to actin cytoskeleton dynamics (polymerization, lamellipodium and ruffle assembly, barbed-end capping, and general cytoskeleton organization) and morphological shaping of dendritic spines, indicating a cohesive function in actin-driven membrane remodeling and spine development. The presence of cell adhesion and B cell receptor signaling terms likely reflects broader signaling crosstalk that modulates cytoskeletal changes. ","confidence":"High","size":19,"edges":7,"triangles":2,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900029","count":12},{"id":"GO:0051016","count":12},{"id":"GO:0060997","count":12},{"id":"GO:0030041","count":12},{"id":"GO:0030032","count":12}]},{"hash":"943212461218667194","title":"Mitochondrial Metabolite Transport","description":"The top GO terms cluster around transport into or across the mitochondrial membrane for nucleotides (deoxynucleotide, pyrimidine), cofactors (coenzyme A, heme), and various ions/metals (iron, phosphate, thiosulfate), as well as mitochondrial-associated processes like adaptive thermogenesis and mitochondrial ornithine transport. This points to a cohesive theme of proteins involved in diverse mitochondrial metabolite and cofactor transport, rather than a single substrate pathway.","confidence":"High","size":19,"edges":16,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030302","count":13},{"id":"GO:0035349","count":13},{"id":"GO:1990845","count":13},{"id":"GO:1990519","count":13},{"id":"GO:0090152","count":13}]},{"hash":"320947712481974757","title":"DNA Damage Response and Apoptosis","description":"The GO terms are dominated by DNA repair (base-excision repair) and DNA recombination, along with apoptotic processes, indicating a cluster centered on DNA damage response and programmed cell death. Additional terms point to broader stress signaling (response to xenobiotic stimulus, hormone stimulus) and related cellular processes, suggesting a cohesive module around stress-induced maintenance and turnover rather than a single, highly specific pathway. Some tissue- or context-specific terms (corneocyte development, renal water transport) may reflect broader functional roles of members in different contexts.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0046856","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0042493","count":2},{"id":"GO:2001153","count":2}]},{"hash":"1287184827330285898","title":"Multisystem Signaling Regulators","description":"The top terms point to regulatory signaling roles (positive regulation of threonine phosphorylation and NF-kappaB signaling) and tissue development/contraction across nervous, cardiac, retina, and kidney contexts. Rather than a single pathway, these proteins appear to act as broad regulators of signaling and development across multiple organ systems.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010800","count":10},{"id":"GO:0043123","count":10},{"id":"GO:1901841","count":9},{"id":"GO:0010842","count":9},{"id":"GO:0060048","count":9}]},{"hash":"1026375959952245666","title":"Mitochondrial dynamics and signaling","description":"This cluster centers on mitochondrial processes (membrane potential regulation, mtDNA replication, stress-induced fusion) and broader cellular signaling related to membranes and neuronal activity (lipid raft localization, dopaminergic synaptic signaling). Immune signaling terms (TLR3 pathway, T cell polarity) suggest cross-talk between mitochondrial function and immune responses, reinforcing a theme of mitochondria-linked signaling and energy management across cell types.","confidence":"Medium","size":19,"edges":37,"triangles":28,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:1903905","count":4},{"id":"GO:0010918","count":4},{"id":"GO:0052547","count":4},{"id":"GO:0090297","count":4},{"id":"GO:1990046","count":4}]},{"hash":"1726936022302944221","title":"Cytoskeletal remodeling and integrin signaling","description":"The cluster is enriched for actin-based protrusion formation (filopodium/lamellipodium), regulation of Rho signaling, and integrin activation/adhesion, with supporting processes in ECM/hyaluronan metabolism and immune cell activation. Together these point to coordinated cytoskeletal remodeling and integrin-mediated adhesion guiding cell migration and immune interactions.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":13},{"id":"GO:0046847","count":13},{"id":"GO:0033623","count":12},{"id":"GO:0033622","count":12},{"id":"GO:0045792","count":12}]},{"hash":"341988700471433957","title":"Neural development and cell-adhesion signaling","description":"The top GO terms point to nervous system development, myelination, BMP signaling regulation, and cell adhesion, suggesting a coherent theme of neural differentiation guided by adhesion-mediated signaling and cytoskeletal dynamics (Rho signaling). Some terms like B cell receptor signaling and symbiont entry into host cell are peripheral or reflect shared adhesion or signaling motifs, but the dominant pattern aligns with neural development and cell adhesion. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007289","count":3}]},{"hash":"353753130995806399","title":"Glycan Biosynthesis and Epithelial Polarity in Development","description":"This cluster is dominated by glycosylation-related GO terms: poly-N-acetyllactosamine biosynthesis, O-linked glycosylation via hydroxyproline, arabinogalactan protein metabolism, and Lewis a epitope biosynthesis, plus mucilage and cell-surface components. These glycan pathways are linked to developmental processes such as root hair cell development, seed coat mucilage, and maintenance of epithelial polarity/adhesion (as seen in follicular epithelium). The mix of plant-focused glycan biology (AGPs, root hairs, seed mucilage) with epithelial polarity and adhesion functions across species suggests a common theme of glycan-driven cell surface interactions shaping developmental cell connectivity. Overall, the cluster seems to represent glycan biosynthesis underlying epithelial development and cell adhesion.","confidence":"Medium","size":18,"edges":144,"triangles":688,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0080147","count":4},{"id":"GO:0007299","count":4},{"id":"GO:0030311","count":4},{"id":"GO:0018258","count":4}]},{"hash":"437521723539900299","title":"Neural signaling and sensory-drug responses","description":"The terms cluster around brain signaling (dopaminergic synaptic transmission, ERK cascade regulation), sensory functions (pain perception, visual perception and learning), and behavioral responses to psychoactive drugs (cocaine, morphine, general drug responses). This points to a cohesive theme of neural communication governing sensory processing and drug-induced behaviors, with a few outliers (brain renin-angiotensin system, heart development) that may reflect broader neural regulation. ","confidence":"Medium","size":18,"edges":69,"triangles":72,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002035","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0001963","count":11},{"id":"GO:0071380","count":11}]},{"hash":"601831739608941667","title":"Starch and glycogen metabolism","description":"The proteins show enrichment for both biosynthetic and catabolic processes related to storage carbohydrates: starch and amylopectin biosynthesis, glycogen biosynthesis, starch catabolism, maltose and trehalose catabolism, and related sugar metabolism like sucrose. This points to a coherent cluster centered on turnover of storage carbohydrates rather than a single specific pathway.","confidence":"High","size":18,"edges":13,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0005980","count":4},{"id":"GO:0019252","count":4},{"id":"GO:0005978","count":4},{"id":"GO:0000023","count":3},{"id":"GO:0030980","count":3}]},{"hash":"543545096900084422","title":"mRNA capping and cap methylation","description":"The two strongest terms are 7-methylguanosine mRNA capping and RNA (guanine-N7)-methylation, indicating RNA processing and cap formation as the core function of this cluster. The additional GO terms depict broader cellular responses (to xenobiotics, amines, LPS, TGF-beta, dexamethasone, zinc) and an aging term, suggesting some peripheral roles in stress signaling, but the central theme is RNA cap formation and modification.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0014075","count":4},{"id":"GO:0006370","count":4},{"id":"GO:0036265","count":4},{"id":"GO:0007568","count":3}]},{"hash":"1156842100413760725","title":"Unknown","description":"The top GO terms come from very disparate biological areas (temperature-related responses, neural learning/pain, and various systemic regulatory processes such as blood pressure, vasopressin signaling, renin secretion, gastric acid, dopamine signaling, and coagulation), with no clear single function or pathway tying all proteins together. This spread suggests a heterogeneous cluster rather than a coherent module.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":11},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0040015","count":10},{"id":"GO:0019233","count":10}]},{"hash":"2125320231741204581","title":"Unknown","description":"These proteins are linked to a broad mix of processes (development, neural growth, angiogenesis, mitochondrial assembly, and various chemical responses), with no single dominant function emerging to tie them together into a coherent cluster label.","confidence":"","size":18,"edges":22,"triangles":14,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0060348","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0019800","count":4}]},{"hash":"410259388247131495","title":"Mitotic spindle and cell cycle regulation","description":"This cluster is driven by mitosis- and spindle-related GO terms (mitotic spindle assembly, mitotic cell cycle, mitotic spindle orientation checkpoint signaling) and actin cytoskeleton reorganization, pointing to cell division and cytoskeleton remodeling as the core theme. Additional signals such as ERK cascade regulation and phosphatidylinositol biosynthesis, along with dopamine uptake regulation, likely reflect linked proliferation signaling rather than a separate function. Overall, the dominant pattern is proteins involved in mitosis and cytoskeleton dynamics.","confidence":"High","size":18,"edges":20,"triangles":8,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":11},{"id":"GO:0090307","count":11},{"id":"GO:0031532","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0051586","count":11}]},{"hash":"964412540337089869","title":"Neuronal Synaptic Transmission and Ion Transport","description":"This cluster centers on neural signaling and ion channel dynamics. Top GO terms include GABA signaling, glycinergic synaptic transmission, excitatory postsynaptic potentials, membrane depolarization, and calcium influx alongside sodium/potassium transport. Behavioral terms like locomotory behavior and conditioned taste aversion reflect neural circuit function. Together these terms point to a cohesive role in synaptic communication and ion-channel\u2013driven signaling in neurons.","confidence":"High","size":18,"edges":116,"triangles":397,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":15},{"id":"GO:0007214","count":15},{"id":"GO:0007626","count":15},{"id":"GO:0035725","count":13},{"id":"GO:0060079","count":13}]},{"hash":"2049606123094819322","title":"Spliceosome Regulators and RNA Processing","description":"This cluster shows GO terms for mRNA splicing via the spliceosome, regulation of splicing, and mRNA export from the nucleus, pointing to RNA processing as the core shared function. Additional terms reflect developmental contexts (keratinocyte differentiation, placenta morphogenesis) and signaling modulation (regulation of JNK cascade), suggesting these proteins participate in development alongside RNA processing. Overall, the label emphasizes the strongest shared function, with a medium confidence given the developmental terms.","confidence":"Medium","size":18,"edges":128,"triangles":521,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0010793","count":2},{"id":"GO:0060669","count":2},{"id":"GO:2000009","count":2}]},{"hash":"1972855044393698705","title":"Signaling, ubiquitination, and cytoskeletal dynamics","description":"The top GO terms cluster around post-translational modification (ubiquitination, phosphorylation), MAPK signaling (ERK cascade), and cytoskeletal remodeling (stress fiber assembly) together with cell cycle control, suggesting a cohesive theme of signaling-driven regulation of the cytoskeleton and proliferation. Some terms (neural development and fungal growth) are less directly connected, but the core appears to be signaling and cytoskeletal dynamics.","confidence":"Medium","size":18,"edges":31,"triangles":3,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0016567","count":9},{"id":"GO:0033138","count":9},{"id":"GO:0043149","count":9},{"id":"GO:0050975","count":9},{"id":"GO:0070374","count":9}]},{"hash":"1226356474590351926","title":"Embryonic Patterning & Morphogenesis","description":"The terms emphasize developmental pattern formation (left/right axis), transcriptional regulation during development, and diverse organ/tissue development processes (midbrain, placenta, cartilage, pancreas) as well as EMT events in heart formation, suggesting a cohesive theme of embryonic patterning and tissue morphogenesis across multiple lineages.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0060806","count":4}]},{"hash":"394428261149565703","title":"Developmental differentiation and genome maintenance","description":"This set includes developmental processes (skeletal muscle fiber development, substantia nigra and lung epithelial differentiation, EMT) and genome maintenance (DNA replication, DNA double-strand break processing, spindle\u2013kinetochore attachment), plus a stress-response element (unfolded protein response). The overlap hints at a theme of development coupled with genome integrity and cell-cycle control.","confidence":"Medium","size":18,"edges":108,"triangles":313,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048741","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0006986","count":4},{"id":"GO:2000324","count":4}]},{"hash":"1506040603242242406","title":"Complement and Fc receptor\u2013mediated innate immunity","description":"The cluster is enriched for immune-related processes: complement activation (lectin pathway), Fc-gamma receptor signaling, basophil activation, phagocytosis recognition, NK cell chemotaxis regulation, and arachidonic acid\u2013related inflammation, suggesting a cohesive theme of innate immune activation and inflammatory signaling. Some developmental terms appear, but the dominant pattern points to immune function.","confidence":"Medium","size":18,"edges":15,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":10},{"id":"GO:2000502","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0006910","count":7}]},{"hash":"1876114705050941445","title":"Lectin-pathway complement and FcR signaling","description":"This cluster is dominated by GO terms indicating innate immune activation: complement activation via the lectin pathway, phagocytosis recognition, basophil activation, Fc-gamma receptor signaling, and regulation of arachidonate secretion. These together point to a coherent theme of immune recognition and inflammatory signaling. A couple terms related to development (cartilage condensation, mesonephric duct development) are present but less central, so the core label reflects the immune-centric functions of the group.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0071226","count":9},{"id":"GO:0001502","count":8},{"id":"GO:0006910","count":7},{"id":"GO:0045575","count":7}]},{"hash":"1528097810688200022","title":"Rho GTPase\u2013driven cytoskeletal remodeling","description":"These terms cluster around Rho-family and small GTPase signaling, with emphasis on actin cytoskeleton remodeling (filopodium and podosome assembly), cell spreading, adhesion, and migration. The insulin receptor pathway appears as a broader signaling link, but the core theme is Rho GTPase\u2013mediated cytoskeletal dynamics.","confidence":"High","size":18,"edges":41,"triangles":2,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":12},{"id":"GO:1900026","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0007264","count":11},{"id":"GO:0043547","count":11}]},{"hash":"2016511732851089746","title":"Neural Development","description":"The cluster\u2019s top GO terms are dominated by brain and neural development (brain development, midbrain development, peripheral nervous system neuron development, inner ear development), with additional embryogenesis-related terms (primitive streak formation, embryonic forelimb morphogenesis), suggesting the proteins collectively participate in neurodevelopmental programs.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0048839","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0030901","count":5}]},{"hash":"309526835855838514","title":"Cardiac Morphogenesis and Adhesion","description":"The enriched GO terms point to heart development and vascular processes, including ventricular trabecula morphogenesis, endocardial differentiation, VEGF signaling, and cell-matrix/cell-cell adhesion. While some terms related to synapse assembly appear, the strongest signals cluster around cardiac tissue formation and adhesion dynamics, suggesting a functional group involved in cardiac morphogenesis and vascular interactions.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0098869","count":5},{"id":"GO:1900748","count":5},{"id":"GO:0007416","count":5},{"id":"GO:0003222","count":5}]},{"hash":"1033970479994739665","title":"Neurovascular development and cell adhesion","description":"Prominent GO terms include nervous system development, synapse assembly, corticospinal tract morphogenesis, and blood vessel maturation, all tied together by heterophilic/homophilic cell adhesion, suggesting a cluster of proteins coordinating neural and vascular development through cell\u2013cell interactions. Ossification and innate immune terms are present but secondary to the main developmental themes.","confidence":"High","size":18,"edges":66,"triangles":49,"max_degree":12,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0007399","count":9}]},{"hash":"301813487175356584","title":"Retinoid Metabolism and Embryonic Morphogenesis","description":"The cluster shows strong representation of retinoid metabolism (retinol and retinal pathways) along with multiple embryonic morphogenesis processes (forelimb morphogenesis, heart and blood vessel development, pattern formation, bilateral symmetry). This pattern suggests involvement of retinoic acid\u2013mediated signaling that coordinates organogenesis and body patterning, justifying a label that ties retinoid metabolism to embryonic morphogenesis.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":18},{"id":"GO:0042572","count":18},{"id":"GO:0009855","count":16},{"id":"GO:0009447","count":16},{"id":"GO:0035115","count":16}]},{"hash":"958060260023494319","title":"Differentiation signaling and epithelial junctions","description":"Most terms point to development and signaling (trophoblast giant cell differentiation, epidermis development, JNK and Rho signaling, IL-6 signaling) and cell\u2013cell contacts (tight junction assembly). Together these suggest a cluster of proteins involved in coordinating differentiation with epithelial adhesion and cytoskeletal regulation. Some GO terms about neuronal synaptic plasticity appear tangential, but the core theme remains developmental signaling and epithelial structure.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0008544","count":2},{"id":"GO:0070102","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051660","count":2}]},{"hash":"428522673819607111","title":"Golgi-centered vesicle trafficking","description":"Most of the dominant terms describe vesicle trafficking involving the Golgi and ER (ER-to-Golgi transport, Golgi-to-ER retrograde transport, endosome-to-Golgi transport) and vesicle fusion with the Golgi, plus intralumenal vesicle formation. A couple of outliers (lens maintenance, cell division) are peripheral; overall the cluster represents Golgi-centered vesicle trafficking.","confidence":"High","size":18,"edges":22,"triangles":1,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0042147","count":3},{"id":"GO:0048280","count":3},{"id":"GO:0036438","count":3}]},{"hash":"967787086398978445","title":"Spliceosome-Mediated RNA Processing and Regulation","description":"This cluster is dominated by GO terms tied to mRNA splicing and processing via the spliceosome (including regulation, alternative splicing, and small-subunit processome assembly) and also includes RNA-mediated gene silencing and stress-related mRNA stability regulation. These together indicate a cohesive role in post-transcriptional RNA maturation and control, supported by several splicing-focused terms. Some obsolete terms are present but do not undermine the central theme.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":13},{"id":"GO:0000381","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":11}]},{"hash":"1739506244892808290","title":"Ubiquitin-Dependent Degradation and Immune Signaling","description":"This cluster centers on ubiquitin-mediated protein catabolism (including ERAD and autoubiquitination) and links to innate immune pathways (NF-\u03baB and JNK signaling) with antiviral defense, suggesting a set of proteins involved in proteostasis coupled to immune signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0030433","count":9},{"id":"GO:0051607","count":7},{"id":"GO:0051865","count":7},{"id":"GO:0045087","count":7}]},{"hash":"1185203280195101644","title":"Unknown","description":"The top GO terms are scattered across sensory perception, adipocyte differentiation, heart muscle contraction, GTPase signaling, mitotic spindle organization, GPCR trafficking, DNA repair regulation, and asymmetric cell division. There is no single cohesive function or pathway linking these terms, so there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":18,"edges":49,"triangles":37,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0060048","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0007051","count":5}]},{"hash":"1000399580803575478","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"This cluster is driven by GO terms for keratan sulfate proteoglycan and heparan/heparin proteoglycan biosynthesis, indicating a strong focus on glycosaminoglycan production and assembly in the extracellular matrix. Related terms such as embryonic neurocranium morphogenesis and other proteoglycan biosynthetic processes support a role in ECM organization and development. While there are additional metabolic terms (N-acetylglucosamine, xenobiotic, thyroid hormone, flavonoid metabolism), they are less central to the core signal, which is proteoglycan/GAG biosynthesis.","confidence":"High","size":18,"edges":67,"triangles":86,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0006044","count":6},{"id":"GO:0006805","count":6},{"id":"GO:0018146","count":6},{"id":"GO:0048702","count":6}]},{"hash":"2253420631445627942","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0045292","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000447","count":3}]},{"hash":"1157633962150147581","title":"Mitotic progression and chromosome segregation","description":"The cluster centers on mitosis and chromosome segregation: terms like chromosome passenger complex localization to spindle midzone, positive regulation of exit from mitosis, and positive regulation of mitotic sister chromatid biorientation indicate a cohesive focus on cell-cycle control and chromosome handling. Additional items reference regulation of kinase activity and phosphorylation, fitting the theme of mitotic signaling. Some terms (ERK/T cell signaling, starch catabolism) appear less directly connected and may reflect broader roles of these proteins, but the dominant pattern is mitotic regulation.","confidence":"High","size":18,"edges":143,"triangles":671,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":18},{"id":"GO:0050860","count":18},{"id":"GO:0000200","count":18},{"id":"GO:0044387","count":14},{"id":"GO:0035853","count":14}]},{"hash":"1094770822500340811","title":"Neuronal ion channels and synaptic signaling","description":"The cluster centers on ion transport across membranes (sodium, potassium, calcium), which underpins neuronal excitability, and on neurotransmitter signaling (GABAergic and glycinergic synapses) with excitatory postsynaptic potential involvement, plus sensory-perception and behavior-related terms (sound perception, taste aversion, locomotion, nicotine response), implying a neural signaling and processing theme.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":16},{"id":"GO:0060079","count":16},{"id":"GO:0001661","count":16},{"id":"GO:0007214","count":16},{"id":"GO:0007626","count":16}]},{"hash":"1690700992131071688","title":"Translation machinery and mRNA decay","description":"Top GO terms center on translation and translational regulation (translation, initiation, elongation, termination, and positive regulation of cytoplasmic translation) along with deadenylation-dependent mRNA decay and selenium incorporation, suggesting a core function in protein synthesis and RNA turnover; a few other terms may reflect broader stress or cellular responses.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006415","count":4},{"id":"GO:0000288","count":4},{"id":"GO:0045901","count":3},{"id":"GO:0001514","count":3}]},{"hash":"1479667375848927508","title":"Ubiquitin-mediated proteolysis and circadian regulation","description":"This cluster is dominated by ubiquitin-dependent proteolysis and protein ubiquitination, with a strong signal for regulation of circadian rhythm, suggesting a core theme of protein turnover coupled to circadian control. Additional terms point to neural contexts (third ventricle development) and cytoskeletal dynamics (microtubule polymerization), as well as cellular stress responses to heavy metals, indicating a broader neural proteostasis/stress response cluster with cytoskeletal involvement.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":9},{"id":"GO:1903378","count":6},{"id":"GO:0000083","count":6},{"id":"GO:0071276","count":6}]},{"hash":"519190202119760982","title":"Neural development and synaptic plasticity regulation","description":"Most enriched GO terms point to neural development and synaptic regulation, including neuron development, regulation of short-term neuronal synaptic plasticity, and substantia nigra development, with ERK signaling context. A few terms relate to broader regulatory processes, but the neural theme dominates.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":3},{"id":"GO:0021762","count":2},{"id":"GO:0032287","count":2},{"id":"GO:0070372","count":2},{"id":"GO:0048662","count":2}]},{"hash":"1183910674034872179","title":"Apoptosis and epithelial remodeling","description":"This cluster\u2019s top terms cluster around programmed cell death (hepatocyte and myeloid apoptotic processes) and epithelial cell polarity/migration (establishment of polarity, cell migration), with supporting signals from GTPase regulation and ubiquitination that mediate cytoskeletal dynamics and protein turnover. Some terms appear as noise (chloroplast import, capsazepine response, obsolete GPCR pathway), but the dominant theme is apoptosis coupled with epithelial remodeling processes. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097284","count":7},{"id":"GO:0090162","count":7},{"id":"GO:0033028","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0007205","count":7}]},{"hash":"1718446103371977267","title":"Cytoskeleton assembly and vesicle trafficking","description":"The top terms point to cytoskeletal assembly (tubulin complex, lamellipodium) and multiple vesicular transport processes (ER-to-Golgi, Golgi localization, endosome-to-lysosome, protein transport), suggesting a cohesive role in coordinating cytoskeletal dynamics with intracellular trafficking. While there are a couple of signaling/development terms (EGFR pathway, kidney development), these likely reflect broader functional annotations rather than the core cluster theme. Overall, the cluster appears to center on cytoskeletal organization coupled with secretory/trafficking pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007021","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0031648","count":2},{"id":"GO:0051645","count":2}]},{"hash":"1696329668769880606","title":"Developmental gene expression and RNA processing","description":"This cluster is driven by terms tied to transcription (DNA-templated transcription) and RNA processing (mRNA splicing), alongside multiple development-related terms (multicellular, skin, brain/forebrain development). The presence of cilium assembly and endosome-to-lysosome transport suggests additional cellular differentiation and trafficking roles, but the dominant theme centers on gene expression regulation during development. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0060416","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0030433","count":3}]},{"hash":"2219880874883908518","title":"Cytoskeletal remodeling and cell polarity","description":"Top GO terms cluster around GTPase-regulated cytoskeletal dynamics (filopodia, microspikes), adhesion/spreading, tight junction assembly, and vesicle trafficking (Golgi to plasma membrane, exocytosis), plus cell polarity and shape maintenance. This suggests a coherent module for cell migration and polarity regulation, with heart development likely reflecting tissue context rather than a core function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0006893","count":3},{"id":"GO:0006887","count":3},{"id":"GO:0030035","count":3}]},{"hash":"180676455376023208","title":"Transcriptional Regulation and Growth Signaling","description":"This cluster centers on transcriptional control (DNA-templated transcription and its regulation) and growth/metabolic signaling (insulin receptor pathways and their regulation). It also includes nutrient\u2011responsive growth changes (pseudohyphal and invasive growth under glucose limitation) and cellular stress/growth coordination (ER unfolded protein response and CDK activity regulation), suggesting a theme of coordinating transcription with metabolic and cell-cycle signals during stress. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0002574","count":3},{"id":"GO:0008286","count":3}]},{"hash":"882367874962208416","title":"Neural membrane organization and cytoskeleton remodeling","description":"The top GO terms cluster around membrane and trafficking processes (endomembrane system organization, autophagosome assembly, ruffle and focal adhesion assembly) and cytoskeletal dynamics, with additional neural-focused terms (myelin assembly, corticospinal tract morphogenesis, sensory perception of sound) suggesting a neural context. Together, they point to a function in neural membrane organization coupled with cytoskeleton remodeling and adhesion.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0010256","count":4},{"id":"GO:0032288","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0051262","count":3}]},{"hash":"681717938487377240","title":"Developmental morphogenesis and cytoskeleton remodeling","description":"The top GO terms are dominated by developmental processes across tissues (spinal cord, skin, skeletal system, neuron projection development) and actin filament depolymerization, pointing to roles in morphogenesis and cytoskeletal changes during development rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1664235071666513102","title":"Cellular Stress and Metabolic Signaling","description":"The top GO terms indicate a blend of energy metabolism (electron transport chain), thermogenesis, and temperature-related responses, with stress and signaling contexts (prostaglandin and xenobiotic responses, calcium release) alongside sensory and neural processes (pain perception, dopamine signaling). This suggests a cluster enriched for cellular stress and metabolic signaling processes that connect metabolism with sensory/neural signaling rather than a single pathway.","confidence":"Low","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071380","count":9},{"id":"GO:0042493","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0045494","count":8},{"id":"GO:0002024","count":8}]},{"hash":"1819763797982132843","title":"Neural signaling and visual perception","description":"This cluster appears to group proteins involved in neural signaling and sensory processing. The top GO terms include visual perception and visual learning, dopaminergic synaptic transmission, and sensory perception of pain, indicating roles in perception and reward-related signaling. Additional terms point to regulation of the ERK1/2 cascade, a central pathway for synaptic plasticity and learning, and to brain-specific systems like the brain renin-angiotensin system, suggesting neuromodulatory and neuroendocrine functions. Behavioral response to cocaine further supports involvement in neural regulation of behavior. The presence of macrophage chemotaxis hints at possible neuroimmune interactions (e.g., microglial involvement). Overall, the terms converge on neural communication and sensory-behavioral processing, with ancillary inflammatory and developmental contexts. ","confidence":"High","size":17,"edges":130,"triangles":594,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0070374","count":13}]},{"hash":"2186444228704084948","title":"Neuronal signaling and sensory perception","description":"This cluster centers on neural communication and sensory processing, with strong representation of dopaminergic synaptic transmission, visual perception, visual learning, pain perception, and ERK signaling. While a few terms point to peripheral processes (saliva secretion, heart development, prostaglandin response) the dominant theme is neuronal signaling and sensory pathway regulation, particularly vision and sensory nociception.","confidence":"Medium","size":17,"edges":37,"triangles":6,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0006468","count":14},{"id":"GO:0001963","count":14},{"id":"GO:0071380","count":14},{"id":"GO:0048148","count":14}]},{"hash":"2228897158958273798","title":"GPCR-Adenylate Cyclase Signaling in Blood Pressure","description":"Label focuses on strong signals for adenylate cyclase activation and GPCR-mediated cAMP signaling, coupled with explicit links to blood pressure regulation (vasopressin, renin) and related cardiovascular signaling. While a few terms touch on metabolism or development, the dominant theme across the cluster is GPCR-cAMP pathways influencing blood pressure.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0007596","count":10}]},{"hash":"1769465702433081225","title":"Dopaminergic GPCR-CAMP Signaling in Neurons","description":"The cluster\u2019s top GO terms cluster around dopamine-related signaling: activation of adenylate cyclase and GPCR pathways that elevate cAMP, dopaminergic synaptic transmission, and downstream ERK1/2 signaling. Behavioral responses to cocaine and prostaglandin signaling further point to neuromodulatory GPCR activity in brain circuits. Some terms like visual perception and electron transport chain likely reflect broader neuronal processes or energy needs, but the dominant theme is dopamine-driven GPCR-cAMP signaling in neural tissue.","confidence":"High","size":17,"edges":32,"triangles":6,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007601","count":12}]},{"hash":"2014589697959180872","title":"Oocyte Meiosis and Chromosome Recombination","description":"The top GO terms center on female meiosis, homologous recombination, and chromosome dynamics (recombination repair, reciprocal recombination, telomere maintenance via recombination, sister chromatid cohesion, oocyte karyosome formation). Polarity specification terms (dorsal/ventral and anterior/posterior) point to axis formation during oocyte development, with supporting regulation like protein phosphorylation and oligomerization. Together, these indicate a coherent theme around meiosis in oocytes and chromosome recombination, with developmental polarity context.","confidence":"High","size":17,"edges":98,"triangles":292,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0010569","count":8},{"id":"GO:0051260","count":8},{"id":"GO:0030717","count":8},{"id":"GO:0007066","count":7},{"id":"GO:0009951","count":7}]},{"hash":"1328718509489430343","title":"Inflammation and Vascular Regulation","description":"The top GO terms cluster around inflammatory response, pain perception, blood coagulation, vasoconstriction, and response to LPS, pointing to inflammatory signaling intertwined with vascular regulation. Additional terms involving temperature-related responses and metabolic regulation suggest broader stress and energy balance ties, but the core signal is inflammation with vascular modulation rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0006954","count":10},{"id":"GO:0007596","count":9},{"id":"GO:0045986","count":9},{"id":"GO:0032496","count":9}]},{"hash":"314963199193856492","title":"Cardiac development and conduction","description":"Top terms in this cluster predominantly describe heart morphogenesis and cardiac electrophysiology, including ventricular/atrial muscle cell membrane depolarization and repolarization, AV node action potential, and regulation of heart rate by cardiac conduction. The calcium release from the sarcoplasmic reticulum points to excitation-contraction coupling, reinforcing a cardiac-specific functional theme. A few terms (bone ossification, skin development) are present but seem peripheral to the core cardiac signal, likely reflecting broader developmental processes or annotation noise.","confidence":"High","size":17,"edges":33,"triangles":5,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0060307","count":14},{"id":"GO:0060371","count":14},{"id":"GO:0086091","count":14}]},{"hash":"53304629620243298","title":"Cartilage and collagen fibril organization","description":"The cluster is dominated by GO terms for collagen fibril organization and cartilage condensation/development, with supporting signals for extracellular matrix remodeling, FGF response, and modulation of angiogenesis, pointing to a connective tissue/cartilage development program. Immune-related terms appear secondary, likely reflecting remodeling contexts.","confidence":"High","size":17,"edges":102,"triangles":302,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0048661","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0016525","count":4}]},{"hash":"647643896129871654","title":"Neural GPCR\u2013cAMP signaling and vision","description":"The terms cluster around neural signaling and visual processes (response to amphetamine, visual perception, visual learning) and intracellular signaling cascades (adenylyl cyclase activation, protein phosphorylation, GTPase regulation), suggesting a common theme of GPCR-mediated signaling and vision-related pathways in neurons, with some peripheral association to platelet-related signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0006468","count":9},{"id":"GO:0007190","count":9},{"id":"GO:0008284","count":9}]},{"hash":"1976840221048419670","title":"GPCR Signaling and Metabolic Regulation","description":"The cluster includes GO terms spanning GPCR signaling (adenylate cyclase-activating pathways), neuropeptide signaling, sensory modalities (pain and vision), temperature and thermogenesis responses, vascular regulation (blood pressure, coagulation), and mitochondrial energy metabolism (electron transport chain). This mix points to a broader theme of signaling pathways coordinating metabolic and physiological responses across neural, vascular, and energy systems, rather than a single, narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0035025","count":11},{"id":"GO:0022900","count":11},{"id":"GO:0002024","count":8}]},{"hash":"1489369056918834824","title":"Membrane solute transporters","description":"The top GO terms are dominated by transmembrane transport across a variety of substrates (sugars like galactose/arabinose, ions such as Na+ and K+, nitrite, xenobiotics), plus a transporter-related term for neurotransmitter loading. This pattern strongly points to a cluster of membrane transport proteins mediating solute movement, with some auxiliary terms reflecting related cellular processes. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1833083617701238708","title":"Lipid metabolism and sphingolipid signaling","description":"The top GO terms cluster around phospholipid and sphingolipid metabolism (phospholipid biosynthesis/dephosphorylation, phospholipid catabolic processes, sphinganine-1-phosphate metabolism, regulation of sphingolipid-mediated signaling) and related membrane signaling (sphingolipid signaling). While there are a few outliers (RNA splicing, glucose-6-phosphate transport, oxidant detoxification), the dominant theme points to lipid metabolism and sphingolipid signaling as the defining function of this cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0015760","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0035233","count":2}]},{"hash":"679193002040566724","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The cluster is dominated by GO terms for mRNA splicing and its regulation via the spliceosome, including both positive and negative regulation, alternative splicing, and components of the splicing machinery. It also features regulatory ncRNA- and miRNA-mediated silencing terms that influence transcript fate, reinforcing a ribonucleoprotein/spliceosomal regulatory theme. Together, these terms point to proteins involved in RNA processing with a focus on spliceosome-driven 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:0048026","count":14},{"id":"GO:0031047","count":14},{"id":"GO:0010610","count":14},{"id":"GO:0000398","count":9},{"id":"GO:0048025","count":9}]},{"hash":"1469806476175329486","title":"RNA Processing and Antiviral Stress Response","description":"The cluster is dominated by RNA metabolism terms (rRNA, mRNA, tRNA processing) and translation, suggesting a core RNA processing/translation module. Additionally, antiviral signals such as response to interferon-alpha and negative regulation of viral genome replication indicate involvement in antiviral/stress signaling. Together, these terms point to a cohesive function in RNA processing with antiviral defense context.","confidence":"High","size":17,"edges":132,"triangles":622,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045071","count":8},{"id":"GO:0009636","count":7},{"id":"GO:0035455","count":6},{"id":"GO:0006412","count":6},{"id":"GO:0044387","count":5}]},{"hash":"536396152129649397","title":"Spliceosome-related mRNA processing factors","description":"The top GO terms cluster around spliceosome-mediated splicing and other mRNA maturation/regulation steps, including alternative splicing, polyadenylation, and small-subunit processome assembly, plus stress-related mRNA stability regulation. This points to a coherent group of proteins involved in pre-mRNA processing and post-transcriptional gene regulation, with some shared roles in RNA silencing pathways, justifying the label.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0048025","count":6},{"id":"GO:1905663","count":6}]},{"hash":"546604334223644300","title":"Ribosome biogenesis and nuclear mRNA export","description":"This cluster is dominated by GO terms for ribosome production and RNA handling in the nucleus\u2014ribosome biogenesis, export of the large ribosomal subunit, translation, and mRNA export\u2014suggesting a core function in ribosome assembly and mRNA trafficking, with additional links to centrosome/microtubule organization and GTPase regulation that may reflect coordination with cell division.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0006412","count":3}]},{"hash":"382077348315817552","title":"Broad metabolism: diverse catabolic and biosynthetic processes","description":"The GO terms are spread across many metabolic categories\u2014several specific catabolic pathways for various substrates (triglycerides, glucuronosides, stilbenes, etc.) and some biosynthetic processes (biotin, antibiotic). There are no shared dominant functions or interactions, suggesting this cluster represents a broad set of metabolic activities rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0019433","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0098869","count":4}]},{"hash":"1725566470246701650","title":"Ribosome Biogenesis and Mitochondrial Respiration","description":"These proteins appear to participate in ribosome biogenesis (rRNA methylation, rRNA export, translation, transcription) and mitochondrial energy generation (proton motive force-driven ATP synthesis, Complex I assembly). The co-occurrence of these terms suggests a link between the protein synthesis machinery and mitochondrial function, indicating a cohesive theme around gene expression machinery connected to energy metabolism.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0099132","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006450","count":1},{"id":"GO:0006407","count":1}]},{"hash":"2219212401476914251","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The cluster is dominated by GO terms related to mRNA splicing and spliceosome activity, including cis splicing, splice site recognition, and regulation of alternative splicing via the spliceosome, plus small-subunit processome assembly. These points indicate a cohesive group of proteins involved in RNA processing and editing at the splicing level, with ancillary links to mRNA stability and RNA silencing pathways. Overall, the core function appears to be regulation of mRNA splicing through the spliceosome.","confidence":"High","size":17,"edges":25,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":2},{"id":"GO:1905663","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0035278","count":2}]},{"hash":"1546570974881014646","title":"Enteric nervous system signaling and gut motility","description":"Several top GO terms explicitly relate to the enteric nervous system and gut function (peristalsis, enteric nervous system development, dopamine receptor signaling in the gut) and there is strong signaling-related activity (calcium release, MAPK/ERK cascade) typical of neuronal or smooth muscle control. Additional terms on prostaglandin response, xenobiotic response, and pain perception align with gut-brain axis signaling and visceral nociception. Taken together, the cluster likely reflects proteins coordinating enteric neural signaling and GI motility rather than a single metabolic pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030432","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0071380","count":8},{"id":"GO:0042493","count":8}]},{"hash":"1952327812670369188","title":"Developmental Signaling and Growth Control","description":"This cluster includes GO terms spanning developmental processes (multicellular organism development, skin and metanephric development), cell proliferation and the mitotic cycle, and multiple layers of signaling regulation (kinase activity, autophosphorylation, GTPase activity) plus mRNA transport. The common thread is a network of development-associated signaling coupled to growth and gene expression regulation, suggesting proteins that jointly govern tissue development and proliferation rather than a single, narrow function.","confidence":"High","size":17,"edges":63,"triangles":107,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0000278","count":8},{"id":"GO:0051028","count":8},{"id":"GO:0043588","count":7}]},{"hash":"1534754835709163087","title":"Ubiquitin-Dependent Immune Signaling and Chromatin Regulation","description":"The top GO terms cluster around ubiquitin-dependent protein degradation and ubiquitination (including K63-linked), autoubiquitination, and signaling pathways that activate NF-\u03baB and JNK, together with defense against viruses and innate immune responses. The inclusion of histone catabolic processes suggests a chromatin regulation angle linked to immune gene expression. Overall, this points to a group of proteins involved in ubiquitin-mediated immune signaling with chromatin remodeling connections.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0051865","count":7},{"id":"GO:0036205","count":6}]},{"hash":"1595899083510239577","title":"Synaptic Vesicle Trafficking and Receptor Insertion","description":"The dominant GO terms point to secretory pathway and SNARE-mediated vesicle fusion, especially trafficking to and insertion of neurotransmitter receptors at the postsynaptic membrane, which underlie long-term potentiation. ER-Golgi transport and Golgi organization support busy trafficking in neurons, aligning with this synaptic function.","confidence":"High","size":17,"edges":24,"triangles":4,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":5},{"id":"GO:2000463","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0035493","count":4}]},{"hash":"2011804990257204243","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000472","count":8},{"id":"GO:0000447","count":8},{"id":"GO:0000480","count":8},{"id":"GO:0008284","count":7},{"id":"GO:0000278","count":7}]},{"hash":"593419591615140294","title":"Platelet Activation and Coagulation","description":"The top GO terms show clear signals of hemostasis-related processes, notably platelet activation and fibrinolysis, suggesting a coagulation-focused cluster. The additional terms reflect stress and signaling responses (response to hypoxia, oxidative stress, xenobiotics, glucose) and regulatory protein modifications (K11-linked deubiquitination, deneddylation, negative regulation of CDK activity), which commonly intersect with platelet function and coagulation signaling. Taken together, the cluster likely centers on platelet/coagulation biology with accompanying regulatory and stress-response roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":3},{"id":"GO:0035871","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0000338","count":3},{"id":"GO:0009749","count":2}]},{"hash":"324450537421393141","title":"Rho/Ras GTPase signaling in immune cell motility","description":"The cluster shows strong hints of small GTPase\u2013mediated signaling (Rho, Ras), regulation of Rho pathways, and lamellipodium assembly, all pointing to actin cytoskeleton remodeling and cell migration. The presence of immune-related terms (B cell affinity maturation, NK T cell differentiation, hemopoiesis) suggests this module ties immune signaling to cytoskeletal dynamics in immune cells. Thus, a cohesive label focusing on GTPase signaling and motility in immune contexts fits best.","confidence":"Medium","size":17,"edges":17,"triangles":1,"max_degree":14,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043552","count":10},{"id":"GO:0007264","count":10},{"id":"GO:0002344","count":10},{"id":"GO:0035023","count":10},{"id":"GO:0030032","count":10}]},{"hash":"2123317185490211106","title":"Synaptic vesicle trafficking and GTPase signaling","description":"This cluster centers on vesicle transport processes (retrograde Golgi-to-ER transport, endocytosis, synaptic vesicle budding, Golgi localization) and regulation of small GTPase pathways (Rho and Ras). The combination suggests proteins coordinating vesicle cycling at synapses and modulating signaling to influence neuronal function and behavior, with some broader annotations that may reflect pleiotropic roles. ","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0006890","count":2}]},{"hash":"1638178085676495888","title":"Unknown","description":"The top GO terms are varied across cell proliferation regulation, signaling cascades (ERK), vesicle exocytosis, muscle development, and nuclear anchoring, with no clear unifying function. The absence of edges also suggests the proteins may not participate in a common, cohesive process within this cluster. Because a single, interpretable theme cannot be established, a precise label is not supported.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0031384","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0010796","count":2}]},{"hash":"233914777046567729","title":"Wnt-regulated limb, bone, and thymus development","description":"Top GO terms indicate a cohesive developmental signaling module centered on Wnt pathway activity, with specific emphasis on limb bud formation, bone development, and thymus development, plus supporting regulation of GTPase activity and tyrosine phosphorylation. This pattern suggests a coordinated morphogenesis program across multiple tissues driven by Wnt signaling, rather than isolated processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060348","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0010765","count":3}]},{"hash":"466041607336639068","title":"Cytoskeletal remodeling and membrane dynamics","description":"The terms repeatedly point to actin- and membrane-associated processes: filopodium assembly, Rac protein signal regulation, and negative regulation of membrane tubulation, indicating cytoskeletal organization and membrane remodeling. While other terms touch on development and metabolism (sterol and glycogen biosynthesis), the dominant theme across the cluster is dynamic cytoskeletal signaling and membrane dynamics. This label captures the core shared function without overgeneralizing.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0046716","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0016126","count":2},{"id":"GO:1903526","count":2}]},{"hash":"1017137202759204027","title":"Cell-Cell Adhesion and Junction Assembly","description":"This cluster is dominated by GO terms for cell adhesion (heterophilic and homophilic) and junction assembly (paranodal and AV node related). The presence of synapse assembly regulation reinforces a theme of cell-contact\u2013mediated communication. A subset of terms touches immune interactions that can occur at cell interfaces (macrophage activation, NK cell regulation, phagocytosis recognition), which still relate to adhesion- and junction-centered signaling at cellular boundaries. Overall, the core theme is cell\u2013cell adhesion and junction organization with related signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0030913","count":6},{"id":"GO:0086072","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0002859","count":5}]},{"hash":"662559308440632622","title":"GTPase Activity Regulation and Signaling","description":"This cluster is dominated by GO:0043547 (positive regulation of GTPase activity) with five proteins, suggesting a core function in regulating GTPase-driven signaling and associated cytoskeletal dynamics. Supporting terms point to broader signaling pathways (phosphatidylinositol-mediated signaling, opsin signaling) and cellular processes like intracellular transport and cell shape regulation. The remaining terms, such as mitotic cell cycle and heart development, appear peripheral annotations rather than a single cohesive tissue-specific function, so the central theme is signaling regulation via GTPase activity.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0032120","count":3},{"id":"GO:0060048","count":3}]},{"hash":"1717186652664267829","title":"Skeletal Muscle Development and Ubiquitination","description":"The cluster is dominated by GO terms related to skeletal muscle development and differentiation (skeletal muscle cell differentiation, skeletal muscle tissue development, skeletal muscle fiber development) and muscle-associated functions (swimming). It is also enriched for ubiquitin-related processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination), suggesting regulation of muscle proteins by ubiquitin signaling. A few terms (e.g., B cell receptor signaling, spindle localization) are less aligned and may reflect cross-annotation or noise. Overall, the theme points to muscle development with ubiquitin-mediated regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051260","count":8},{"id":"GO:0035914","count":6},{"id":"GO:0036268","count":6},{"id":"GO:0007519","count":6}]},{"hash":"2017974125483607022","title":"Ubiquitin-mediated signaling, circadian and antiviral responses","description":"The cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent protein catabolism, including multiple linkage types (K63, K6, linear) and autoubiquitination. Additional terms point to circadian rhythm regulation, histone catabolic processes, and antiviral defense (defense response to virus, suppression of viral release by host), suggesting a cohesive set of proteins involved in ubiquitin-dependent regulation with roles in circadian control and antiviral responses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0070534","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0085020","count":4}]},{"hash":"1651896687868594445","title":"Cytoskeleton remodeling and endocytosis regulation","description":"The top GO terms cluster around actin-related processes (microspike assembly, protein localization to actin cortical patch, centrosome localization, tight junction assembly) and pathways controlling membrane trafficking and signaling (negative regulation of endocytosis, Ras signaling), with a note of immune-related function (adaptive immune response). This mix points to proteins involved in cytoskeletal dynamics coupled to endocytosis and signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045806","count":3},{"id":"GO:0034136","count":2},{"id":"GO:0051660","count":2},{"id":"GO:0010976","count":2},{"id":"GO:2001205","count":2}]},{"hash":"885291180668208476","title":"B cell activation and antigen presentation","description":"Top GO terms indicate a core role in B cell receptor signaling, affinity maturation, MHC class II\u2013mediated antigen processing, and innate immune response, suggesting the proteins cluster around B cell\u2013driven adaptive immunity and antigen presentation. Terms related to intracellular transport and clathrin-dependent endocytosis align with antigen uptake and trafficking in B cells, supporting the theme. A couple of sensory-related annotations (retina homeostasis, bitter taste detection) seem incidental and do not override the immune-focused signal. Overall, this cluster appears to represent B cell\u2013centric immune functions.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0001895","count":2},{"id":"GO:0001580","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0002344","count":2}]},{"hash":"1930350760857298369","title":"Gustatory and Chemosensory Receptors","description":"The proteins in this cluster are enriched for GO terms related to sensing chemical stimuli, especially taste and bitter taste, plus pheromone response, pointing to chemosensory (gustatory/pheromonal) signaling. A few unrelated terms (blood coagulation, hormone signaling) appear but do not define the core function; overall the dominant theme is chemosensory perception.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050909","count":4},{"id":"GO:0019236","count":4},{"id":"GO:0007606","count":4},{"id":"GO:0001580","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1347830834943843920","title":"Chemosensory signaling and neural development","description":"The cluster shows a clear enrichment for chemosensory processes: sensory perception of taste (including bitter taste detection) and pheromone response, which together point to chemical sensing. The inclusion of nervous system development supports a broader neural context for these sensory cues. A few terms (like lipopolysaccharide response) are less directly related and may reflect broader multifunctionality or annotation noise, but the dominant signal is chemical sensing linked to neural development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0050909","count":4},{"id":"GO:0001580","count":4},{"id":"GO:0019236","count":3},{"id":"GO:0007606","count":3}]},{"hash":"1602989235378309630","title":"Regulated Development and Vascular Signaling","description":"The top GO terms cluster around developmental processes (retina development, posterior midgut development) and regulatory controls on cell proliferation, plus vascular and endocrine regulation (blood coagulation, vasopressin-regulated blood pressure, gastrin secretion, dopamine signaling). This points to proteins involved in broader signaling networks that coordinate development with cardiovascular and secretory physiology, rather than a single cohesive pathway.","confidence":"Medium","size":16,"edges":104,"triangles":364,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":16},{"id":"GO:0060041","count":16},{"id":"GO:0043547","count":16},{"id":"GO:0008283","count":16},{"id":"GO:0007596","count":15}]},{"hash":"1795720052595220811","title":"Neural perception and reward signaling","description":"This cluster is dominated by neural and sensory-related processes: visual perception and learning, dopaminergic synaptic transmission, and behavioral responses to cocaine, all pointing to neuronal signaling and reward pathways. ERK1/2 cascade regulation supports activity-dependent signaling in neurons. While terms like heart development and brain renin-angiotensin system are present, the core theme centers on neural perception, processing, and reward-related signaling.","confidence":"High","size":16,"edges":114,"triangles":482,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0001963","count":12},{"id":"GO:0071380","count":12},{"id":"GO:0048148","count":12},{"id":"GO:0070374","count":12}]},{"hash":"2077157705112354760","title":"Development and cell-cycle regulation","description":"The top GO terms point to developmental processes (brain development, cerebral cortex development, myoblast differentiation, acrosome reaction) alongside cell-cycle control (positive regulation of G1/S transition) with supporting roles in DNA repair and aging; the terms span multiple tissues and functions (neural, muscular, immune, reproductive), suggesting a broad theme of development intertwined with cell-cycle and maintenance processes.","confidence":"Medium","size":16,"edges":60,"triangles":80,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:1900087","count":8},{"id":"GO:0006284","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0007568","count":6},{"id":"GO:0045663","count":6}]},{"hash":"615358328414890480","title":"Blood coagulation and inflammatory regulation","description":"The GO terms are dominated by blood coagulation, inflammatory response, and vascular regulation (vasoconstriction and smooth muscle contraction), with additional signals related to lipopolysaccharide response and pain perception. This suggests a functional module involved in hemostasis and immune-vascular cross-talk, with some neuromodulatory associations (dopamine signaling, appetite). ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0050728","count":10},{"id":"GO:0045986","count":10},{"id":"GO:0032100","count":10}]},{"hash":"50082869254640640","title":"Chromatin remodeling and histone ubiquitination","description":"Dominant chromatin-related terms (nucleosome positioning, heterochromatin formation, nucleosome density regulation) and histone ubiquitination events (including H2A K63-linked) plus autoubiquitination point to a cohesive module of chromatin regulation and histone modification. A few outliers (adaptive immune response, germarium-derived encapsulation) may reflect broader developmental roles or annotation noise, but the core theme remains chromatin remodeling and histone modification.","confidence":"High","size":16,"edges":84,"triangles":206,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016584","count":7},{"id":"GO:0000183","count":7},{"id":"GO:0060303","count":7},{"id":"GO:0046328","count":6},{"id":"GO:0085020","count":6}]},{"hash":"127980827868299833","title":"Embryonic morphogenesis and organ development","description":"The cluster is enriched for embryonic morphogenesis terms across multiple organs (eye, foregut, ureter, somites) and morphology-related development processes, plus transcriptional regulation by RNA Pol II, indicating gene-expression control during these developmental events. Together these terms point to broad embryonic organ development and morphogenesis rather than a single pathway, so the label Embryonic morphogenesis and organ development fits well.","confidence":"High","size":16,"edges":86,"triangles":194,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060441","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0000122","count":6}]},{"hash":"22270858156585793","title":"Embryonic craniofacial and heart morphogenesis","description":"The top GO terms cluster around developmental morphogenesis across craniofacial tissues (roof of mouth, cartilage, cochlea) as well as heart formation (endocardial cushion EMT, left-right patterning) and broader embryonic organogenesis, including placenta and endocrine development. This suggests the proteins function collectively in early development and morphogenesis, particularly craniofacial and cardiac. ","confidence":"High","size":16,"edges":20,"triangles":0,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0090103","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060806","count":4}]},{"hash":"992124868629178059","title":"Transcriptional regulation in neural and endocrine development","description":"Top terms indicate neural tissue development (midbrain, dorsal spinal cord, peripheral nervous system, visual perception) and endocrine organ development (pituitary, pancreas). They are connected by transcriptional regulation (RNA polymerase II activity and regulation of transcription), suggesting a module of transcription-controlled development across nervous and endocrine systems.","confidence":"High","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0021516","count":5},{"id":"GO:0003309","count":5},{"id":"GO:0021983","count":5}]},{"hash":"722706188113942818","title":"Vacuolar amino acid transport","description":"The top GO terms center on transmembrane movement of specific amino acids into the vacuole (lysine, tyrosine, serine, histidine, alanine, glutamate, asparagine, etc.), with a recurring theme of import into the vacuole for multiple amino acids. There is also a related export term for lysine, but the dominant pattern is amino acid import into the vacuolar compartment, suggesting these proteins function as vacuolar amino acid transporters. A few unrelated terms (potassium starvation response, lithium transport) may reflect broader ion-homeostasis roles, but they do not override the clear transport-focused pattern.","confidence":"High","size":16,"edges":15,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0089707","count":3},{"id":"GO:0090514","count":3},{"id":"GO:0006867","count":3},{"id":"GO:0051365","count":3},{"id":"GO:0090517","count":3}]},{"hash":"2244517069675338752","title":"Signaling Modulators Across Immune, Neural, and Vascular Systems","description":"The GO terms point to regulation of multiple signaling pathways (Rho, Ras), immune activation (adaptive immune response, B cell differentiation), neural communication and plasticity (glutamatergic transmission, long-term potentiation), vascular processes (vasoconstriction, angiogenesis), and even reproductive signaling (acrosome reaction). This pattern suggests proteins that broadly modulate signaling across diverse biological systems rather than a single pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0016525","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0051968","count":2}]},{"hash":"1732501322692387446","title":"Wnt signaling and embryonic morphogenesis","description":"The top GO terms point to developmental signaling and morphogenesis, including the Wnt pathway, mesoderm development, and multiple morphogenetic processes (palate, cartilage, hair follicle), plus angiogenesis and synapse assembly\u2014all aspects of embryonic tissue patterning. A couple of housekeeping terms (splicing, ribosomal export) are present but less central. Overall, the cluster appears to group proteins involved in embryonic development and tissue morphogenesis, often downstream or interacting with Wnt signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0060806","count":2},{"id":"GO:0007498","count":2}]},{"hash":"1019035496846030185","title":"Inflammation-Related Leukocyte Migration and Coagulation","description":"The cluster is dominated by GO terms about leukocyte movement, neutrophil function, phagolysosome assembly, and vascular/coagulation processes (endothelial barrier establishment, blood coagulation, IL-8 regulation). Together these point to an inflammatory immune program involving leukocyte trafficking and coagulation/hemostasis, with a few development-associated terms present that are less central to this theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903142","count":4},{"id":"GO:0048339","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0002315","count":3},{"id":"GO:0007596","count":3}]},{"hash":"2048827537363545129","title":"Steroid and Lipid Biosynthesis","description":"Top GO terms cluster around biosynthetic processes for steroids (estrogen, testosterone, glucocorticoids) and various lipids (sphingolipids, very long-chain fatty acids, mycolic acids), plus poly-hydroxybutyrate. This pattern suggests a cohesive theme of lipid- and steroid biosynthesis rather than a single specific function, indicating the proteins collectively participate in lipid metabolism and hormone biosynthesis pathways. Confidence in this label is High.","confidence":"High","size":16,"edges":73,"triangles":132,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0042619","count":14},{"id":"GO:0006703","count":11},{"id":"GO:0030148","count":11},{"id":"GO:0031427","count":11}]},{"hash":"727667916236953841","title":"Neural Development and Migration","description":"The cluster is strongly enriched for neural development terms: neuron migration, neural crest cell migration, CNS development, and axon extension, indicating roles in neuronal growth and wiring. While a few terms touch on broader development, the dominant signal is neurodevelopment, supporting a label focused on neural development and migration.","confidence":"High","size":16,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001764","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0031069","count":3}]},{"hash":"636131974498854163","title":"Neuronal synapse assembly and cytoskeletal dynamics","description":"Top terms indicate a focus on synapse assembly and nervous system development, with associated cytoskeletal remodeling (lamellipodium assembly, Rho signaling). This suggests a module tied to synapse formation and neuronal morphogenesis, with some peripheral immune signaling terms likely reflecting broader regulatory contexts rather than core function.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007416","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1076789702085294405","title":"Immune Activation and Cell Communication","description":"The top GO terms center on immune system functions\u2014adaptive and innate immune responses, B cell receptor signaling, interleukin-2 production, and immunoglobulin production\u2014indicating a cluster focused on immune activation and signaling. Supporting terms about protein localization to cell junction and cell adhesion suggest immune cell communication, though a few cardiac-related terms may reflect annotation noise or broader signaling connections. Overall, the dominant theme is immune activation and communication between cells.","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":13},{"id":"GO:0050853","count":11},{"id":"GO:0002250","count":11},{"id":"GO:1900042","count":11},{"id":"GO:0045087","count":11}]},{"hash":"1156659091518692413","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051865","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0051607","count":7},{"id":"GO:0070534","count":7}]},{"hash":"1888290309150098119","title":"Hair Keratinization and Hair Cycle","description":"This cluster is dominated by GO terms for keratinization and hair cycle, which together point to hair follicle biology and the structural/ergodic processes of hair formation and growth. The strong representation of these two related hair-specific terms suggests the proteins form a cohesive hair-related module, justifying the label.","confidence":"High","size":16,"edges":50,"triangles":67,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":16},{"id":"GO:0042633","count":16}]},{"hash":"1627510639446279123","title":"Immune signaling and chromatin organization","description":"The cluster shows immune-related signaling activity (B cell receptor signaling) alongside chromatin organization and ubiquitination, suggesting a link between immune signal transduction and gene regulation. Additional terms like cell migration and T cell selection reinforce an immune-cell functional theme, while other terms related to mechanical/chemical stimulus appear as broader signaling contexts. Overall, the dominant theme is immune signaling coupled with chromatin-level regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0016567","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0050966","count":2},{"id":"GO:0016477","count":2}]},{"hash":"59058876663153420","title":"Spliceosome-Driven mRNA Processing","description":"The top GO terms converge on mRNA maturation: cis and alternative splicing via the spliceosome, regulation of splicing, and related processes like mRNA polyadenylation and small-subunit processome assembly. Additional terms like miRNA-mediated silencing and blastocyst formation point to broader post-transcriptional regulation and development, but the dominant signal is pre-mRNA processing by the spliceosome. This suggests the cluster comprises proteins involved in RNA processing and splicing control.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0006378","count":5},{"id":"GO:0000380","count":5},{"id":"GO:1900363","count":5},{"id":"GO:0048025","count":4}]},{"hash":"1151195734971657214","title":"Cell Cycle and Innate Immune Response","description":"This cluster shows strong signals for mitotic cell cycle and cell division (mitosis-related terms) alongside innate immune and antiviral response terms (defense response to virus, innate immune response, interferon-alpha response). The presence of both themes suggests proteins with roles in cell cycle regulation that may also participate in immune signaling or stress responses, making a dual-function label appropriate rather than a single-context one. ","confidence":"Medium","size":16,"edges":20,"triangles":2,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0007091","count":7}]},{"hash":"1543450300348621972","title":"Metabolic Energy Pathways and Stress Response","description":"The cluster centers on energy metabolism and nutrient handling, with GO terms for valine catabolism, glycogen and carnitine biosynthesis/metabolism, and phosphorylation, along with stress-related responses to starvation and cold. A development term likely reflects metabolic shifts during growth, supporting a cohesive theme of metabolic regulation during development.","confidence":"High","size":16,"edges":21,"triangles":4,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":3},{"id":"GO:0009791","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042594","count":3}]},{"hash":"336503767377056053","title":"Fc receptor\u2013mediated immune activation and lymphatic development","description":"The top GO terms cluster around Fc receptor signaling, phagocytosis recognition, basophil activation, and NK cell chemotaxis regulation, indicating a strong Fc receptor\u2013driven immune activation theme. Additional terms on lymph vessel morphogenesis and other developmental processes suggest broader developmental roles, but the central signal is immune activation via Fc receptors.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":14},{"id":"GO:0045575","count":14},{"id":"GO:0038094","count":14},{"id":"GO:0090238","count":14},{"id":"GO:0072177","count":14}]},{"hash":"947642564398862597","title":"ER-Golgi COPII Vesicle Trafficking","description":"The strongest signals are in vesicle transport between the endoplasmic reticulum and the Golgi, especially COPII-coated vesicle budding and ER-to-Golgi and Golgi-to-ER trafficking. While there are broader development and cell-cycle terms present, the core cluster appears to revolve around ER-Golgi trafficking machinery, suggesting this as the main functional theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0006890","count":6}]},{"hash":"338722205851537670","title":"Meiosis DNA Repair and Recombination","description":"The cluster is dominated by GO terms specific to meiosis and genome maintenance, including premeiotic DNA replication, telomere maintenance via recombination, DNA recombination, and DNA repair, which together point to a meiosis-associated DNA processing theme. A subset of glycosylation/proteoglycan biosynthetic terms appears but at low frequency and does not override the meiosis signaling.","confidence":"High","size":16,"edges":37,"triangles":33,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006279","count":2},{"id":"GO:0000722","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0016266","count":2}]},{"hash":"1902025438372078537","title":"Ubiquitin-Dependent Protein Degradation","description":"The top terms are dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic processes, ERAD, various ubiquitination types (polyubiquitination, K48-, K63-, K6-linked), and autoubiquitination, plus related histone catabolic activity and connections to TNF signaling and oxidative-stress\u2013induced apoptosis. This strongly suggests a cluster centered on ubiquitin signaling leading to protein degradation.","confidence":"High","size":16,"edges":15,"triangles":0,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":7},{"id":"GO:1903265","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0000209","count":5}]},{"hash":"2191697531040635812","title":"Unknown","description":"The top GO terms span immune signaling (interleukin-18 signaling, antigen receptor signaling), neuronal/synaptic processes (synaptic vesicle budding), reproductive biology (acrosome reaction, germ cell development), and general cell signaling (regulation of integrin activation). This mix suggests no single cohesive function or pathway characterizes the cluster, but rather a variety of signaling-related roles, some of which are obsolete, making a precise, representative label inappropriate.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":2},{"id":"GO:0035655","count":1},{"id":"GO:0008344","count":1},{"id":"GO:0016185","count":1},{"id":"GO:0044128","count":1}]},{"hash":"1217330969768960776","title":"Multitissue Development and Morphogenesis","description":"The terms point to developmental differentiation and morphogenesis across several tissues (bone, heart, lens, uterus) and include TGF-beta/SMAD signaling regulation, rather than a single tissue function, justifying a broad multitissue development label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":5},{"id":"GO:0002051","count":5},{"id":"GO:0060065","count":4},{"id":"GO:0003220","count":3},{"id":"GO:0002062","count":3}]},{"hash":"1913446857264095322","title":"RNA Processing and Ribosome Biogenesis","description":"The top GO terms are dominated by RNA metabolism (splicing, mRNA transport, RNA methylation) and ribosome maturation (rRNA processing), suggesting a cohesive role in RNA processing and ribosome assembly. Additional signals like TORC1 and cell-cycle cohesion are more general growth-related cues rather than core functions. Overall, a ribosome biogenesis/RNA processing theme fits best.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1007271135267602027","title":"Skin development and vascular ECM remodeling","description":"These terms cluster around skin tissue formation, extracellular matrix (collagen fibril organization) and vascular remodeling (blood coagulation, fibrinolysis, endothelial cell migration), with ceramide biosynthesis supporting skin barrier function. An outlier term exists (sensory perception of sound) but the dominant signals point to skin/vasculature and ECM processes. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0090528","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0043536","count":2}]},{"hash":"608179019174109189","title":"EGFR Signaling and Cell Migration Regulation","description":"The dominant GO terms cluster around epidermal growth factor receptor signaling, small GTPase\u2013mediated signaling, and cell migration, including negative regulation of EGFR activity and ubiquitination, indicating a module that modulates growth factor signaling to control movement and development (e.g., labyrinthine layer morphogenesis). Some terms like innate immune response and fat cell differentiation appear as broader or pleiotropic associations. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007173","count":5},{"id":"GO:0060670","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0045087","count":4}]},{"hash":"2275074984418716600","title":"Myogenesis and transcriptional regulation","description":"These proteins are linked to skeletal muscle differentiation (myogenesis) and transcriptional control, including DNA-templated transcription, RNA polymerase II\u2013mediated transcription, and chromatin-related processes (nucleosome assembly). The presence of ubiquitin-dependent pathways and deubiquitination suggests coordinated protein turnover during differentiation. Together, these terms point to a cohesive muscle-development transcriptional program.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0035914","count":4},{"id":"GO:0006511","count":4},{"id":"GO:1903715","count":4},{"id":"GO:0016579","count":4}]},{"hash":"619828832277774201","title":"Diverse signaling and metabolic processes","description":"The top GO terms include GPCR signaling, Rho pathway regulation, blood pressure, thermogenesis, temperature response, sensory perception (vision and pain), photoreceptor maintenance, electron transport chain, and coagulation. This spread suggests the proteins participate in multiple signaling and metabolic roles across neural, vascular, and energetic contexts, rather than a single coherent pathway. The label reflects a broad, cross-system signaling/metabolism theme without over-committing to one function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0035025","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0002024","count":5}]},{"hash":"380726563106570932","title":"Neural sensory signaling and drug response","description":"The cluster is dominated by GO terms tied to sensory perception (pain, vision), neural signaling (dopaminergic transmission, membrane potential), and drug-related behavioral responses (cocaine), plus associated signaling pathways (ERK cascade) and stimuli (prostaglandin, temperature). This points to a cohesive theme of neural sensory processing and pharmacological response.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0042391","count":9},{"id":"GO:0046541","count":8}]},{"hash":"1833805091317939144","title":"Blood Pressure and Renal Function Regulation","description":"The top GO terms cluster around cardiovascular and renal control, notably positive regulation of blood pressure and renal sodium excretion, and regulation of renin secretion, pointing to RAAS-related cardiovascular physiology. Other terms reference coagulation and immune/neural signaling, which may reflect broader systemic roles or annotation noise, but the core theme centers on blood pressure and kidney function regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0090026","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0045777","count":11}]},{"hash":"1847719371122807131","title":"Membrane transporters for xenobiotics, nutrients, and ions","description":"The top GO terms show a broad array of transmembrane transport activities across membranes, including xenobiotic and vitamin-like substrates, various ions, and other nutrients, as well as neurotransmitter loading into vesicles. This suggests a cohesive cluster of transporter proteins with diverse substrate specificities rather than a single enzyme pathway, justifying a broad label focused on membrane transport. Thus, a general yet specific name capturing diverse transport roles is appropriate.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":12},{"id":"GO:0035461","count":12},{"id":"GO:0042891","count":8},{"id":"GO:0015751","count":7},{"id":"GO:0098700","count":7}]},{"hash":"1674374289231475349","title":"Developmental signaling and ECM remodeling","description":"This cluster centers on processes involved in tissue development and morphogenesis (decidualization, lung branching, neural precursor proliferation) and is tied together by signaling pathways (Wnt, thyroid hormone response) and extracellular matrix remodeling (basement membrane disassembly). Peptide hormone and neuropeptide catabolism, along with immune-related activity (T cell cytotoxicity), suggest broader signaling and remodeling roles during development and tissue differentiation. Overall, a cohesive theme around developmental signaling coupled with extracellular remodeling best fits the shared GO terms.","confidence":"Medium","size":15,"edges":102,"triangles":417,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0046697","count":15},{"id":"GO:0010815","count":15},{"id":"GO:0097067","count":15},{"id":"GO:0034769","count":15},{"id":"GO:0001913","count":15}]},{"hash":"329055489968284473","title":"Developmental and Immune Signaling","description":"The top GO terms include chemotaxis, cellular responses to PMA and LPS, rhythmic/circadian processes, cortical development, tight junction regulation, PI3K/AKT signaling, and T cell differentiation. This mix suggests a broad network of signaling pathways governing responses to stimuli across development, immunity, and barrier function, rather than a single specific function. Therefore, a label capturing developmental signaling with immune-related responses fits best.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":15},{"id":"GO:1904628","count":15},{"id":"GO:0048511","count":15},{"id":"GO:0060968","count":15},{"id":"GO:0021987","count":15}]},{"hash":"1848597407443167209","title":"Unknown","description":"The top GO terms span inflammatory signaling (prostaglandin response, TNF regulation), neuronal/sensory and membrane functions (membrane potential, myelination, sensation of sound), skin differentiation (keratinization), hematopoietic differentiation (erythrocyte development), and general RNA splicing regulation. This broad, disparate mix lacks a single coherent biological theme, so a specific, representative label cannot be confidently assigned.","confidence":"","size":15,"edges":24,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":2},{"id":"GO:0032720","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0007605","count":2}]},{"hash":"223086670308268505","title":"Cross-tissue cell migration in immune and neural development","description":"The top GO terms highlight cell migration across tissues\u2014lymphoid cell migration into the thymus, neuron migration to the cerebral cortex, and migration in the diencephalon\u2014coupled with regulatory immune and developmental processes. This suggests a theme of migratory development spanning immune and neural contexts, hence a cross-tissue migration label.","confidence":"Medium","size":15,"edges":79,"triangles":218,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0019101","count":15},{"id":"GO:0002851","count":15},{"id":"GO:1901250","count":15},{"id":"GO:0002669","count":15},{"id":"GO:0002635","count":15}]},{"hash":"47632677738942961","title":"RNA Pol II Transcription Regulation","description":"This cluster\u2019s top terms are dominated by regulation of transcription by RNA polymerase II, including both positive and negative regulation and DNA-templated transcription, which suggests the proteins share a core function in transcription control. The presence of developmental and immune-related GO terms likely reflects multifunctional regulators with broader roles, rather than a single cohesive pathway. Despite scattered additional terms, the strongest common theme is transcriptional regulation by RNA Pol II, supporting this concise label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006958","count":3}]},{"hash":"811060223914547227","title":"Organogenesis and Tissue Differentiation","description":"The top GO terms cluster around development and differentiation across multiple tissues and organs (heart, fat, bone, gonads, enamel, muscle) along with general multicellular organism development and growth. Thyroid hormone signaling and innate immune responses are also present, suggesting broader regulatory roles in development. This supports labeling the group as focusing on organogenesis and tissue differentiation rather than a single specific pathway.","confidence":"Medium","size":15,"edges":18,"triangles":2,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0045444","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0070166","count":4}]},{"hash":"1656827804504843788","title":"Spliceosome Regulation and mRNA Export","description":"The top GO terms cluster around splicing regulation and mRNA processing, especially via the spliceosome (positive/negative regulation of mRNA splicing, splice site recognition, and cis-splicing) and export of mRNA from the nucleus. Additional terms regarding translation initiation hint at broader RNA metabolism connections, but the dominant signal is RNA processing through splicing and export.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0006376","count":8},{"id":"GO:1901407","count":8},{"id":"GO:0002188","count":8}]},{"hash":"560487486081671749","title":"Immune receptor signaling and leukocyte activation","description":"This cluster is characterized by strong representation of immune-related GO terms, including phagocytosis recognition, basophil activation, Fc-gamma receptor signaling, and cellular responses to fungal origin, indicating activation and signaling of leukocytes via immune receptors. Some developmental terms appear, but the core signals point to leukocyte immune activation and receptor-mediated responses.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":15},{"id":"GO:0045575","count":15},{"id":"GO:0038094","count":15},{"id":"GO:0090238","count":15},{"id":"GO:0072177","count":15}]},{"hash":"1384400025704217214","title":"Lipid Biosynthesis and Adipogenesis","description":"Reasoning: The most represented functions are lipid biosynthesis pathways (sphingosine/ceramide/monounsaturated fatty acid biosynthesis) and adipocyte differentiation (white fat cell differentiation). A few terms are obsolete, and tarsal gland development hints at insect exocrine tissues, but overall the cluster coalesces around lipid metabolism and fat cell development.","confidence":"High","size":15,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046512","count":3},{"id":"GO:0044130","count":3},{"id":"GO:0046513","count":3},{"id":"GO:0034435","count":3},{"id":"GO:1903966","count":3}]},{"hash":"498139788398825352","title":"Ubiquitin-Dependent Regulation and RNA Processing","description":"This cluster is dominated by terms related to ubiquitination and deubiquitination (ubiquitin-dependent protein catabolic process, protein ubiquitination, K48-linked deubiquitination) and includes a connection to NF-kappaB signaling, with an additional signal for mRNA processing. While there are also terms tied to differentiation and tissue-specific processes, the most frequent functional themes center on ubiquitin-mediated regulation of protein turnover and gene expression.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0071108","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0046598","count":2},{"id":"GO:0045445","count":2}]},{"hash":"1632958623010182853","title":"B cell development and platelet formation signaling","description":"Most frequent terms point to B cell development (follicular B cell differentiation, negative regulation of B cell proliferation), immune responses (response to lipopolysaccharide), and platelet formation, with Rho signaling linking cytoskeletal changes in immune cells/platelets. Although there are outlier terms (mechanical stimulus, estradiol, TRK signaling), the dominant theme is hematopoietic/immune cell development and platelet-related signaling.","confidence":"Medium","size":15,"edges":24,"triangles":9,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0032355","count":6},{"id":"GO:0030889","count":6},{"id":"GO:0048011","count":6},{"id":"GO:0051092","count":6}]},{"hash":"2062678279045024783","title":"Ubiquitin-dependent protein degradation","description":"The top GO terms are dominated by ubiquitin-mediated proteolysis and regulation of ubiquitination (ubiquitin-dependent protein catabolic process; K33-linked ubiquitination; negative regulation of ubiquitination), suggesting a shared role in protein turnover. While muscle and kidney development terms and certain immune signaling terms appear, they likely reflect broader tissue- or pathway-specific contexts rather than distinct functions of a separate cluster. Overall, this cluster seems to be defined by ubiquitin-mediated protein degradation and its regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0007519","count":8},{"id":"GO:2000312","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0050853","count":8}]},{"hash":"1400704889798947580","title":"Cardiac and craniofacial morphogenesis","description":"The cluster\u2019s top GO terms cluster around development and morphogenesis of the heart and craniofacial structures (coronary artery morphogenesis, cardiac muscle cell proliferation, face morphogenesis, embryonic neurocranium morphogenesis) with supporting extracellular matrix remodeling, suggesting a developmental morphogenesis theme. Some signaling terms (Ras regulation, IL-18 signaling) may reflect broader context but do not override the dominant developmental pattern.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":3},{"id":"GO:0060982","count":2},{"id":"GO:0060038","count":2},{"id":"GO:0048702","count":2},{"id":"GO:0060325","count":2}]},{"hash":"1619663099716073611","title":"Neural development and intracellular transport","description":"Based on the enrichment of GO terms centered on neural development (neuron projection development; regulation of inhibitory postsynaptic potential) and intracellular transport, the cluster appears to group proteins involved in neuronal growth and synaptic function, with a broader set of development-associated terms. This suggests the core theme is neural development linked to intracellular transport mechanisms, though some non-neural development terms are present.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0097151","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0048147","count":3}]},{"hash":"1380414420992663765","title":"Central metabolism and protein synthesis","description":"The cluster shows strong signals for core processes like glycolysis, the TCA cycle, and 2-oxoglutarate metabolism, together with translation and ribosomal large subunit assembly, indicating a group tied to energy production and protein synthesis. Additional terms for fatty acid beta-oxidation and redox homeostasis point to a metabolic maintenance context, while antibiotic biosynthetic process and xenobiotic response suggest secondary metabolism in some members. Overall, the dominant theme appears to be central metabolism coupled with protein synthesis, with some secondary metabolism signals.","confidence":"Medium","size":15,"edges":98,"triangles":374,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0006103","count":3},{"id":"GO:0000027","count":3}]},{"hash":"347127735571558036","title":"Plant Metabolic Biosynthesis and Ripening","description":"The top terms reflect multiple biosynthetic pathways (biotin, porphyrin/heme, lysine, aspartate, sphingomyelin) and central metabolism (TCA cycle), plus a plant-specific process (fruit ripening) and transcription. This points to a cluster of proteins involved in diverse metabolic biosynthesis activities in plants, with fruit ripening as a notable contextual theme, rather than a single enzymatic function.","confidence":"Medium","size":15,"edges":50,"triangles":119,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0009102","count":4},{"id":"GO:0006782","count":4},{"id":"GO:0033512","count":4},{"id":"GO:0006099","count":4}]},{"hash":"1280121244814990112","title":"Developmental signaling and organ morphogenesis","description":"Based on the enriched GO terms, the cluster centers on developmental signaling guiding tissue morphogenesis across multiple organs (kidney, retina, heart) with supporting calcium/Wnt signaling and kinase regulation, rather than a single tissue-specific process.","confidence":"Medium","size":15,"edges":21,"triangles":9,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0072205","count":5},{"id":"GO:0072221","count":5},{"id":"GO:0048168","count":5},{"id":"GO:0042994","count":5}]},{"hash":"267762913461269814","title":"RNA processing and translation machinery","description":"This cluster is tied together by strong signals in RNA processing and protein synthesis: mRNA splicing via spliceosome, ribosome biogenesis, and translation initiation/reinitiation (including IRES-dependent translation). While there are some developmental and cell-cycle terms present, the core shared functions point to RNA processing and the machinery of translation as the defining feature.","confidence":"Medium","size":15,"edges":42,"triangles":52,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007568","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"2162697043888763912","title":"Chromatin acetylation and heterochromatin formation","description":"The top terms cluster around chromatin regulation and acetylation, notably subtelomeric heterochromatin formation and histone H4 acetylation, along with acetylation of polyamines. This points to an epigenetic regulatory theme via acetylation, even though a few terms pertain to broader plant development processes. ","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":13},{"id":"GO:0009447","count":13},{"id":"GO:0032918","count":13},{"id":"GO:0032920","count":13},{"id":"GO:0006044","count":13}]},{"hash":"1615796016395997136","title":"Chemotaxis and immune signaling","description":"This cluster shows strong enrichment for chemotaxis, LPS response, T cell differentiation regulation, and PI3K/AKT signaling, pointing to a core theme of signaling pathways that govern immune cell movement and activation. Additional terms related to development and rhythmic processes suggest broader regulatory roles, but the dominant signal is immune-related signaling and chemotaxis.","confidence":"Medium","size":15,"edges":81,"triangles":211,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":15},{"id":"GO:1904628","count":15},{"id":"GO:0048511","count":15},{"id":"GO:0060968","count":15},{"id":"GO:0021987","count":15}]},{"hash":"1735264798162775635","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":30,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0071038","count":1},{"id":"GO:0071051","count":1},{"id":"GO:0071044","count":1}]},{"hash":"471227552250508731","title":"RNA Processing and Ribosome Biogenesis","description":"Dominant terms center on mRNA processing (cis splicing via spliceosome, regulation of splicing) and mRNA stability, alongside ribosome biogenesis, pointing to RNA metabolism and protein-synthesis machinery as the core theme. Additional terms related to epithelial polarity, cell migration, and small GTPase signaling appear as peripheral connections, possibly reflecting coordinated regulation of gene expression with cytoskeletal dynamics in some contexts.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0090162","count":2}]},{"hash":"1569787809229301497","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The top GO terms cluster around spliceosome-related processes and mRNA splicing (cis splicing via spliceosome, splice site recognition, small-subunit processome assembly, and regulation of alternative splicing via spliceosome), with additional signals of RNA processing and stress-related mRNA stability regulation and miRNA-mediated translational silencing. Together these indicate a cohesive group of proteins primarily involved in RNA processing and splicing control, especially under stress.","confidence":"High","size":15,"edges":47,"triangles":60,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048025","count":8},{"id":"GO:1905663","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0034462","count":8}]},{"hash":"506801970887467632","title":"Cytoskeleton, Polarity, and Cell Division","description":"This cluster\u2019s top terms are dominated by microtubule-based movement, cleavage furrow formation, and mitotic cell cycle, plus regulation of GTPase activity and cell polarity. Together these point to a group of proteins governing cytoskeletal dynamics and division, with polarity establishment as a closely related function. Some terms related to development or signaling may broaden annotation but do not overshadow the central cytoskeletal/division theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060378","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0050853","count":3}]},{"hash":"1578656118340417250","title":"ER-Golgi Vesicle Trafficking","description":"The top GO terms cluster around vesicle transport between the endoplasmic reticulum and Golgi, with both anterograde and retrograde trafficking, plus related transport processes (mRNA transport and synaptic vesicle movement) and supporting signaling/regulatory steps; overall, a coherent theme of intracellular vesicle dynamics.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0006890","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0038202","count":6},{"id":"GO:0070262","count":6}]},{"hash":"343351002105236073","title":"Mitotic Cell Cycle and Chromosome Segregation","description":"The cluster is enriched for mitosis-related processes: sister chromatid cohesion, chromosome segregation, mitotic cell cycle progression, and APC/C-dependent catabolic activity. Okazaki fragment processing in mitotic DNA replication and actin filament depolymerization further tie to chromosome segregation and mitotic mechanics. While there are also terms tied to translation initiation, COPII vesicle budding, and TORC1 signaling, the dominant theme across the GO terms is mitotic cell division and chromosome management, suggesting these proteins collectively participate in mitotic machinery. High","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007064","count":5},{"id":"GO:1903461","count":5},{"id":"GO:0031145","count":5},{"id":"GO:0030042","count":5},{"id":"GO:0001731","count":5}]},{"hash":"1279957437603950001","title":"Cilia-based neuronal signaling and taste perception","description":"The top terms emphasize neuron projection development, intraciliary retrograde transport, and sensory perception of taste, with supporting GPCR signaling. Together these point to cilium-driven signaling in sensory neurons (e.g., taste) rather than unrelated processes, making this a cohesive theme despite some noisy annotations. Confidence: Medium","confidence":"","size":15,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:1902525","count":2},{"id":"GO:0035721","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0046784","count":2}]},{"hash":"1528824563510647618","title":"Synaptic plasticity and cytoskeletal remodeling","description":"The top GO terms point to neuronal synapse function and signaling, including long-term potentiation, synapse assembly, and positive regulation of excitatory postsynaptic potential, paired with actin cytoskeleton dynamics via Rho signaling and actin capping. IP3 biosynthesis ties to Ca2+ signaling in plasticity. Some terms are non-neuronal (B cell differentiation, obsolete insulin signaling), but the dominant pattern centers on synaptic signaling and cytoskeletal remodeling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0051016","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0002316","count":2}]},{"hash":"1400526375069244387","title":"Rac/Rho-driven actin remodeling","description":"Top GO terms center on regulation of Rac and Rho signaling and actin filament bundle/microspike assembly, indicating a cohesive theme of actin cytoskeleton remodeling governed by small GTPases. While other terms touch on trafficking and development, the strongest signals tie to cytoskeletal dynamics and related signaling pathways, suggesting this cluster represents proteins coordinating actin organization and Rac/Rho-mediated signaling. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035020","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0051017","count":4}]},{"hash":"331414737413452707","title":"ER-Golgi Vesicle Trafficking","description":"The terms cluster around ER-to-Golgi and Golgi-to-ER vesicle transport, including synaptic vesicle budding and unfolded protein response, suggesting a vesicle trafficking/secretory pathway function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0051146","count":2}]},{"hash":"524907328009487008","title":"Developmental Regulation and Differentiation","description":"The cluster shows enrichment for developmental processes across tissues\u2014hippocampus development, somite formation, spermatogenesis, and differentiation\u2014along with regulators of transcription (RNA Pol II) and NF-kappaB signaling, plus RNA processing and protein ubiquitination. This pattern points to a group of proteins that coordinate development and cell fate through transcriptional control, signaling, and post-translational modifications, rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0042346","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0030154","count":1}]},{"hash":"685549132828637110","title":"Developmental patterning and organogenesis","description":"This cluster is enriched for GO terms tied to development and tissue specification (left-right pattern formation, skeletal muscle development, trophoblast giant cell differentiation, endocrine system development). Additional terms involve signaling and regulation that can influence development (Rho signaling, negative regulation of ubiquitination). A couple of terms are plant- or metabolism-related outliers, but the dominant theme is developmental patterning and organogenesis.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0009638","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0010957","count":1}]},{"hash":"1836203039704898144","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071035","count":2},{"id":"GO:0071028","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0071038","count":1}]},{"hash":"1271429461100398955","title":"Oocyte maturation and meiosis I spindle assembly","description":"The cluster is driven by strong signals for oocyte maturation and female meiosis I spindle assembly (GO:0001556, GO:0007057), supported by ubiquitin-proteasome\u2013dependent protein catabolism (GO:0042787, GO:0031146) and microtubule polymerization (GO:0046785). This points to a coordinated program of meiotic maturation and spindle dynamics in oocytes, with protein turnover as a key regulatory mechanism. Some neural development terms appear peripherally in the set, likely reflecting broader developmental regulation contexts rather than core function of the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0021678","count":6},{"id":"GO:0007057","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0046785","count":6}]},{"hash":"1798680987018326041","title":"Growth and metabolism regulation","description":"The terms point to regulation of growth, signaling (Rho), translation, and metabolism (including nutrient response and UDP-galactose metabolism), with ancillary roles in development and cell adhesion. The common thread appears to be regulation of cellular growth and gene expression coupled with metabolic control, though the proteins are not tightly connected into a single pathway (edges = 0), so the cluster represents a broad regulatory theme rather than a specific process.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0040009","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0007584","count":2}]},{"hash":"1670495504086822180","title":"ECM Remodeling and Immune Signaling","description":"Many of the top GO terms cluster around extracellular matrix organization and proteolysis, pointing to ECM remodeling. Immune-related terms, including immune response and complement activation, suggest immune modulation linked to the ECM. While there are some development and signaling terms, the dominant theme appears to be proteins involved in matrix dynamics with immune functions, hence this label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0006955","count":2},{"id":"GO:0006958","count":2}]},{"hash":"557275315009928658","title":"Unknown","description":"The top GO terms are highly diverse, spanning taste/chemical perception, pheromone response, calcium signaling, development (mammary gland, ovulation), muscle structure, and sterol biosynthesis. There is no single shared function or pathway linking most terms, and the cluster has no edges, suggesting little functional cohesion. Therefore, a cohesive, specific label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050909","count":1},{"id":"GO:0019236","count":1},{"id":"GO:0007606","count":1},{"id":"GO:0001580","count":1},{"id":"GO:0030239","count":1}]},{"hash":"1551400013463907995","title":"NF-kappaB\u2013driven innate immune signaling","description":"The top GO terms cluster around NF-kappaB signaling, interferon pathways, TNF production, and antiviral/innate immunity, indicating a cohesive theme of inflammatory and antiviral responses. A few terms touch on development or intracellular transport, but the dominant signal is immune signaling regulated by NF-kappaB.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0070306","count":2},{"id":"GO:1902043","count":2}]},{"hash":"425781980309830601","title":"Brain Neural Signaling and Drug-Related Behaviors","description":"This cluster is enriched in GO terms tied to brain function and neural signaling (dopaminergic synaptic transmission, visual perception and learning, pain perception), as well as responses to psychoactive substances (morphine, cocaine) and signaling pathways (ERK cascade, prostaglandin response). These together point to a coherent theme of neural communication and behavior modulation in the brain, including sensory processing and drug responsiveness, with some involvement of brain-specific renin-angiotensin signaling.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002035","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0001963","count":12},{"id":"GO:0071380","count":12},{"id":"GO:0048148","count":12}]},{"hash":"2225676825242478850","title":"Dopaminergic signaling and visual-perceptual behavior","description":"The top GO terms converge on dopaminergic synaptic transmission, responses to amphetamine and cocaine, and visual perception/learning, with ERK pathway regulation and related locomotor and pain behaviors. This pattern points to a cluster centered on dopamine-driven neural signaling affecting vision and behavior.","confidence":"High","size":14,"edges":77,"triangles":233,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0001963","count":12},{"id":"GO:0071380","count":12},{"id":"GO:0048148","count":12}]},{"hash":"1002072501863469684","title":"Cardiovascular Hormonal Regulation","description":"The top GO terms point to hormonal control of cardiovascular function, including vasopressin-regulated blood pressure, angiotensin-mediated vasodilation, regulation of renin secretion, and epinephrine/norepinephrine\u2013driven heart contraction, with dopamine pathway modulation also implicated. These collectively suggest a cluster of proteins involved in cardiovascular endocrine signaling. Some terms about gastrin-induced gastric acid secretion and ovarian follicle growth appear as broader endocrine processes and do not override the central cardiovascular theme.","confidence":"Medium","size":14,"edges":16,"triangles":3,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":14},{"id":"GO:0060160","count":14},{"id":"GO:1900134","count":14},{"id":"GO:0001698","count":14},{"id":"GO:0001992","count":14}]},{"hash":"398692913854317599","title":"Cell Division and Microtubule Dynamics","description":"The dominant terms are about cell cycle, cell division, mitotic spindle assembly, cytokinesis, and microtubule nucleation, indicating a cluster centered on cytoskeletal regulation during mitosis. The inclusion of neuron differentiation and mechanosensory terms suggests possible links to neural development where cytoskeletal dynamics are critical, but the core signal is mitotic machinery and microtubule organization. Overall, the cluster most strongly reflects mitosis and cytoskeletal dynamics, with additional context related to neuronal development and mechanosensation.","confidence":"Medium","size":14,"edges":78,"triangles":243,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":12},{"id":"GO:0030182","count":9},{"id":"GO:0051301","count":8},{"id":"GO:1905789","count":7},{"id":"GO:0007020","count":7}]},{"hash":"1968269636427865760","title":"Immune Response Signaling","description":"This cluster is dominated by immune-related GO terms: cellular response to lipopolysaccharide, GM-CSF stimulus, T cell receptor signaling pathway, and defense response to Gram-positive bacterium, plus chemotaxis. While a couple of terms (potassium ion transport, dendrite morphogenesis) are broader, the strongest theme is immune activation and signaling, making this label representative of the cluster\u2019s function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":10},{"id":"GO:0006935","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0071222","count":8},{"id":"GO:0043552","count":8}]},{"hash":"1910118749241775777","title":"Pollen wall formation and anther dehiscence","description":"The top GO terms point strongly to pollen development, with explicit mentions of anther dehiscence and pollen exine formation. Other enriched terms suggest associated metabolic and protein-processing activities (nucleotide catabolism, N-linked glycosylation) that support pollen development and cell wall formation, making a coherent label centered on pollen wall formation and release. ","confidence":"Medium","size":14,"edges":83,"triangles":280,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0046032","count":10},{"id":"GO:0006256","count":10},{"id":"GO:0009901","count":10},{"id":"GO:0046712","count":10},{"id":"GO:0010584","count":10}]},{"hash":"1263593989180485700","title":"Ribosome Biogenesis and Translation","description":"The Top Terms are dominated by translation, ribosome biogenesis, initiation complex formation, and rRNA maturation, indicating a cluster centered on ribosomal machinery and protein synthesis, with additional regulatory elements like ncRNA-mediated gene silencing and negative regulation of translation that underscore broader control of protein production.","confidence":"High","size":14,"edges":31,"triangles":40,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0002181","count":3}]},{"hash":"1431448674560317532","title":"Angiogenesis and Osteoblast Differentiation Regulators","description":"The top GO terms point to vascular and bone development (angiogenesis and osteoblast differentiation), with supporting signals in inflammatory and general signaling pathways (IL-1 signaling, MCP-1 production, STAT phosphorylation, MAPK/PI3K signaling). This suggests a cohesive role in coordinating blood vessel formation with bone-related development and related signaling, despite some entries being obsolete. ","confidence":"Medium","size":14,"edges":18,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0035234","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0014068","count":3},{"id":"GO:2000660","count":3}]},{"hash":"1604205008694935950","title":"SMAD signaling\u2013driven differentiation and gene regulation","description":"The terms prominently feature SMAD protein signal transduction regulation and transcriptional control, alongside differentiation of multiple lineages (skeletal muscle, endothelial cells, osteoclasts, neural precursors). This suggests a core role in development where SMAD/TGF-beta signaling modulates gene expression to drive lineage outcomes, with additional hints of post-transcriptional regulation that fit into broader gene expression control during differentiation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:2000271","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0007184","count":3},{"id":"GO:0017148","count":3},{"id":"GO:0035914","count":3}]},{"hash":"1483775371435395921","title":"TGF-\u03b2/SMAD-driven developmental transcription","description":"The cluster is enriched for GO terms tying Transforming Growth Factor beta receptor signaling and SMAD complex assembly to broad transcriptional regulation (DNA-templated transcription, RNA Pol II negative regulation, miRNA transcription) and developmental morphogenesis (gastrulation, left ventricular morphogenesis, neuromast deposition). This pattern suggests a cohesive role for TGF-\u03b2/SMAD signaling in controlling transcriptional programs that drive vertebrate development across tissues. ","confidence":"High","size":14,"edges":41,"triangles":50,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:2000791","count":5},{"id":"GO:0001702","count":5},{"id":"GO:0007183","count":5},{"id":"GO:0007179","count":5}]},{"hash":"128966627521593345","title":"Neural and motor neuron development","description":"The top GO terms cluster around neural development and motor neuron differentiation (peripheral nervous system neuron development, medial motor column neuron differentiation, spinal cord association neuron differentiation, Purkinje myocyte differentiation, neuromuscular process) with supporting embryogenesis terms such as embryonic forelimb morphogenesis and digestive tract development, indicating a coherent theme of neural maturation and motor neuron lineage during development.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":12},{"id":"GO:0048935","count":12},{"id":"GO:0048565","count":12},{"id":"GO:0072283","count":12},{"id":"GO:0060133","count":12}]},{"hash":"1244613806846358158","title":"Embryonic organogenesis transcriptional regulation","description":"The cluster\u2019s top GO terms center on transcription by RNA polymerase II and negative regulation of transcription, together with multiple embryonic organ morphogenesis processes (eye, pancreas, ureter, lung branching, cranial skeleton, nervous system). This pattern points to a group of factors coordinating gene expression during embryonic organ development, rather than a single tissue-specific function. ","confidence":"High","size":14,"edges":65,"triangles":134,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0048048","count":6}]},{"hash":"419500107678204238","title":"RNA processing and translation initiation","description":"The top GO terms cluster around RNA processing (splicing via spliceosome) and initiation of translation (translation reinitiation and preinitiation complex formation), suggesting the proteins function mainly in RNA maturation and starting protein synthesis. Other terms like ER-Golgi transport and DNA recombination appear less central, but do not overturn the prevailing RNA-centric theme.","confidence":"Medium","size":14,"edges":7,"triangles":3,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0008283","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0045292","count":4}]},{"hash":"2183780955750015873","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"This cluster is dominated by GO terms tied to mRNA splicing via the spliceosome, including both positive and negative regulation and regulation of alternative splicing, as well as spliceosome assembly and related processing steps. There are also ncRNA- and miRNA-mediated silencing terms connected to RNA regulation, reinforcing a broader RNA-processing theme centered on the spliceosome machinery. Overall, the proteins appear to function together in spliceosome-driven mRNA maturation and regulation.","confidence":"High","size":14,"edges":75,"triangles":212,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":10},{"id":"GO:0045292","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0048025","count":6}]},{"hash":"747571509584997255","title":"ECM Remodeling and Development","description":"The cluster features collagen catabolic process and extracellular matrix disassembly, along with amelogenesis and Wnt signaling, indicating extracellular matrix remodeling and developmental signaling; additional terms on endothelial barrier and immune response reflect related vascular and defense processes, but the shared theme centers on ECM dynamics guiding development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0097186","count":4},{"id":"GO:0030574","count":4},{"id":"GO:1903142","count":4},{"id":"GO:0022617","count":4}]},{"hash":"1958845995100847660","title":"Ribosome Biogenesis and Translation Initiation Control","description":"The cluster is dominated by GO terms tied to ribosome assembly and translation, including cytoplasmic translation, formation of the translation preinitiation complex, regulation of translational initiation, tRNA modification, and ribosomal subunit biogenesis/export from the nucleus. These collectively point to proteins involved in ribosome maturation and controlling when and how translation begins, with additional links to cell growth processes like cell cycle and morphogenesis. This combination suggests a cohesive theme around ribosome biogenesis and initiation control.","confidence":"High","size":14,"edges":52,"triangles":95,"max_degree":11,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":3},{"id":"GO:0000902","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0006400","count":2}]},{"hash":"316492165045319560","title":"Cytokine-JAK/STAT signaling in T cells","description":"The cluster is dominated by GO terms pointing to cytokine signaling and STAT activation (positive regulation of tyrosine phosphorylation of STAT, IL-27 signaling, and T-helper 2 cytokine production) along with PI3K-AKT signaling, indicating a core theme of JAK/STAT\u2013mediated cytokine signaling in T cells. While there are additional terms related to development and cellular processes (dendrite development, embryonic morphogenesis, slit diaphragm assembly, chitin catabolic process), the strongest and most recurrent signal is immune signaling in T cells, justifying a label centered on cytokine signaling in this cell type.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042517","count":12},{"id":"GO:0070106","count":12},{"id":"GO:0035745","count":12},{"id":"GO:2001108","count":11},{"id":"GO:0036060","count":11}]},{"hash":"1257951527651685145","title":"Mitochondrial Metabolism and Transport","description":"These proteins are linked by GO terms centered on mitochondrial function, including import and transport of nucleotides (deoxynucleotides, pyrimidines), cofactors (CoA), iron, and heme into mitochondria, as well as signals tied to energy metabolism (adaptive thermogenesis) and metabolic stress responses (amino acid starvation, IGF stimulus). The cluster also references a mitochondrial membrane localization/fission process, supporting a mitochondrial focus. This combination suggests a coherent theme of mitochondrial transport and metabolic regulation.","confidence":"High","size":14,"edges":21,"triangles":3,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":7},{"id":"GO:1990314","count":6},{"id":"GO:0030302","count":5},{"id":"GO:0035349","count":5},{"id":"GO:1990845","count":5}]},{"hash":"1363744596043324506","title":"Ubiquitin-Proteasome Regulation of Circadian and Metal Stress","description":"Based on GO terms, the cluster is enriched for ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent proteasomal degradation, indicating strong involvement of the ubiquitin-proteasome system. Additional terms point to circadian rhythm regulation and cellular responses to metal-containing substances (arsenic, cadmium, methylmercury), suggesting a theme where protein turnover intersects with circadian control and metal stress response. This combination supports a label centered on UPS function with circadian and metal-stress context.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0000209","count":8},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":7},{"id":"GO:0046685","count":7}]},{"hash":"652008960934169546","title":"ECM remodeling and enamel development","description":"The top GO terms cluster around extracellular matrix remodeling (extracellular matrix disassembly, collagen catabolic process, plasminogen activation) and tooth development (amelogenesis, Wnt signaling). While immune and transcriptional regulation terms appear, the strongest cohesive signal is remodeling of the ECM linked to enamel formation, suggesting a connective tissue/development theme. Confidence: Medium.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0044130","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0003050","count":4},{"id":"GO:0006958","count":4}]},{"hash":"509156083281748209","title":"Microtubule Dynamics and Transport in Development","description":"Top GO terms emphasize microtubule cytoskeleton dynamics (plus-end depolymerization, plus-end directed sliding, polarity) and transport processes (dendritic transport, intracellular movement), with supporting development-related processes (root development, cerebellar structure). This suggests a cohesive theme of microtubule-based organization guiding development and cellular fusion events.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048364","count":9},{"id":"GO:0035617","count":8},{"id":"GO:0070462","count":7},{"id":"GO:0098971","count":7},{"id":"GO:0000743","count":7}]},{"hash":"1119373004214982062","title":"Embryonic Development and Morphogenesis Regulators","description":"The top GO terms cluster around embryonic development (placenta morphogenesis, blastocyst formation, cartilage morphogenesis) and differentiation regulation, suggesting these proteins act as regulators of developmental processes rather than a single pathway; additional terms like apoptotic signaling and spindle assembly imply broader cell-cycle control during development. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0045869","count":3},{"id":"GO:0060669","count":3},{"id":"GO:0001825","count":3},{"id":"GO:1901536","count":3}]},{"hash":"1523709310971618590","title":"Unknown","description":"The terms include metabolism (glucose response), signaling (PI3K-related), transcription regulation, ECM disassembly, angiogenesis, pregnancy, immune defense, and mitochondrial protein import, which do not point to a single shared function. This makes it hard to assign a cohesive, specific label, so the appropriate designation is Unknown.","confidence":"","size":14,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1734734930649181579","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0098789","count":4},{"id":"GO:0006398","count":4},{"id":"GO:0051965","count":2},{"id":"GO:0044109","count":2}]},{"hash":"142818766223731964","title":"Transmembrane Transport of Small Molecules","description":"The proteins show a cohesive pattern of GO terms focused on transporting metabolites and ions across membranes (myo-inositol, pantothenate, biotin, glucose, sodium export). While there are a few neuron-related trafficking terms, the dominant signal is membrane transport activity across different substrates, suggesting a cluster centered on transmembrane transport functions.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015798","count":3},{"id":"GO:0071436","count":3},{"id":"GO:0015887","count":3},{"id":"GO:0008292","count":3},{"id":"GO:1904659","count":3}]},{"hash":"1395992881381477998","title":"Mitochondrial metabolite transport","description":"This cluster is dominated by GO terms describing transport into and within mitochondria (nucleotides, coenzyme A, thiosulfate, iron, heme, ornithine) and related energy/metabolic processes (adaptive thermogenesis, response to fatty acids). The common thread is proteins that shuttle diverse metabolites across the mitochondrial membranes, aligning with mitochondrial transport and metabolism functions.","confidence":"High","size":14,"edges":20,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":13},{"id":"GO:0030302","count":12},{"id":"GO:0035349","count":12},{"id":"GO:1990845","count":12},{"id":"GO:1990519","count":12}]},{"hash":"1594734648631719357","title":"Glutamatergic Synaptic Transmission","description":"Dominant GO terms cluster around neuronal signaling at synapses: sodium and potassium ion transmembrane transport, excitatory postsynaptic potential, and the ionotropic glutamate receptor signaling pathway, with positive regulation of synaptic transmission. Some terms related to fungicide and peptidoglycan catabolism appear incidental; overall the group represents glutamatergic neurotransmission and ion channel activity.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0045471","count":12},{"id":"GO:0050806","count":12}]},{"hash":"171260907101326554","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":69,"triangles":179,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0043547","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0051036","count":12},{"id":"GO:0072356","count":12}]},{"hash":"1891653751240972071","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0031426","count":1}]},{"hash":"203968788193910561","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":2},{"id":"GO:0036071","count":2},{"id":"GO:1990034","count":2},{"id":"GO:0036066","count":2},{"id":"GO:1990536","count":2}]},{"hash":"1150814936311507898","title":"Ubiquitin-Proteasome Regulation of Mitosis and Development","description":"This cluster centers on ubiquitination and proteasomal degradation (K11, K48, K6-linked ubiquitination; SCF-dependent protein catabolic process; autoubiquitination) and links to cell cycle control (G2/M, mitotic progression) and embryonic development, suggesting a cohesive module where ubiquitin-mediated proteolysis governs mitosis and developmental processes.","confidence":"High","size":14,"edges":75,"triangles":201,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0000086","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0001701","count":9}]},{"hash":"617566425545919051","title":"Neural development and angiogenesis signaling","description":"The top GO terms converge on neural development and synaptic plasticity (positive regulation of neuron projection development, long-term synaptic potentiation) and vascular growth (angiogenesis, positive regulation of angiogenesis), with supporting signaling pathways (ERK/MAPK cascade, insulin receptor signaling) and mechanotransduction (cellular response to mechanical stimulus). This suggests a set of proteins involved in coordinated neural and vascular signaling and growth, rather than a single narrowly defined function. Hence a combined label capturing both neural development/plasticity and angiogenic signaling fits best.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0033629","count":3}]},{"hash":"2170645396222670053","title":"Glycinergic Synaptic Transmission and Amino Acid Transport","description":"The top GO terms point to glycine-centric processes\u2014glycine import/secretion and glycinergic synaptic transmission\u2014along with related amino acid transport (e.g., L-leucine, taurine) and monoamine uptake (serotonin, dopamine). This suggests a theme centered on glycinergic neurotransmission and associated amino acid transporters in neurons (potentially in neural regions like the thalamus). Thus the name captures the core function while acknowledging broader transport roles.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":9},{"id":"GO:0015820","count":8},{"id":"GO:0051583","count":8},{"id":"GO:0036233","count":8},{"id":"GO:0014064","count":8}]},{"hash":"147366116848131871","title":"Neuronal signaling and synaptic plasticity","description":"This cluster centers on signaling pathways that regulate cytoskeletal dynamics (Rho), GPCR signaling and desensitization, receptor clustering, and synaptic plasticity/guided learning (long-term depression, visual learning). While a few terms pertain to broader development, the dominant signals point to neuronal communication and plasticity as the shared theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0018107","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0002029","count":3},{"id":"GO:0007507","count":3}]},{"hash":"452187667477950722","title":"Unknown","description":"The Top Terms cover fibrinolysis, transcytosis, lipid metabolism (lipoprotein lipase activity, chylomicron remnant clearance), diverse signaling (EGFR pathway, cholinergic synaptic transmission, keratinocyte proliferation), and apoptotic regulation, with no single overt biological process linking them. The lack of edges or triangles and the broad mix of unrelated functions suggest this cluster is a loose collection rather than a cohesive module, so there isn\u2019t a clear, specific function to name beyond Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0090321","count":2},{"id":"GO:0007271","count":2}]},{"hash":"260986712009766022","title":"Neural Transcription Regulation and Nucleotide Salvage","description":"The Top Terms cluster around transcription regulation (DNA-templated transcription and its negative regulation), DNA repair, and nucleotide salvage (AMP, XMP, hypoxanthine), with brain and striatum development terms suggesting a neural context. Thus, Neural Transcription Regulation and Nucleotide Salvage captures the main shared function of this cluster.","confidence":"Medium","size":13,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045892","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0046488","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1811138188503438601","title":"Neural Visual Perception and Dopaminergic Signaling","description":"The cluster is dominated by terms tied to neural sensory processing and reward-related signaling: visual perception and learning, dopaminergic synaptic transmission, cocaine-associated behavior, and ERK signaling, all pointing to neural plasticity and sensory-reward pathways. Some terms (heart development, blood coagulation) are less related, suggesting broader annotation of multifunctional proteins, hence a moderate level of confidence.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0070374","count":13}]},{"hash":"1666400688926155496","title":"Thermogenic and Secretory Neuroendocrine Regulation","description":"The terms point to a common theme of neuroendocrine control of metabolism and secretory processes: temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) alongside secretory activities (saliva secretion, gastric acid secretion, renin secretion) and neural signaling (pain perception, dopamine receptor signaling, membrane potential regulation). While some terms like blood coagulation are less related, the overall pattern supports a regulatory network coordinating metabolism, secretion, and neural signaling.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0018298","count":7},{"id":"GO:0046541","count":7}]},{"hash":"1742336679828553038","title":"Fibroblast\u2013Endothelial Angiogenic Signaling","description":"The top GO terms center on promoting fibroblast proliferation, VEGF receptor signaling, endothelial tube formation, and keratinocyte migration, with supporting tyrosine phosphorylation and MAPK cascade activity. Together these indicate coordinated signaling driving angiogenesis and wound-healing remodeling by fibroblasts and endothelial cells. The thyroid gland development term seems peripheral but may reflect shared developmental signaling. ","confidence":"High","size":13,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048146","count":8},{"id":"GO:0030949","count":8},{"id":"GO:0050731","count":8},{"id":"GO:0051549","count":7},{"id":"GO:0031659","count":7}]},{"hash":"1357293055844088445","title":"Cardiac muscle development and calcium handling","description":"The top GO terms cluster around heart development and calcium signaling, including release of calcium from the sarcoplasmic reticulum, left ventricular and outflow tract morphogenesis, and regulation of atrial action potentials, as well as cardiac muscle hypertrophy. This points to a coherent theme of cardiac muscle development and excitation-contraction coupling driven by calcium handling. Some terms like ossification and skin development may reflect broader developmental processes or annotation noise, but the dominant signal is cardiac function and development. ","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014808","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0003220","count":3},{"id":"GO:0043588","count":3}]},{"hash":"320823147540304177","title":"Craniofacial and neural development","description":"The top GO terms point to embryonic tissue patterning and differentiation across several lineages: palate development, mesoderm and cartilage morphogenesis, hair follicle morphogenesis, and cerebellar granule cell differentiation, with some broader terms like intracellular signal transduction and mRNA splicing supporting general developmental regulatory networks. This suggests the cluster comprises proteins involved in embryonic development and differentiation across craniofacial, neural, and skin-related tissues rather than a single narrow pathway.","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0043524","count":2},{"id":"GO:0010845","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0021707","count":2}]},{"hash":"1587268666142359786","title":"Cardiovascular GPCR-cAMP-ERK signaling","description":"The top terms point to GPCR-mediated activation of adenylate cyclase and downstream ERK signaling, with direct ties to blood pressure regulation (positive regulation of blood pressure, renin secretion) and related pathways like Rho signaling and dopamine receptor modulation. Peripheral terms such as electron transport and gastric secretion likely reflect broader tissue-wide signaling participation rather than core cluster function. Overall, the dominant theme is GPCR-cAMP-ERK signaling linked to cardiovascular regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":6},{"id":"GO:0007190","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0035025","count":6},{"id":"GO:0070374","count":6}]},{"hash":"1594853275050543756","title":"Cardiac conduction and heart electrophysiology","description":"The top GO terms are dominated by cardiac electrical activity: SA node action potential, atrial and ventricular depolarization/repolarization, and regulation of heart rate by cardiac conduction, suggesting a cluster of proteins involved in heart rhythm generation and propagation. Some outliers (immunoglobulin production, CNS development, symbiont entry into host cell) do not align with this theme, but the prevailing signal points to cardiac conduction/electrophysiology.","confidence":"High","size":13,"edges":71,"triangles":220,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0002377","count":6},{"id":"GO:0060307","count":5},{"id":"GO:0060371","count":5},{"id":"GO:0086091","count":5},{"id":"GO:0086015","count":5}]},{"hash":"2083511839422150410","title":"Bone formation and ECM organization","description":"This cluster shows several bone-related terms: osteoblast differentiation, extracellular matrix organization, and ossification, pointing to osteogenesis and matrix remodeling as the core theme. Some other terms (metabolic regulation, morphine response, P-body assembly, GTPase activity, cell cycle) appear as outliers, suggesting broader or mixed annotations across proteins. The most coherent signal, however, is bone formation and ECM processes, giving a plausible, specific label despite functional diversity. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0046959","count":2},{"id":"GO:0050732","count":2},{"id":"GO:0033962","count":2}]},{"hash":"1226743851463983212","title":"Neuronal development and actin remodeling","description":"The top terms emphasize actin cytoskeleton dynamics (lamellipodium assembly, actin polymerization, actin bundle assembly) together with neural development and signaling (myelination, multicellular development, brain-derived neurotrophic factor/neurotrophin pathways), suggesting neuronal differentiation and associated cytoskeletal remodeling. ","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0030032","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0030041","count":2}]},{"hash":"2019461561780975864","title":"Neuronal development and membrane trafficking","description":"Top GO terms indicate neuronal development (brain development, positive regulation of dendritic spine development) and neuron signaling (GPCR signaling, cellular response to TNF), paired with core membrane trafficking processes (ER-Golgi transport, Golgi-to-plasma membrane transport) and small GTPase\u2013mediated signaling, suggesting a cluster of proteins involved in neuronal maturation and synaptic trafficking.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0031584","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043001","count":4},{"id":"GO:0007264","count":4}]},{"hash":"601858637155070161","title":"Ubiquitin-Dependent Proteolysis","description":"The cluster is dominated by GO terms for ubiquitin-mediated degradation (ubiquitin-dependent proteolytic processes, ERAD, K48-linked ubiquitination) and general proteolysis, with peroxisomal protein import also tied to ubiquitination. This points to a cohesive theme of ubiquitin-proteasome\u2013driven protein turnover, including quality control during the cell cycle and organelle function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006508","count":2},{"id":"GO:1902362","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1166882981472166472","title":"Steroid, Lipid, and Xenobiotic Metabolism","description":"The top GO terms point to catabolic and biosynthetic processes for lipids and steroids (cholesterol catabolic process, triglyceride metabolic process, testosterone biosynthetic process) as well as xenobiotic metabolism (coumarin and camphor catabolic processes), with additional related responses (vitamin D, stress responses). This suggests a cohesive theme around metabolism and detoxification of lipids, steroids, and xenobiotics, despite some less-specific stress-related terms. Confidence: Medium","confidence":"","size":13,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046226","count":10},{"id":"GO:0033280","count":10},{"id":"GO:0048565","count":10},{"id":"GO:0006707","count":10},{"id":"GO:0035902","count":10}]},{"hash":"466338902131326524","title":"Oxidative and ER stress response","description":"This cluster is dominated by GO terms related to redox balance and oxidative stress, including oxidative-reduction processes, cellular oxidant detoxification, and ER stress response, plus related transcription activity. While there are some disparate terms (Rab signaling, viral process, axonogenesis, transcription regulation) that may reflect annotation diversity or pleiotropy, the strongest overlap among the terms points to managing oxidative stress and endoplasmic reticulum\u2013associated stress responses. Confidence: Medium","confidence":"","size":13,"edges":36,"triangles":41,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0045454","count":5},{"id":"GO:1903206","count":4},{"id":"GO:0034976","count":4},{"id":"GO:0032482","count":3}]},{"hash":"804944246190642188","title":"B cell signaling and antibody production","description":"The cluster is dominated by GO terms tied to B cell receptor signaling, Fc-epsilon receptor signaling, and immunoglobulin production, with additional representation for interleukin-10 regulation, suggesting a core theme of B cell\u2013mediated immune signaling and antibody-related processes. Several outlier terms (lens morphogenesis, symbiont entry, cardiac action potential) appear less connected to this theme, but the immune-related terms are the strongest signal.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0002089","count":3},{"id":"GO:0038095","count":3},{"id":"GO:2001181","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1667470927025744283","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051796","count":13},{"id":"GO:1902354","count":13},{"id":"GO:0061146","count":13},{"id":"GO:1904071","count":13},{"id":"GO:0055096","count":13}]},{"hash":"2266742769399154030","title":"Neural and sensory system development","description":"The top GO terms cluster around brain development, inner ear development, corticospinal tract morphogenesis, and locomotory behavior, pointing to neural and sensory system formation as the main theme. While there are a few peripheral terms, the dominant signal supports a neural/sensory development function for the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0045176","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0021957","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0002315","count":4}]},{"hash":"124898917380281620","title":"Transcription Regulation and Cell Cycle Control","description":"The cluster is enriched for DNA-templated transcription and negative regulation of transcription by RNA polymerase II, along with multiple cell-cycle\u2013related processes (mitotic spindle pole separation, re-entry into the mitotic cell cycle, cyclin-dependent kinase activity, and cell division). The ER unfolded protein response suggests concurrent stress-associated transcriptional regulation, while differentiation terms for mammary, Leydig, and multi-ciliated epithelium hint at lineage-specific transcription programs. Overall, these terms point to a group of proteins coordinating transcriptional control with cell-cycle progression and developmental signaling.","confidence":"High","size":13,"edges":66,"triangles":179,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0060749","count":10},{"id":"GO:0033327","count":10},{"id":"GO:1903251","count":9}]},{"hash":"1047887253903393032","title":"Vertebrate neural and cardiac development","description":"These terms cluster around developmental processes in vertebrates, notably neural development (positive regulation of synapse assembly, sensory perception of sound, neuronal stem cell population maintenance) and cardiac development (mitral valve formation, endocardial cushion migration). Additional terms involve cell adhesion and proliferation during tissue formation, with ossification and UV response being broader-context associations. Taken together, the cluster is best described as vertebrate neural and cardiac development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0072137","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007605","count":3}]},{"hash":"1691977334487299429","title":"Developmental transcriptional regulation and hematopoietic differentiation","description":"The GO terms point to regulation of DNA-templated transcription as a central theme, with differentiation across multiple lineages (macrophages, granulocytes, erythrocytes) and various developmental processes (including embryonic skeletal development and germ-line encapsulation). The absence of direct interactions (edges) suggests a broad, non-cohesive set of developmental regulators rather than a single pathway, so the label captures the overarching theme rather than a specific function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0030225","count":4},{"id":"GO:0043982","count":3},{"id":"GO:0048635","count":3},{"id":"GO:0043981","count":3}]},{"hash":"2024233761490521083","title":"Embryonic development and tissue differentiation","description":"The set includes GO terms tied to several organ and tissue development (neural crest migration, retinal and lens differentiation, bronchus cartilage, gallbladder development, hindgut morphogenesis) and general gene expression regulation (DNA-templated transcription, acetylation). The common thread is broad developmental differentiation programs rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":2},{"id":"GO:0032728","count":2},{"id":"GO:0060532","count":1},{"id":"GO:0060221","count":1},{"id":"GO:0061010","count":1}]},{"hash":"2240529511397265196","title":"Embryonic development and cytoskeletal remodeling","description":"The top GO terms cluster around developmental processes across various tissues (roof of mouth, brain, somites, uterus) suggesting embryonic morphogenesis. Several terms emphasize actin cytoskeleton organization, which is essential for cell shape and movement during development. TORC1 signaling and reactive oxygen species generation point to growth and cellular stress responses that can accompany morphogenesis. Collectively, the proteins seem linked to developmental pathways with cytoskeletal dynamics rather than a single, narrow function.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0035886","count":2},{"id":"GO:0001757","count":2}]},{"hash":"137354303067139960","title":"Cross-Tissue Development and Signaling","description":"The top GO terms point to developmental and morphogenetic processes across multiple tissues (chondrocyte and glomerular basement membrane development, innervation, colon epithelial migration) with related transcriptional and signaling pathways (DNA-templated transcription, GDNF receptor signaling). An outlier term on lipoteichoic acid biosynthesis may reflect annotation noise. Overall, the cluster appears to reflect broad developmental regulation across tissues rather than a single specific function, justifying a cross-tissue developmental label.","confidence":"Medium","size":13,"edges":14,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0002063","count":1},{"id":"GO:0042425","count":1},{"id":"GO:0060384","count":1},{"id":"GO:0032836","count":1}]},{"hash":"68587668817431666","title":"Angiogenesis and ECM collagen remodeling","description":"The cluster is dominated by terms related to blood vessel formation (angiogenesis), collagen biosynthesis and fibril organization, and smooth muscle proliferation, pointing to vascular development and extracellular matrix remodeling. Additional terms on kidney development and coagulation fit the broader tissue-remodeling context, while oxaloacetate metabolism and synaptic plasticity are less directly connected and may reflect pleiotropic annotations. Overall, a coherent vascular/ECM remodeling theme emerges.","confidence":"High","size":13,"edges":13,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006107","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0051918","count":3},{"id":"GO:0014068","count":3}]},{"hash":"1391465193464206407","title":"Unknown","description":"The terms are highly heterogeneous, spanning signaling (GTPase and TORC1 regulation, GPCR signaling), transcription and RNA processing, protein ubiquitination, ribosome maturation, chromatin modification, and development, with no clear single function linking the proteins into a cohesive cluster.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0043547","count":6},{"id":"GO:1904263","count":6},{"id":"GO:1902525","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1143662061686200765","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0000462","count":6},{"id":"GO:0042273","count":6},{"id":"GO:0000463","count":6},{"id":"GO:0000466","count":6}]},{"hash":"91512973183519057","title":"Neuroinflammation and NMJ synapse assembly","description":"The terms cluster around neuroimmune signaling (IL-1\u03b2 and cytokine production), glial differentiation, and regulation of synaptic assembly at the neuromuscular junction, with supporting roles for microtubule dynamics and ER organization. This suggests coordinated remodeling of neural/synaptic interfaces under inflammatory conditions rather than a single isolated function.","confidence":"Medium","size":13,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:0071158","count":6},{"id":"GO:0007019","count":6},{"id":"GO:0050702","count":6},{"id":"GO:0007029","count":6}]},{"hash":"1525634191840176551","title":"Rho/Rac-driven cytoskeleton remodeling","description":"The cluster\u2019s top GO terms cluster around Rho and Rac signaling and actin-based structures (podosomes and filopodia) with integrin-mediated adhesion, indicating a shared role in cytoskeletal dynamics and cell\u2013substrate interactions. Some other terms (transcription regulation, pattern specification) appear peripheral but do not redefine the core theme. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0016601","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1406662151833717395","title":"Cerebellar development and glial signaling","description":"The prominent terms Bergmann glial cell differentiation and cerebellar cortex formation point to cerebellar development and glial involvement. Additional terms about insulin and growth hormone signaling imply broader neuronal signaling contexts that may influence neural development, while axon regeneration and proliferation regulation fit under developmental processes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001275","count":8},{"id":"GO:0008286","count":8},{"id":"GO:0060020","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0048679","count":8}]},{"hash":"2268538481172147069","title":"Mitochondrial cholesterol transport and steroidogenesis","description":"The predominant GO terms cluster around mitochondrial outer membrane organization and translocase assembly, combined with cholesterol import and intracellular cholesterol transport, as well as progesterone biosynthesis. This points to a module centered on mitochondria-driven lipid trafficking and steroid hormone production. Some terms related to development (heart morphogenesis, shoot apical meristem) may be less directly connected or reflect broader annotations, but the core signal supports mitochondrial lipid metabolism and steroidogenesis.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007008","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0070096","count":2},{"id":"GO:0070508","count":2},{"id":"GO:0010072","count":2}]},{"hash":"2191767383215760556","title":"Membrane Transporters (ions, sugars, xenobiotics)","description":"The top GO terms indicate a broad set of transmembrane transport activities, including sugar, ion, nitrite, and xenobiotics transport, plus a vesicle-related function (neurotransmitter loading into synaptic vesicles). This points to a cluster of membrane transporter proteins with diverse substrate specificities rather than a single pathway, justifying a general transporter-focused label.","confidence":"High","size":13,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":3},{"id":"GO:0015757","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1786559321693724818","title":"Broad cell signaling and development","description":"These terms span diverse signaling and stimulus-response processes, including chemotaxis, PMA-induced signaling, LPS response, PI3K/AKT signaling, and T cell differentiation, with developmental contexts such as cerebral cortex development and rhythmic processes. This suggests a cluster of proteins involved in broad signal transduction that governs cellular responses across immune, neural, and epithelial contexts.","confidence":"Medium","size":13,"edges":68,"triangles":189,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":13},{"id":"GO:1904628","count":13},{"id":"GO:0048511","count":13},{"id":"GO:0060968","count":13},{"id":"GO:0021987","count":13}]},{"hash":"703270524481533648","title":"Calcium signaling in neurons and glia","description":"This cluster is driven by terms tied to calcium channel regulation, synaptic potentiation, and astrocyte activation, plus calcium handling in mitochondria, which together point to calcium-dependent neural signaling and glial activity. The presence of development terms in other tissues likely reflects broader calcium signaling roles or pleiotropy, but the strongest pattern centers on neural/glial calcium signaling.","confidence":"Medium","size":13,"edges":34,"triangles":39,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0048143","count":5},{"id":"GO:0007586","count":4},{"id":"GO:0060291","count":4},{"id":"GO:1901841","count":4}]},{"hash":"692399530880570883","title":"Cardiac conduction and immune response","description":"This cluster is characterized by GO terms relating to cardiac electrophysiology (atrial action potential, regulation of heart rate by conduction, AV node adhesion, ventricular membrane repolarization) alongside immune system processes (innate and adaptive immune responses, immunoglobulin production, T cell regulation, phagocytosis). The proteins appear to participate in both cardiac function and immune signaling rather than a single unified pathway, so the label captures the two prominent themes without overcommitting to one. ","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0086014","count":4},{"id":"GO:0086091","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0045087","count":4}]},{"hash":"920491673595433256","title":"GPCR-Mediated Taste and Cardiovascular Signaling","description":"The top GO terms cluster around G protein-coupled receptor signaling, including adenylate cyclase-activating pathways, taste perception (notably bitter taste), prostaglandin response, and regulation of blood pressure/renin secretion. This points to a set of GPCRs capable of linking sensory (taste) signaling with cardiovascular control, with some auxiliary terms ( xenobiotic response, mitochondrial processes) likely reflecting broader cellular roles. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0071380","count":4}]},{"hash":"808821579788500627","title":"Rho/Rac GTPase Signaling and Actin Remodeling","description":"The cluster is driven by Rho/Rac signaling and lamellipodium assembly, highlighting actin cytoskeleton remodeling as a core function. Additional GO terms point to epidermal growth factor response, endosome-to-lysosome trafficking, and regulation of autophagy and necroptosis, suggesting a coordinated role in signaling, trafficking, and cell fate decisions.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071364","count":2},{"id":"GO:0016601","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0045792","count":2}]},{"hash":"1112648205735507844","title":"Ectodermal development and transcriptional regulation","description":"Based on the GO terms, the cluster centers on transcriptional regulation (DNA-templated transcription, regulation of transcription) and several development-related processes (hair follicle morphogenesis, keratinocyte proliferation, limb morphogenesis, sympathetic nervous system development). This suggests proteins involved in ectoderm-derived tissue development (skin/hair) and broader morphogenesis, coordinated through transcriptional control. Confidence in this thematic link is Medium.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0048485","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0031065","count":2},{"id":"GO:0006351","count":2}]},{"hash":"684521565381274152","title":"Dopaminergic Signaling and Drug-Response","description":"The top GO terms cluster around neural signaling and sensory processing: dopaminergic synaptic transmission, visual perception and learning, and behavioral responses to cocaine and morphine. ERK1/ERK2 cascade regulation suggests activity-dependent signaling and plasticity, aligning with neural communication and drug response. Prostaglandin signaling and brain renin\u2013angiotensin system terms add links to neuromodulatory pathways, while heart development appears as a broader, possibly developmental context. Overall, the proteins seem tied to neural signaling, sensory processing, and drug-induced responses.","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":10},{"id":"GO:0002035","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0001963","count":9},{"id":"GO:0071380","count":9}]},{"hash":"1413617316427978631","title":"Innate and adaptive immune activation","description":"The top GO terms cluster around phagocytosis (recognition and engulfment), innate immune response, complement activation, and B cell signaling/activation, indicating a coordinated innate and adaptive immune function. A few cardiac-related terms are present but less prominent, likely reflecting pleiotropic annotations rather than a primary theme. Thus the name captures the dominant immune-related functions.","confidence":"Medium","size":12,"edges":19,"triangles":6,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":8},{"id":"GO:0050871","count":8},{"id":"GO:0006911","count":8},{"id":"GO:0050853","count":8},{"id":"GO:0045087","count":8}]},{"hash":"1361418224435583188","title":"Glycan Biosynthesis and Processing","description":"This cluster shows a strong enrichment for glycan-related terms: N-linked glycosylation via asparagine, N-glycan processing, protein sialylation, oligosaccharide metabolism, and ganglioside biosynthesis. While a few terms touch on olfactory and pollen development, the predominant theme across the top GO terms is glycan synthesis and modification, suggesting the proteins function in glycoprotein/glycan biosynthesis and processing pathways. ","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":3},{"id":"GO:0071699","count":3},{"id":"GO:0009846","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006491","count":3}]},{"hash":"259262474607643445","title":"ER stress response and protein quality control","description":"The cluster centers on ER-associated processes: protein folding in the ER, ER stress response, and protein repair, with additional signals for redox homeostasis and cellular detoxification, suggesting a cohesive role in managing protein maturation and oxidative stress. A transcription-related term appears, possibly reflecting stress-responsive gene regulation, but the dominant pattern points to ER quality control and redox balance.","confidence":"High","size":12,"edges":20,"triangles":7,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0034975","count":7},{"id":"GO:0034599","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0098869","count":5}]},{"hash":"230117490023063786","title":"Organ and Muscle Tissue Development","description":"Most terms point to tissue and organ development (kidney, liver, heart muscle) with muscle morphogenesis and development repeatedly represented; a few terms reflect broader cellular processes but do not dominate. Therefore the cluster is best described as Organ and Muscle Tissue Development.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0048747","count":2},{"id":"GO:0050684","count":2}]},{"hash":"2041394512326356705","title":"Actin Cytoskeleton Dynamics and Signaling","description":"This cluster heavily features actin cytoskeleton-related processes (actin filament bundle assembly; negative regulation of actin depolymerization) and associated signaling pathways (integrin signaling; nuclear receptor-mediated glucocorticoid signaling), suggesting a central theme of cytoskeletal regulation by signaling networks. Some terms (neuronal signaling, hormone responses, and a few unrelated processes) may reflect broader or indirect connections, but the dominant signal is actin dynamics and its regulation.","confidence":"Medium","size":12,"edges":53,"triangles":120,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":10},{"id":"GO:2001046","count":10},{"id":"GO:0021937","count":10},{"id":"GO:0097067","count":10},{"id":"GO:0019417","count":10}]},{"hash":"1316082764727750539","title":"Protein quality control and stress response","description":"This cluster is dominated by proteostasis-related terms, including ubiquitin-dependent ERAD, aggresome assembly, and autoubiquitination, indicating a focus on how cells manage misfolded or damaged proteins. Additional signals for oxidative stress response and peroxisomal protein import reinforce the theme of stress handling and protein quality control, with some ancillary terms (neuron transport, estradiol response, TNF signaling) reflecting broader regulatory connections.","confidence":"High","size":12,"edges":58,"triangles":162,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0070842","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0051865","count":3},{"id":"GO:1903265","count":3}]},{"hash":"2252230797958935188","title":"Unknown","description":"Top terms cover steroid hormone response (11-deoxycorticosterone), reproduction (sperm-egg recognition, fertilization), immune defense (antimicrobial humoral response, defense against bacterium, inflammatory response), and unrelated processes (retina homeostasis, lactose biosynthesis, cytolysis), without a single shared function tying the proteins together.","confidence":"","size":12,"edges":27,"triangles":17,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1903496","count":4},{"id":"GO:0016998","count":4},{"id":"GO:0035036","count":4},{"id":"GO:0009566","count":4},{"id":"GO:0005989","count":4}]},{"hash":"1622937209574213286","title":"Leukocyte activation and Fc receptor signaling","description":"This cluster is strongly enriched for leukocyte- and immune signaling terms, notably NK cell chemotaxis regulation, phagocytosis recognition, basophil activation, Fc-gamma receptor signaling, and inflammatory arachidonate pathways, pointing to a cohesive theme of immune cell activation; a couple of developmental terms may reflect broader tissue remodeling or annotation noise.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":11},{"id":"GO:0006910","count":10},{"id":"GO:0045575","count":10},{"id":"GO:0038094","count":10},{"id":"GO:0090238","count":10}]},{"hash":"663164903781035396","title":"Bacterial amino acid and cofactor biosynthesis","description":"This cluster centers on multiple biosynthetic processes in bacteria, including amino acids (serine, proline, lysine), cofactors (biotin), and heme precursors (protoporphyrinogen IX), with additional signals of antibiotic and lipopolysaccharide biosynthesis. The shared theme is diverse bacterial biosynthetic activities rather than a single defined pathway, supporting a general biosynthesis label.","confidence":"Medium","size":12,"edges":64,"triangles":200,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0006564","count":4},{"id":"GO:0009102","count":3},{"id":"GO:0009447","count":3}]},{"hash":"1043276551434585124","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000462","count":4},{"id":"GO:0035948","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0048568","count":3},{"id":"GO:0042273","count":3}]},{"hash":"680572264400083658","title":"Septin-mediated cell division and neuronal development","description":"The top terms center on septin ring assembly/organization, mitotic cell cycle and exit from mitosis, and protein heterooligomerization, pointing to septin-cytoskeletal complexes governing division. Additional terms on exocytosis regulation and ER polarization suggest polarized trafficking and cell polarity, which can relate to neuronal projection development, indicating a broader role in cytoskeletal dynamics and differentiation.","confidence":"Medium","size":12,"edges":20,"triangles":6,"max_degree":8,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0031175","count":6},{"id":"GO:0032186","count":5},{"id":"GO:0051291","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0061163","count":5}]},{"hash":"779755384677719272","title":"Neural crest migration and axon pathfinding","description":"The cluster is dominated by neural-development related GO terms: ventral trunk neural crest cell migration, semaphorin-plexin signaling in axon guidance, axonal fasciculation, branchiomotor neuron axon guidance, trigeminal nerve structural organization, and sympathetic neuron projection guidance. Heterophilic cell\u2013cell adhesion also fits with neural crest cell interactions. A few terms (complement activation, vitamin D3 metabolic process) are less central but do not overturn the primary theme. Overall, this set points to neural crest\u2013driven neuron pathfinding and adhesion roles.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0036486","count":9},{"id":"GO:1902287","count":9},{"id":"GO:0007413","count":9},{"id":"GO:0021785","count":9}]},{"hash":"2277589832682304830","title":"Actin Cytoskeleton Remodeling in Migration and Polarity","description":"The cluster is dominated by GO terms tied to actin filament organization and polymerization, podosome assembly, and cell migration, with supportive terms for epithelial polarity and tight junction assembly. Immune signaling terms (B cell receptor signaling and LPS-mediated pathways) and bone development likely reflect actin-dependent processes in immune cells and osteoclasts. Together, these points suggest a cohesive theme of actin-driven cell movement and adhesion/polarity across cell types.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0050853","count":2}]},{"hash":"2058630840321955218","title":"RNA Modification and tRNA/rRNA Biosynthesis","description":"The cluster\u2019s strongest signal comes from RNA-related modification terms: tRNA queuosine(34) biosynthetic process, rRNA base methylation, and general tRNA modification, which together point to RNA maturation/modification as a core theme. The presence of diverse biosynthetic process terms (biotin, protoporphyrinogen IX, methanol metabolism, choline catabolic, and a specific peptidyl-methylthioaspartic acid biosynthesis) suggests these proteins also participate in broader metabolic pathways, making the link to RNA modification the most coherent shared function but with many peripheral metabolic associations. The low degree and lack of many triangles indicate a loosely connected set, likely representing a metabolic neighborhood around RNA modification rather than a tightly unified pathway.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0009102","count":3},{"id":"GO:0006782","count":3},{"id":"GO:0015945","count":2}]},{"hash":"1131240023586476188","title":"Cell adhesion and immune signaling proteins","description":"The cluster is dominated by cell adhesion terms (heterophilic and homophilic adhesion) along with immune-related processes (complement activation, immunoglobulin production). Additional terms point to neural and cardiac tissue contexts (synapse assembly, axonal fasciculation, AV node adhesion, cardiac action potentials), suggesting a set of adhesion molecules that function in immune signaling and in heart/nerve contexts. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":8},{"id":"GO:0006958","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0002377","count":5},{"id":"GO:0086014","count":5}]},{"hash":"459902313463435942","title":"Actin Cytoskeleton Remodeling and Membrane Assembly","description":"Most terms point to actin dynamics (actin polymerization, crosslinking, cytoskeleton organization) and membrane-associated structures (podosomes, caveolae) and synapse assembly, with related endocytosis regulation. Together they suggest a cluster of proteins involved in actin-driven remodeling of the cortical cytoskeleton and associated membrane organization/trafficking.","confidence":"High","size":12,"edges":16,"triangles":3,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900740","count":7},{"id":"GO:0046626","count":7},{"id":"GO:0071800","count":7},{"id":"GO:0051764","count":7},{"id":"GO:0070836","count":7}]},{"hash":"1097037406583242077","title":"MAPK signaling modulation and mitosis control","description":"The cluster\u2019s top GO terms center on regulation of MAPK/ERK signaling and a suite of mitotic processes (exit from mitosis, chromatid biorientation, spindle midzone localization), plus negative regulation of protein kinases and autophagy. This pattern points to proteins that coordinate growth signaling with cell division and stress responses, rather than a single metabolic pathway. An outlier term about starch catabolism is likely incidental. Confidence reflects the coherent link between MAPK modulation and mitotic regulation.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":12},{"id":"GO:0050860","count":12},{"id":"GO:0000200","count":12},{"id":"GO:0044387","count":11},{"id":"GO:0035853","count":11}]},{"hash":"2023663237759382420","title":"Synaptic signaling and ion channel regulation","description":"This cluster is dominated by terms tied to synaptic function (receptor localization to synapse, GABA secretion, neuromuscular junction development) and ion-channel\u2013related excitability (calcium channel\u2013related transport, potassium channel regulation, membrane depolarization). Phosphorylation and JNK cascade regulation suggest broader signaling roles. Some outliers (thymus development, other non-neuronal contexts) prevent a perfect focus, so the label is a best-fit with Medium confidence. ","confidence":"Medium","size":12,"edges":16,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":6},{"id":"GO:1904879","count":2},{"id":"GO:0007528","count":2},{"id":"GO:0046328","count":2},{"id":"GO:1903286","count":2}]},{"hash":"1495330174079529763","title":"Embryonic patterning and organogenesis","description":"The top GO terms cluster around embryonic development and organ formation across multiple tissues (neural crest migration, forebrain and heart development, retinal axon guidance, digestive tract and uterus development) with pattern specification terms like anterior/posterior pattern specification. This suggests a cohesive theme of developmental patterning and organogenesis rather than a tissue-specific function; the single immune term appears incidental. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0048565","count":2},{"id":"GO:0009952","count":2},{"id":"GO:0030900","count":2}]},{"hash":"628868059746670575","title":"Unknown","description":"The set of GO terms is highly diverse, spanning development (bone, uterus, Sertoli cell proliferation), neural signaling (glutamate secretion, synapse assembly), immune defense (innate immune response, defense to virus), endocytosis, and basic cellular processes. There is no clear, unifying function or pathway that ties these proteins together, so a single coherent label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0060011","count":2},{"id":"GO:0014047","count":2}]},{"hash":"600406722494117844","title":"Adaptive immune activation and antigen presentation","description":"This cluster shows strong signals for T cell costimulation, B cell receptor signaling, immunoglobulin production, and antigen processing/presentation via MHC I, pointing to proteins involved in adaptive immune activation and antigen presentation. Additional terms about regulation of NK and cytotoxic T cell activities and cytoskeleton reorganization at cell\u2013cell interfaces suggest roles in immune synapse formation and cell signaling within immune responses. Overall, the common theme is adaptive immune signaling and antigen presentation.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":5},{"id":"GO:0001805","count":5},{"id":"GO:0006911","count":5},{"id":"GO:0001798","count":5},{"id":"GO:0050853","count":5}]},{"hash":"879556869883866470","title":"Collagen-Activated Immune Signaling","description":"This cluster centers on collagen-activated receptor signaling and immune pathways, with terms like collagen-activated tyrosine kinase receptor signaling, Fc-gamma receptor signaling, basophil activation, phagocytosis recognition, and NK cell chemotaxis regulation, alongside ECM-related processes such as cartilage condensation and cell adhesion molecule production, suggesting a coordinated role in collagen-driven immune responses and tissue remodeling.","confidence":"Medium","size":12,"edges":33,"triangles":31,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":11},{"id":"GO:0001502","count":8},{"id":"GO:0038063","count":6},{"id":"GO:0006910","count":6},{"id":"GO:0045575","count":6}]},{"hash":"1099717963496606723","title":"Mitochondrial nucleotide and metal transport","description":"The terms are strongly centered on transmembrane transport into mitochondria for nucleotides (deoxynucleotides, pyrimidine nucleotides), metals and cofactors (iron, heme, CoA), phosphate, and related metabolites, with adaptive thermogenesis indicating mitochondrial energy context. This points to proteins involved in mitochondrial metabolite and ion transport.","confidence":"High","size":12,"edges":15,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":6},{"id":"GO:0035349","count":6},{"id":"GO:1990845","count":6},{"id":"GO:1990519","count":6},{"id":"GO:0090152","count":6}]},{"hash":"2274311727894132575","title":"Chondrogenesis and Skeletal Development","description":"These proteins cluster around cartilage formation and skeletal development, given GO terms for chondrocyte differentiation, cartilage condensation, skeletal system development, and cell-matrix adhesion. Also, integrin signaling and fibroblast migration point to extracellular matrix remodeling, while vascular development terms reflect accompanying angiogenesis during tissue formation. Overall, the theme is cartilage formation and skeletal maturation with ECM signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":5},{"id":"GO:0002062","count":5},{"id":"GO:0042535","count":5},{"id":"GO:0007160","count":5},{"id":"GO:2001223","count":5}]},{"hash":"74565599183129876","title":"ECM remodeling and VEGF signaling regulation","description":"This set is enriched for proteolysis, proteoglycan catabolic process, and collagen biosynthetic process, pointing to extracellular matrix turnover. It also includes VEGF production and positive/negative regulation of VEGF signaling, suggesting modulation of angiogenic signaling. Some terms reference developmental contexts (chondrocyte and melanocyte differentiation) and ovulation-related remodeling, which fit within tissue remodeling themes. Overall, the common thread is ECM remodeling coupled to VEGF pathway control.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0032331","count":4},{"id":"GO:0045636","count":4},{"id":"GO:1902548","count":4},{"id":"GO:0010573","count":4}]},{"hash":"264590171191619952","title":"Ribosome biogenesis and translation initiation","description":"This cluster is dominated by GO terms related to ribosome assembly and rRNA processing (ribosome biogenesis, large/small subunit maturation, 5.8S maturation, SSU/LSU rRNA processing) and translation initiation/reinitiation, with additional ties to TORC1 signaling and growth-related translation regulation. The common theme is production and control of the protein synthesis machinery, i.e., ribosome biogenesis and initiation of translation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0060416","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0002188","count":3}]},{"hash":"1370320210160367534","title":"Unknown","description":"The GO terms span neural signaling and plasticity, cytoskeletal/Rho signaling, plant hormone pathways, angiogenesis, and myoblast fusion, with no single cohesive function tying the proteins together. The absence of edges and the heterogeneous terms suggest annotation noise rather than a true shared role, so a specific label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016525","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0060291","count":8},{"id":"GO:0007269","count":8},{"id":"GO:0031914","count":8}]},{"hash":"1589470285571402594","title":"RNA processing and translation initiation","description":"This cluster shows strong representation of GO terms for mRNA splicing via spliceosome, formation of translation preinitiation complex, translation reinitiation, and small-subunit processome assembly, pointing to roles in RNA maturation and initiation of protein synthesis. While there are a couple of broader terms (e.g., brain development, stress response regulation), the core signal is RNA processing and ribosome-associated initiation. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0000398","count":5},{"id":"GO:0045292","count":4},{"id":"GO:0010610","count":4}]},{"hash":"2077279071668878544","title":"DNA Damage Response and Checkpoint Signaling","description":"These proteins collectively point to sensing and responding to DNA damage, with emphasis on DNA repair, replication/mitotic checkpoints, and regulated proteolysis. GO terms include DNA repair, various DNA damage checkpoints (intra-S, replication, meiotic), cellular response to ionizing radiation, and ubiquitin-dependent protein catabolic processes, plus a broader stress/defense response. The common theme is activation of DNA damage response pathways coordinating repair and cell-cycle decisions.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:1902231","count":3},{"id":"GO:0000738","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0000076","count":2}]},{"hash":"419752469375384402","title":"Stress granule\u2013associated RNA decay and translation control","description":"The cluster\u2019s top GO terms point to post-transcriptional regulation under stress: stress granule assembly, cytoplasmic processing body assembly, deadenylation-dependent decay, and regulation of translational initiation. Additional terms indicate broader stress/immune signaling (IL-1 response, p53-mediated DNA damage response, and NF-kappaB regulation), suggesting a coordinated set of proteins that modulate RNA metabolism and translation during cellular stress and inflammatory signaling. While some terms touch vesicle trafficking and receptor regulation, the dominant pattern is RNA decay and translation control in stress contexts.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0043124","count":1},{"id":"GO:0071347","count":1},{"id":"GO:0030330","count":1},{"id":"GO:0034063","count":1}]},{"hash":"1925172419383067628","title":"Amino acid and nitrate transporters with hormone signaling","description":"The top GO terms point to transport activity for oligopeptides, dipeptides, and nitrates, plus intensive nutrient-related processes like nitrate assimilation and L-leucine transport, alongside plant hormone signaling pathways (gibberellic acid homeostasis and auxin-activated signaling). This suggests a cluster of transporter proteins that mediate amino acid/peptide and nitrate transport while also participating in hormone-responsive signaling, making the combined label both specific and representative.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010336","count":4},{"id":"GO:0009635","count":4},{"id":"GO:0009734","count":4},{"id":"GO:0035672","count":4},{"id":"GO:0042128","count":4}]},{"hash":"1113492827530402403","title":"Dopaminergic signaling and inflammatory responses","description":"GO terms show a core to dopaminergic signaling (adenylate cyclase-activating dopamine receptor signaling and its negative regulation) paired with stress/inflammatory responses (behavioral fear, lipopolysaccharide response, prostaglandin E stimulus) and calcium flux, with a few systemic links (blood coagulation, renin secretion). The strongest common thread is dopamine signaling linked to neuroimmune and inflammatory processes, justifying this label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0030321","count":5},{"id":"GO:0001662","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0007191","count":5}]},{"hash":"1102215546964947909","title":"Unknown","description":"The 12 proteins map to a highly diverse set of GO terms, including lipid catabolism, chloroplast thylakoid import, protein ubiquitination, immune signaling, general intracellular signaling, chromosomal localization, cell growth, and sensory/pain responses. The lack of a unifying biological theme or pathway among these terms suggests there is no coherent shared function for this cluster, so it should be labeled Unknown with no confidence.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":4},{"id":"GO:0045038","count":4},{"id":"GO:1901594","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0045083","count":4}]},{"hash":"630382118816091222","title":"Visual and dopaminergic neural signaling","description":"The cluster is dominated by neural-related GO terms: visual perception, visual learning, dopaminergic synaptic transmission, and cocaine-associated behavioral response, suggesting a central theme of brain sensory processing and reward pathways. The ERK1/2 cascade reinforces neuronal signaling connections, while a few terms like heart development and macrophage chemotaxis appear peripheral. Overall, the proteins appear linked by neural signaling and visual/reward processing.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0001963","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0048148","count":5},{"id":"GO:0070374","count":5}]},{"hash":"361640410167724997","title":"GPCR-cAMP Signaling and Cardiovascular Regulation","description":"The top GO terms cluster around adenylate cyclase-activating GPCR signaling and activation of adenylate cyclase, with downstream ERK signaling, and physiological processes such as blood pressure regulation, renin and gastrin secretion, and dopamine signaling modulation. While there is some unrelated energy metabolism term (electron transport chain), the dominant theme is GPCR-mediated cAMP signaling linked to cardiovascular and endocrine regulation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":9},{"id":"GO:0007190","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0043547","count":8}]},{"hash":"928739345849248138","title":"Multitissue developmental processes","description":"The top GO terms show development across diverse tissues (root development, neural plate development, hair follicle placode formation, medulla oblongata development) along with basic cellular machinery (proteasome localization, chromatin remodeling, cytokinesis, proton transmembrane transport, vacuole fusion). This points to a broad developmental program affecting multiple tissues, rather than a single pathway, supported by accompanying cellular regulation terms.","confidence":"Medium","size":11,"edges":43,"triangles":85,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":5},{"id":"GO:0048364","count":5},{"id":"GO:0032467","count":4},{"id":"GO:0051561","count":4},{"id":"GO:0042144","count":4}]},{"hash":"1865712824042267193","title":"Golgi vesicle trafficking and exocytosis","description":"The top GO terms cluster around vesicle transport events associated with the Golgi apparatus (Golgi to endosome, ER-to-Golgi, Golgi-to-plasma membrane/exocytosis) and protein localization to Golgi, indicating a cohesive function in Golgi-mediated trafficking and sorting. A few developmental terms appear but do not define the main theme. ","confidence":"High","size":11,"edges":17,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006904","count":5},{"id":"GO:0006895","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0043001","count":5},{"id":"GO:0000042","count":5}]},{"hash":"1221847097932119265","title":"Neuroendocrine Regulation of Systemic Physiology","description":"The top GO terms cluster around hormonal control of systemic functions, especially cardiovascular regulation (vasopressin- and angiotensin-mediated blood pressure, epinephrine-regulated heart contraction, renin secretion regulation) and related endocrine processes (gastric acid secretion, ovarian follicle growth). This suggests a cohesive theme of neuroendocrine signaling coordinating body-wide physiology, even though some terms span diverse systems. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0060160","count":10},{"id":"GO:1900134","count":10},{"id":"GO:0001698","count":10},{"id":"GO:0001992","count":10}]},{"hash":"1048922395546084124","title":"Heat-stress proteostasis and quality-control network","description":"This cluster centers on proteostasis and stress responses: several terms emphasize protein folding (protein folding in ER, response to unfolded protein), quality control (nuclear protein quality control by the ubiquitin-proteasome system), and heat shock/heat response. While there are incidental terms like DNA replication and tRNA import, the dominant theme is maintaining protein structure and turnover under heat stress, supporting a proteostasis-focused cluster.","confidence":"High","size":11,"edges":37,"triangles":56,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:1900035","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0071630","count":2}]},{"hash":"1003672595653266059","title":"B and T cell activation with phagocytosis","description":"The GO terms show coordinated adaptive and innate immune processes: B and T cell activation signals (BCR signaling, T cell costimulation, positive regulation of B cell activation), complement activation, and phagocytosis-related recognition and engulfment, indicating a cluster focused on immune activation and antigen handling by immune cells.","confidence":"High","size":11,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0050871","count":5},{"id":"GO:0006958","count":5}]},{"hash":"134966379119396816","title":"tRNA Modification and Methylation","description":"This cluster shows strong representation of tRNA wobble uridine modification and tRNA methylation, plus related methylation processes, suggesting a shared function in RNA modification. While there are also terms for transcription and stress responses, the RNA modification signal is the most coherent theme.","confidence":"Medium","size":11,"edges":34,"triangles":52,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0043046","count":4},{"id":"GO:0045654","count":4},{"id":"GO:0002098","count":4},{"id":"GO:0032496","count":4}]},{"hash":"437540066823047784","title":"Cellular Stress Response and Immune Signaling","description":"The terms show responses to heat, UV, gamma radiation, and hormone cues, plus immune signaling and regulation via deubiquitination, indicating a cluster of proteins involved in managing cellular stress and signaling. A few terms about transport and muscle function suggest broader roles but the unifying theme is stress-related signaling pathways.","confidence":"Medium","size":11,"edges":52,"triangles":140,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":5},{"id":"GO:0016579","count":4},{"id":"GO:0006936","count":3},{"id":"GO:0099641","count":3},{"id":"GO:0032355","count":3}]},{"hash":"2088168476492807978","title":"Amino acid and cofactor biosynthesis","description":"The top GO terms point to multiple biosynthetic processes for amino acids (lysine, serine, cysteine, aspartate) and related cofactors (biotin, heme precursor protoporphyrinogen IX), plus related carbon metabolism (oxaloacetate) and sulfur pathways (transsulfuration, hydrogen sulfide production). Although there is one transcription-related term, the dominant signal is diverse biosynthesis of amino acids and cofactors, with connected sulfur metabolism. This suggests a cluster of enzymes involved in coordinating major amino acid and cofactor biosynthesis pathways rather than a single specific function.","confidence":"Medium","size":11,"edges":51,"triangles":133,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006107","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0006782","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0006565","count":4}]},{"hash":"1824746003063305646","title":"Proteolysis and Antigen Processing with Angiotensin Regulation","description":"This cluster is driven by proteolysis and peptide maturation across functions: membrane proteolysis and digestion; antigen processing and MHC II presentation; antibacterial peptide production; and angiotensin maturation with renin-angiotensin\u2013regulated blood volume and aldosterone production, along with APP/amyloid-beta metabolism. Together these terms point to a cohesive theme of proteolysis-dependent peptide processing bridging immune and cardiovascular signaling, hence the label.","confidence":"High","size":11,"edges":11,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070305","count":3},{"id":"GO:0033619","count":3},{"id":"GO:0007586","count":3},{"id":"GO:0002803","count":3},{"id":"GO:0019886","count":3}]},{"hash":"1367734504737303780","title":"Chromatin regulation and transcription control","description":"Top GO terms indicate a core theme of chromatin organization (rDNA heterochromatin formation, nucleosome-related processes) and regulation of RNA polymerase II transcription, including transcription preinitiation complex assembly and RNA decay pathways. While some terms touch on development or mucosal immunity, the strongest signals are nuclear processes governing transcription and chromatin state.","confidence":"High","size":11,"edges":14,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1688356815744959728","title":"Developmental signaling and tissue remodeling","description":"This cluster shows enrichment across multiple developmental and remodeling processes: signaling via STAT phosphorylation and Hedgehog (Smoothened) pathway, neural development including myelination, muscle differentiation, extracellular matrix organization, angiogenesis, and neural excitability via sodium channel clustering. The common thread is coordination of development and structural remodeling rather than a single specific pathway, supporting a medium level of confidence in this label.","confidence":"Medium","size":11,"edges":15,"triangles":9,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042517","count":9},{"id":"GO:0042552","count":8},{"id":"GO:0097350","count":7},{"id":"GO:0048661","count":7},{"id":"GO:0007224","count":7}]},{"hash":"1845135958574383406","title":"Chemical-sense signaling and innate immune defense","description":"This cluster shows strong representation of GO terms for chemical-sense perception (taste, bitter taste, and pheromone detection) indicating chemosensory roles. It also includes immune/stress-related terms (response to xenobiotic stimulus, defense response to bacterium, response to lipopolysaccharide), suggesting links between chemical sensing and innate defense or detoxification pathways. The combination points to proteins involved in chemical signal detection with concurrent immune/detox responses, though some terms (e.g., cytolysis, serotonin regulation) add broader signaling context.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0050909","count":8},{"id":"GO:0001580","count":8},{"id":"GO:0019236","count":8},{"id":"GO:0007606","count":8},{"id":"GO:0019835","count":5}]},{"hash":"163904495632212698","title":"Unknown","description":"The GO terms span blood-related processes (blood coagulation, erythrocyte differentiation) along with redox/NO signaling and some unrelated areas (renal absorption, brown fat differentiation). There isn\u2019t a single cohesive biological function that clearly ties all terms together, so a generic Unknown label with no clear confidence is appropriate.","confidence":"","size":11,"edges":23,"triangles":24,"max_degree":8,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0006898","count":5},{"id":"GO:0007596","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0043353","count":3},{"id":"GO:0051291","count":3}]},{"hash":"146403849513784125","title":"Bacterial energy metabolism and quinone biosynthesis","description":"The top GO terms cluster around catabolic and biosynthetic pathways for small molecules: fatty acid beta-oxidation, valine and phenylacetate catabolism, and quinone biosynthesis (phylloquinone and menaquinone). The presence of antibiotic biosynthetic process also points to microbial secondary metabolism. Collectively, these indicate energy metabolism supported by quinone-based electron transport in bacteria, hence this label. ","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":11},{"id":"GO:0006635","count":11},{"id":"GO:0042372","count":11},{"id":"GO:0009234","count":11},{"id":"GO:0010124","count":11}]},{"hash":"666671354486428098","title":"Cell Cycle and DNA Replication","description":"The proteins cluster around core cell cycle processes: DNA replication, mitotic cell cycle, sister chromatid segregation, and cell division. The presence of chromatin-related terms like histone acetylation suggests chromatin remodeling during replication/mitosis, while ubiquitin-dependent ERAD indicates protein quality control during division. Together, they point to a cohesive role in duplicating DNA and segregating chromosomes during cell division.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1771590990459343730","title":"RNA Splicing and Translation Regulation","description":"The cluster is dominated by RNA processing and post-transcriptional regulation: spliceosome-mediated mRNA splicing, preinitiation complex formation, and small-subunit processome assembly, together with translation initiation/reinitiation and miRNA-mediated silencing that inhibits translation, as well as stress-related mRNA stability control.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0048025","count":6},{"id":"GO:1905663","count":6},{"id":"GO:0045292","count":6}]},{"hash":"1754491078796275481","title":"Neuronal Rho GTPase\u2013driven cytoskeleton dynamics","description":"Top terms point to small GTPase signaling (Rho), regulation of Rho signaling, and filopodium assembly/regulation, plus neuronal GABAergic synaptic transmission. Together these indicate a cohesive theme of Rho-mediated cytoskeletal remodeling and filopodia dynamics in neurons, rather than metabolic roles.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015758","count":3},{"id":"GO:0008286","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0046847","count":3}]},{"hash":"1907799067242752120","title":"Rho-dependent actin remodeling and cell migration","description":"This cluster is dominated by GO terms tied to actin cytoskeleton dynamics and cell movement: lamellipodium and filopodium assembly, substrate adhesion-dependent spreading, and small GTPase\u2013mediated signaling (Rho family). These indicate a cohesive theme of actin remodeling coordinated by Rho/Ras pathways that drive cell migration and spreading, making the label specific and representative. Some broader signaling terms (insulin receptor, Ras) appear, but the central thread is cytoskeleton remodeling and motility.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":7},{"id":"GO:0030032","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0046580","count":6}]},{"hash":"644122001285066843","title":"Unknown","description":"The protein set shows a mix of GO terms spanning actin cytoskeleton organization and signaling, neural-specific processes, plant morphogenesis, metabolism, and hormone signaling, with no single dominant function. While actin-related terms appear, the diverse annotations imply heterogeneous functions rather than a cohesive cluster, so a precise, representative label can\u2019t be confidently assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":11},{"id":"GO:2001046","count":11},{"id":"GO:0021937","count":11},{"id":"GO:0097067","count":11},{"id":"GO:0019417","count":11}]},{"hash":"1953858868770832914","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around translation and ribosome biogenesis, including translation itself, ribosome biogenesis, and preribosome assembly, indicating a core function in ribosome production and protein synthesis. Other terms (mitochondrial processes, apoptosis, developmental terms) are present but less represented, suggesting they reflect secondary roles or pleiotropy rather than the cluster\u2019s main function.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0090070","count":1},{"id":"GO:1902626","count":1},{"id":"GO:0061458","count":1}]},{"hash":"431124468578791842","title":"Transcription Regulation and RNA Processing","description":"This cluster is dominated by transcription-related processes (antitermination, termination regulation, transcription itself, and elongation) along with RNA processing and stability (pre-miRNA processing, miRNA catabolic process, CRD-mediated mRNA stabilization), suggesting a shared theme of transcription control and post-transcriptional RNA metabolism.","confidence":"High","size":11,"edges":14,"triangles":6,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031564","count":8},{"id":"GO:0060567","count":5},{"id":"GO:0006351","count":5},{"id":"GO:1901724","count":5},{"id":"GO:0031054","count":5}]},{"hash":"1156876029582334146","title":"Developmental signaling and growth regulation","description":"This cluster centers on processes related to development and growth across tissues, including axonogenesis and bone development, as well as regulation of signaling pathways (negative regulation of protein kinase activity) and cellular responses to mechanical cues, hormones, and organ size regulation. The combination suggests a theme of developmental signaling coordinating tissue growth and differentiation across diverse contexts.","confidence":"Medium","size":11,"edges":18,"triangles":13,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0060348","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0016525","count":6}]},{"hash":"2261535884092839483","title":"Immune Cytokine Signaling and Transcription","description":"This cluster centers on signal transduction related to cytokines and growth factors (TGF-beta stimulus and receptor signaling, GM-CSF stimulus, T cell receptor signaling) and overlaps with transcriptional regulation (DNA-templated transcription). There are additional immune-activation cues such as lipopolysaccharide response and phosphorelay signaling, suggesting a module of signaling and transcriptional control linked to immune responses, despite one or two plant-related terms appearing in the broader set. ","confidence":"Medium","size":11,"edges":50,"triangles":127,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":8},{"id":"GO:0046827","count":7},{"id":"GO:0030512","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0071222","count":5}]},{"hash":"1645427231956991049","title":"Acetyl-CoA\u2013Driven Central Metabolism and Lipid Biosynthesis","description":"The proteins are enriched in glycolysis, pyruvate decarboxylation to acetyl-CoA, the TCA cycle, and amino acid catabolism feeding acetyl-CoA, plus malonyl-CoA and long-chain fatty acid biosynthesis, with gluconeogenesis and pyrimidine metabolism linking to central carbon flux. Translation appears as a general cellular process and does not define the cluster\u2019s main function.","confidence":"High","size":11,"edges":31,"triangles":37,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0033512","count":5},{"id":"GO:2001295","count":4},{"id":"GO:0042759","count":4}]},{"hash":"1258562795345045002","title":"Mitochondrial lipid remodeling and ATP synthesis","description":"The terms point to remodeling of mitochondrial lipids such as cardiolipin and phosphatidylcholine, along with ether lipids and triglycerides, and to mitochondrial ATP synthesis, indicating a coherent theme of mitochondrial lipid metabolism and energy production. Immune-related GO terms (IL-2 production, T cell regulation) are also present but appear secondary to the lipid/mitochondrial signature.","confidence":"High","size":11,"edges":19,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0002071","count":5},{"id":"GO:0008611","count":5},{"id":"GO:0019432","count":5},{"id":"GO:0042775","count":5},{"id":"GO:0035965","count":5}]},{"hash":"754791229358794492","title":"Cytoplasmic translation machinery","description":"This cluster is dominated by GO terms for translation and cytoplasmic translation, suggesting that the proteins mainly participate in protein synthesis in the cytoplasm. Additional terms (nucleotide biosynthesis, phosphorylation, endocytosis) may reflect co-regulated or supportive processes in the same cellular context, but the primary signal is translation. Confidence: Medium","confidence":"","size":11,"edges":34,"triangles":46,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0002181","count":4},{"id":"GO:1903833","count":4},{"id":"GO:0018106","count":4},{"id":"GO:0060416","count":4}]},{"hash":"2158176808517377653","title":"Neuronal signaling and development","description":"This cluster is dominated by terms tied to neural activity and development: long-term synaptic potentiation, regulation of calcium channel activity, and neurotransmitter secretion point to synaptic function; retina layer formation and EMT suggest neural tissue differentiation and development. Some terms are less directly related (microautophagy, cuticle development, karyogamy), but the core theme appears to be neural signaling and neural tissue development.","confidence":"Medium","size":11,"edges":21,"triangles":16,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":9},{"id":"GO:1901841","count":9},{"id":"GO:1901387","count":9},{"id":"GO:0060487","count":9},{"id":"GO:0010842","count":9}]},{"hash":"1817001995248456201","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":14,"triangles":4,"max_degree":9,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0048666","count":7},{"id":"GO:0051017","count":7},{"id":"GO:0019556","count":5},{"id":"GO:0009442","count":5},{"id":"GO:0006147","count":5}]},{"hash":"560912331670345889","title":"Mitochondrial metabolite and cofactor transport","description":"The top GO terms point to transport of various substrates into the mitochondrion (deoxynucleotides, pyrimidine nucleotides, thiosulfate, iron, heme, ornithine, CoA) and regulation of mitochondrial membrane permeability, plus adaptive thermogenesis, indicating a shared theme of mitochondrial import and membrane control of metabolites. This supports a label centered on mitochondrial substrate/cofactor transport as representative of the cluster.","confidence":"High","size":11,"edges":36,"triangles":55,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":8},{"id":"GO:0030302","count":7},{"id":"GO:0035349","count":7},{"id":"GO:1990845","count":7},{"id":"GO:1990519","count":7}]},{"hash":"286230613459642239","title":"Vascular redox signaling and erythrocyte development","description":"Top terms include blood coagulation, erythrocyte differentiation, nitric oxide biosynthesis, and hydrogen peroxide catabolic processes, all tied to vascular homeostasis and redox regulation. While some terms touch on broader systemic processes like collagen regulation and metabolic differentiation (brown fat, renal absorption), the strongest cluster signal centers on redox- and vascular-hematopoietic functions.","confidence":"Medium","size":11,"edges":39,"triangles":58,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0043353","count":5},{"id":"GO:0051291","count":5},{"id":"GO:0032966","count":5}]},{"hash":"84741778595109122","title":"Integrin Signaling and Cell Adhesion Regulation","description":"The cluster is dominated by GO terms linked to integrin-mediated signaling and regulation of cell adhesion (GO:0007229, GO:0033630), with supporting cues from small GTPase\u2013mediated signaling (GO:0007264) and negative regulation of Ras signaling (GO:0046580). This suggests a cohesive theme around modulation of cell adhesion and intracellular signaling pathways, relevant to development and immune contexts (e.g., cortex layer formation and TLR/mast cell signaling). Despite some outliers, the central pattern points to integrin-driven signaling and adhesion regulation as the core function.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021819","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0001953","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0007229","count":2}]},{"hash":"71262893131210128","title":"Steroid and retinoid lipid metabolism","description":"The cluster shows enrichment in biosynthesis and metabolism of steroids (testosterone, androgen, estrogen) and retinoids (retinol, retinal), along with sphingolipid biosynthesis. This points to a lipid- and hormone-related metabolic program as the dominant theme. Some terms (e.g., LPS biosynthesis, obsolete redox) may reflect annotation noise or cross-species differences, but the core signal centers on steroid/retinoid and lipid biosynthesis. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0061370","count":4},{"id":"GO:0042574","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0008209","count":4}]},{"hash":"2169005858025801823","title":"Unknown","description":"The cluster shows a mix of meiosis-related processes (homologous chromosome pairing, chiasma assembly, meiotic recombination, double-strand break repair) alongside pollen and embryo sac development, but also immune and vascular terms (B cell activation, mast cell degranulation, endothelial proliferation) that do not share a single cohesive function. Because there isn't a clear, unified biological theme across the terms, a specific, representative label is not justifiable.","confidence":"","size":11,"edges":45,"triangles":112,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":1},{"id":"GO:0051026","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0009555","count":1},{"id":"GO:0009553","count":1}]},{"hash":"1611840619778100616","title":"Chromatin remodeling in early embryogenesis","description":"The top GO terms point to chromatin state regulation (histone acetylation, transcription initiation-coupled chromatin remodeling) and nuclear events related to fertilization (female pronucleus assembly, egg activation). These suggest a common theme of chromatin dynamics guiding early development, even though a few terms touch on unrelated processes (immune signaling, sterol biosynthesis) that may be annotation noise. ","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071442","count":2},{"id":"GO:0046855","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0048633","count":2},{"id":"GO:0045815","count":2}]},{"hash":"2020802206376457637","title":"Golgi Secretion and Vesicle Transport","description":"The top GO terms cluster around protein retention in the Golgi, protein secretion, and vesicle-mediated transport, suggesting a shared role in the secretory pathway and intracellular trafficking. Other terms (RNA processing, pollen differentiation, chromosome condensation) appear less central and may reflect broader or misannotated associations, but the dominant theme is Golgi-related secretion and vesicle transport.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":2},{"id":"GO:0009306","count":1},{"id":"GO:0016192","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0034965","count":1}]},{"hash":"1202296422127527734","title":"Metabolic Regulation","description":"This cluster centers on regulation of enzyme activities (GTPase and phosphodiesterase) and regulation of multiple biosynthetic processes (fatty acids, D-gluconate, ascorbate), with additional control of RNA biosynthesis and oxidative stress response (SOD). The common theme is modulation of metabolism and enzyme activities rather than a single pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045723","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0051344","count":2},{"id":"GO:0046178","count":2}]},{"hash":"927816345054127849","title":"Antigen Presentation and Immune Maturation","description":"GO terms in this cluster center on immune-related processes, notably antigen processing and presentation via MHC class II, positive regulation of antibacterial peptide production, and cell maturation. While other terms touch on digestion and general stress responses, the immune-focused functions appear most representative of the cluster, suggesting a theme around antigen presentation and maturation of immune cells.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0070305","count":1},{"id":"GO:0007586","count":1},{"id":"GO:0002803","count":1},{"id":"GO:0048469","count":1}]},{"hash":"1424175834602509829","title":"Ribosome Biogenesis and rRNA Processing","description":"These proteins cluster around ribosome biogenesis, with repeated emphasis on large-subunit maturation, LSU-rRNA processing, and preribosome assembly (ITS1 cleavage and related steps). TORC1 signaling points to regulatory control of ribosome production, while vesicle transport terms may reflect ancillary connections or context-specific roles. The core theme is biogenesis and maturation of the large ribosomal subunit.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000447","count":2},{"id":"GO:0042273","count":2}]},{"hash":"119833253330615192","title":"Hair Keratinization","description":"The top GO terms are keratinization and hair cycle, which together point to proteins involved in hair follicle biology and keratin production rather than general epidermal processes. A concise label reflecting hair-specific keratinization best captures this cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":11},{"id":"GO:0042633","count":11}]},{"hash":"1277443088493801648","title":"RNA Pol II Preinitiation Complex","description":"The cluster\u2019s top GO terms cluster around transcription initiation by RNA polymerase II, especially preinitiation complex assembly and DNA-templated transcription initiation, suggesting these proteins commonly participate in initiating transcription. Some other terms (xenobiotic response, mRNA stability, etc.) may reflect additional roles or annotation noise, but the dominant signal points to transcription initiation machinery.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":2},{"id":"GO:0006352","count":2},{"id":"GO:0042493","count":2},{"id":"GO:2001153","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1489619685343589597","title":"Vertebrate Brain and Retina Development Signaling","description":"This cluster centers on developmental processes, notably brain and retina development, with supporting signals such as transcriptional control, GTPase-regulated signaling, and vesicle transport that commonly coordinate neuron and eye tissue patterning and growth. The presence of brain and retina development GO terms suggests a cohesive neural-ocular development theme, even though other terms point to broader vertebrate development.","confidence":"Medium","size":10,"edges":24,"triangles":26,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0007275","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006888","count":5}]},{"hash":"436321968843506033","title":"Terpenoid and sterol biosynthesis","description":"This cluster shows strong enrichment for terpenoid/isoprenoid biosynthesis terms (farnesyl diphosphate, geranyl/geranylgeranyl, monoterpene, ubiquinone/quinone, cholesterol), indicating proteins involved in building terpenoid backbones and sterol pathways. Other GO terms like protein transport and glycosylation are present but do not define the main theme; the shared function is synthesis of isoprenoid compounds.","confidence":"High","size":10,"edges":12,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":3},{"id":"GO:0045337","count":3},{"id":"GO:0043693","count":3},{"id":"GO:1901663","count":3},{"id":"GO:0051290","count":3}]},{"hash":"1998398688405226193","title":"Membrane solute transporters and vesicle loading","description":"The top GO terms are dominated by transmembrane transport of a variety of substrates (arabinose, D-xylose, D-glucose, nitrite, phosphate, xenobiotics) and a neuronal-specific process of loading neurotransmitters into synaptic vesicles, indicating a cluster of membrane transporter proteins involved in solute uptake/export and vesicle packaging in neurons.","confidence":"High","size":10,"edges":14,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015751","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0015753","count":2}]},{"hash":"2051745046887669258","title":"Cartilage development and chondrocyte differentiation","description":"The top terms strongly highlight cartilage biology: cartilage condensation and chondrocyte differentiation, along with ECM-cell signaling and regulation of cell growth, pointing to cartilage formation and morphogenesis. Other terms reflect broader developmental processes, but cartilage-related terms are the most specific and representative of the cluster\u2019s function.","confidence":"High","size":10,"edges":12,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007267","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0046676","count":6},{"id":"GO:0001890","count":6},{"id":"GO:0001502","count":6}]},{"hash":"2163366910130460714","title":"Neural development and vesicle signaling","description":"The cluster is enriched for nervous system development and brain development terms, indicating a neural-development focus. It also includes Rho GTPase signaling and calcium-dependent exocytosis/vesicle fusion terms, which are central to neuronal morphogenesis and synaptic vesicle trafficking. Some terms reference broader or unrelated processes (skeletal/heart development, pseudohyphal growth, aging), but the dominant theme points to neural development with accompanying signaling and vesicle dynamics.","confidence":"Medium","size":10,"edges":18,"triangles":6,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0043547","count":8},{"id":"GO:0007124","count":8},{"id":"GO:0001302","count":8},{"id":"GO:0007266","count":8}]},{"hash":"271324989077022053","title":"Organogenesis and Renin-Angiotensin Signaling","description":"The terms point to broad organ development (kidney branching, hair and tooth formation, left-right patterning, spermatogenesis) together with renin-angiotensin system components (brain RAS, renin secretion, angiotensin-regulated renal output), suggesting a theme of developmental processes tied to RAS signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002035","count":4},{"id":"GO:0001658","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0042475","count":2}]},{"hash":"2272210068778177688","title":"Unknown","description":"The top GO terms span temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) along with a broad mix of physiological processes (pain perception, coagulation, hormonal signaling, gastric secretion, blood pressure regulation, gut development, and cytolysis). There is no single shared function or pathway tying all ten proteins together, suggesting a heterogeneous cluster rather than a coherent biological module. Therefore, Unknown with none confidence.","confidence":"","size":10,"edges":11,"triangles":3,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0060160","count":7}]},{"hash":"1040918040051545577","title":"Sodium and zinc transporters with membrane potential regulation","description":"This cluster is dominated by GO terms about sodium ion transport and homeostasis, membrane repolarization, and sodium export, plus a zinc ion transmembrane transport term, all pointing to ion transporters that control membrane excitability. A muscle-related term (positive regulation of fast-twitch muscle contraction) suggests muscle context, while a few items (serine biosynthesis, testosterone response, pheromone-related conjugation) appear peripheral. Overall, the functions cluster around ion transport and membrane potential regulation with possible muscle relevance.","confidence":"Medium","size":10,"edges":11,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":9},{"id":"GO:0097755","count":9},{"id":"GO:0000749","count":9},{"id":"GO:0006883","count":9},{"id":"GO:0086009","count":9}]},{"hash":"477696389732143541","title":"Endomembrane trafficking and protein regulation","description":"This cluster is dominated by GO terms tied to vesicle trafficking and cargo sorting, including multivesicular body assembly, cytoplasm to vacuole targeting (Cvt) pathway, and regulation of exocyst localization, as well as protein ubiquitination. While a few terms touch on cell movement or development (neuronal migration, lymphocyte aggregation, pseudohyphal growth), the strongest shared signal is endomembrane trafficking and regulation of cargo delivery.","confidence":"Medium","size":10,"edges":13,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0036258","count":5},{"id":"GO:2000222","count":4},{"id":"GO:0032966","count":4},{"id":"GO:0021830","count":4},{"id":"GO:0032258","count":4}]},{"hash":"1108675327386001721","title":"Vertebrate motor neuron and interneuron differentiation","description":"Top GO terms indicate a core theme of CNS neuron fate specification, including spinal cord motor neuron differentiation, medial motor column neuron differentiation, spinal cord-associated neuron differentiation, and cerebral cortex interneuron differentiation, along with Purkinje/granule precursor signaling. This suggests the cluster represents vertebrate neuronal differentiation, particularly motor neurons and interneurons, with a few non-neural development terms present but less central. ","confidence":"High","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0021520","count":5},{"id":"GO:0072283","count":4},{"id":"GO:0021526","count":4},{"id":"GO:0021527","count":4}]},{"hash":"977643156745484080","title":"Visual Phototransduction and Sensory GPCR-cGMP Signaling","description":"These proteins are strongly linked to visual perception and phototransduction (GO:0007601, GO:0007602) and to GPCR signaling coupled to the cGMP second messenger (GO:0007199), with related regulation of protein kinase activity and receptor guanylyl cyclase pathways. While there are a few terms related to other sensory modalities and a heart contraction term as potential noise, the dominant signal centers on vision-related signaling and cGMP-mediated pathways, suggesting a sensor/phototransduction-focused cluster.","confidence":"High","size":10,"edges":13,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060048","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0007602","count":9},{"id":"GO:0006469","count":5},{"id":"GO:0043052","count":5}]},{"hash":"612292170254801163","title":"Notch-driven neural and cardiac development","description":"The cluster's top GO terms cluster neural and cardiac development\u2014sinoatrial node differentiation, secondary heart field cardioblast proliferation, floor plate development, hindbrain morphogenesis, and oculomotor nerve development\u2014tended together with Notch signaling, suggesting a coordinated developmental program across neural patterning and heart formation. Additional terms for melanocyte and osteoclast differentiation hint at broader developmental roles or shared transcriptional regulation. Overall, the proteins appear to participate in embryonic development with emphasis on neural and cardiac tissues.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060921","count":10},{"id":"GO:0003266","count":10},{"id":"GO:0030318","count":10},{"id":"GO:0014737","count":10},{"id":"GO:0006366","count":10}]},{"hash":"1006002197939363138","title":"Unknown","description":"GO terms include embryonic forelimb and retina morphogenesis, wound healing, innate immune response to bacteria/lipopolysaccharide, cell division, and sensory perception, indicating a highly diverse set of functions. There is no single dominant process tying these proteins together, so a concise, representative label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042060","count":2}]},{"hash":"1708817610493817704","title":"Immune signaling and angiogenesis","description":"This cluster centers on immune cell differentiation and cytokine production (T/B/NK T cells, interleukin-4) while also showing vascular remodeling signals (endothelial cell migration, PDGF and ephrin receptor signaling) and nitric oxide responses, indicating a coordinated immune-vascular signaling module.","confidence":"Medium","size":10,"edges":37,"triangles":69,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043536","count":10},{"id":"GO:0046641","count":10},{"id":"GO:0071732","count":10},{"id":"GO:0051092","count":10},{"id":"GO:0002333","count":10}]},{"hash":"757993823380669479","title":"Chromatin organization and nucleosome assembly","description":"Top GO terms show a clear chromatin focus: heterochromatin organization, nucleosome assembly, histone modification signals, and localization to chromatin. Although a few terms are labeled obsolete, the overall pattern points to proteins involved in chromatin packaging, nucleosome positioning/assembly, and nucleus architecture regulation. Therefore the label reflects the cluster's shared function.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098532","count":10},{"id":"GO:0070828","count":10},{"id":"GO:0016584","count":10},{"id":"GO:0097298","count":10},{"id":"GO:0080182","count":10}]},{"hash":"1618900983083535563","title":"Arp2/3-driven Actin Cytoskeleton Remodeling","description":"The terms cluster around actin dynamics: actin filament polymerization; Arp2/3 complex\u2013mediated nucleation; actin cortical patch and filament bundle assembly; postsynaptic actin cytoskeleton organization; actomyosin contractile ring contraction; phagocytosis; and calcium-responsive actin regulation. Some items (subtelomeric heterochromatin formation, nucleosome mobilization) appear less connected, but the dominant theme is actin cytoskeleton remodeling via Arp2/3. ","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":10},{"id":"GO:0006348","count":10},{"id":"GO:0042766","count":10},{"id":"GO:0006909","count":10},{"id":"GO:0000147","count":10}]},{"hash":"1009132135143162818","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000480","count":4},{"id":"GO:0000472","count":4}]},{"hash":"2008948373424237881","title":"Chromatin remodeling and transcription regulation","description":"This cluster is enriched for GO terms tied to transcription regulation by RNA Pol II, chromatin organization, nucleosome assembly, histone modification, and ubiquitin-dependent protein turnover, indicating a core theme of gene expression control and chromatin remodeling. Some terms hint at muscle differentiation and protein localization, but the unifying signal is transcriptional control through chromatin state and associated post-translational regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0010452","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0006511","count":2}]},{"hash":"732463529523906597","title":"RNA processing and translation regulation","description":"The proteins cluster around RNA metabolism and translation control, with GO terms for nuclear mRNA processing, splicing regulation via the spliceosome, nonsense-mediated decay, translation initiation/reinitiation, miRNA-mediated translation silencing, and mRNA stabilization. This points to a cohesive module governing post-transcriptional gene expression, despite one outlier phototropism term. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"10936206535492999","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000464","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0034463","count":2},{"id":"GO:0000492","count":2},{"id":"GO:0071038","count":1}]},{"hash":"1060658622282082860","title":"Nuclear Splicing and RNA Processing","description":"This cluster is strongly enriched for nuclear RNA processing functions, especially mRNA splicing via the spliceosome, spliceosomal and snRNP assembly, and related mRNA processing steps like decapping. Additional terms point to nuclear import and transcription termination, suggesting a cohesive role in RNA maturation and gene expression regulation in the nucleus. Some outliers involve chromatin organization and stress responses, but the dominant signal centers on spliceosome-mediated RNA processing.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:0051170","count":9},{"id":"GO:0000290","count":9},{"id":"GO:1990141","count":9},{"id":"GO:0009414","count":9}]},{"hash":"2038409994593899908","title":"Immune receptor signaling and endocytosis","description":"The top terms point to receptor-triggered signaling via TCR/BCR and Fc receptors, along with PI3K/AKT signaling, and a notable involvement of caveolin-mediated endocytosis and cell adhesion. This suggests a core function in immune cell signaling coupled to membrane trafficking, with apoptosis and Wnt pathway regulation as related processes.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0072584","count":8},{"id":"GO:0097011","count":8},{"id":"GO:0050852","count":8}]},{"hash":"1701385494151304869","title":"Actin cytoskeleton remodeling and endocytosis","description":"The GO terms point to regulation of actin dynamics (GTPase activity, Arp2/3 nucleation) and endocytosis, along with associated signaling (tyrosine/serine/threonine phosphorylation, TGF-beta response). This pattern suggests proteins that coordinate actin remodeling to promote endocytic processes and related signaling, with broader roles in cell differentiation and apoptosis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000147","count":4},{"id":"GO:0034316","count":4},{"id":"GO:0006897","count":3},{"id":"GO:0006919","count":3}]},{"hash":"1369444179393744314","title":"Unknown","description":"These proteins show a highly diverse set of GO terms such as nuclear import, heat response, neural differentiation, imaginal-disc morphogenesis, myelination, M-band protein localization, and vitellogenesis, with no single coherent function dominating. Because there is no clear shared mechanism or pathway across the cluster, a specific, representative label cannot be confidently assigned.","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1900036","count":1},{"id":"GO:0061015","count":1},{"id":"GO:0006606","count":1},{"id":"GO:0045666","count":1},{"id":"GO:0043552","count":1}]},{"hash":"1704130826746097609","title":"GPCR-driven cAMP/cGMP signaling","description":"This cluster is enriched for GPCR signaling terms (including G protein-coupled adenosine receptor signaling) and for biosynthesis of the second messengers cAMP and cGMP, as well as receptor guanylyl cyclase signaling and responses to forskolin. The presence of potassium ion transport and intracellular signal transduction supports a membrane-signaling module coordinating second messengers, so the label GPCR-driven cAMP/cGMP signaling best reflects the dominant theme.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006182","count":6},{"id":"GO:0071805","count":5},{"id":"GO:1904322","count":4},{"id":"GO:1900194","count":4},{"id":"GO:0006171","count":4}]},{"hash":"1734597162995899604","title":"Unknown","description":"The Top Terms include diverse processes: fungal growth regulation, collagen biosynthesis, interneuron migration, cytoplasm-to-vacuole targeting via the Cvt pathway, exocyst localization, ubiquitination, cytogamy, intermembrane transport, lymphocyte aggregation, and neuron fate determination. They span fungi, nervous system development, immune cell interactions, and basic cellular trafficking, with no clear shared function across all proteins. Therefore cannot assign a coherent functional label.","confidence":"","size":10,"edges":12,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":3},{"id":"GO:0032966","count":3},{"id":"GO:0021830","count":3},{"id":"GO:0032258","count":3},{"id":"GO:0060178","count":3}]},{"hash":"642092601197311643","title":"ER Stress and Protein Folding","description":"The cluster is dominated by GO terms tied to the endoplasmic reticulum stress response and protein folding (unfolded protein response, ER folding, redox homeostasis, and ER-stress\u2013linked translation initiation). A few terms related to cell division and signaling appear as secondary or multifunctional roles, but the core theme centers on ER quality control and proper protein folding.","confidence":"Medium","size":10,"edges":15,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006986","count":6},{"id":"GO:0036494","count":6},{"id":"GO:0070389","count":5},{"id":"GO:0034975","count":4},{"id":"GO:0045454","count":4}]},{"hash":"1489639409811222736","title":"Osteogenesis with SMAD signaling and epigenetic control","description":"This cluster is driven by terms related to bone development and osteoblast fate, with SMAD phosphorylation pointing to TGF-beta/BMP signaling that guides osteoblast differentiation. Epigenetic modifiers such as chromatin remodeling and histone deacetylation regulation further support transcriptional control during osteogenesis. While some RNA-processing terms (snoRNP assembly, snoRNA localization) are present, the dominant theme centers on osteoblast differentiation and its regulation by SMAD signaling and epigenetic mechanisms.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007182","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0002051","count":2},{"id":"GO:0000492","count":1}]},{"hash":"1023542838075096068","title":"Ubiquitin-Driven Innate Immune Signaling","description":"The cluster combines strong signals for innate immune defense and cytokine signaling (defense response to virus, innate immune response, positive regulation of chemokine production, IL-17 signaling) with clear involvement of ubiquitin biology (protein ubiquitination, ubiquitin-dependent protein catabolic process, K48-linked ubiquitination), suggesting that ubiquitin-mediated regulation modulates immune signaling. Additional terms related to vitamin D and cadmium reflect environmental or metabolic modulation of immunity, but the core theme remains ubiquitin-regulated innate immune pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0071276","count":3}]},{"hash":"446773183013853840","title":"Unknown","description":"The GO terms span very different tissues and systems (retina development, posterior midgut development, coagulation, gastric acid secretion, vasopressin-regulated blood pressure, renin regulation) and general signaling/modulation processes (GTPase activity, dopamine signaling, cytolysis), with no clear shared function tying all proteins together.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0008283","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0060160","count":7}]},{"hash":"1067468541171668768","title":"Chromosome Maintenance and DNA Replication During Cell Cycle","description":"This cluster is dominated by terms tied to genome maintenance and mitotic progression, including DNA replication (DNA replication, leading strand elongation), CENP-A containing chromatin assembly, cell division, microtubule severing, and DNA repair (UV-damage excision repair, translesion synthesis). ER-Golgi transport appears but does not define the core theme, suggesting the primary function revolves around chromosome maintenance and cell-cycle\u2013related processes.","confidence":"Medium","size":9,"edges":13,"triangles":8,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0030433","count":4}]},{"hash":"1372732532632720569","title":"Ubiquitin-Proteasome Regulation","description":"The top GO terms cluster around ubiquitin-mediated protein turnover: proteasome-dependent degradation, endopeptidase regulation, and deubiquitination, with links to ubiquitin ligase activity and cell-cycle control, plus proteasome-related antigen processing. This points to a proteostasis-focused group where ubiquitination and proteasomal degradation are central, with broader connections to signaling and stress responses.","confidence":"High","size":9,"edges":18,"triangles":15,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":3},{"id":"GO:0043161","count":3},{"id":"GO:0010363","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0090263","count":2}]},{"hash":"2178609566776132890","title":"Spliceosome-Driven mRNA Splicing Regulation","description":"The top GO terms cluster around spliceosome-mediated splicing, regulation of alternative splicing, splice site recognition, and related RNA processing (including small-subunit processome assembly) as well as stress-related mRNA stability, pointing to a cohesive function in mRNA maturation and splicing regulation.","confidence":"High","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048025","count":8},{"id":"GO:1905663","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0034462","count":8}]},{"hash":"1336448119115612541","title":"Heat-Responsive Proteostasis","description":"This cluster is dominated by GO terms related to heat response and unfolded protein handling, including protein folding in the ER, response to heat, and ubiquitin-proteasome\u2013mediated quality control, all core components of cellular proteostasis under stress. While a couple terms are flagged as obsolete, the shared theme is maintaining protein homeostasis via folding, maturation, and degradation pathways, especially in response to heat stress. ","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":9},{"id":"GO:0006626","count":9},{"id":"GO:0006986","count":9},{"id":"GO:0071630","count":9},{"id":"GO:0009408","count":9}]},{"hash":"2131369936757058850","title":"ER-Golgi Vesicle Transport and Growth","description":"ER-Golgi Vesicle Transport and Growth is driven by COPII budding and both directions between ER and Golgi, with several terms tied to vesicle trafficking, alongside mitosis and organismal growth terms, suggesting a cluster of proteins coordinating secretory trafficking with cell proliferation and development.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":6},{"id":"GO:0090114","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0008283","count":6},{"id":"GO:0090307","count":6}]},{"hash":"687408625879080174","title":"Central carbon metabolism and nutrient response","description":"This cluster centers on glycolysis, the TCA cycle, oxaloacetate and pyruvate metabolism, as well as amino acid catabolism (leucine), and includes responses to nutrients, glucose, and redox signals (hydrogen peroxide). The GO terms together indicate energy production and nutrient signaling pathways, with lactate fermentation reflecting glycolytic flux. Therefore the label reflects the core metabolism and nutrient-responsive character of the group.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0006552","count":3}]},{"hash":"320720735791251514","title":"Vertebrate Embryonic Morphogenesis and Patterning","description":"The terms cluster around embryonic development and organogenesis, including craniofacial (roof of mouth) and cartilage formation, left-right patterning, neural crest migration, heart cushion EMT, placental/trophoblast differentiation, and endocrine system development, indicating a cohesive theme of vertebrate development and tissue patterning.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060707","count":4}]},{"hash":"1427989624746989674","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by terms tied to ribosome assembly, translation, and tRNA modification (cytoplasmic translation, translation, tRNA modification, ribosomal large subunit export from the nucleus), indicating a core function in the protein synthesis machinery. Additional terms on cell cycle and mitochondrial dynamics suggest broader growth coordination, but the primary signal is ribosome biosynthesis and translation. ","confidence":"High","size":9,"edges":19,"triangles":20,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":4},{"id":"GO:0010636","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0051301","count":3}]},{"hash":"318644643185034467","title":"Translational Regulation and Antibiotic Stress Response","description":"Proteins in this cluster are linked by GO terms centered on translation and its regulation (translation and negative regulation of translation) and stress responses to antibiotics (response to antibiotic, response to cycloheximide). Although some terms are obsolete or less related (e.g., histone acetylation classes), the dominant signal points to factors involved in controlling protein synthesis under chemical stress. The lysophospholipid transport term is an outlier, but the core theme remains translation control in stress conditions.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017148","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0044154","count":1},{"id":"GO:0070868","count":1},{"id":"GO:0043971","count":1}]},{"hash":"1500934462956129662","title":"Embryonic development and tissue morphogenesis","description":"The cluster\u2019s top GO terms span diverse developmental processes across tissues\u2014placenta, cartilage, mesoderm, pancreatic development, palate, hair follicle, and left-right patterning\u2014as well as EMT-related morphogenesis. This suggests a cohesive theme of embryonic development and organ/tissue morphogenesis rather than a single tissue-specific function, justifying a label centered on developmental morphogenesis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0035270","count":7}]},{"hash":"620005415395347000","title":"Neural development and axon guidance","description":"This cluster centers on neural development and neurite morphogenesis: terms for CNS projection neuron axonogenesis, regulation of dendrite development, embryonic morphogenesis, and signaling pathways (PI3K-AKT, RhoGEF) that shape the cytoskeleton and neurite outgrowth, with associated behavior. The neural-focused terms strongly outweigh the outliers, supporting a neural development theme.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2001108","count":5},{"id":"GO:0036060","count":5},{"id":"GO:0043491","count":5},{"id":"GO:0030336","count":5},{"id":"GO:0006032","count":5}]},{"hash":"1717733807879993360","title":"Unknown","description":"Top terms are highly diverse, including immune signaling (TLR7 pathway, interferon-\u03b1 production), necroptosis and mitochondrial fission, general translation, and development/dopaminergic signaling (bone, kidney, dopamine response). This lack of a single cohesive theme suggests no clear functional label can represent the cluster. ","confidence":"","size":9,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090141","count":2},{"id":"GO:0070266","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1903351","count":1},{"id":"GO:0035564","count":1}]},{"hash":"1308133863437931393","title":"Kidney development and metabolic biosynthesis","description":"This cluster is anchored by renal biology terms, including renal system development and inner medullary collecting duct development, suggesting a kidney-related function. It also includes multiple biosynthetic/metabolic processes (glutathione, ascorbic acid, cholesterol, testosterone), indicating broader metabolic activity. The combination suggests a theme of kidney development with accompanying metabolic pathways.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":9},{"id":"GO:0003091","count":9},{"id":"GO:0006707","count":9},{"id":"GO:0018931","count":9},{"id":"GO:0006750","count":9}]},{"hash":"467398799546630033","title":"Nitric Oxide Signaling and Xenobiotic Response","description":"The cluster is dominated by GO terms related to nitric oxide production/signaling (e.g., positive regulation of NO biosynthetic process, NO signaling in neurons) and general responses to toxic/xenobiotic stimuli, with supporting redox and nitrate-related terms. These together suggest a theme around NO-mediated signaling coupled with detoxification responses; peripheral terms like sodium transport may reflect linked physiological contexts but do not dominate the theme.","confidence":"High","size":9,"edges":10,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":6},{"id":"GO:0045429","count":5},{"id":"GO:0055114","count":4},{"id":"GO:1904042","count":4},{"id":"GO:0043602","count":4}]},{"hash":"335719468534452514","title":"Multi-Tissue Development","description":"Most top GO terms point to development of diverse tissues (mammary gland duct morphogenesis, female genitalia, uterus, parathyroid) and neuronal projection, with a few terms linking to chromatin organization. The shared theme is broad developmental roles across tissues rather than a single pathway, supporting a label of multi-tissue development.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060444","count":2},{"id":"GO:0030540","count":2},{"id":"GO:0060017","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0010976","count":2}]},{"hash":"885650181050073317","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051796","count":2},{"id":"GO:1902354","count":2},{"id":"GO:0061146","count":2},{"id":"GO:1904071","count":2},{"id":"GO:0055096","count":2}]},{"hash":"368827446488455778","title":"Unknown","description":"The top GO terms span diverse contexts (plant-specific processes like chlorophyll biosynthesis and stamen formation; ECM-related adhesion and hyaluronan metabolism; protein turnover via ubiquitin-proteasome; immune activation and T cell signaling; neural dendrite regeneration; and blood coagulation), with no single cohesive function uniting the proteins. This heterogeneity makes a concise, accurate cluster label unlikely.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0015995","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0048455","count":5},{"id":"GO:0043248","count":5}]},{"hash":"1639303498905832327","title":"Neural and neuromuscular development","description":"The top GO terms center on neural and motor differentiation: peripheral nervous system neuron development, medial motor column neuron differentiation, Purkinje myocyte differentiation, and neuromuscular process, with additional embryonic morphogenesis terms. This points to a shared role in neural lineage specification and development of motor/neuronal cells, with ceramide biosynthesis and general transcription as supporting but less central themes. Confidence that this label reflects the cluster's function is Medium.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046513","count":2},{"id":"GO:0035115","count":1},{"id":"GO:0048935","count":1},{"id":"GO:0048565","count":1},{"id":"GO:0072283","count":1}]},{"hash":"507827155592103731","title":"Ribosome Biogenesis and Translation","description":"The proteins show strong enrichment for ribosome-related processes: ribosome biogenesis (small and overall), cytoplasmic translation, and tRNA modification, plus nuclear export of ribosomal subunits. The accompanying cell cycle/division signals suggest these proteins coordinate ribosome assembly with cell growth, reinforcing a theme of ribosome biogenesis and protein synthesis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0000055","count":3}]},{"hash":"1169490597933392463","title":"Neuronal signaling and synaptic plasticity","description":"The cluster is dominated by GO terms for JNK cascade regulation, Wnt signaling, and small GTPase signaling, together with positive regulation of GTPase activity, pointing to neuronal signal transduction. The presence of long-term synaptic potentiation and regulation of fear response supports a primary theme of neural signaling and plasticity, with occasional immune-related terms likely reflecting neuroinflammatory crosstalk rather than a core immune function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0043547","count":3}]},{"hash":"486740969436733834","title":"Immune signaling and transcriptional regulation","description":"This cluster is dominated by GO terms related to immune responses and signaling (cellular response to LPS, GM-CSF stimulus, and T cell receptor signaling) as well as transcriptional activity (DNA-templated transcription, regulation of gene expression). Some developmental terms appear, which may reflect pleiotropic functions of included proteins, but the strongest recurrent theme is immune signaling coupled with transcriptional control. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071222","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1046078693289132359","title":"Multi-lineage development and differentiation","description":"The top terms cluster around mesoderm/muscle development, Schwann cell development, and cell migration, suggesting a broad developmental/differentiation program across multiple lineages. While there are outlier terms such as B cell receptor signaling and DNA replication/cell-cycle steps, the common thread is developmental processes across tissues (muscle, glial/nerve, and immune lineage). This label captures the overarching theme without overfitting to a single tissue. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007498","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1721792238697570429","title":"Vascular development and calcium signaling","description":"The cluster is enriched for angiogenesis, kidney development, blood pressure regulation, coagulation, and remodeling terms, with calcium signaling and mechanosensation as common motifs. This points to vascular development and endothelial/mechanosensitive signaling where calcium dynamics drive responses to flow and remodeling, rather than a neuron-specific function.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0045777","count":3},{"id":"GO:0007204","count":3},{"id":"GO:0001525","count":3}]},{"hash":"522175190772437324","title":"Mitochondrial nucleotide and cofactor transport","description":"The GO terms cluster around transport into mitochondria (deoxynucleotide, pyrimidine nucleotide, CoA, iron, heme, thiosulfate) and related mitochondrial metabolism, including adaptive thermogenesis and processes tied to mitochondrial localization and function. Even the negative regulation of necroptotic processes and ER calcium regulation can connect through mitochondrial roles in stress responses, focusing the theme on mitochondrial transport and metabolic support. Confidence: High","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":3},{"id":"GO:0032471","count":2},{"id":"GO:0030302","count":2},{"id":"GO:0035349","count":2},{"id":"GO:1990845","count":2}]},{"hash":"419355435580303781","title":"Leukocyte adhesion and migration","description":"This cluster is dominated by GO terms tied to immune cell adhesion and movement, including integrin-mediated signaling, T cell activation, neutrophil chemotaxis, cell-matrix and heterotypic cell adhesion, extracellular matrix remodeling (hyaluronan metabolism), and extravasation. A single term on endodermal differentiation is a potential outlier, but the overall pattern is strongly consistent with leukocyte recruitment and migration processes. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007229","count":8},{"id":"GO:0002291","count":7},{"id":"GO:0030212","count":7},{"id":"GO:0030593","count":5},{"id":"GO:0007161","count":5}]},{"hash":"898624443424941972","title":"Immune and stress-response signaling","description":"The top GO terms point to immune activity (T-helper 1 response, interferon production) alongside stress and signaling pathways (cellular response to mechanical stimulus, JNK cascade, GTPase activity regulation, xenobiotic response). The presence of regulatory terms for vacuole fusion, axonogenesis, and collagen synthesis suggests the proteins participate in broader signaling networks rather than a single, narrow function, supporting a label that spans immune and stress-response signaling.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0042088","count":7},{"id":"GO:0032729","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0043547","count":7}]},{"hash":"203204211963060223","title":"Ribosome biogenesis and translation","description":"This cluster is enriched for ribosome-related processes: ribosomal biogenesis (small and large subunits), export from the nucleus, and cytoplasmic translation, as well as tRNA modification. These together suggest a group of proteins involved in ribosome assembly and function; some other terms (defense response to protozoan, stress response) appear peripherally but do not define the core function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0042832","count":5},{"id":"GO:0006400","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0000055","count":4}]},{"hash":"2076140567569625008","title":"Neural development and Cytoskeleton Signaling","description":"The top GO terms point to neural development (neural tube closure, forebrain development, multicellular organism development) together with cytoskeletal signaling (Rho pathway, actin cytoskeleton reorganization) and related regulatory processes. Innate immune and inflammatory terms may reflect neuroimmune interactions or broader signaling contexts but do not outweigh the neural-development and cytoskeletal themes. Overall, the cluster seems centered on nervous system development coupled with cytoskeletal regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001843","count":2}]},{"hash":"2067050002798123039","title":"Glycoprotein maturation and ER retention","description":"The cluster features GO terms tied to glycan biosynthesis (Lewis a epitope), protein transport, and retention in the ER lumen, pointing to processing and quality control of glycoproteins as a cohesive theme. While there are also immune signaling terms and other disparate processes, the strongest shared signal is glycoprotein maturation and ER handling, with some incidental immune-related associations. Confidence: Medium.","confidence":"","size":9,"edges":14,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0010204","count":2},{"id":"GO:0002369","count":2}]},{"hash":"229565423855188653","title":"Cytoskeletal dynamics and cell migration","description":"These proteins cluster around cytoskeleton remodeling and cell movement, with GO terms for cell migration, actin cytoskeleton organization, regulation of cell shape, and microtubule localization, plus PI3K/AKT signaling involvement. The dominant theme is cytoskeleton-driven motility and signaling rather than a single development pathway. Some placenta- or immune-related terms appear, likely reflecting broader roles, but the core signal is cytoskeletal dynamics governing cell migration.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0043491","count":2},{"id":"GO:0030866","count":2},{"id":"GO:0008360","count":2}]},{"hash":"2147486365579128309","title":"Neural Glycosylation and Ganglioside Biosynthesis","description":"The cluster is dominated by glycosylation- and glycan-processing terms (N-linked glycosylation via asparagine, N-glycan processing, protein sialylation, N-acetylneuraminate metabolism, ganglioside biosynthesis), suggesting a common role in glycoprotein and glycosphingolipid formation. Several neural development terms (myelination, olfactory nerve formation, olfactory placode morphogenesis) point to these glycan pathways supporting neural membrane composition and signaling. Some plant-related terms (pollen germination and pollen tube growth) appear, which may reflect broader glycosylation roles across species, but the core theme centers on glycosylation/glycan biosynthesis in neural contexts.","confidence":"Medium","size":9,"edges":12,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0018279","count":2},{"id":"GO:0071699","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0009860","count":2}]},{"hash":"141428486921515629","title":"Ciliary trafficking and immune signaling","description":"The cluster has GO terms centered on protein processing and trafficking (protein secretion, protein transport, ER lumen retention) and cilium assembly, suggesting roles in trafficking-related ciliary functions. It also includes innate immune signaling and T cell\u2013related processes (innate immune response-activating signaling, T cell cytokine production, T cell apoptotic process), pointing to immune-related activity. A few terms for neuronal signaling and iron response add some dispersion, but the core pattern aligns with ciliary-associated protein trafficking and immune signaling.","confidence":"Medium","size":9,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":1},{"id":"GO:0009306","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0010204","count":1}]},{"hash":"52633623431449336","title":"Neuronal synaptic vesicle recycling and GPCR internalization","description":"The top GO terms cluster around synaptic vesicle budding/recycling, GPCR internalization, and endosome organization, all key to neurotransmitter release and receptor trafficking in neurons. Additional terms on Rho/Ras signaling and mitochondrial fission reflect the cytoskeletal and organelle dynamics that support these synaptic processes, reinforcing a unified theme of vesicle trafficking and receptor endocytosis at neuronal synapses.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3},{"id":"GO:0035023","count":3},{"id":"GO:1903423","count":3}]},{"hash":"995400317051813373","title":"Protein glycosylation and glycan biosynthesis","description":"The cluster's dominant GO terms center on N-linked glycosylation via asparagine, N-glycan processing, protein sialylation, and broader glycan/oligosaccharide metabolism, indicating a shared role in glycosylation pathways and glycan biosynthesis. Some plant/pollen-related terms may be incidental or cross-species annotations, but the glycan-focused terms provide a coherent unifying function for this cluster.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":2},{"id":"GO:0071699","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0009860","count":2},{"id":"GO:0006491","count":2}]},{"hash":"1160379311127592380","title":"Vacuolar transport and ion homeostasis","description":"It centers on vacuole-related processes (acidification, organization, targeting) and membrane ion transport (protons, sodium), with energy metabolism and ER stress signals as supporting themes, making \"Vacuolar transport and ion homeostasis\" a concise, representative label.","confidence":"Medium","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0015991","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0006623","count":3}]},{"hash":"1035871200369557244","title":"GTPase Signaling and Vesicle Trafficking","description":"The cluster is dominated by terms related to GTPase activity regulation (positive regulation of GTPase activity), Rho protein signal transduction, and vesicle trafficking processes (ER to Golgi transport and vesicle fusion), with activity in protein heterotrimerization. Together these point to a cohesive theme of small GTPase\u2013driven signaling coordinating cytoskeletal dynamics and membrane trafficking, rather than unrelated developmental processes. Some terms about development appear incidental to broader signaling roles. ","confidence":"Medium","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007124","count":6},{"id":"GO:0006906","count":6}]},{"hash":"1706782732244095268","title":"Unknown","description":"The top GO terms are a mix of cardiac muscle development and electrophysiology (left ventricular morphogenesis, ventricular membrane repolarization, calcium transport) with additional, seemingly unrelated terms for pain perception, plant hormone biosynthesis, and xenobiotic response. There isn\u2019t a clear, cohesive functional theme tying these proteins together, suggesting the cluster does not map to a single biological process.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0098914","count":7},{"id":"GO:0051928","count":7},{"id":"GO:0080141","count":7}]},{"hash":"829544570505751285","title":"Immune signaling and chemotaxis","description":"The top GO terms cluster around immune-related signaling and cell movement: cellular response to lipopolysaccharide, chemotaxis, and PI3K/AKT signaling, plus T cell differentiation. While a couple of terms (rhythmic process, cerebral cortex development) are less directly related, the dominant theme is signaling cascades that drive immune activation and cellular migration.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":8},{"id":"GO:1904628","count":8},{"id":"GO:0048511","count":8},{"id":"GO:0060968","count":8},{"id":"GO:0021987","count":8}]},{"hash":"1932111749161148079","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around developmental processes such as mesoderm formation, uterus development, inner ear development, and myelination, along with regulation of transcription and cell growth\u2014together suggesting roles in developmental differentiation and tissue morphogenesis. While there are some signaling terms (lipopolysaccharide signaling, mechanical stimulus response), these do not override the developmental theme, implying the proteins collectively participate in shaping tissues and organs during growth. Confidence: Medium","confidence":"","size":8,"edges":12,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0071260","count":2}]},{"hash":"2174589472217316724","title":"Membrane amino acid and neurotransmitter transporters","description":"The cluster\u2019s strongest shared function is transport across membranes for several amino acids and neurotransmitters (D-serine, GABA, ornithine, methionine, carnitine, ammonium), plus related cellular responses; this points to a cohesive set of membrane transport proteins with neural relevance, despite a few outliers in signaling or behavior terms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0046329","count":2},{"id":"GO:0042942","count":2},{"id":"GO:0070634","count":2}]},{"hash":"1860945793420901322","title":"Unknown","description":"GO terms across the cluster are highly diverse, spanning visual perception, heart development, neural plasticity, drug response, muscle activity, phosphorylation, adenylate cyclase signaling, cell proliferation, ABA signaling, and the mitotic cell cycle. There isn\u2019t a single cohesive function tying these proteins together, so a clear, representative label cannot be determined.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0060291","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0014850","count":2}]},{"hash":"543090498965923058","title":"Calcium signaling in tissue development","description":"The cluster\u2019s terms are dominated by calcium-related processes (calcium import into mitochondrion, regulation of voltage-gated calcium channels, long-term synaptic potentiation) and tissue development across several organ systems (cardiac morphogenesis, retina formation, lung differentiation). This points to a common theme of calcium-dependent signaling guiding development and function in multiple tissues, despite some outliers (e.g., digestion). ","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":2},{"id":"GO:0060291","count":2},{"id":"GO:1901841","count":2},{"id":"GO:0003220","count":2},{"id":"GO:0036444","count":2}]},{"hash":"130847824514392734","title":"PI3K/AKT-ERK Immune Signaling and Chemotaxis","description":"The cluster highlights PI3K/AKT signaling (GO:0043491; GO:0051897) and ERK cascade (GO:0070371), with macrophage and NK cell chemotaxis terms (GO:0048246; GO:2000502), suggesting a cohesive theme of immune signaling and chemotactic responses; a few terms related to heat response and smooth muscle proliferation may reflect broader signaling cross-talk.","confidence":"High","size":8,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0043491","count":2},{"id":"GO:2000502","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0070100","count":2}]},{"hash":"1872840789118456310","title":"Broad-spectrum solute transporters","description":"The GO terms point to a collection of transmembrane transport activities across a wide range of substrates (arabinose, nitrite, phosphate, sodium, nitrate, vitamin, sialic acid, xenobiotics) and a vesicular neurotransmitter loading process, all suggesting membrane transporter proteins with broad substrate specificity rather than a single substrate. This justifies naming the cluster as broad-spectrum solute transporters.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015751","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0035435","count":4}]},{"hash":"1605196364293317501","title":"Immune and Developmental Signaling","description":"The terms point to immune activation (LPS response, phagocytosis, MAPK signaling), endocytic processes, and developmental pathways (CNS and mesoderm development, angiogenesis, synapse organization). This suggests a core of signaling responses to external cues that span both immune activation and developmental regulation, hence a label focusing on immune\u2013developmental signaling.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0050808","count":2}]},{"hash":"633279682146930034","title":"Multi-lineage tissue differentiation","description":"Top GO terms indicate development and differentiation across diverse tissues\u2014nervous, immune, cardiovascular, hematopoietic, and renal lineages\u2014rather than a single pathway, suggesting a general role in cell fate specification during development. This supports a label of multi-lineage tissue differentiation as a concise, representative description.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048485","count":8},{"id":"GO:0060947","count":8},{"id":"GO:2000553","count":8},{"id":"GO:0010725","count":8},{"id":"GO:0035854","count":8}]},{"hash":"1893122319891078519","title":"Developmental and Immune Regulation","description":"The GO terms point to regulatory roles across development (dorsal axis determination, placenta development, lactation, wound healing) and immune function (macrophage differentiation, NK cell cytotoxicity), with supporting signals from circadian rhythm, IGF response, and ER stress response. This suggests a cohesive theme around coordinating development with immune and stress-related regulation, rather than a single specific pathway.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:2000016","count":5},{"id":"GO:1900103","count":5},{"id":"GO:0030225","count":5},{"id":"GO:0035470","count":5}]},{"hash":"2279498175347094513","title":"RNA Methylation and Chromatin Modification","description":"This cluster is defined by multiple GO terms centered on methylation: tRNA methylation, 7-methylguanosine mRNA capping, histone H4-R3 methylation, and arginine methylation. These processes regulate RNA maturation, transcription, and chromatin state, which explains the association with cell growth and senescence. Other terms like cobalamin biosynthesis, nodulation, and tellurium ion response appear peripheral and don't undermine the primary methylation-driven signal.","confidence":"High","size":8,"edges":16,"triangles":10,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":7},{"id":"GO:0030488","count":6},{"id":"GO:0046690","count":5},{"id":"GO:0006596","count":5},{"id":"GO:0016049","count":5}]},{"hash":"53189592846675841","title":"TGF-beta/BMP signaling regulators","description":"The top GO terms cluster around regulation of TGF-beta and BMP signaling (negative regulation of TGF-beta receptor signaling, negative regulation of BMP signaling, cellular response to TGF-beta stimulus, SMAD-related processes) and include peptidyl-threonine dephosphorylation, suggesting phosphatases that modulate Thr residues within these pathways. Some plant-development terms (meristem identity, masculinization) fit with TGF-beta-like signaling roles in growth, while an outlier term about photosystem stoichiometry adjustment is less related. Overall, this cluster appears dominated by regulators of TGF-beta/BMP signaling rather than core enzymes.","confidence":"High","size":8,"edges":17,"triangles":14,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0080005","count":6},{"id":"GO:0030512","count":6},{"id":"GO:0061191","count":6},{"id":"GO:0042347","count":6},{"id":"GO:0071560","count":6}]},{"hash":"2202502627181832966","title":"Skeletal Muscle Signaling and Adhesion","description":"The cluster shows a clear muscle-centric theme: acetylcholine-gated channel clustering, regulation of fast-twitch skeletal muscle fiber contraction, and Wnt signaling components often linked to muscle development. Rho signaling and cell adhesion terms further support cytoskeletal remodeling and tissue architecture pertinent to muscle. Some outliers (vitellogenesis, sulfur oxidation, an obsolete Wnt term) likely reflect annotation noise rather than true functional cores, but the muscle-related terms dominate. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007296","count":3},{"id":"GO:0071340","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0021881","count":2}]},{"hash":"42358518341081531","title":"DNA replication and chromatin maintenance","description":"The cluster is dominated by GO terms for DNA replication, MCM complex assembly, and heterochromatin formation (including subtelomeric regions) along with cell cycle-related processes, suggesting a shared role in genome replication and chromatin state control during the cell cycle. A few terms (e.g., gas vesicle organization, ribosomal subunit assembly, protein catabolic process) appear less related and may reflect annotation noise, but the core signal points to replication and chromatin regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0072689","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0031412","count":2},{"id":"GO:0006343","count":2}]},{"hash":"744856039700870063","title":"Neural Development and Cell Adhesion","description":"This cluster is dominated by GO terms related to nervous system development, cerebral cortex development, retina homeostasis, and positive regulation of synapse assembly, with strong signals for both heterophilic and homophilic cell-cell adhesion. While a few terms touch on bone ossification or melanogenesis, the prominent theme centers on neural tissue development and cell adhesion processes critical for synapse formation and CNS organization.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0001895","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0007156","count":5}]},{"hash":"2295956399750419170","title":"Embryonic neural and eye development","description":"This cluster centers on developmental processes, especially neural/brain differentiation and retina/eye development, along with broader embryogenesis signals like gastrulation and cell proliferation. The presence of terms for forebrain and brain development, plus retina development, supports a theme of embryonic neural and ocular development, with proliferation as a general developmental context (despite some outliers). ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0007369","count":4},{"id":"GO:0016575","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0008283","count":4}]},{"hash":"31192276481470279","title":"Embryonic organogenesis and neural development","description":"The terms cluster around morphogenesis and development across multiple organs (palate, forelimb, digestive tract, kidney) and neural components (PNS neuron development, neuromuscular process, motor neuron differentiation), with additional emphasis on transcriptional regulation by RNA Pol II, indicating involvement in embryonic development and neural differentiation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0000122","count":5},{"id":"GO:0035115","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0048565","count":4}]},{"hash":"1378656103955083603","title":"Neural development and synapse formation","description":"This cluster centers on neuronal connectivity and synaptogenesis, with multiple GO terms for cell\u2013cell adhesion in neurons, regulation of synapse assembly, and glutamatergic synaptic transmission, along with nervous system and inner ear development. A cohesive theme is nervous system development and synapse formation, though some terms (bone ossification, nephron development, symbiont entry) are less related and may reflect broader developmental associations. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0051965","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0072006","count":5},{"id":"GO:0007156","count":5}]},{"hash":"316781146615692962","title":"Xenobiotic and lipid catabolism","description":"The top GO terms cluster around catabolic and metabolic processes for diverse compounds, including xenobiotics (coumarin, camphor, organofluorine regulation) and lipids (cholesterol, triglyceride), with supporting links to hormone-related metabolism (testosterone biosynthesis) and vitamin D response. The terms point to a broad metabolic/catabolic theme rather than a single specific pathway, so a label centered on xenobiotic and lipid metabolism fits best, despite some heterogeneous terms. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":5},{"id":"GO:0046226","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0048565","count":4},{"id":"GO:0006707","count":4}]},{"hash":"1845507113056261940","title":"Glycolysis and PPP Regulation","description":"The top GO terms center on central carbohydrate metabolism, including glycolytic process, carbohydrate phosphorylation, and regulation of the pentose-phosphate shunt, indicating control of glycolysis and PPP flux. De/phosphorylation terms further support regulation of metabolic pathways. While there are additional terms related to stress responses and vitamin B12 biosynthesis, the dominant signal is carbohydrate metabolism and its regulation, making this a Glycolysis/PPP-focused cluster representation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0046835","count":4},{"id":"GO:0016311","count":4},{"id":"GO:0006096","count":3},{"id":"GO:0010666","count":3},{"id":"GO:0043456","count":3}]},{"hash":"396717346369556883","title":"Microtubule dynamics and spindle orientation","description":"The cluster centers on plus-end microtubule dynamics (depolymerization and sliding), establishment of microtubule cytoskeleton polarity, and chromosome alignment/spindle orientation, with additional involvement in microtubule-based transport (anterograde transport of receptor complexes). This points to a cohesive program of microtubule cytoskeleton organization driving division, polarity, and intracellular transport across contexts.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070462","count":8},{"id":"GO:0098971","count":8},{"id":"GO:0000743","count":8},{"id":"GO:0021685","count":8},{"id":"GO:0000742","count":8}]},{"hash":"2070203144821955745","title":"Developmental gene regulation via chromatin remodeling and RNAi","description":"This cluster combines chromatin-related processes (heterochromatin formation, nucleosome mobilization, histone acetylation) with core transcriptional control (transcription initiation) and developmental cues (segment specification, vegetative-to-reproductive transition) plus RNA-based post-transcriptional silencing and Wnt signaling. Together, these terms point to a theme of coordinating developmental gene expression through chromatin state, transcription regulation, and RNAi-based control, despite some terms being obsolete in current catalogs. ","confidence":"Medium","size":8,"edges":23,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0048510","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0042766","count":1}]},{"hash":"1149171977499568123","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning female gonad development, TGF-beta signaling regulation, kinase activity regulation, telomerase assembly, ear structure (otolith tethering), and various cellular stress responses. There isn\u2019t a clear, single biological process or molecular function tying these proteins together, so a cohesive label isn\u2019t evident.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":2},{"id":"GO:0030511","count":1},{"id":"GO:0071902","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0035889","count":1}]},{"hash":"1142948379848354394","title":"Adaptive immune activation and NK/T cell cytotoxicity","description":"This cluster is dominated by GO terms related to adaptive immunity and cytotoxic lymphocyte function, including adaptive immune response, cytotoxic T cell differentiation, and NK cell\u2013mediated cytotoxicity and cytokine production. Regulatory connections (negative regulation of tolerance, regulation of cytokine production) further support a theme of immune activation and control. A few terms appear as noise (lens morphogenesis, atrial depolarization) but do not override the clear immune-focused signal.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071656","count":8},{"id":"GO:0070392","count":8},{"id":"GO:0045065","count":8},{"id":"GO:0002644","count":8},{"id":"GO:0002729","count":8}]},{"hash":"1113937808890544079","title":"Neural development and synaptic signaling","description":"Most terms cluster around neural development and synaptic function (long-term synaptic potentiation, axonogenesis, visual perception, Schwann cell development, response to muscle activity). Some outliers (mitotic cell cycle, abscisic acid signaling) exist, but the dominant signal points to neuronal development and signaling, making this label a reasonable summary.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":6},{"id":"GO:0014850","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0009738","count":6},{"id":"GO:0000278","count":6}]},{"hash":"1328685148534595129","title":"Innate antiviral response and interferon signaling","description":"The top GO terms point to innate immunity with antiviral activity: negative regulation of viral genome replication, response to interferon-alpha, and innate immune response. Additional terms suggest immune signaling and cell movement (ephrin receptor signaling, myeloid dendritic cell chemotaxis) and apoptosis, consistent with antiviral defense and immune regulation. A few terms appear less related (locomotory behavior, lipid tube assembly) and may reflect broader or off-target annotations, but the core theme is clearly innate antiviral defense and interferon-mediated signaling.","confidence":"High","size":8,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045071","count":4},{"id":"GO:0035455","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0008344","count":2}]},{"hash":"1480588856636914011","title":"Vertebrate Development: Skin and CNS","description":"This cluster is dominated by GO terms for multicellular organism development with strong representation of skin development and nervous system development (spinal cord, forebrain), pointing to vertebrate developmental processes. Additional terms touch on developmental signaling (TGF-beta response) and common cellular activities that may accompany development, supporting a cohesive developmental theme rather than a single metabolic pathway. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0043588","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0071560","count":2}]},{"hash":"2139574962478852588","title":"Eye vascular morphogenesis","description":"Based on the top GO terms, the cluster centers on morphogenesis and development of vascular and endothelial tissues in the eye (retina vasculature) and branching morphogenesis of epithelial tubes, with accompanying growth and cell cycle regulation. These terms point to a cohesive theme of ocular vascular development and endothelial morphogenesis. Other terms like cellular oxidant detoxification and regulation of light response may reflect metabolic or photoregulatory states or cross-species annotation noise (e.g., cytokinin, a plant hormone), but they do not overwhelm the core eye/vascular development signal.","confidence":"Medium","size":8,"edges":21,"triangles":27,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0061299","count":3},{"id":"GO:0001886","count":3},{"id":"GO:2000030","count":3},{"id":"GO:0009735","count":3}]},{"hash":"20055780115630541","title":"Cardiovascular Hormone Signaling","description":"The top GO terms are dominated by hormonal and cardiovascular regulation, including vasopressin- and angiotensin-mediated blood pressure control, regulation of renin secretion, and epinephrine effects on heart contraction, with some outliers like gastric acid secretion and development terms. This suggests the cluster centers on hormonal control of vascular/heart function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":8},{"id":"GO:0060160","count":8},{"id":"GO:1900134","count":8},{"id":"GO:0001698","count":8},{"id":"GO:0001992","count":8}]},{"hash":"2216300477756263831","title":"Meiosis and DNA Replication Regulation","description":"This cluster is driven by terms related to meiosis (female meiotic nuclear division; meiotic spindle elongation) and regulation of DNA replication, pointing to a cohesive theme of meiotic progression and cell-cycle control. Supporting signals like TORC1 signaling and ceramide metabolism suggest broader growth and signaling roles, but the core pattern is meiosis-associated regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0042176","count":7},{"id":"GO:2001241","count":7},{"id":"GO:0006461","count":7},{"id":"GO:0006672","count":7},{"id":"GO:0006275","count":7}]},{"hash":"1300212887814274966","title":"Mitochondrial Transporters","description":"Based on the GO terms, the proteins are linked to transporting a range of substrates into mitochondria (deoxynucleotides, pyrimidine nucleotides, CoA, iron, heme, phosphate, thiosulfate, ornithine) and a mitochondria-associated energy/metabolic process (adaptive thermogenesis). This pattern points to a cluster of mitochondrial transporter proteins that import diverse substrates essential for mitochondrial function and metabolism.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":5},{"id":"GO:0035349","count":5},{"id":"GO:1990845","count":5},{"id":"GO:1990519","count":5},{"id":"GO:0090152","count":5}]},{"hash":"664263512468087762","title":"Antigen Presentation and ER Stress Response","description":"The top GO terms point to immune-related processing and presentation of antigens via MHC class II, with a viral process annotation suggesting involvement in host-pathogen interactions. Several other terms indicate cellular stress responses (ER stress, oxidative stress) and protein quality control, which often accompany antigen presentation pathways. Taken together, the cluster seems to capture proteins linked to antigen processing/presentation supported by ER stress mechanisms, hence the chosen label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0019886","count":2},{"id":"GO:0098869","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0017004","count":1}]},{"hash":"223566672092709792","title":"Actin remodeling and vesicle trafficking","description":"The dominant GO terms center on actin cytoskeleton dynamics (barbed-end capping, nucleation, polymerization, and lamellipodium morphogenesis) and vesicle trafficking (COPII-coated vesicle cargo loading), suggesting proteins that coordinate actin remodeling with vesicle transport. A few terms on translation and innate immune response appear but are less represented, indicating a primary theme of cytoskeletal dynamics with auxiliary processes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0051016","count":2},{"id":"GO:0051127","count":2},{"id":"GO:0090110","count":2},{"id":"GO:2000394","count":2}]},{"hash":"107700722468305456","title":"Vesicle trafficking and membrane recycling","description":"The top GO terms cluster around endocytic recycling, Golgi vesicle uncoating, and synaptic vesicle dynamics, plus related lipid signaling (phosphatidylinositol dephosphorylation) and receptor recycling. Together these point to membrane trafficking and vesicle cycling as a coherent function for the cluster.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014898","count":1},{"id":"GO:0046664","count":1},{"id":"GO:2001135","count":1},{"id":"GO:0046856","count":1},{"id":"GO:0016191","count":1}]},{"hash":"1993071407526920782","title":"Developmental ECM and Cell Adhesion","description":"The GO terms cluster around extracellular matrix production/remodeling (hyaluronan biosynthesis), cell-matrix and cell-cell adhesion, and various organ development processes (distal tubule, limb morphogenesis, endocardial development, multicellular development). While immune-related complement activation appears, the dominant theme is ECM\u2013cell adhesion linked to tissue morphogenesis and organogenesis, suggesting these proteins function together in developmental contexts involving ECM interactions.","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1900127","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0006590","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0007157","count":6}]},{"hash":"1608941692571292856","title":"Coagulation and Wound Healing","description":"The top GO terms cluster around blood coagulation, proteolysis, wound healing, epidermal cell spreading, angiogenesis, and cell adhesion, pointing to tissue remodeling and vascular repair processes; a few terms (amelogenesis, endodermal differentiation) are developmentally oriented but do not override the core coagulation/wound-healing signal.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0035313","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0097186","count":3}]},{"hash":"2083392145616148376","title":"Muscle and Skin Differentiation with Cytoskeleton","description":"This cluster's GO terms cluster around muscle development (ventricular cardiac muscle cell development; fast-twitch skeletal muscle fiber contraction) and epidermal functions (keratinocyte activation/differentiation, skin barrier). It also includes cytoskeletal organization terms (microtubule cytoskeleton polarity; neurofilament bundle assembly). The proteins thus appear linked by roles in tissue-specific differentiation that rely on cytoskeletal dynamics, spanning muscle, nerve, and epidermal lineages. Given the mixed, cross-tissue signals and modest term diversity, the label is a cautious, representative summary.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055015","count":2},{"id":"GO:0035105","count":2},{"id":"GO:0010625","count":2},{"id":"GO:0033693","count":2},{"id":"GO:0032980","count":2}]},{"hash":"191509129354449609","title":"Nucleotide metabolism and DNA replication","description":"The cluster shows multiple terms tied to nucleotide metabolism and biosynthesis (AMP salvage, GTP/ADP/CDP/ITP metabolism, nucleotide phosphorylation) and a signal for DNA replication initiation, suggesting a theme around nucleotide supply and replication processes. A couple of terms related to development (brain, liver) are present but less central to the core theme. This supports a label focused on nucleotide metabolism with a connection to replication.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046939","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0044209","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1277044878775657676","title":"Cardiovascular Hormone Regulation","description":"The GO terms with the highest representation point to hormonal control of cardiovascular function, including vasopressin- and angiotensin-mediated regulation of blood pressure and heart contraction via epinephrine/norepinephrine. While there are also terms related to coagulation and non-cardiovascular processes (gastric secretion, ovarian follicle growth, cytolysis), the dominant signal ties to hormonal regulation of cardiovascular physiology. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0060160","count":4},{"id":"GO:1900134","count":4},{"id":"GO:0001698","count":4},{"id":"GO:0001992","count":4}]},{"hash":"1839619880426196583","title":"Axon guidance and neuronal signaling regulation","description":"These proteins cluster around neuronal development and signaling: ephrin receptor signaling, positive regulation of axon extension, and calcium-dependent exocytosis. Hippocampus development supports a brain-specific function, while JNK signaling and cytoskeletal dynamics relate to neurite outgrowth and synaptic activity. The mitotic cell cycle term is less consistent but does not override the overall neuronal signaling theme. Medium","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0048013","count":6},{"id":"GO:0045956","count":6},{"id":"GO:0031647","count":6}]},{"hash":"360110319079430049","title":"PI3K/AKT Signaling in Development and Immunity","description":"The cluster centers on PI3K/AKT signaling and immune- and brain-related development terms, including cellular responses to immune stimuli (LPS, PMA) and cerebral cortex development, suggesting a shared signaling axis that modulates movement, differentiation, and barrier-related processes across immune and neural contexts. While some terms are more peripheral (rhythmic processes, tight junction regulation), the recurring theme of PI3K/AKT\u2013mediated signaling in diverse developmental and immune contexts makes this a coherent, representative label.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":7},{"id":"GO:1904628","count":7},{"id":"GO:0048511","count":7},{"id":"GO:0060968","count":7},{"id":"GO:0021987","count":7}]},{"hash":"2288936408350984034","title":"Collagen-driven ECM remodeling in inflammation","description":"This cluster is dominated by collagen-related processes (collagen biosynthesis and fibril organization) and tissue remodeling, with supporting acute-phase and coagulation/inflammatory terms. Together these suggest extracellular matrix remodeling in an inflammatory context, potentially tied to cardiovascular tissue remodeling and mechanotransduction influences. Some terms (neuronal plasticity and cardiac conduction) may reflect broader ECM signaling roles rather than direct core functions of the cluster.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903779","count":3},{"id":"GO:0001300","count":3},{"id":"GO:0006953","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0032964","count":3}]},{"hash":"1115797444102027277","title":"Embryonic development and morphogenesis","description":"This cluster centers on multiple developmental differentiation processes across cardiac, neural, cranial nerve, and skeletal lineages, with Notch signaling as a key regulatory theme and transcriptional control (RNA Pol II) supporting broader developmental programs.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060921","count":7},{"id":"GO:0003266","count":7},{"id":"GO:0030318","count":7},{"id":"GO:0014737","count":7},{"id":"GO:0006366","count":7}]},{"hash":"1384035876011780696","title":"Neural and cardiac development with Notch signaling","description":"This cluster\u2019s top GO terms emphasize neural patterning and development (hindbrain morphogenesis, floor plate development, oculomotor nerve development) alongside cardiac differentiation signals (sinoatrial node differentiation, secondary heart field proliferation), with Notch signaling as a central regulatory pathway. While some terms are broader, the common theme is developmental differentiation in neural and cardiac contexts anchored by Notch signaling.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060921","count":7},{"id":"GO:0003266","count":7},{"id":"GO:0030318","count":7},{"id":"GO:0014737","count":7},{"id":"GO:0006366","count":7}]},{"hash":"1826704300147982194","title":"Protein Quality Control and Turnover","description":"The cluster\u2019s top GO terms center on ubiquitin-related processes (deubiquitination, autoubiquitination), protein modification (deglycosylation), and protein clearance pathways (aggrephagy, endocytosis regulation). This points to a core theme of maintaining protein homeostasis and determining protein fate, with broader links to transcription and ribosome biogenesis that may reflect wider regulatory roles of these proteins. Overall, the dominant signal is protein quality control and turnover.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:0006357","count":4},{"id":"GO:0000028","count":4},{"id":"GO:0034140","count":4},{"id":"GO:0035973","count":4}]},{"hash":"492331804310595657","title":"Ubiquitin-mediated proteostasis and mitophagy","description":"This cluster is enriched in protein quality control terms, including sumoylation, autoubiquitination, and ERAD pathways, indicating a focus on ubiquitin-dependent regulation. It also features mitophagy, aggresome assembly, and negative regulation of mitochondrial fusion, pointing to mitochondrial and cellular protein-quality control via autophagy and degradation pathways. While other terms touch signaling or metabolism, the dominant theme ties to ubiquitin-driven proteostasis and clearance of damaged proteins/mitochondria.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:1904049","count":4},{"id":"GO:0000423","count":4},{"id":"GO:0070842","count":4},{"id":"GO:0010637","count":4}]},{"hash":"2146815664044086208","title":"Rho GTPase\u2013ERK signaling and GPCR endocytosis","description":"This cluster centers on regulation of Rho GTPase signaling, ERK cascade activation, GPCR internalization via clathrin-mediated endocytosis, and ubiquitination, pointing to a cohesive theme of GPCR-driven signaling tightly controlled by trafficking and cytoskeletal regulation, with ties to mechanotransduction and tissue-specific roles like heart development and platelet activation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0016567","count":3}]},{"hash":"1646849544837314793","title":"Neuronal development and synaptic signaling","description":"Dominated by neural-related processes: receptor clustering, glutamatergic synaptic transmission, neurotransmitter release, and motor neuron axon guidance, with PI3K/Akt signaling and developmental patterning (notochord) also present. Although there are a few extracellular matrix and differentiation terms, the strongest signals tie these proteins to neural development and synaptic communication.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043113","count":6},{"id":"GO:0035987","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0051968","count":6},{"id":"GO:0002042","count":6}]},{"hash":"106953008716835934","title":"Actin Cytoskeleton Assembly and Remodeling","description":"The terms cluster around actin dynamics\u2014Arp2/3-mediated nucleation, actin filament polymerization, patch and bundle assembly, postsynaptic actin organization, phagocytosis, and contractile ring activity\u2014with a calcium-response connection. A couple of chromatin-related terms appear as minor outliers, but the dominant signal is actin cytoskeleton assembly/remodeling.","confidence":"High","size":7,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0042766","count":3},{"id":"GO:0006909","count":3},{"id":"GO:0000147","count":3}]},{"hash":"1155291091622090613","title":"Transcriptional Regulation in Embryonic Development","description":"The terms point to core transcriptional control (transcription by RNA Pol II and its negative regulation) combined with diverse embryonic development processes across tissues (muscle, limb, nervous system, digestive tract, kidney, endocrine cells). This suggests a set of proteins that coordinate transcriptional regulation during embryonic tissue differentiation, including neuromuscular aspects.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0035115","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0048565","count":4}]},{"hash":"838699897205441692","title":"Differentiation and Signaling in Development","description":"Top GO terms indicate involvement in multiple differentiation processes (keratinocyte, trophoblast giant cell), Notch receptor processing, and inflammatory signaling (TNF response, leukocyte migration), along with general regulatory processes like transcription and ubiquitin-dependent proteolysis. This pattern suggests a broad cluster of proteins linked to developmental differentiation and signal transduction rather than a single, specific pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":3},{"id":"GO:0002523","count":2},{"id":"GO:0007220","count":2},{"id":"GO:0034612","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1678212535454962395","title":"Developmental biology and stress responses","description":"This cluster\u2019s top GO terms are dominated by developmental processes (forebrain development, neural tube closure, skeletal system development, multicellular organism development) with supporting transcription and cell-cycle activity, alongside some stress/immune terms (ER stress\u2013related apoptosis, cadmium response, defense against Gram-positive bacteria). The strongest signal is multicellular and neural development, making a developmental biology theme most representative, with some stress response context.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0001403","count":7},{"id":"GO:0071276","count":7},{"id":"GO:0050830","count":7}]},{"hash":"234406372952674361","title":"Developmental signaling and tissue morphogenesis","description":"Based on the top GO terms, the proteins appear involved in developmental processes and tissue organization: brain development, synapse assembly, and uterus development; cadherin-mediated cell-cell adhesion and Wnt signaling regulate tissue morphogenesis; ubiquitination indicates regulation of protein turnover during development; vascular maturation also aligns with organ development. Although adaptive immune response is present, the dominant theme centers on signaling pathways and adhesion guiding development and tissue patterning, supporting a label of Developmental signaling and tissue morphogenesis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001560","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0044331","count":2},{"id":"GO:0007416","count":2},{"id":"GO:0090263","count":2}]},{"hash":"1211669421093691353","title":"B and T cell activation with immunoglobulin production","description":"The top GO terms cluster around adaptive immunity: B cell costimulation, germinal center formation, immunoglobulin production, and positive regulation of T cell proliferation, together indicating activation and antibody-related processes. A few developmental terms are present but are less representative of the main theme.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060693","count":2},{"id":"GO:0002636","count":1},{"id":"GO:0061048","count":1},{"id":"GO:0071848","count":1},{"id":"GO:0048305","count":1}]},{"hash":"1534011651613219138","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":16,"triangles":15,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0042102","count":2}]},{"hash":"215749983367360047","title":"Unknown","description":"The top terms span diverse processes (metabolism, ion transport, development, hormone response, stress responses) with no clear shared function or pathway linking the proteins; there are no edges to suggest a cohesive functional module, so no specific label fits better than Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006730","count":1},{"id":"GO:0070445","count":1},{"id":"GO:0071498","count":1},{"id":"GO:0048545","count":1},{"id":"GO:0001822","count":1}]},{"hash":"711671433281934844","title":"Placental development and vascular maturation","description":"The terms cluster around placental/trophoblast differentiation and vascular development (chorionic trophoblast differentiation, blood vessel maturation, blood coagulation) with additional signals of regulated receptor signaling and cytoskeletal/receptor organization, suggesting a cohesive program of placental formation and vascular remodeling. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0060718","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0019800","count":5},{"id":"GO:0031549","count":5},{"id":"GO:0030512","count":5}]},{"hash":"1069658363231222427","title":"Ubiquitin-Proteasome Regulation of the Cell Cycle","description":"The cluster is dominated by GO terms tying ubiquitin-dependent protein catabolic processes to mitotic cell cycle and cell division, including SCF-dependent proteasomal degradation and protein autoubiquitination. This suggests a cohesive role in regulating cell cycle progression via ubiquitin-proteasome\u2013mediated proteolysis, with related signals and stress responses appearing as secondary associations.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0031146","count":3}]},{"hash":"1056948712844080373","title":"Transcriptional Regulation of Differentiation and Cell Cycle","description":"The proteins in this cluster are enriched for DNA-templated transcription and various differentiation programs (mammary gland alveolus, Leydig cells, multi-ciliated epithelia) along with core cell division and cycle control (mitotic spindle, CDK activity, cell division). This points to a shared theme where transcriptional regulation directs both differentiation and proliferation across diverse cell types, with some involvement of stress-related pathways (ER unfolded protein response) linked to high secretory/differentiation states. ","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0060749","count":6},{"id":"GO:0033327","count":6},{"id":"GO:1903251","count":5},{"id":"GO:0010696","count":5}]},{"hash":"1919201236478117225","title":"Hair Keratinization","description":"Top terms are keratinization and hair cycle, pointing to a module of proteins involved in hair follicle differentiation and keratinocyte maturation. The presence of these two GO terms across multiple proteins supports a cohesive hair/keratinization function for this cluster.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":7},{"id":"GO:0042633","count":7}]},{"hash":"562135434869140255","title":"Unknown","description":"These terms span immune signaling (NF-kappaB regulation, LPS signaling, IL-17 production), reproductive and developmental processes (male gonad development, response to follicle-stimulating hormone), kidney development (metanephric collecting duct), neural processes (myelination), cellular mechanotransduction (response to mechanical stimulus), and water homeostasis. There is no clear, single functional theme linking all proteins; the terms reflect diverse roles rather than a cohesive pathway, so a cohesive label is not evident.","confidence":"","size":7,"edges":8,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0072205","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1354073105934294395","title":"Cell-adhesion signaling in development","description":"This cluster centers on adhesion and signaling: high counts for heterophilic cell-cell adhesion and receptor clustering point to adhesion complexes; ERK1/ERK2 cascade indicates downstream MAPK signaling linked to these contacts; the inclusion of nephron development and brown fat cell differentiation suggests these adhesion-signaling events drive diverse tissue differentiation; substrate adhesion-dependent cell spreading and negative regulation of anoikis further tie adhesion to cell survival and morphology; the memory term adds a neural angle but can reflect activity-dependent signaling. Overall, a coherent theme is adhesion-mediated signaling guiding development and tissue differentiation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0043113","count":6},{"id":"GO:0070371","count":6},{"id":"GO:0072006","count":5},{"id":"GO:0034446","count":5}]},{"hash":"79989829768596018","title":"Coagulation and complement activation","description":"This cluster is dominated by GO terms for blood coagulation and complement activation (classical and lectin pathways), with a notable emphasis on negative regulation of fibrinolysis, pointing to a coagulation/hemostasis and innate immunity module. Other terms like digestion and development are present but less central to the core theme. ","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051918","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0007596","count":3},{"id":"GO:0007586","count":3}]},{"hash":"168939707674934220","title":"Unknown","description":"The GO terms span chemotaxis, calcium ion import, glycogen metabolism, PMA signaling, circadian rhythm, neural development, LPS response, and cell junction/tissue organization. With such diverse and seemingly unrelated functions and no clear shared process, there isn\u2019t a coherent theme to name a specific cluster label. None","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":4},{"id":"GO:0070509","count":4},{"id":"GO:0045719","count":4},{"id":"GO:1904628","count":3},{"id":"GO:0048511","count":3}]},{"hash":"1327844646236690319","title":"Synaptic vesicle exocytosis and plasticity","description":"The cluster centers on presynaptic neurotransmitter release and synaptic modulation, with GO terms for calcium-regulated exocytosis, SNARE complex assembly, and synaptic vesicle priming, plus regulation of short-term and overall synaptic plasticity and related processes like axonogenesis. While some terms touch broader secretory pathways (e.g., mast cell histamine secretion, growth hormone secretion), the strongest signal is vesicle fusion and activity-dependent regulation of synapses. This suggests proteins involved in the machinery and control of synaptic transmission and plasticity.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0002553","count":2},{"id":"GO:0048172","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0051963","count":2}]},{"hash":"674835819442842318","title":"Chemotaxis and Immune Signaling","description":"This cluster centers on proteins involved in responding to stimuli and signaling that governs movement and immune-related processes (chemotaxis, LPS response, T cell differentiation, PI3K/AKT signaling, PMA-induced pathways). While there are a couple developmental and junction-related terms, the dominant theme is stimulus-responsive signaling and motion/interaction with immune cues, suggesting a signaling nexus rather than a single specific process.","confidence":"Medium","size":7,"edges":13,"triangles":10,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":7},{"id":"GO:1904628","count":7},{"id":"GO:0048511","count":7},{"id":"GO:0060968","count":7},{"id":"GO:0021987","count":7}]},{"hash":"1722832302628748460","title":"Unknown","description":"The cluster's top GO terms span plant development (floral organ number), animal development (bone and kidney size), neural signaling (cellular response to dopamine), and immune signaling (TLR7/9 pathways, response to LPS and chloroquine, interferon production), indicating no single coherent function tying all proteins together. Therefore, Unknown with None confidence.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048833","count":6},{"id":"GO:1903351","count":6},{"id":"GO:0035564","count":6},{"id":"GO:1902350","count":6},{"id":"GO:0034154","count":6}]},{"hash":"1769931876055922539","title":"Actin dynamics and cell polarity","description":"Most top GO terms describe actin cytoskeleton regulation (negative regulation of actin filament severing; actin nucleation; actin cortical patch assembly) and processes tied to cell shape/motility and vesicle transport (uropod organization, vesicle docking in exocytosis, pigment granule transport). A few terms hint at polarity and cytoskeletal organization (meiotic spindle localization, establishment of T cell polarity). Overall, the cluster centers on actin remodeling and its role in polarity and trafficking.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903919","count":7},{"id":"GO:0048251","count":7},{"id":"GO:0006904","count":7},{"id":"GO:0000147","count":7},{"id":"GO:0032796","count":7}]},{"hash":"115214390299306721","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0018406","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0006626","count":1}]},{"hash":"1317464149011154563","title":"Immune activation, coagulation, and cell\u2013matrix adhesion","description":"These terms cluster around immune signaling (complement activation, T cell regulation, GPCR signaling) together with extracellular matrix interactions (cell-matrix adhesion, receptor clustering) and vascular/implantation processes (blood coagulation, embryo implantation, sprouting angiogenesis). This points to a cohesive role in coordinating immune responses with ECM remodeling at tissue interfaces, such as in pregnancy and angiogenic contexts. Confidence: High","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0001970","count":5},{"id":"GO:0046013","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0019800","count":4}]},{"hash":"363707409196697994","title":"Spermatid flagellum assembly and axonemal dynein arms","description":"Top GO terms are dominated by spermatid development and inner dynein arm assembly, which point to the formation of the sperm flagellum and its axonemal motor machinery. Other terms related to microtubule motor activity and vesicle trafficking support the broader cellular context but do not outweigh the flagellum/axosome-centric signal. This suggests a cohesive theme around spermatid flagellum biogenesis and dynein arm assembly.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:2000574","count":2},{"id":"GO:0036159","count":2},{"id":"GO:0006814","count":1},{"id":"GO:0015991","count":1}]},{"hash":"1488134129800443039","title":"Neuronal development and brain morphogenesis","description":"The cluster\u2019s top GO terms are neuron development and brain development, with neuron projection morphogenesis also represented, indicating proteins likely involved in neural development and connectivity. While there are some other terms related to autophagy, ubiquitination, and immune signaling, these appear less central to the cluster\u2019s primary function. Therefore, a neural development-focused label is appropriate.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0034140","count":1},{"id":"GO:0035973","count":1},{"id":"GO:0046328","count":1}]},{"hash":"618353218315830549","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by ribosome-related processes: translation, ribosomal subunit export from the nucleus, small and large subunit assembly, SSU-rRNA maturation, and overall ribosome biogenesis. These terms together suggest a cohesive role in ribosome production and protein synthesis, with a few RNA-processing terms (mRNA splicing) and stress-responsive signals as secondary associations. Confidence: High","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0071549","count":1},{"id":"GO:0006281","count":1}]},{"hash":"1757873485769116277","title":"ER-Golgi Vesicle Transport","description":"The cluster\u2019s top GO terms are dominated by protein transport and vesicle trafficking between the ER, Golgi, endosomes, and synaptic vesicles (ER-Golgi transport, endosome-to-Golgi transport, anterograde transport), pointing to a cohesive role in intracellular trafficking. Some non-transport terms (ubiquitination, histone processes, JNK regulation) may reflect regulatory or moonlighting functions, but the prevailing signal is vesicle movement within the secretory/endomembrane system.","confidence":"Medium","size":7,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0046328","count":1},{"id":"GO:0085020","count":1}]},{"hash":"1049927610350905387","title":"Chromatin acetylation and polyamine metabolism","description":"The cluster contains GO terms tied to acetylation processes (putrescine/spermidine acetylation, histone H4 acetylation) and subtelomeric heterochromatin formation, pointing to chromatin modification via acetylation. Additional terms relate to related metabolic processes (N-acetylglucosamine metabolism) alongside some development terms that are less cohesive. Overall, a unifying theme is chromatin regulation through acetylation and related metabolism.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":6},{"id":"GO:0009447","count":6},{"id":"GO:0032918","count":6},{"id":"GO:0032920","count":6},{"id":"GO:0006044","count":6}]},{"hash":"2111097501825366","title":"Rho GTPase Signaling and Development","description":"The cluster centers on Rho/small GTPase signaling and GPCR-like pathways, linked to mitochondrial fission, calcium-dependent exocytosis, and broad developmental processes (heart, nervous system, skeletal).","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":6},{"id":"GO:0001302","count":6},{"id":"GO:0007266","count":6},{"id":"GO:0000266","count":6},{"id":"GO:0001501","count":6}]},{"hash":"1875661411297238050","title":"Neural development and interneuron migration","description":"The strongest signals are neural-focused: regulation of neuron maturation, positive regulation of dendritic spine development, and embryonic olfactory bulb interneuron precursor migration. Supporting cytoskeletal remodeling cues (Rac signaling, ruffle assembly) suggest actin-driven cell movement and neurite dynamics, fitting a theme of neuronal development, migration, and synaptic maturation. Some terms touch on tissue structure and cell number homeostasis, but neural development dominates the pattern.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048532","count":4},{"id":"GO:0048873","count":4},{"id":"GO:0097178","count":4},{"id":"GO:0021831","count":4},{"id":"GO:0014041","count":4}]},{"hash":"80832949828880065","title":"Unknown","description":"The GO terms touch on lipid signaling, muscle contraction regulation, blood vessel diameter, xenobiotic/stilbene metabolism, LPS biosynthesis, metal ion transport, P450 epoxygenase activity, pheromone-induced cellular fusion, and potassium homeostasis. This breadth shows no single shared function or pathway, suggesting the cluster is heterogeneous or noisy rather than a cohesive biological module.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":3},{"id":"GO:0031448","count":3},{"id":"GO:0097755","count":3},{"id":"GO:0046272","count":3},{"id":"GO:0009103","count":3}]},{"hash":"386543985263794833","title":"Calcium signaling and mitochondrial calcium homeostasis","description":"The Top Terms strongly cluster around calcium handling and signaling, including calcium import/export across membranes and mitochondrial calcium transport plus mitochondrial calcium homeostasis. In addition, calcium-dependent signaling is supported by the protein kinase activation term, and synaptic plasticity terms (LTP/LTD) point to neuronal calcium signaling; the heart contraction term also fits calcium-dependent excitation-contraction coupling. A ribosome biogenesis term appears but is weaker in relation to the dominant calcium-centric theme, so the label emphasizes calcium signaling and calcium management in excitable tissues.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0098703","count":1},{"id":"GO:0060292","count":1},{"id":"GO:0006851","count":1}]},{"hash":"435792400748718333","title":"Cerebellar development and Bergmann glia differentiation","description":"This cluster is strongly linked to cerebellar development, with terms for Bergmann glial cell differentiation and cerebellar cortex formation, suggesting a role in cerebellar neural development and glial specialization. While other terms hint at broader signaling and development, the cerebellum-focused terms provide the most coherent theme.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0060020","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0048679","count":3}]},{"hash":"1150678701635616156","title":"Developmental Growth and Differentiation","description":"The top GO terms center on development and growth (forebrain development, osteoblast differentiation, multicellular organism growth) along with transcription and ribosome biogenesis, suggesting a cluster of genes engaged in developmental programs and growth regulation. While some terms reflect stress or defense, the dominant signal points to developmental differentiation and organogenesis-related processes. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0001649","count":2}]},{"hash":"1325101720983519999","title":"RNA processing and proteostasis","description":"The top GO terms converge on RNA processing (spliceosome-mediated splicing and small-subunit processome assembly) and nuclear quality control/proteostasis (ubiquitin-proteasome\u2013mediated PQC, unfolded protein response, and miRNA-mediated translational repression), suggesting a module that coordinates RNA processing with protein quality control, especially under stress.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0048025","count":1},{"id":"GO:0006626","count":1},{"id":"GO:1905663","count":1}]},{"hash":"1739439630140885631","title":"Auditory synaptic plasticity and vocalization behavior","description":"The top GO terms cluster around synaptic remodeling (positive regulation of synapse structural plasticity, dendritic spine morphogenesis, long-term synaptic depression) and auditory/communication related behaviors (sensory perception of sound, vocalization behavior, social behavior) indicating a neural network involved in hearing and vocal/social communication. Some terms like sterol biosynthesis and obsolete lipid glycosylation appear as noise, but the dominant theme is synapse plasticity in auditory-vocal circuits.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051835","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0071625","count":3},{"id":"GO:0035176","count":3}]},{"hash":"1584227862134583359","title":"Developmental signaling and morphogenesis","description":"The top GO terms point to tissue development and morphogenesis (angiogenesis, face morphogenesis, multicellular organism development) as well as signaling and connectivity (axon extension, long-term synaptic potentiation, calcium release). While some terms are diverse (sperm capacitation, platelet degranulation), the shared theme is proteins involved in developmental signaling and tissue morphogenesis, especially in neural-related contexts. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0051281","count":4},{"id":"GO:0034446","count":3}]},{"hash":"2165010215047660024","title":"Broad transmembrane transporters","description":"The top GO terms cluster around transmembrane transport of diverse substrates (arabinose, nitrite, phosphate, sodium, vitamins, sialic acid, nitrate, xenobiotics) and even vesicular neurotransmitter loading, pointing to a set of membrane transporter proteins with broad substrate specificity rather than enzymes or receptors.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015751","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0098700","count":6},{"id":"GO:0015707","count":6},{"id":"GO:0035435","count":6}]},{"hash":"1059213949153924741","title":"RNA splicing and ribosome biogenesis","description":"The top GO terms cluster around nuclear RNA processing: multiple spliceosome-related splicing terms and small-subunit processome assembly strongly indicate roles in RNA processing and ribosome biogenesis; negative regulation of RNA export from the nucleus further supports a nuclear RNA processing theme. Other terms (e.g., morphogenesis, glucokinase regulation, vitamin B1 response) appear less central to this core function and may reflect broader regulatory connections.","confidence":"Medium","size":6,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033132","count":4},{"id":"GO:0048025","count":2},{"id":"GO:0071301","count":2},{"id":"GO:0071600","count":2},{"id":"GO:1905663","count":2}]},{"hash":"1425495259600629705","title":"Calcium-regulated differentiation and contractile signaling","description":"This cluster\u2019s GO terms center on calcium-dependent signaling influencing differentiation and function across tissues: calcineurin-NFAT signaling, regulation of contraction in cardiac muscle, long-term synaptic potentiation, and EMT/differentiation processes (lung, retina). Although a couple terms are obsolete, the overall theme points to calcium-mediated signaling pathways governing development, differentiation, and muscle/neuronal activity.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1901841","count":2},{"id":"GO:0060487","count":2},{"id":"GO:0010842","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0001837","count":2}]},{"hash":"1098636442900764864","title":"Ubiquitin-mediated transcription and chromatin regulation","description":"The GO terms cluster around ubiquitin-related regulation of transcription and chromatin dynamics (K6-linked ubiquitination, histone turnover/catabolic processes, and autoubiquitination) with supporting signals in JNK pathway regulation and development/immune contexts (spleen development, germinal center formation). The presence of transcriptional repression and histone modification terms suggests a cohesive theme centered on ubiquitin-driven control of gene expression and chromatin state, with some ancillary roles in signaling and immune development. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0048536","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0046328","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0048490","count":3}]},{"hash":"494043456613629993","title":"Embryonic organogenesis and tissue differentiation","description":"This cluster is driven by multiple developmental differentiation terms across tissues (placental/trophoblast differentiation, cartilage morphogenesis, left-right patterning, endocrine system development, EMT in heart cushion formation, pancreatic cell development), pointing to embryonic organogenesis and tissue-specific differentiation programs. An outlier term related to T cell costimulation does not alter the overall developmental theme. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0035270","count":2}]},{"hash":"851458533972977181","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster combines transcription-related GO terms (DNA-templated transcription, RNA polymerase II transcription regulation, preinitiation complex assembly, chromatin remodeling) with diverse developmental terms (harderian gland, trachea/bronchus cartilage development, retinal rod cell differentiation, gallbladder, and gonad development), suggesting proteins that regulate gene expression during development across multiple tissues.","confidence":"High","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0070384","count":5},{"id":"GO:0060534","count":5},{"id":"GO:2000020","count":5},{"id":"GO:0017055","count":5}]},{"hash":"679819361185245275","title":"DNA repair and chromatin regulation","description":"The cluster centers on genome maintenance and chromatin dynamics, with multiple terms for nucleotide-excision repair, translesion synthesis (both error-prone and error-free), subtelomeric heterochromatin formation, and chromatin modification/ubiquitination; these collectively indicate DNA damage response and chromatin state control. Some terms reference unrelated pathways (ABA response, interferon-beta, neuron development), but the dominant signal favors repair and chromatin regulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006348","count":6},{"id":"GO:0042276","count":6},{"id":"GO:0009737","count":6},{"id":"GO:0070911","count":6},{"id":"GO:1990920","count":6}]},{"hash":"996686684324768781","title":"DNA Repair and Chromatin Remodeling","description":"The cluster shows strong ties to genome maintenance, including global genome nucleotide-excision repair and both error-prone and error-free translesion synthesis, as well as subtelomeric heterochromatin formation and histone modification. This suggests a core function in DNA damage response paired with chromatin state regulation, with ubiquitin signaling links (K11-linked ubiquitination) and proteasome localization supporting protein turnover in these pathways. Peripheral terms like ABA and interferon-beta responses may reflect broader signaling contexts but do not override the repair/chromatin theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006348","count":6},{"id":"GO:0042276","count":6},{"id":"GO:0009737","count":6},{"id":"GO:0070911","count":6},{"id":"GO:1990920","count":6}]},{"hash":"479205795142069756","title":"Regulators of signaling, autophagy, and endocytosis","description":"The Top Terms include regulation of transcription by RNA polymerase II, ribosomal subunit assembly, negative/positive regulation of Toll-like receptor signaling, aggrephagy, regulation of clathrin-dependent endocytosis, deglycosylation, and PML body organization. This spread suggests a set of proteins that mainly modulate signaling pathways, cellular quality control (autophagy), and membrane trafficking rather than constituting core enzymatic functions. Thus, labeling them as regulators of signaling, autophagy, and endocytosis captures the common theme of regulatory roles across these pathways.","confidence":"Medium","size":6,"edges":7,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":4},{"id":"GO:0000028","count":4},{"id":"GO:0034140","count":4},{"id":"GO:0035973","count":4},{"id":"GO:1900186","count":4}]},{"hash":"1166549456909194691","title":"Neuroimmune signaling and glial proliferation","description":"This cluster is anchored by terms related to neural-immune communication and glial biology, notably positive regulation of glial cell proliferation, the ERK5 MAPK signaling cascade, and cytokine production (IL-5 and TH2 cytokines). These suggest active signaling between neural/support cells and the immune system. Additional terms point to neural development and barrier formation (somitogenesis, blood-nerve barrier) and cellular organization, which fit a broader neurodevelopmental context but with a strong emphasis on glial/immune signaling. Overall, the common thread is neuroimmune signaling coupled with glial proliferation, though some annotations appear more developmental or chromatin-related. ","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001756","count":3},{"id":"GO:0045415","count":2},{"id":"GO:0008065","count":2},{"id":"GO:0006348","count":2},{"id":"GO:1904781","count":2}]},{"hash":"2295638638822620890","title":"Ubiquitin/SUMO modification and degradation","description":"The proteins cluster around post-translational tagging with ubiquitin and SUMO, including sumoylation, autoubiquitination, and ubiquitin-dependent pathways (ERAD), plus general protein modification by small conjugates. This points to a common role in protein turnover and regulation of gene expression via ubiquitin/SUMO signaling. Although some terms are more peripheral (e.g., fluoride response, specific biosynthetic processes), the dominant theme is ubiquitin/SUMO modification and proteostasis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1903265","count":3}]},{"hash":"2122427003081681583","title":"Neural development and embryogenesis","description":"These proteins show a pattern dominated by developmental processes, particularly neural development and sensory system formation (myelination in the peripheral nervous system, sensory perception of sound, retinal ganglion cell axon guidance) alongside embryogenesis (mesoderm development, primitive streak formation). Some terms relate to transcriptional regulation and stress responses, but the core theme appears to be development and differentiation of neural tissues. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0090009","count":2}]},{"hash":"2239800654572053496","title":"Embryonic development and lineage differentiation","description":"The terms cluster around embryonic development and lineage specification across multiple tissues (neural crest migration, hypothalamus and habenula development, digestive tract morphogenesis, ureteric bud branching, and other differentiation events). This suggests a broad developmental program rather than a single pathway, hence a general label capturing embryogenesis and cell lineage differentiation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043046","count":3},{"id":"GO:0045654","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0048557","count":3}]},{"hash":"1085579246828805497","title":"Neuronal development and synaptic signaling","description":"The GO terms converge on neural development, especially retinal pathways and neural crest/skeletal development, plus neural circuit formation and synaptic function (neurotransmitter secretion, synapse assembly, glutamatergic transmission) and learning-related transcription regulation. This suggests the proteins primarily participate in neural development and synaptic communication.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0051965","count":2},{"id":"GO:0051968","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007612","count":2}]},{"hash":"1885250317309438093","title":"Diverse small-molecule biosynthesis","description":"The terms are dominated by various biosynthetic processes across hormones (estrogen, testosterone, glucocorticoids), lipids (sphingolipids, very long-chain fatty acids, mycolic acids), vitamins/pigments (retinoic acid, tetrahydrobiopterin, melanin), and related metabolites, indicating a broad theme of biosynthesis rather than a single pathway. This cluster appears to group proteins involved in producing a variety of small molecules rather than a single functional module.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006703","count":2},{"id":"GO:0030148","count":2},{"id":"GO:0031427","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0042761","count":2}]},{"hash":"277775646275645331","title":"Planar polarity signaling and axon guidance","description":"The top GO terms cluster around establishing planar polarity, cell\u2013cell adhesion, and axon guidance in neurons, including planar polarity localization, receptor clustering, and dopaminergic/serotonergic axon guidance, with some morphogenesis associations. This points to a core theme of planar polarity signaling intersecting with neural guidance and adhesion.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090251","count":6},{"id":"GO:0050873","count":6},{"id":"GO:0048105","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0036514","count":6}]},{"hash":"1826966828673812768","title":"Unknown","description":"The GO terms span signaling (SMAD), spindle organization, chromatin maintenance, ubiquitin-dependent degradation, RNA export, protein secretion, UV-A response, and viral interactions, with little overlap. This lack of a common functional theme means a concise, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007184","count":1},{"id":"GO:0007051","count":1},{"id":"GO:0035392","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0006405","count":1}]},{"hash":"350174674616383486","title":"Ubiquitin-Mediated Signaling Regulation","description":"The cluster centers on ubiquitination events (K6-linked ubiquitination, autoubiquitination) and regulation of signaling pathways (JNK cascade, NF-kappaB\u2013inducing kinase activity), aligning with ubiquitin-driven control of growth, differentiation, and stress signaling. Some other GO terms (peroxisome import, histone turnover) are present but less central to the main theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030154","count":2},{"id":"GO:0046621","count":2},{"id":"GO:1900095","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0085020","count":2}]},{"hash":"1432617760757773544","title":"Ubiquitination-driven regulation of MAPK and Wnt signaling","description":"The cluster centers on ubiquitin-related processes (monoubiquitination, K63-linked ubiquitination, autoubiquitination, and ubiquitin-dependent proteolysis) and regulation of key signaling pathways (JNK/MAPK, ERK, and canonical Wnt), plus associated apoptosis and development terms, suggesting proteins that modulate signaling via ubiquitination to influence cell fate and development.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0090263","count":5},{"id":"GO:0006513","count":5},{"id":"GO:0042787","count":5}]},{"hash":"68948670298891562","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1902525","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0007200","count":3},{"id":"GO:0007568","count":3}]},{"hash":"1457012768642403818","title":"Actin Cytoskeleton Remodeling and Endocytosis","description":"Proteins in this cluster are enriched for actin dynamics and membrane trafficking: positive regulation of actin filament polymerization, ruffle and podosome assembly, and endocytosis, along with related adhesion and synaptic plasticity processes. The common theme is actin-driven membrane remodeling and trafficking that coordinate protrusions, spreading, and uptake.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":6},{"id":"GO:0006897","count":6},{"id":"GO:0097178","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0071803","count":6}]},{"hash":"250392741061851431","title":"ER-Golgi vesicle transport","description":"Top GO terms are dominated by ER-to-Golgi and Golgi-to-ER vesicle transport, suggesting these proteins function in the secretory pathway between the endoplasmic reticulum and Golgi. While other terms touch on cell cycle, transcription, growth, and stress responses, the vesicle trafficking signal is the strongest, supporting a label focused on ER-Golgi transport rather than broader processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0035264","count":4}]},{"hash":"1620734368119361195","title":"Signaling and cytoskeletal regulation","description":"The terms cluster around regulation of signaling pathways (Wnt, JNK, MAPKK), phosphorylation, protein stability, and cytoskeleton/adhesion dynamics (actin remodeling, focal adhesions). This suggests proteins in this group coordinate signal transduction with cytoskeletal remodeling, with dopamine signaling as an additional context. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":6},{"id":"GO:1903351","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0051893","count":6},{"id":"GO:0033138","count":6}]},{"hash":"1494897459410415587","title":"Embryonic Development and Mitotic Regulation","description":"This cluster centers on developmental processes (spinal cord development, epithelial differentiation, embryonic regulation) and cell cycle control (regulation of mitotic cell cycle, G2/M transition, meiosis I), suggesting proteins that coordinate growth/differentiation with cell division. Some terms related to tRNA modification and cofactor biosynthesis appear but seem less central to the main theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009794","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0032467","count":4},{"id":"GO:0030855","count":4},{"id":"GO:0006777","count":4}]},{"hash":"1767198543330030700","title":"Wound healing and skin barrier remodeling","description":"The top GO terms coalesce around epidermal differentiation (keratinization) and wound repair (wound healing, coagulation), plus cell adhesion and shape regulation (integrin biosynthesis, regulation of cell shape). Immune involvement (leukocyte migration in inflammation) and signaling processes (nitrosylation, calcium channel activity) support coordinated barrier restoration; some neural terms likely reflect broader calcium signaling roles. Confidence: Medium","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042060","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0030194","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0008360","count":1}]},{"hash":"840060371145561545","title":"DNA replication, transcription, and repair cluster","description":"The top GO terms are dominated by nuclear DNA processes: DNA-templated transcription, DNA replication, and DNA repair, with mitotic cell cycle also present, pointing to proteins involved in genome maintenance and cell-cycle control. A secondary term about peroxisomal protein import hints at possible ancillary roles or multifunctionality, but the core theme centers on DNA maintenance. Some outlier terms (chemotaxis, rhythmic process, phorbol ester response) seem less related and may reflect annotation noise or broader cellular roles.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1745070676121784892","title":"Nuclear Spliceosome Assembly and mRNA Processing","description":"Based on the predominant GO terms, this cluster is enriched for spliceosomal complex assembly, mRNA splicing via spliceosome, and snRNP assembly, with supporting signals for nuclear import and nuclear mRNA decapping. This points to core involvement in RNA processing and maturation within the nucleus, especially spliceosome-related activities. Some other terms relate to transcription termination and chromatin-related processes, but the strongest theme is spliceosome assembly and nuclear RNA metabolism.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0051170","count":4},{"id":"GO:0000290","count":4},{"id":"GO:1990141","count":4}]},{"hash":"1188828329998659093","title":"Bacterial LPS and rhamnose biosynthesis","description":"The dominant terms point to lipopolysaccharide biosynthesis and rhamnose-related sugar production (UDP- and GDP-rhamnose) with inner-core precursor biosynthesis (ADP-L-glycero-beta-D-manno-heptose), suggesting a cohesive theme of bacterial surface polysaccharide and lipid assembly. Some terms (e.g., hair follicle development, cytolysis) appear unrelated noise, but the core pattern is LPS- and rhamnose-related biosynthesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008611","count":2},{"id":"GO:0001942","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0019835","count":2}]},{"hash":"1667165150908217950","title":"Diverse lipid and pigment biosynthesis","description":"The top GO terms point to a wide range of biosynthetic processes: estrogen, testosterone, and glucocorticoid biosynthesis (steroid lipids), sphingolipid and very long-chain fatty acid biosynthesis (lipids), mycolic acid biosynthesis (bacterial lipids), retinoic acid biosynthesis, melanin biosynthesis, and other cofactor/pigment-related pathways. This suggests the proteins participate in multiple, lipid- and pigment-related biosynthetic routes rather than a single, cohesive pathway. Therefore, a label like Diverse lipid and pigment biosynthesis captures the shared theme without overcommitting to one specific pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006703","count":2},{"id":"GO:0030148","count":2},{"id":"GO:0031427","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0042761","count":2}]},{"hash":"2145826467057437426","title":"Lipid and carbohydrate metabolism","description":"The top GO terms cluster around glycogen biosynthesis, carnitine biosynthetic/metabolic processes, fatty-acyl-CoA biosynthesis, and medium-chain fatty acid catabolism, indicating a focus on energy metabolism via lipids and carbohydrates. Some terms related to development or cold response appear less central and may reflect broader physiology or annotation noise, but the core signal is metabolic energy pathways.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:1904070","count":2},{"id":"GO:0045329","count":2},{"id":"GO:0009409","count":2},{"id":"GO:0019254","count":2}]},{"hash":"1829249189315088274","title":"Redox Detoxification and Oxidative Stress Response","description":"The top GO terms cluster around redox biology and oxidative stress defense, including removal of superoxide radicals, hydrogen peroxide catabolic process, cellular oxidant detoxification, peptidyl-cysteine oxidation, and cytochrome complex assembly, with related stress signaling (MAPK cascade) and erythrocyte/homeostasis context. Despite an outlier term (male gonad development), the dominant theme is redox detoxification and oxidative stress response, suggesting proteins in this cluster collaborate in managing reactive oxygen species and mitochondrial redox processes.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0019430","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0017004","count":4}]},{"hash":"816488436835798037","title":"Developmental transcription regulators","description":"This cluster centers on GO terms for DNA-templated transcription and various differentiation processes (forebrain, trophoblast, hepatocyte, adipocyte), plus cell cycle-related terms and modulation of DNA binding, suggesting a set of transcriptional regulators guiding development and proliferation. The presence of some stress/apoptosis-related terms (p53-mediated signaling) also fits with regulatory decisions during differentiation. Note that glucosinolate metabolism is plant-specific and may reflect annotation noise, but the dominant theme remains transcriptional control of development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0060718","count":2},{"id":"GO:0043392","count":2}]},{"hash":"553638751221349635","title":"Chromatin Modification and Nucleosome Assembly","description":"This cluster centers on histone modifications (H3K27me3, H3K4me3, H3K4me2) and nucleosome assembly, with links to transcriptional regulation near gene promoters and heterochromatin formation. Additional terms point to germ cell differentiation (spermatid nucleus) and hormonal regulation (estradiol), suggesting an epigenetic and chromatin-state control theme relevant to gene expression and development. Confidence in this being the core theme is High.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098532","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0045793","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0044648","count":2}]},{"hash":"1948877312881936489","title":"Wnt signaling in development and tissue formation","description":"Dominant theme is developmental signaling and tissue organization, highlighted by GO terms for Wnt signaling, skin development, multicellular organism development, cell adhesion, and growth. The presence of related terms like hypoxia response and apoptosis suggests possible stress-related regulation, but the core cluster centers on morphogenesis and tissue organization.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0001666","count":2}]},{"hash":"1225704679119224293","title":"Unknown","description":"The GO terms span diverse processes from signaling and cytoskeletal remodeling to immune responses and broad developmental events, with no clear shared function or localization tying the proteins together, and there are no observed edges to suggest a cohesive pathway. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0060789","count":2}]},{"hash":"407151836257190657","title":"Notch signaling and ubiquitin-dependent proteolysis","description":"The top GO terms point to the Notch signaling pathway together with ubiquitination-related processes (polyubiquitination and ubiquitin-dependent protein catabolic process), suggesting proteins in this cluster participate in Notch signaling regulation and ubiquitin-mediated degradation. Several other terms are obsolete or auxiliary, likely reflecting background annotations rather than core function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0034396","count":1}]},{"hash":"327024976389638054","title":"Neurodevelopment and tissue morphogenesis","description":"The top GO terms point to neural development (associative learning, CNS morphogenesis, axon extension) alongside broader morphogenesis and tissue formation processes (epithelial cell-cell adhesion, digestive tract development, receptor clustering, collagen catabolic regulation, angiogenesis in wound healing). While some terms like symbiont entry into host cell are outliers, the overall theme centers on development and neural/tissue morphogenesis, suggesting a cluster tied to developmental processes with neural emphasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008306","count":3},{"id":"GO:0060055","count":2},{"id":"GO:0021551","count":2},{"id":"GO:0090136","count":2},{"id":"GO:0048565","count":2}]},{"hash":"788708389109980841","title":"Actin dynamics and neurite signaling","description":"The terms cluster around actin cytoskeleton dynamics (actin filament polymerization, lamellipodium/bundle assembly, stress fiber regulation), suggesting proteins modulating actin remodeling. The inclusion of neuronal growth signals (BDNF response, neurotrophin TRK signaling) points to a role in neurite outgrowth and neuronal signaling, with additional differentiation-related terms (myelination, megakaryocyte development) likely reflecting cytoskeletal roles in lineage maturation.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":1},{"id":"GO:1990416","count":1},{"id":"GO:0051388","count":1},{"id":"GO:0032233","count":1},{"id":"GO:1903526","count":1}]},{"hash":"912276949850834048","title":"RNA Polymerase III Transcription Machinery","description":"The top GO terms are dominated by RNA polymerase III\u2013related processes (transcription by Pol III, preinitiation complex assembly, 5S rRNA transcription, and regulation of Pol III transcription), suggesting the cluster centers on Pol III transcription machinery. A few outlier terms (interferon response, left/right patterning, melanocyte differentiation, PPAR signaling) appear only sparsely and do not define the cluster\u2019s core function.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001041","count":1},{"id":"GO:0001021","count":1},{"id":"GO:0001009","count":1},{"id":"GO:0042791","count":1},{"id":"GO:0006359","count":1}]},{"hash":"1452391650568889845","title":"Unknown","description":"The terms span diverse biological areas (development, immune signaling, neurotransmitter response) with no clear, shared function tying the proteins. Without a coherent theme, a confident, specific label cannot be assigned.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0048833","count":2},{"id":"GO:1903351","count":2},{"id":"GO:0035564","count":2},{"id":"GO:1902350","count":2}]},{"hash":"2220756369250974345","title":"Neural signaling and mitochondrial ion transport","description":"The cluster is driven by GO terms related to neuronal communication (neuron-neuron synaptic transmission), learning, and fear response, indicating a neural signaling theme. It also includes mitochondrial ion handling terms (calcium import into the mitochondrion, protein import into the mitochondrial matrix) and monoatomic anion transport, suggesting a link between neural activity and mitochondrial ion regulation. Some terms like fin regeneration and epithelial differentiation are broader contexts, but the core signal points to neural function with mitochondrial transport.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006820","count":1},{"id":"GO:2000378","count":1},{"id":"GO:0007270","count":1},{"id":"GO:1903959","count":1},{"id":"GO:0031101","count":1}]},{"hash":"1348019642712556892","title":"Chromatin and ribosome biogenesis","description":"This cluster is dominated by nuclear processes, with multiple GO terms tied to chromatin organization and assembly (e.g., silent mating-type cassette heterochromatin formation and DNA replication-dependent chromatin assembly) and ribosome production (ribosome biogenesis, maturation of LSU-rRNA, and export of the large ribosomal subunit). These points suggest a cohesive theme around nuclear genome organization and the production/assembly of ribosomes, potentially linked to cell-cycle progression. A few vesicle-transport and lysosome-targeting terms appear but are less representative of the main signal. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0010971","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000463","count":1}]},{"hash":"2087975501203256383","title":"Nuclear RNA processing and export","description":"The GO terms are dominated by RNA-related processes involving nuclear RNA maturation and transport\u2014pre-miRNA export, tRNA processing, ribosomal subunit export, and post-transcriptional gene silencing regulation\u2014along with splicing factor import, which collectively point to RNA biogenesis and nucleocytoplasmic trafficking. Some terms like phototaxis or polarity are less cohesive with this theme, so the core signal remains RNA processing/export. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035281","count":2},{"id":"GO:0010824","count":2},{"id":"GO:1900370","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0035048","count":2}]},{"hash":"1161811920663388476","title":"Neuronal development and synaptic plasticity","description":"The cluster centers on neural development and synaptic signaling: hippocampus development, axonogenesis, ephrin receptor signaling, long-term synaptic potentiation, and calcium-dependent exocytosis converge on neuronal connectivity and synaptic modulation. While a couple terms are broader (visual perception, mitotic cell cycle), the predominant themes reflect neuron growth and synaptic regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0007409","count":6},{"id":"GO:0048013","count":6},{"id":"GO:0045956","count":6}]},{"hash":"241853520965931651","title":"Unknown","description":"GO terms are mixed across immunity, cytoskeleton regulation, development, adhesion, and various unrelated processes, with no clear single function tying the proteins together. The cluster cannot be named with a coherent, high-level function. ","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0048833","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1275561677827942810","title":"Chaperone-Mediated Protein Folding","description":"The top GO terms cluster around misfolded protein detection, protein refolding, and cofactor-dependent/independent chaperone activities, pointing to a core function in protein quality control governed by molecular chaperones. Some immune-related terms are present but appear peripheral to the primary folding theme.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":4},{"id":"GO:0002236","count":4},{"id":"GO:0051085","count":4},{"id":"GO:0048291","count":4},{"id":"GO:0042026","count":4}]},{"hash":"1366978881131198246","title":"Nucleotide metabolism and biosynthesis","description":"The top GO terms cluster around nucleotide processing and synthesis (AMP salvage, ADP/CDP and nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, NAD+ biosynthesis), indicating a cohesive theme of nucleotide metabolism. A couple terms about brain and liver development appear, but the dominant signal supports a metabolism-focused function. ","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0046939","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0046041","count":3}]},{"hash":"1522637799411247119","title":"Embryonic cell fate specification","description":"The top GO terms span neuronal development, primitive streak formation, ectodermal fate, angioblast/hemangioblast differentiation, and hematopoietic (granulocyte) differentiation, plus transcriptional regulation, indicating a set of proteins involved in guiding multiple lineages during early embryogenesis rather than a single pathway. This supports labeling as embryonic cell fate specification.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048935","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0010455","count":3},{"id":"GO:0060217","count":3}]},{"hash":"1489717636137264387","title":"Unknown","description":"The GO terms cover diverse processes including unfolded protein response, glucocorticoid signaling, epithelial differentiation and EMT, DNA repair, spindle-kinetochore attachment, T cell homeostasis, NFAT signaling, and glycogen regulation, which do not point to a single coherent biological function or pathway. This lack of a unifying theme suggests the cluster is not functionally cohesive. ","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":5},{"id":"GO:2000324","count":5},{"id":"GO:0060487","count":5},{"id":"GO:0001837","count":5},{"id":"GO:0010791","count":5}]},{"hash":"2180902100176393576","title":"Neuronal development and synaptic adhesion","description":"The cluster centers on neural-related functions: nervous system development, sensory perception of sound, and neuroligin clustering at postsynaptic membranes, plus heterophilic cell-cell adhesion and postsynaptic membrane assembly. This pattern suggests involvement in neuron differentiation and synapse formation/adhesion. A few terms such as blood vessel maturation and melanin biosynthesis appear as less-connected annotations and do not override the neural signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0001955","count":3},{"id":"GO:0048023","count":3}]},{"hash":"2302764755295449376","title":"Systemic stress responses and homeostatic regulation","description":"This cluster aggregates GO terms spanning temperature-related responses, pain perception, circulatory and neuroendocrine regulation (dopamine signaling, renin, vasopressin), gastrointestinal secretion, and development, pointing to broad systemic regulation and stress adaptation rather than a single pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0060160","count":3}]},{"hash":"1356016893797024221","title":"Unknown","description":"The GO terms are highly diverse, spanning yeast-specific processes (pseudohyphal growth, Cvt autophagy, exocyst regulation, cytogamy), general protein turnover (ubiquitination), and animal neural development (interneuron migration, neuron fate determination), plus immune-related terms (lymphocyte aggregation). There is no clear, single functional theme connecting these proteins, so a generic Unknown label with None confidence is appropriate.","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000222","count":2},{"id":"GO:0032966","count":2},{"id":"GO:0021830","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0060178","count":2}]},{"hash":"1709643917524220218","title":"Embryonic neural and organ morphogenesis","description":"These proteins share GO terms centered on developmental processes and neural/organ morphogenesis, including embryonic forelimb morphogenesis, peripheral nervous system neuron development, neuromuscular process, neuron differentiation, and various organ morphogenesis terms (digestive tract, renal vesicle). While a couple terms (sulfur oxidation, glucocorticoid signaling) are less directly related, the dominant theme is embryonic development and neural/organ patterning, supporting this label.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":3},{"id":"GO:0048935","count":3},{"id":"GO:0048565","count":3},{"id":"GO:0019417","count":3},{"id":"GO:2000324","count":3}]},{"hash":"2018069308240566152","title":"Neural development and axon guidance signaling","description":"Most terms point to neural development and connectivity, including dendrite self-avoidance, axon extension regulation, retina morphogenesis, and guidance-related processes, supported by shared signaling pathways (MAPK, PI3K/AKT) and cell adhesion signaling; some endocrine/immune pathways are ancillary but reflect broad signal transduction.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2001108","count":5},{"id":"GO:0038161","count":5},{"id":"GO:0036060","count":5},{"id":"GO:0048692","count":5},{"id":"GO:0034446","count":5}]},{"hash":"1343522202632713419","title":"Unknown","description":"The GO terms are highly diverse, covering lipid response, coagulation and vascular regulation, macrophage differentiation, protein secretion/homooligomerization, ERK signaling regulation, fat cell differentiation, glucose import, and inner ear development. There isn\u2019t a single cohesive function or pathway tying these proteins together, so a specific, representative label isn\u2019t apparent.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070543","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0045776","count":1},{"id":"GO:0045650","count":1},{"id":"GO:0009306","count":1}]},{"hash":"791533809554058509","title":"Neural and retinal development","description":"The proteins are mainly annotated with neural and retinal development terms, including retina development, forebrain/brain development, and retinal ganglion cell axon guidance, plus actin filament depolymerization consistent with cytoskeletal changes during neurite outgrowth. While a couple terms relate to fertilization or gonad development, the dominant theme is neural/retinal development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030042","count":3},{"id":"GO:0030579","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007338","count":3}]},{"hash":"1627144685587171739","title":"Cardiac Development and Contraction Regulation","description":"This cluster is dominated by GO terms related to heart formation and heart muscle function, including heart morphogenesis, ventricular and trabecula formation, and regulation of cardiac conduction and calcium-release channel activity (ryanodine receptor). While some terms touch on insulin secretion and general protein refolding, the strongest signal is cardiac development and the regulation of excitation-contraction coupling. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042026","count":3},{"id":"GO:0030073","count":3},{"id":"GO:0060347","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0055010","count":3}]},{"hash":"1665276209385345916","title":"Vertebrate embryonic development and organ morphogenesis","description":"The top GO terms cluster around embryogenesis and organ formation, with multiple entries for primitive streak formation, limb and forelimb morphogenesis, digestive tract and renal vesicle morphogenesis, and neural development, plus growth hormone receptor signaling and somatotropin-secreting cell development supporting embryonic endocrine development. A few terms (like sulfur oxidation) appear as outliers, but the dominant pattern points to vertebrate development and organogenesis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":4},{"id":"GO:0048935","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0035115","count":2}]},{"hash":"1742718631397636324","title":"SUMO- and ubiquitin-mediated regulation of ciliary proteins","description":"This cluster is enriched for ubiquitination and SUMOylation processes (ubiquitin-dependent catabolic process, autoubiquitination, K63-linked ubiquitination, protein sumoylation) and includes ciliary-related terms (non-motile cilium assembly, localization to photoreceptor outer segment). The presence of PML body organization further supports a SUMO-centric regulatory theme. Taken together, a plausible common function is regulation of ciliary proteins by ubiquitin/SUMO pathways.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0016925","count":2},{"id":"GO:0030578","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0051865","count":2}]},{"hash":"2302256883126437150","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms show a strong enrichment for ubiquitination-related processes\u2014ubiquitin-dependent protein catabolic process, protein ubiquitination and polyubiquitination, and ubiquitin-related ERAD, as well as histone ubiquitination. This points to a cohesive function for this cluster centered on tagging proteins (and histones) for degradation and regulating degradation pathways; even terms touching JNK signaling are tied to ubiquitin-mediated regulation. The lack of edges does not contradict this theme, as the proteins appear to share a common role in ubiquitin conjugation, turnover, and chromatin remodeling via histone ubiquitination.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0000209","count":2}]},{"hash":"63922407524596170","title":"Ubiquitin-regulated nucleocytoplasmic transport","description":"The top GO terms cluster around ubiquitin-dependent processes (monoubiquitination; ubiquitin-dependent endocytosis; MVB sorting) and nucleocytoplasmic transport (regulation of mRNA export, ribosomal large subunit export, rRNA processing). This suggests a functional theme of protein turnover and trafficking coordinated at the nucleus and endomembrane system. Some terms like GTPase activity and glucocorticoid signaling are broader regulatory layers that can intersect with these pathways but are less central.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:2000232","count":3},{"id":"GO:0002669","count":3},{"id":"GO:0010793","count":3},{"id":"GO:0032443","count":3}]},{"hash":"1720554664680372834","title":"Fc receptor signaling and phagocytosis","description":"The dominant GO terms point to Fc-gamma receptor signaling, basophil activation, phagocytosis recognition, and related immune signaling, suggesting the proteins function primarily in Fc receptor\u2013mediated immune activation and phagocytic responses. Some development-related terms appear as less central outliers, but the core theme is immune activation via Fc receptors and phagocytosis.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":5},{"id":"GO:0045575","count":5},{"id":"GO:0038094","count":5},{"id":"GO:0090238","count":5},{"id":"GO:0072177","count":5}]},{"hash":"1805793234356390186","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:1902525","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000462","count":4},{"id":"GO:0007200","count":4}]},{"hash":"1554938890658195258","title":"Chromatin regulation and spermatid differentiation","description":"These proteins show a pattern of epigenetic control and chromatin remodeling: negative regulation of transcription by RNA polymerase II, multiple histone modifications (H3-K27 methylation/acetylation, H3-K4 methylation/dimethylation, H3-K23 acetylation), and nucleosome assembly. The presence of the spermatid nucleus differentiation term supports a role in chromatin remodeling during spermatogenesis, suggesting a chromatin-regulatory function for this cluster. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0061087","count":2},{"id":"GO:1901674","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0043972","count":2}]},{"hash":"413878185321710472","title":"Unknown","description":"The GO terms span neuronal signaling (long-term synaptic potentiation; positive regulation of voltage-gated calcium channel activity) and diverse development-related processes (lung epithelial differentiation; retina layer formation; epithelial to mesenchymal transition), plus cell shape regulation, karyogamy, and autophagy, with no clear single function tying them together. This appears as a heterogeneous mix rather than a cohesive cluster function.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0060291","count":2},{"id":"GO:1901841","count":2},{"id":"GO:1901387","count":2},{"id":"GO:0060487","count":2}]},{"hash":"2160669080530243226","title":"mRNA Splicing and Processing Regulation","description":"This cluster is dominated by GO terms for spliceosome-mediated splicing, its regulation, and related RNA processing steps such as mRNA export, translational initiation control, and surveillance (NMD). The co-occurrence of regulatory splicing terms with export and decay hints at proteins that coordinate mRNA maturation and quality control in the nucleus, fitting a cohesive post-transcriptional regulation theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0045292","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0006406","count":3}]},{"hash":"208710601968389447","title":"DNA replication and ribosome biogenesis","description":"These proteins cluster around core genome maintenance and ribosome production processes. Dominant GO terms include DNA replication, DNA recombination, SOS response, transcription initiation, and nucleolar rRNA transcription and preribosome assembly, suggesting roles in genome maintenance coupled with ribosome biogenesis. Some terms like hair cell differentiation and obsolete histone exchange appear as outliers but do not define the cluster.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":5},{"id":"GO:0009432","count":5},{"id":"GO:0043486","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006310","count":4}]},{"hash":"363731326889462102","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1769591152618298788","title":"Metanephric kidney development","description":"The top GO terms are dominated by nephrogenesis and morphogenesis of the metanephros (pronephric/metanephric development, glomerulus and basement membrane formation), indicating a coherent kidney development theme. A few neural development terms are present but ancillary, so the primary function represented by this cluster appears to be kidney development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008045","count":3},{"id":"GO:0039022","count":2},{"id":"GO:0072075","count":2},{"id":"GO:1900212","count":2},{"id":"GO:0039021","count":2}]},{"hash":"60038244662897222","title":"RNA transcription and processing machinery","description":"This cluster is driven by GO terms tied to RNA synthesis and RNA processing components, including RNA polymerase II/III assembly and regulation of transcription elongation, as well as mRNA surveillance features like nonsense-mediated decay and exon junction complex disassembly. While a few terms refer to broader processes (protein folding, tubulin assembly), the strongest signal points to nuclear gene-expression machinery. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:1903215","count":2},{"id":"GO:1903259","count":1},{"id":"GO:0000184","count":1},{"id":"GO:0032968","count":1}]},{"hash":"569322712152887772","title":"Centrosome and mitotic spindle organization","description":"Most prominent terms cluster around cell division, centrosome duplication, and astral microtubule organization, pointing to a mitotic apparatus\u2013related function. Secondary terms like mRNA export and ATP synthesis reflect general cellular housekeeping rather than a specific pathway, but do not override the main theme. Confidence is high that this label captures the core function of the cluster.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0015986","count":2},{"id":"GO:0010824","count":2},{"id":"GO:0030953","count":2}]},{"hash":"547166902756297952","title":"Collagen Biosynthesis and ECM Remodeling","description":"Top GO terms are dominated by collagen fibril organization and collagen biosynthetic process, with wound healing and negative regulation of cell-matrix adhesion also represented. This strongly suggests a connective tissue\u2013focused cluster centered on extracellular matrix formation and remodeling, particularly collagen-based processes. Occasional terms related to development and nervous system myelination appear, but the core signal is collagen/ECM biology.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0032964","count":3},{"id":"GO:0035313","count":2},{"id":"GO:0001953","count":2},{"id":"GO:2000309","count":2}]},{"hash":"1093598417464084765","title":"Ubiquitin-dependent proteolysis in antiviral immunity","description":"This cluster is dominated by ubiquitin-mediated protein degradation terms (K63-linked ubiquitination, ERAD, autoubiquitination) and innate antiviral defense signals, with JNK pathway regulation suggesting related stress signaling; a few unrelated terms exist but the core theme ties to ubiquitin turnover in immune defense.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3}]},{"hash":"2276839879597789967","title":"Unknown","description":"The GO terms span neuronal development (neuron fate determination, interneuron migration), trafficking and localization (exocyst regulation, Cvt/autophagy), protein modification (ubiquitination), and other unrelated processes (cytogamy, lymphocyte aggregation, collagen biosynthesis), with no single cohesive function tying the cluster together. Therefore a meaningful, unique label cannot be assigned with confidence.","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":5},{"id":"GO:0032966","count":5},{"id":"GO:0021830","count":5},{"id":"GO:0032258","count":5},{"id":"GO:0060178","count":5}]},{"hash":"1405267975584054694","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0048025","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0033129","count":2}]},{"hash":"2291431205345470255","title":"Developmental gene expression and chromatin modification","description":"This cluster centers on developmental processes (atrial septum morphogenesis, left/right pattern formation, trophoblast differentiation, endocrine development) and genes involved in regulating expression (DNA-templated transcription, mRNA splicing) and chromatin state (histone modifications). The combination suggests proteins functioning in coordinating developmental programs through transcriptional control and epigenetic regulation. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003289","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0034771","count":1},{"id":"GO:0000398","count":1},{"id":"GO:1901674","count":1}]},{"hash":"45567869793137122","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060059","count":4},{"id":"GO:0072163","count":4},{"id":"GO:0010838","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0070121","count":4}]},{"hash":"1073627255133283389","title":"Mitochondrial RNA Methylation and Transcription Regulation","description":"The dominant GO terms point to RNA modification (protein, rRNA, and tRNA methylation) and mitochondrial gene expression control (regulation and initiation of mitochondrial transcription, plus maturation of mitochondrial SSU rRNA). This cohesive set suggests a cluster centered on mitochondrial RNA processing and transcriptional regulation, with only minor peripheral terms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006479","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0030488","count":2},{"id":"GO:1903108","count":2},{"id":"GO:0006391","count":2}]},{"hash":"240877749288769732","title":"Neuronal development and cell adhesion","description":"The top GO terms are dominated by neuronal development processes (axon guidance, synapse assembly, neural crest migration) and general cell adhesion, suggesting a cluster involved in neural connectivity and developmental cell interactions. Some terms (immunoglobulin production, symbiont entry into host cell) are less aligned and may reflect broader adhesion-related roles or dataset noise, but the main signal points to neuronal development and adhesion.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007411","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0032516","count":3}]},{"hash":"42445037089432223","title":"Cerebral Cortex Development and Neural Plasticity","description":"Top GO terms center on brain development and neural connectivity (cerebral cortex development, neuron migration, regulation of synaptic plasticity), with a few incidental skin-related or trafficking terms. The shared theme among the core terms suggests a neural development/plasticity focus, justifying this label.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0003334","count":3},{"id":"GO:0051291","count":3},{"id":"GO:1902309","count":3},{"id":"GO:0048167","count":3},{"id":"GO:0001764","count":3}]},{"hash":"1847085956370075194","title":"Immune cell development and cytokine signaling","description":"This cluster\u2019s top GO terms are dominated by immune system development and cytokine-mediated processes, including thymic T cell selection, immunoglobulin production, response to interleukin-12, and regulation of TNF production. Additional terms touch on apoptosis and stress responses, but the strongest signal points to immune development and signaling pathways, suggesting the proteins collectively relate to immune cell maturation and inflammatory regulation, rather than a single other clear function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0002377","count":2},{"id":"GO:0051882","count":2},{"id":"GO:0035234","count":2},{"id":"GO:0042534","count":2}]},{"hash":"824205876462294520","title":"RNA and protein methylation","description":"This cluster centers on multiple methylation-related processes (tRNA methylation, N-terminal peptidyl-serine trimethylation, peptidyl-glutamine methylation) and ribosome biogenesis, suggesting a common theme of RNA/protein modification by methylation. Some other terms (stress responses, sterol/polyamine metabolism) appear less directly connected and may reflect annotation noise, but the methylation signal is the strongest cohesive thread here.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0016126","count":1},{"id":"GO:0035902","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0018364","count":1}]},{"hash":"1725691463845985386","title":"Neural differentiation and apoptotic signaling","description":"The top GO terms converge on neural development (neuron differentiation, stem cell differentiation) and apoptosis-related processes (execution phase of apoptosis, apoptotic process) with signaling pathways such as JNK/JUN and Wnt regulation, suggesting a theme of neural differentiation coupled with stress/apoptotic signaling, even though the cluster has no internal edges.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0097194","count":2},{"id":"GO:0046328","count":2}]},{"hash":"273244630638086049","title":"Clathrin-mediated endocytosis and actin dynamics","description":"The cluster shows strong signals for intracellular protein transport and clathrin-dependent endocytosis, with actin filament polymerization and regulation of cell shape, suggesting vesicle trafficking tightly coordinated with the cytoskeleton. Some terms touch mitotic spindle localization and actomyosin ring localization, but the core theme remains endocytosis-associated trafficking and actin remodeling.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0016183","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0030041","count":1},{"id":"GO:0008360","count":1}]},{"hash":"1909970970693711685","title":"Developmental signaling and morphogenesis regulation","description":"The top GO terms cluster around developmental processes such as bone development and axonogenesis, with negative regulation of protein kinase activity as a common regulatory mechanism, plus related processes like angiogenesis inhibition. This points to a theme of controlling growth and patterning through signaling regulation during development. Additional terms related to dopamine response and immune signaling suggest broader regulatory roles, but the core pattern appears to be developmental signaling control rather than a single, specific pathway.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060348","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0007409","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0019800","count":5}]},{"hash":"2215749678134754723","title":"Proteasome-Mediated Ubiquitination and Cell Cycle Control","description":"The cluster is dominated by ubiquitin-dependent proteolysis terms (SCF- and APC/C-mediated), indicating a group of proteins involved in tagging substrates for degradation and regulating the cell cycle, with additional links to transcriptional and oligomerization processes that may be downstream or co-associated.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031145","count":3}]},{"hash":"1311044395259430548","title":"Unknown","description":"The GO terms are too diverse to reveal a single cohesive function: mitosis and chromatin-related terms coexist with stress responses, signaling, and ciliary motility, giving no clear common theme. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007091","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0060296","count":2}]},{"hash":"1560751126789258539","title":"Protein folding and quality control","description":"Dominant GO terms center on proteostasis: response to unfolded protein, protein folding in the endoplasmic reticulum, and nuclear protein quality control by the ubiquitin-proteasome system, with accompanying heat-stress responses. Peripheral terms like DNA replication and tRNA import into the nucleus suggest some multifunctionality or annotation noise. Overall, the cluster seems to group proteins involved in folding and degradation to maintain proteostasis under heat stress, spanning ER and nuclear compartments.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0071630","count":1}]},{"hash":"842624750299425696","title":"RNA processing and mRNA surveillance","description":"The proteins in this cluster are linked mainly to RNA metabolism, including splicing (spliceosome-mediated), rRNA maturation, and nonsense-mediated decay. While a few terms touch on signaling or developmental polarity, the strongest shared themes are RNA processing and mRNA quality control, making this label most representative of the cluster\u2019s function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0032508","count":2}]},{"hash":"1890262411301180115","title":"Lipid biosynthesis and remodeling","description":"Most terms describe lipid metabolism and membrane remodeling (ether lipids, triglycerides, cardiolipin and phosphatidylcholine remodeling) and mitochondria-associated energy production, with platelet-activating factor biosynthesis and related signaling. A couple of immune-related terms (IL-2 production, T cell regulation) also connect to lipid signaling, but the lipid theme is strongest.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002071","count":4},{"id":"GO:0008611","count":4},{"id":"GO:0019432","count":4},{"id":"GO:0042775","count":4},{"id":"GO:0035965","count":4}]},{"hash":"1016410244649243221","title":"DNA Replication and Repair","description":"GO terms cluster around DNA replication, repair, and damage tolerance, including nucleotide-excision repair, UV response, and translesion synthesis, suggesting a cohesive module of DNA replication/repair machinery and damage response.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0071897","count":2},{"id":"GO:0006261","count":2},{"id":"GO:0006297","count":2},{"id":"GO:0032508","count":2}]},{"hash":"130502868699330866","title":"Skeletal muscle excitation-contraction and ion transport","description":"The Top Terms show a clear emphasis on skeletal muscle functions, including T-tubule organization and positive regulation of fast-twitch skeletal muscle fiber contraction, along with calcium ion transport from cytosol to the endoplasmic reticulum and potassium ion export across the plasma membrane. These indicate roles in excitation-contraction coupling and ion homeostasis in muscle cells. Some terms (like Golgi\u2013ER transport and translation) point to general cellular processes, but the dominant theme is muscle contraction and membrane/ion transport, justifying this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006890","count":1},{"id":"GO:0033292","count":1},{"id":"GO:0046839","count":1}]},{"hash":"2233614404127556228","title":"Immune signaling regulation and membrane dynamics","description":"The GO terms point to regulation of immune signaling (T cell homeostasis, IL-17 signaling, LPS-mediated signaling) together with membrane-related processes (anterograde synaptic vesicle transport, plasma membrane repair) and ubiquitin-dependent protein turnover, suggesting a cluster focused on signaling regulation linked to membrane dynamics rather than a single specific pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0046328","count":4},{"id":"GO:0048490","count":4},{"id":"GO:0002635","count":4},{"id":"GO:0000185","count":4}]},{"hash":"1174542679162054289","title":"Developmental signaling and vesicle trafficking","description":"The GO terms cluster around modulation of several developmental signaling pathways (Notch, Wnt/planar polarity, TGF-\u03b2) and neural activity (NMDA receptor activity, GABA secretion), plus processes in endosomal transport and phagocytosis, and angiogenesis. This suggests a cohesive theme of coordinating signaling cascades with vesicle trafficking in development and neural function, rather than a single, isolated function. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030862","count":2},{"id":"GO:2000310","count":2},{"id":"GO:0045746","count":2},{"id":"GO:2000096","count":2},{"id":"GO:0006911","count":2}]},{"hash":"1857078527269567196","title":"Adaptive humoral immune response","description":"The top GO terms cluster around complement activation (classical pathway), immunoglobulin production, B cell receptor signaling, and T cell proliferation, which together indicate adaptive immune activation centered on antibody production and B/T cell cooperation. Other terms touch on host\u2013pathogen interaction (lipoteichoic acid detection) and broader immune surveillance, while some cardiac terms seem less relevant to the main signal. Overall, the dominant theme is adaptive immunity, justifying this label.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0002377","count":2},{"id":"GO:0086072","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0060307","count":2}]},{"hash":"1684835036110645549","title":"Nuclear mRNA processing and transcription regulation","description":"This cluster shows recurrent nuclear RNA handling terms: mRNA export, nuclear mRNA surveillance, and post-transcriptional tethering of Pol II\u2013associated DNA, along with negative regulation of transcription by RNA Pol II. While there are additional terms touching signaling and chromatin/spindle processes, the dominant theme is nuclear RNA processing and transcription regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000973","count":2},{"id":"GO:0006406","count":1},{"id":"GO:0071033","count":1},{"id":"GO:1901798","count":1},{"id":"GO:0045736","count":1}]},{"hash":"905764888539698510","title":"Developmental differentiation and tissue formation","description":"The Top Terms cluster around developmental processes: spermatogenesis, neuromuscular junction development, vasculogenesis, cell differentiation, and related proliferation. While a few terms point to molecular processes (tRNA processing, transcription regulation), the prevailing theme is genes involved in development and tissue formation, supporting this label. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045892","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0007283","count":1}]},{"hash":"1952568979441819385","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071033","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0071035","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0000472","count":1}]},{"hash":"2051710891856820836","title":"Innate Immune Signaling and Ubiquitination","description":"The top GO terms center on innate immune response and regulation of NF-kappaB signaling, indicating a primary role in immune signaling. Additional terms highlight modulation of T cell proliferation, response to LPS, and vitamin D involvement, all of which relate to immune regulation. Ubiquitination (including K63-linked and autoubiquitination) points to a common mechanism by which these proteins control signal transduction in innate pathways. While there are some microtubule-related terms, the strongest signal is immune and ubiquitin-mediated signaling, suggesting a cohesive theme around innate immunity and signaling regulation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0046007","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0051865","count":3}]},{"hash":"411554245303417320","title":"Unknown","description":"The Top Terms are scattered across very different biological areas (plant phototropism; skeletal muscle development; B cell signaling; distal tubule morphogenesis; ubiquitination) with several obsolete annotations, suggesting no coherent common function or pathway linking these proteins. Given the lack of a unifying theme and the small cluster size, I cannot assign a specific, representative function beyond unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009638","count":2},{"id":"GO:0007519","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0032764","count":2},{"id":"GO:1900477","count":2}]},{"hash":"1526934643347617072","title":"Unknown","description":"The GO terms are scattered across chemotaxis, drug response, development, metabolism, and proteasome regulation, with several obsolete terms included. There isn\u2019t a single, coherent function tying these proteins together in this small cluster, so a specific intuitive label cannot be assigned with confidence.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006935","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0006006","count":2}]},{"hash":"2282966058755735383","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":1},{"id":"GO:0019379","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009086","count":1}]},{"hash":"223064429129652584","title":"Cerebral cortex development and axon fasciculation","description":"These proteins are annotated with neural development terms, especially forebrain development, layer formation in the cerebral cortex, axonal fasciculation, and synapse assembly, along with Rho signaling and cell\u2013cell adhesion. The dominant theme is cortical neuron maturation and axon pathfinding, with some peripheral hints of neurovascular involvement, supporting a cohesive label focused on cortex development and axon fasciculation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032495","count":4},{"id":"GO:0007413","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0021819","count":4},{"id":"GO:0030900","count":4}]},{"hash":"106584050562971179","title":"Calcium signaling across tissues","description":"The top GO terms cluster around calcium handling and signaling, including calcium import into mitochondria and regulation of voltage-gated calcium channels, which align with neural activity like long-term synaptic potentiation. Several terms also reference tissue differentiation and morphogenesis in heart, lung, and retina, suggesting a shared role for calcium signaling in development across multiple tissues. A few terms (e.g., digestion, karyogamy) are less cohesive with calcium signaling, but the dominant theme appears to be calcium-mediated signaling in both neural function and developmental processes.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":2},{"id":"GO:0060291","count":2},{"id":"GO:1901841","count":2},{"id":"GO:0003220","count":2},{"id":"GO:0036444","count":2}]},{"hash":"169836309448497698","title":"ER Stress and Innate Immunity","description":"The cluster centers on the endoplasmic reticulum unfolded protein response and innate immune signaling, including antigen processing with MHC class I, indicating a coordinated cellular stress and immune activation program. While other terms touch on cell cycle, senescence, and development, these appear secondary to ER stress and immune-related processes, suggesting the core theme is how cells cope with stress and engage innate immunity. ","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":2},{"id":"GO:0048387","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0048916","count":2},{"id":"GO:0048488","count":2}]},{"hash":"2172649047721581878","title":"Developmental cell fate commitment and differentiation","description":"The top GO terms cluster around lineage specification and differentiation across multiple tissues and germ layers (hemangioblast/angioblast differentiation, ectodermal fate commitment, granulocyte differentiation, peripheral nervous system neuron development), suggesting a role in initiating or regulating developmental differentiation rather than a single pathway. Some terms (PML body organization, negative regulation of T cell receptor signaling) are more peripheral, but do not negate the central theme of cell fate specification.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010455","count":4},{"id":"GO:0060217","count":4},{"id":"GO:0035779","count":4},{"id":"GO:0060233","count":4},{"id":"GO:0060762","count":4}]},{"hash":"117594978834933145","title":"Adaptive immune activation and cytokine production","description":"The GO terms cluster around positive regulation of cytokine production (IFN-\u03b3, IL-6, IL-4, IL-10), T cell costimulation, B cell differentiation and proliferation, and germinal center formation, indicating an activation and differentiation program in adaptive immunity, particularly involving B and T cell interactions.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032729","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0032753","count":2},{"id":"GO:0030183","count":2}]},{"hash":"1320890410925620189","title":"Embryonic morphogenesis and neural development","description":"The terms show diverse embryonic tissue morphogenesis (limb, digestive tract, kidney) together with neural differentiation (PNS, spinal cord, Purkinje cells), indicating a cluster tied to developmental programs with a neural emphasis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0048565","count":4},{"id":"GO:0072283","count":4},{"id":"GO:0060133","count":4}]},{"hash":"2135084313724222750","title":"Unknown","description":"The GO terms span plant phototropism, multiple immune signaling pathways, circadian rhythm, and other disparate processes, with only a single edge among four proteins. There is no coherent shared function connecting these terms, so a specific label cannot be justified.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009638","count":2},{"id":"GO:0032764","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043380","count":2}]},{"hash":"1544945604328839290","title":"TGF-beta Signaling and EMT","description":"The strongest terms are SMAD complex assembly and TGF-beta receptor signaling, complemented by epithelial-to-mesenchymal transition and lung epithelial differentiation, indicating a cohesive TGF-beta/SMAD-driven program. Other terms like long-term synaptic potentiation and neurotransmitter secretion hint at broader regulation, but the core signal remains TGF-beta signaling and EMT-related processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007183","count":4},{"id":"GO:0007179","count":4},{"id":"GO:0060291","count":2},{"id":"GO:1901387","count":2},{"id":"GO:0060487","count":2}]},{"hash":"1138828602655438034","title":"Energy Metabolism and Redox Defense","description":"The cluster is dominated by core metabolic pathways (glycolysis, TCA cycle) and redox/antioxidant processes (removal of superoxide radicals, oxidation-reduction), with a broader detox/ xenobiotic response signal. Some neural and hematopoietic terms appear but are not coherent with the main metabolic theme, suggesting either multifunctional proteins or annotation noise; the prevalent pattern points to energy production linked with oxidative stress defense.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0019430","count":3}]},{"hash":"1976309584048660150","title":"Unknown","description":"The terms span disparate biology (animal development like inner ear and forelimb, brown fat differentiation, PNS neuron development) and plant processes (ethylene response, mucilage biosynthesis) along with transcription-related terms, and there are no connecting pathways or interactions linking the proteins. This lack of a cohesive theme and absence of edges supports labeling as Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0035115","count":1},{"id":"GO:0009727","count":1}]},{"hash":"1160031104546070709","title":"Autophagy and ubiquitin-mediated regulation","description":"The terms show strong enrichment for autophagy-related processes (mitophagy, macroautophagy, Cvt pathway) and protein turnover modifiers (ubiquitination, neddylation), with a secondary link to cell-cycle regulation. This suggests a functional cluster centered on autophagy coupled with ubiquitin-like modifications and cell-cycle control.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":3},{"id":"GO:0000422","count":3},{"id":"GO:0007113","count":2},{"id":"GO:0016236","count":2},{"id":"GO:0034126","count":2}]},{"hash":"489581349240116167","title":"Angiogenesis and muscle development with oxidative stress response","description":"The top GO terms point to vascular and muscle-related processes (angiogenesis in wound healing, vasodilation, myoblast proliferation, skeletal muscle fiber development) along with protective stress responses (oxidant detoxification and regulation of oxidative stress-induced apoptosis). Though the cluster is small and has limited connectivity, the shared themes center on tissue remodeling with emphasis on blood vessel formation and muscle precursor growth, coupled with cellular protection against oxidative stress. This combination justifies a label centered on vascular-muscle development and stress response.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060055","count":2},{"id":"GO:0033599","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0042311","count":2},{"id":"GO:0009650","count":2}]},{"hash":"370308803602083222","title":"Ubiquitin-regulated signaling and cell-cycle control","description":"Although the proteins span diverse GO terms, the cluster is anchored by ubiquitin-related regulation (ubiquitin ligase activity, deubiquitination) and modulation of signaling pathways, alongside cell-cycle control (G2/M transition) and Wnt/TNF signaling. This suggests a theme of coordinated signaling regulation and protein turnover rather than a single pathway. Unknown terms like antigen processing and plant hypersensitive response appear as broader regulatory contexts rather than defining features of this cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0010363","count":1},{"id":"GO:0051436","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0002479","count":1}]},{"hash":"825089038075505476","title":"Actin Cytoskeleton Assembly and Remodeling","description":"This cluster is dominated by actin-related processes: actin filament polymerization, Arp2/3 complex\u2013mediated actin nucleation, actin cortical patch and bundle assembly, postsynaptic actin cytoskeleton organization, and actomyosin contractile ring contraction, all pointing to dynamic actin cytoskeleton assembly and remodeling. The phagocytosis term and calcium-response hint at functional contexts where actin dynamics are key. A couple of chromatin-related terms appear but are less representative of the main theme. Overall, the cluster likely groups proteins involved in actin polymerization and cytoskeletal remodeling.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0042766","count":4},{"id":"GO:0006909","count":4},{"id":"GO:0000147","count":4}]},{"hash":"1988878526332243173","title":"p53-driven cell cycle arrest and proteostasis","description":"The cluster combines cell cycle regulation (GO:0071157/GO:0071158) with p53-mediated signaling (GO:1901798) and proteostasis/ubiquitin-related terms (GO:0050821, GO:2000059, GO:1904667), suggesting a cohesive theme of p53-dependent control of cell cycle and protein stability under stress. Translation (GO:0006412) and cellular response to actinomycin D further support a stress-response context where growth is restrained and proteostasis is maintained. ","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0071157","count":1},{"id":"GO:0071158","count":1},{"id":"GO:0072717","count":1},{"id":"GO:0032986","count":1}]},{"hash":"1907945642901863464","title":"Unknown","description":"The GO terms span bone development, regulation of cell growth, glycerophospholipid catabolic process, protein import into chloroplast thylakoid membrane, response to capsazepine, protein ubiquitination, negative regulation of interleukin-12 production, intracellular signal transduction, protein localization to chromosome telomeric region, and general cell growth. They cover animal development, plant organelle processes, immune signaling, and basic cellular functions, with no obvious single theme linking all proteins. There are no edges in the cluster, indicating little apparent connectivity, so a specific, representative label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0046475","count":2},{"id":"GO:0045038","count":2},{"id":"GO:1901594","count":2}]},{"hash":"1183108006729219477","title":"Flavonoid Pigment Biosynthesis","description":"The top GO terms include several flavonoid/pigment biosynthesis processes (anthocyanin-containing compound biosynthesis, kaempferol O-glucoside biosynthesis, cyanidin 3-O-glucoside biosynthetic process), suggesting a shared role in flavonoid pigment production. Other terms (lipoteichoic acid and peptidoglycan biosynthesis) appear but are less related to flavonoid biosynthesis and may reflect broader annotations. Overall, flavonoid pigment biosynthesis best captures the common theme among the enriched terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0070980","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0071412","count":3},{"id":"GO:0070395","count":3}]},{"hash":"595059393484361426","title":"Chromatin Remodeling and Transcription Regulation","description":"The proteins cluster around chromatin organization, nucleosome dynamics, and transcription elongation control, with emphasis on subtelomeric heterochromatin formation and chromatin assembly/disassembly, suggesting a cohesive role in chromatin remodeling and epigenetic regulation.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006336","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0001932","count":2},{"id":"GO:0006335","count":2}]},{"hash":"1203241612495204291","title":"Chromatin Assembly and Remodeling","description":"This cluster is best labeled by chromatin-related processes: rDNA heterochromatin formation, CENP-A containing chromatin assembly, transcription initiation-coupled chromatin remodeling, and sperm DNA condensation point to chromatin packaging and regulation. Other GO terms touch on broader gene regulation across tissues, but the strongest common theme is chromatin organization and remodeling, making this a cohesive label. ","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002227","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0019731","count":2},{"id":"GO:0035093","count":2}]},{"hash":"755774984064781372","title":"Coagulation and Innate Immune Signaling","description":"Based on the prominence of GO terms tied to blood coagulation (blood coagulation, positive regulation, Factor XII activation) and innate immune responses (neutrophil-mediated killing of fungus, leukocyte migration in inflammatory response, Toll signaling), the cluster seems to group proteins involved in the intersection of coagulation and inflammatory/immune signaling. Additional terms such as regulation of IL-8 production and tissue remodeling further support an inflammatory/coagulation-associated theme. Some terms like amelogenesis and digestion are less central but do not outweigh the main connection.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0007586","count":2},{"id":"GO:0070947","count":2},{"id":"GO:0045415","count":2},{"id":"GO:0030194","count":2}]},{"hash":"1834092470303505177","title":"Nuclear transport and centrosome/kinetochore regulation","description":"The GO terms cluster around nucleocytoplasmic transport (export/import of ribosomal subunits and hnRNP-related factors) and regulation of transcription in the nucleus, along with centrosome duplication and kinetochore localization\u2014together pointing to a functional theme in nuclear-cytoplasmic transport linked to mitotic/centrosomal regulation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010824","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0035048","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0000056","count":2}]},{"hash":"756888563139380699","title":"DNA replication, repair, and cell cycle","description":"The top GO terms are dominated by nuclear DNA processes: DNA-templated transcription, mitotic cell cycle, DNA replication, and DNA repair, suggesting the proteins in this cluster participate in genome maintenance and cell division. Additional terms like oxidative stress response, peroxisome matrix protein import, and rhythmic processes are present but less central, possibly reflecting broader cellular roles. Overall, the dominant theme centers on DNA metabolism and cell cycle control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0034599","count":2}]},{"hash":"536649231112013962","title":"Growth and Differentiation Signaling (Hippo/Wnt)","description":"This cluster is enriched for signaling pathways that regulate cell growth, division, survival, and differentiation, especially Hippo signaling and canonical Wnt signaling, plus related processes like the mitotic cell cycle, apoptosis, and keratinocyte differentiation. The inclusion of positive regulation of GTPase activity supports a signaling-switch theme, suggesting coordinated control of cell fate decisions across tissues. A couple of terms (visual perception, chemotaxis) are less central and may reflect broader signaling roles.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033160","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035329","count":3}]},{"hash":"2285354260822472332","title":"Actin Cytoskeleton Remodeling and Adhesion Signaling","description":"The top GO terms cluster around Rho signaling, actin cytoskeleton reorganization (stress fibers, podosome assembly), and integrin- and growth factor\u2013mediated signaling (TGF-beta, growth hormone receptor), indicating a shared role in coordinating cytoskeletal dynamics with cell adhesion and signal transduction rather than a metabolic process.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0001558","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0060396","count":3}]},{"hash":"1158217359482485539","title":"Mitotic cell cycle regulation","description":"The most frequent GO terms center on regulating the cell cycle, especially the G2/M transition, mitotic spindle pole separation, cyclin-dependent kinase activity, and overall cell division. This suggests the proteins function together to control entry into and progression through mitosis. A few terms (ER unfolded protein response, transcription-related terms) may reflect broader cellular stress responses or annotation noise, but they do not conflict with the dominant mitotic theme. Hence, \"Mitotic cell cycle regulation\" is an informative, representative label.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071157","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1903251","count":2},{"id":"GO:0010696","count":2},{"id":"GO:0030968","count":2}]},{"hash":"514459234997564181","title":"Neural development and axon extension regulation","description":"The top GO terms cluster around nervous system development, positive regulation of axon extension, and neurotrophin/TRK receptor signaling, suggesting roles in neuronal differentiation and axon growth. Additional terms on cell shape, focal adhesion, and signal transduction align with neuronal morphogenesis and connectivity. One outlier term on centromeric cohesion does not override the dominant neural theme, supporting a label focused on neural development and axon growth.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051388","count":2},{"id":"GO:0051754","count":2},{"id":"GO:0008360","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0045773","count":2}]},{"hash":"2154848987195151944","title":"Vesicle trafficking and protein turnover","description":"The top GO terms are dominated by intracellular trafficking between Golgi, endosomes, and the ER (Golgi-to-endosome and Golgi-to-ER transport), indicating a vesicle transport theme. Additional terms point to broader cellular maintenance activities (protein ubiquitination/degradation, translation, spindle organization), but the strongest signal is vesicle-mediated transport within the secretory pathway, suggesting these proteins participate in intracellular trafficking and protein processing. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0035646","count":2},{"id":"GO:0006412","count":1}]},{"hash":"2188674090053317134","title":"Multi-substrate Transmembrane Transporters","description":"The top GO terms point to transmembrane transport of diverse solutes (bicarbonate, aspartate, oxalate, chloride, sulfate, fructose) and related pH regulation, indicating a cluster of membrane transport proteins with broad substrate specificity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0019532","count":2},{"id":"GO:0051454","count":2}]},{"hash":"275784426532238117","title":"Ubiquitin-Mediated ERAD and Protein Ubiquitination","description":"The strongest signals are ubiquitination-related: ubiquitin-dependent ERAD pathway, protein polyubiquitination, and regulation of monoubiquitination, suggesting a ubiquitin-proteasome/ERAD\u2013related module. The other GO terms (transcription, rRNA maturation, GPCR signaling, aging, taste, skeletal morphogenesis) appear as noise or broader annotations and do not form a consistent shared function for the cluster. Thus, the cluster is best described as a ubiquitin-dependent proteostasis-related group.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":3},{"id":"GO:1902525","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000462","count":2}]},{"hash":"2140268531756350810","title":"Unknown","description":"The top GO terms span nucleotide metabolism and bone development, with no clear unifying function and no protein\u2013protein edges connecting the members, so there is no cohesive biological theme to label this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901069","count":1},{"id":"GO:0009158","count":1},{"id":"GO:0009117","count":1},{"id":"GO:0046085","count":1},{"id":"GO:0016311","count":1}]},{"hash":"1451345481688448546","title":"Actin Cytoskeleton in Muscle Contraction","description":"The proteins cluster around actin dynamics and muscle function: actin filament polymerization and bundle assembly, skeletal muscle fiber development and contraction, and the actomyosin contractile machinery, including mitotic contractile ring activity. While a few terms touch on regulation and neuromuscular junction aspects, the dominant theme is actin-driven muscle contraction and development, suggesting these proteins participate in actin cytoskeleton remodeling relevant to muscle physiology.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":1},{"id":"GO:0048875","count":1},{"id":"GO:0045886","count":1},{"id":"GO:0032233","count":1},{"id":"GO:1903526","count":1}]},{"hash":"1137664900292876302","title":"Cell Stress Response and Signaling","description":"This cluster centers on GO terms related to cellular stress responses ( xenobiotic stimulus, unfolded protein response ) and signaling pathways ( glucocorticoid signaling, NFAT ), with additional terms touching epithelial differentiation and EMT that can be linked to tissue response under stress. The mix suggests a general theme of stress-induced signaling rather than a single specific function, hence the label \u201cCell Stress Response and Signaling.\u201d","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0006986","count":1},{"id":"GO:2000324","count":1},{"id":"GO:0060487","count":1},{"id":"GO:0001837","count":1}]},{"hash":"1964238341941254818","title":"Unknown","description":"The GO terms span diverse processes (neuron development, immune cell aggregation, yeast autophagy/trafficking, ubiquitination) with no clear shared function linking all four proteins, and there are no edges or coherent connectivity to unite them. This suggests heterogeneous annotations rather than a single, identifiable cluster function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":4},{"id":"GO:0032966","count":4},{"id":"GO:0021830","count":4},{"id":"GO:0032258","count":4},{"id":"GO:0060178","count":4}]},{"hash":"1106667965675316025","title":"Cell signaling and vesicle dynamics","description":"The top GO terms point to broad signaling and vesicle-related processes (ERK cascade regulation, IL-18 signaling, synaptic vesicle budding, acrosome reaction, antigen receptor signaling, integrin activation, etc.) across neural, immune, and reproductive contexts. There isn\u2019t a single shared function, but the common theme is signaling and vesicle/exocytosis activities, justifying a label around cell signaling and vesicle dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0035655","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0016185","count":2}]},{"hash":"373720537707928131","title":"Ribosome biogenesis and rRNA processing","description":"The top GO terms cluster around nucleolar transcription of rRNA by RNA Pol I, maturation of rRNA, and preribosome/large subunit assembly, which together define ribosome biogenesis. Some terms refer to general RNA processing or splicing, suggesting a broader nuclear RNA maturation role, but the dominant signal is ribosome assembly and rRNA maturation.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042790","count":2},{"id":"GO:0000462","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0001178","count":2}]},{"hash":"1424508992634033371","title":"Steroidogenesis and lipid metabolism","description":"The top GO terms cluster around steroid hormone biosynthesis (estrogen and testosterone production) and broader lipid metabolic processes (cholesterol transport, fatty acid and sphingolipid biosynthesis), indicating a functional group involved in steroid production linked to lipid pathways. Some terms are peripheral (e.g., Sertoli cell development, methotrexate response), but the dominant theme is steroidogenesis coupled with lipid metabolism.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032385","count":1},{"id":"GO:0006703","count":1},{"id":"GO:0045717","count":1},{"id":"GO:0030148","count":1},{"id":"GO:0031427","count":1}]},{"hash":"1839454703029629979","title":"Unknown","description":"This cluster\u2019s top GO terms are scattered across ubiquitin\u2011dependent ERAD, immune signaling, neural and germinal center processes, and nuclear body organization, with several obsolete terms and no clear shared function. There is no cohesive theme to bind these proteins into a concise, specific label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0048490","count":2},{"id":"GO:0002635","count":2},{"id":"GO:0030578","count":2}]},{"hash":"1963895656614181343","title":"ER-to-Golgi Transport and COPI Vesicle Budding","description":"The top GO terms focus on ER-to-Golgi vesicle transport, COPI coating and budding, and ER lumen protein retention, all core to the secretory pathway. Additional terms point to regulation of protein exit from the ER and a role in Wnt secretion, with some maternal/oogenesis-related processes, suggesting a trafficking/secretory cluster that can influence developmental events. This combination makes a concise, specific label capturing the main shared function of the proteins.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0048205","count":1},{"id":"GO:0001893","count":1}]},{"hash":"1410992605746377392","title":"MAPK signaling in PMA and GM-CSF response","description":"The dominant GO terms point to activation of MAPK pathways (ERK1/2 and p38 cascades) and cellular responses to PMA and GM-CSF, suggesting a cluster of proteins involved in MAPK signaling and cytokine-stimulated responses; a few RNA processing terms appear but are not defining for the cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904628","count":3},{"id":"GO:0070371","count":3},{"id":"GO:0038066","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0048025","count":2}]},{"hash":"1668813603176437142","title":"Ubiquitin-Dependent NF-\u03baB Signaling and Necroptosis Regulation","description":"The top GO terms show multiple facets of ubiquitination (K48, K63, linear), ubiquitin-dependent proteolysis, and regulation of NF-\u03baB signaling, plus terms related to inhibiting necroptosis. Together these indicate a cohesive role in ubiquitin-mediated control of inflammatory signaling and cell death pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1607873728713926605","title":"Proteoglycan biosynthesis and cell adhesion","description":"The top GO terms center on glycosaminoglycan biosynthesis (heparin proteoglycan, chondroitin sulfate), along with tissue morphogenesis and cell adhesion processes, suggesting the cluster is driven by extracellular matrix components and cell\u2013cell interactions. Lens transparency maintenance also points to ECM integrity, supporting a theme of proteoglycan production linked to tissue structure and adhesion. Some terms are peripheral, but the dominant signal is proteoglycan biosynthesis and associated adhesion functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":1},{"id":"GO:0036438","count":1},{"id":"GO:0032868","count":1},{"id":"GO:0048729","count":1},{"id":"GO:0030210","count":1}]},{"hash":"131964196001316794","title":"Electron Transport & ATP Synthesis","description":"Reason: Key terms center on ATP synthesis linked to electron transport and proton transport, with a photosynthesis light reaction term indicating chloroplast-like electron transport. Other terms seem unrelated to this theme, but the dominant pattern is energy production via the electron transport chain.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042773","count":2},{"id":"GO:1902600","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0030004","count":1},{"id":"GO:0006810","count":1}]},{"hash":"900054757303031846","title":"Cardiac action potential and calcium regulation","description":"The top GO terms cluster around cardiac electrophysiology: membrane repolarization and depolarization in atrial, ventricular, and Purkinje cells, along with regulation of calcium ion transport and heart tissue morphogenesis. This points to proteins involved in heart rhythm control and development. Some terms (e.g., jasmonic acid biosynthesis, aldosterone biosynthesis, gastric acid secretion) appear unrelated and may reflect annotation noise or multifunctionality across species, which weakens the overall signal. Nevertheless, the predominant cardiac-related functions support the label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":2},{"id":"GO:0051928","count":2},{"id":"GO:0080141","count":2},{"id":"GO:0003220","count":2},{"id":"GO:1901594","count":2}]},{"hash":"1161917064401356580","title":"Unknown","description":"The top GO terms span unfolded protein response, glucocorticoid signaling, epithelial differentiation/EMT, DNA repair, T cell homeostasis, kinetochores, gene regulation, NFAT signaling, and glycogen metabolism. This broad mix lacks a single coherent biological function or pathway tying the proteins together, so a specific concise label isn\u2019t evident.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":3},{"id":"GO:2000324","count":3},{"id":"GO:0060487","count":3},{"id":"GO:0001837","count":3},{"id":"GO:0010791","count":3}]},{"hash":"1195146061114642314","title":"Chaperone-mediated folding and immune activation","description":"This cluster centers on protein quality control (detection of misfolded proteins, refolding, chaperone-assisted folding) and immune-related functions (B cell cytokine production, IgG isotype switching, TNF production), suggesting a link between proteostasis and immune signaling; some terms hint at toxin transport and host-cell interactions, but the core theme appears to be proteostasis intertwined with immune activity.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":3},{"id":"GO:0002236","count":3},{"id":"GO:0051085","count":3},{"id":"GO:0048291","count":3},{"id":"GO:0042026","count":3}]},{"hash":"1185095633662632210","title":"Mitochondrial respiration and protein complex assembly","description":"This cluster shows enrichment for GO terms related to mitochondrial electron transport and aerobic respiration, plus protein oligomerization/homotetramerization, suggesting a role in mitochondrial energy production and assembly of protein complexes. Some terms appear tangential (symbiont entry, insulin signaling, PQQ biosynthesis) and may reflect annotation noise, but the dominant theme is mitochondrial respiration and protein complex formation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":1},{"id":"GO:0006122","count":1},{"id":"GO:0006627","count":1},{"id":"GO:0051291","count":1},{"id":"GO:0046718","count":1}]},{"hash":"481839093309202288","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"Mostly enriched for spliceosome-related mRNA processing and regulation terms (e.g., negative regulation of mRNA splicing via spliceosome, mRNA splicing via spliceosome, regulation of alternative mRNA splicing via spliceosome, mRNA splice site recognition). The presence of small-subunit processome assembly and stress-related mRNA stability terms supports a theme of RNA processing and spliceosome functions, with a few peripheral/obsolete terms (telomerase activity, blastocyst formation) that do not alter the core interpretation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":3},{"id":"GO:1905663","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0035278","count":3}]},{"hash":"681174409755079842","title":"Cardiac Development and Rhythm Regulation","description":"The cluster combines cardiac morphogenesis terms (atrial/ventricular septum development, AV valve morphogenesis) with terms related to cardiac electrophysiology and autonomic regulation (calcium ion import, action potential modulation, heart rate regulation via baroreceptors, serotonin signaling). This suggests a cohesive theme around heart development and electrical/conductive function rather than unrelated sensory terms.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0003181","count":2},{"id":"GO:0003283","count":2},{"id":"GO:0003281","count":2},{"id":"GO:0098703","count":1}]},{"hash":"1678683818661943415","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060416","count":3},{"id":"GO:0019240","count":3},{"id":"GO:0070365","count":3},{"id":"GO:0044210","count":3},{"id":"GO:0071377","count":3}]},{"hash":"1454369738083975915","title":"Developmental cell adhesion and morphogenesis","description":"GO-term analysis centers on development and tissue organization (multicellular organism development, ossification, melanocyte differentiation) and cell adhesion (heterophilic cell-cell adhesion, leukocyte tethering or rolling). Additional terms referencing angiogenesis regulation and axon fasciculation point to coordinated morphogenesis and neural-vascular patterning. This combination supports a developmental, adhesion-driven theme, so the label captures the cluster\u2019s likely function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0097155","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007157","count":2}]},{"hash":"2005132009983987460","title":"ER Stress and Immune Activation","description":"The top terms include ER unfolded protein response, cellular senescence, innate immune signaling, and peptide antigen assembly with MHC class I, pointing to a theme of ER-driven stress responses linked to immune pathways; additional GO terms for cell cycle regulation, development, and endocytosis may reflect broader cellular homeostasis roles.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":2},{"id":"GO:0048387","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0048916","count":2},{"id":"GO:0048488","count":2}]},{"hash":"424541797252438336","title":"Neural and cardiac development via Notch signaling","description":"Top GO terms point to neural development (hindbrain morphogenesis, floor plate development, oculomotor nerve development) and cardiac development (sinoatrial node differentiation, secondary heart field cardioblast proliferation), with Notch signaling highlighted. This suggests a cluster centered on developmental differentiation spanning neural and heart lineages, regulated by Notch signaling, supported by related differentiation terms.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060921","count":3},{"id":"GO:0003266","count":3},{"id":"GO:0030318","count":3},{"id":"GO:0014737","count":3},{"id":"GO:0006366","count":3}]},{"hash":"219496393075543644","title":"TNF-NF-\u03baB Signaling and Ubiquitination","description":"The terms point to a cohesive module of inflammatory signaling and protein turnover: TNF-mediated signaling, activation of NF-kappaB, I-kappaB phosphorylation, and various forms of ubiquitination (including K6-linked) with ubiquitin-dependent protein catabolism. The presence of JNK cascade regulation and adaptive immune response hints at broader signal transduction and transcriptional control linked to immune activation and chromatin dynamics (histone catabolic process). This suggests a functional cluster centered on NF-\u03baB\u2013driven responses modulated by ubiquitin pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0036205","count":2}]},{"hash":"945579464217491797","title":"Nuclear hormone receptor signaling and development","description":"The top GO terms point to transcription driven by nuclear receptors (retinoic acid receptor and thyroid hormone receptor) and DNA-templated transcription, indicating Nuclear Hormone Receptor\u2013driven transcription. Supporting this, several terms reference developmental processes across tissues (pneumocytes, cartilage, inner ear morphogenesis, luteinization), suggesting a theme of hormone-mediated differentiation. PERK-mediated unfolded protein response may reflect stress responses during development but does not override the primary signal. Overall, the cluster centers on hormone receptor signaling linked to developmental differentiation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0048384","count":2},{"id":"GO:0045872","count":2},{"id":"GO:0060509","count":2},{"id":"GO:0036499","count":2}]},{"hash":"544894943286514813","title":"Vertebrate embryogenesis and organ morphogenesis","description":"The GO terms show a cohesive emphasis on embryonic development across multiple organ systems (forelimb, retina/eye, forebrain, primitive streak, uterus) and neural development, with some sensory perception terms reflecting neurodevelopmental context. This suggests a cluster tied to embryogenesis and tissue morphogenesis rather than a single biochemical function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0021846","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0048935","count":2}]},{"hash":"660640884481298092","title":"Chromatin remodeling and histone modification","description":"This cluster is dominated by GO terms related to chromatin dynamics and histone modification, including nucleosome mobilization, nucleosome positioning, and histone H3-K14 acetylation and H3-K9 dimethylation, suggesting a core function in chromatin organization and regulation. While a few terms (e.g., fatty acid beta-oxidation, chloroplast protein import, developmental morphogenesis) seem unrelated or obsolete, the central pattern points to chromatin regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0003222","count":3},{"id":"GO:0071441","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0016584","count":3}]},{"hash":"923048660239518403","title":"Intracellular trafficking and neural development","description":"The top GO terms cluster around intracellular transport (ER to Golgi vesicle transport; intrafiliary retrograde transport) and neural-related processes (synaptic target recognition; positive neuron remodeling), with supporting roles in cytoskeletal dynamics (actin filament assembly) and general development. Some terms (antigen presentation, chaeta development, sperm individualization) appear as outliers, but the dominant signal points to trafficking and neural differentiation roles across cell types. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0035721","count":2},{"id":"GO:0019886","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0006351","count":2}]},{"hash":"2125810982620857268","title":"Unknown","description":"The proteins show GO terms spanning transcription regulation, ribosome biogenesis, autophagy, endocytosis, and various signaling pathways, with no single cohesive biological function grouping them. This scattered set suggests no clear cluster-specific function beyond general cellular processes, so a generic Unknown label is appropriate.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0034140","count":3},{"id":"GO:0035973","count":3},{"id":"GO:1900186","count":3}]},{"hash":"64374798411765728","title":"Unknown","description":"The top GO terms for this tiny cluster are highly diverse (transcription regulation, organ growth, JNK signaling, vesicle transport, germinal center and T cell processes, ubiquitination, necroptosis), with no single cohesive function tying all three proteins together. The connections are sparse and the terms span distinct biological areas, suggesting no clear shared theme. Therefore, I cannot assign a specific, representative label.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0046621","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0002635","count":1}]},{"hash":"1451906778554203567","title":"Ubiquitin-dependent proteostasis and autophagy","description":"The top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, K63-linked ubiquitination, autoubiquitination, protein ubiquitination, neddylation) and autophagy pathways (macroautophagy, Cvt pathway), plus regulation of the JNK cascade. This points to a cohesive function in ubiquitin-mediated protein turnover and autophagy regulation, with possible links to signaling via JNK. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0007113","count":1}]},{"hash":"1801491180982772471","title":"Bacterial cell-wall and antibiotic biosynthesis","description":"Top GO terms indicate strong signals for peptidoglycan and lipoteichoic acid biosynthesis, plus antibiotic biosynthetic processes, suggesting a focus on bacterial cell-wall construction and antimicrobial metabolite production. Some terms related to plant pigment biosynthesis appear, but the core theme is biosynthesis of cell-wall components and antibiotics. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0008360","count":1},{"id":"GO:0070980","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0071412","count":1}]},{"hash":"11128682834646493","title":"Oxidative Stress Detoxification","description":"GO terms cluster around detoxifying reactive oxygen species (cellular oxidant detoxification, hydrogen peroxide catabolic process) and antioxidant regulation (positive regulation of superoxide dismutase activity), with some mercury detox and deglycation terms that may be ancillary. This points to a redox/antioxidant defense theme rather than a single specific pathway, so the label reflects the dominant function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":1},{"id":"GO:0050787","count":1},{"id":"GO:0036531","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0036530","count":1}]},{"hash":"1353774705143850986","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019430","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030851","count":2},{"id":"GO:0019417","count":2}]},{"hash":"2000128240890378054","title":"Ubiquitination and deubiquitination regulation","description":"This cluster\u2019s top terms cluster around protein ubiquitination and its regulation (ubiquitination, deubiquitination, and negative regulation of ubiquitination). A few terms point to unrelated processes (floral organ specification, bone development, cellular responses to dopamine or chloroquine, TLR7 signaling), suggesting the dominant signal is ubiquitin-related modification rather than a single coherent pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:0048833","count":1},{"id":"GO:1990108","count":1},{"id":"GO:1903351","count":1},{"id":"GO:0035564","count":1}]},{"hash":"161511864909915621","title":"Neural signaling and axon/dendrite patterning","description":"This cluster's GO terms cluster around diverse signaling pathways (PI3K/AKT, MAPK, prolactin, IL-27) and neural development activities (regulation of axon extension, dendrite self-avoidance) with additional adhesion-related processes (cell spreading, slit diaphragm assembly). The recurring theme is signaling modulation that shapes neural morphology and cell interactions, justifying a label focused on neural signaling and patterning.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001108","count":2},{"id":"GO:0038161","count":2},{"id":"GO:0036060","count":2},{"id":"GO:0048692","count":2},{"id":"GO:0034446","count":2}]},{"hash":"1879799163156531755","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:0002635","count":2},{"id":"GO:0000185","count":2},{"id":"GO:0043029","count":2},{"id":"GO:1903883","count":2}]},{"hash":"1303306182967925023","title":"Molybdenum Cofactor Biosynthesis","description":"The most represented terms are molybdenum cofactor biosynthetic process and Mo-molybdopterin cofactor biosynthetic process, indicating proteins involved in MoCo assembly. While receptor clustering and developmental terms appear, they are less frequent and likely incidental annotations. Overall, the cluster is best described by MoCo biosynthesis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032324","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0072579","count":2},{"id":"GO:0097112","count":2},{"id":"GO:0006777","count":2}]},{"hash":"613826193436393749","title":"Embryonic development and lineage differentiation","description":"The GO terms point to embryonic development, tissue patterning, and differentiation across multiple lineages (placental, heart-related EMT, cartilage, pancreas, endocrine systems). This suggests a cohesive theme of developmental specification and morphogenesis rather than a single pathway, justifying a label centered on embryonic development and lineage differentiation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0060806","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060707","count":1}]},{"hash":"152424146207106937","title":"Actin-Integrin Adhesion Signaling","description":"Based on the top GO terms, the strongest signals are cell-matrix adhesion (GO:0007160) and actin filament bundle assembly (GO:0051017), along with positive regulation of integrin-mediated signaling (GO:2001046). These point to a cytoskeleton-adhesion module, suggesting a common function in adhesion-driven signaling. The remaining terms are diverse and may reflect broad annotations for a small cluster rather than a unifying theme. So, the label Actin-Integrin Adhesion Signaling captures the core shared function with moderate confidence.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046013","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0051017","count":1},{"id":"GO:2001046","count":1},{"id":"GO:0021937","count":1}]},{"hash":"1629747963555344050","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046886","count":1},{"id":"GO:0030851","count":1},{"id":"GO:0010725","count":1},{"id":"GO:0019383","count":1},{"id":"GO:0010044","count":1}]},{"hash":"370614191718756265","title":"Differentiation and Transcription Regulation","description":"Top GO terms cluster around differentiation of various cell types (trophoblasts, hepatocytes, adipocytes) and core transcriptional regulation (DNA-templated transcription, RNA polymerase II\u2013mediated transcription, and DNA binding regulation). A plant-specific glucosinolate metabolism term and blood circulation appear, but the dominant pattern is developmental differentiation coupled with transcription control, suggesting a cohesive but broad developmental cluster rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008015","count":3},{"id":"GO:0060718","count":2},{"id":"GO:0043392","count":2},{"id":"GO:0019760","count":2},{"id":"GO:0072332","count":2}]},{"hash":"1645995460224667183","title":"Bacterial metabolism and host invasion","description":"This cluster\u2019s GO terms point to bacterial-specific metabolic pathways (one-carbon metabolism, shikimate pathway, amino acid biosynthesis and catabolism) and a notable term for the entry of bacterium into host cells, indicating a theme of bacterial metabolism linked to host interaction/virulence. Even with a small set and some obsolete terms, the combination supports a cohesive label focused on bacterial metabolism and host invasion. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":3},{"id":"GO:0002439","count":2},{"id":"GO:0019510","count":2},{"id":"GO:0071268","count":2},{"id":"GO:0006730","count":2}]},{"hash":"506220557571723148","title":"Ubiquitin-dependent antiviral defense","description":"The top GO terms emphasize ubiquitin-dependent protein catabolic processes and polyubiquitination, along with innate immune and antiviral defense responses. This points to a functional theme where ubiquitination regulates proteins as part of innate antiviral defenses, despite a few incidental developmental annotations. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0060806","count":1}]},{"hash":"1687949517040916497","title":"Neural signaling and axon guidance","description":"This cluster centers on neural development and signal transduction, with terms related to axon extension, dendrite self-avoidance, and retina morphogenesis, along with MAPK and PI3K-AKT signaling; while prolactin and IL-27 pathways appear peripheral, the majority of terms point to neuronal signaling and guidance mechanisms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001108","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0036060","count":3},{"id":"GO:0048692","count":3},{"id":"GO:0034446","count":3}]},{"hash":"978758313923070226","title":"Developmental apoptosis and immune differentiation","description":"The top GO terms cluster around programmed cell death in various contexts (motor neuron, nurse cell, ectopic germ cell) and immune differentiation (macrophage differentiation, T cell homeostasis), with occasional developmental and stress-related terms (head involution, hydrogen peroxide, cobalt). This suggests a shared theme of apoptosis interconnected with immune differentiation during development and stress, justifying the label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008258","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0006309","count":1},{"id":"GO:0030225","count":1},{"id":"GO:0035234","count":1}]},{"hash":"1569941577122815902","title":"Interferon-cytokine signaling in immune response","description":"Based on the GO terms, the proteins appear to participate in immune signaling and interferon-driven responses: production of type I and II interferons, cytokine-mediated signaling, and regulation of STAT phosphorylation, with a broader context of tissue immune homeostasis and mucosal immunity. The shared theme centers on cytokine communication and interferon pathways in immune regulation, supporting a label of interferon-cytokine signaling in immune response.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":1},{"id":"GO:0010641","count":1},{"id":"GO:0002385","count":1},{"id":"GO:0035457","count":1},{"id":"GO:0048873","count":1}]},{"hash":"1978858377243640908","title":"Nuclear RNA splicing and processing","description":"The top GO terms cluster around spliceosome assembly and mRNA splicing (spliceosomal complex assembly, snRNP assembly, mRNA splicing via spliceosome), as well as nuclear import and transcription termination, pointing to a nuclear RNA processing/splicing role. Some chromatin and stress-related terms are present but do not override the core signal of RNA processing in the nucleus.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051170","count":3},{"id":"GO:0000290","count":3},{"id":"GO:1990141","count":3},{"id":"GO:0009414","count":3},{"id":"GO:0000245","count":3}]},{"hash":"1747230899839552711","title":"Spliceosome Assembly and mRNA Splicing Regulation","description":"These proteins cluster around mRNA splicing and processing via the spliceosome: GO terms include mRNA splicing via spliceosome, spliceosome assembly, splice site recognition, regulation of alternative splicing via spliceosome, and regulation of mRNA stability in response to stress. A related term about miRNA-mediated gene silencing suggests broader post-transcriptional regulation, but the dominant signal is spliceosome-mediated RNA processing. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":3},{"id":"GO:1905663","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0035278","count":3}]},{"hash":"2144323173144003953","title":"Unknown","description":"The three proteins are linked to a highly diverse mix of GO terms that do not reveal a common function or pathway: platelet aggregation; regulation of translation and ribosome assembly; JNK cascade regulation; various signaling and developmental processes (glucocorticoid signaling, epithelial polarity, renal vesicle morphogenesis); and receptor clustering. With no shared functional theme and no edges connecting proteins, there isn't a coherent cluster-level function to label, so \"Unknown\" with None confidence is most appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":2},{"id":"GO:0006417","count":1},{"id":"GO:0042256","count":1},{"id":"GO:0046328","count":1},{"id":"GO:0032416","count":1}]},{"hash":"605272655164517232","title":"Lipid and sterol biosynthesis","description":"The listed GO terms cluster around lipid metabolism and membrane components: unsaturated fatty acid biosynthesis, ergosterol biosynthetic regulation, MIPC metabolism, and related lipid-rich functions such as myelin maintenance and sebaceous gland differentiation. While some terms like nitric oxide biosynthesis and nitrate assimilation are broader metabolism, the predominant signal is lipid/sterol biosynthesis and membrane biology, justifying this label with a medium level of confidence.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":3},{"id":"GO:0006809","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0042128","count":3}]},{"hash":"422043127913723408","title":"DNA repair and chromatin regulation","description":"The top GO terms cluster around DNA damage response and chromatin regulation: subtelomeric heterochromatin formation, global genome nucleotide-excision repair, error-prone and error-free translesion synthesis, and histone modification/ubiquitination processes, plus nuclear proteostasis aspects. While a few terms reflect general stress responses, the dominant themes point to genome maintenance and chromatin remodeling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006348","count":3},{"id":"GO:0042276","count":3},{"id":"GO:0009737","count":3},{"id":"GO:0070911","count":3},{"id":"GO:1990920","count":3}]},{"hash":"988737501851789938","title":"Unknown","description":"The top GO terms in this cluster are highly diverse, covering fungal growth regulation, neural development, vesicle trafficking, autophagy, ubiquitination, immune processes, and gamete interactions. With no clear common function tying the terms together and no edges connecting the proteins, there isn't a coherent functional theme to label. Therefore the appropriate label is Unknown with no confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000222","count":2},{"id":"GO:0032966","count":2},{"id":"GO:0021830","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0060178","count":2}]},{"hash":"1190126125747248710","title":"Developmental morphogenesis and planar polarity","description":"The top GO terms cluster around embryonic development and tissue patterning, including heart morphogenesis, left-right pattern formation, planar polarity establishment, and cell adhesion, which together point to developmental morphogenesis and proper tissue organization. While some terms relate to immune or differentiation processes (inflammatory response, adipose/hair differentiation), the strongest signal is coordinated development and polarity in tissues.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043654","count":2},{"id":"GO:0090251","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0048105","count":2},{"id":"GO:0007156","count":2}]},{"hash":"1342524118225160848","title":"Antigen Presentation and Adaptive Immunity","description":"The top GO terms cluster around antigen processing and presentation via MHC I and II (including exogenous and endogenous peptide presentation), MHC-associated peptide loading, T cell cytotoxicity, humoral immune responses, and phagocytosis recognition, all of which point to a coordinated adaptive immune function. IL-17 production also ties into inflammatory signaling connected to immune activation. Although one term mentions protein refolding, the dominant pattern is immune surveillance and antigen presentation, supporting a label focused on adaptive immunity and antigen presentation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002503","count":2},{"id":"GO:0032620","count":2},{"id":"GO:1904283","count":2},{"id":"GO:0042026","count":2},{"id":"GO:0002455","count":2}]},{"hash":"1946436972352392460","title":"Cell division and endosomal vesicle trafficking","description":"The terms cluster around cell cycle and mitosis (cell division, mitotic metaphase chromosome alignment) and vesicle trafficking/endosomal maturation (early to late endosome transport, intralumenal vesicle formation, MVB-lysosome fusion), suggesting the proteins function together to coordinate chromosome segregation with membrane trafficking during cell division, with some development-related processes as ancillary aspects.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036438","count":1},{"id":"GO:0061763","count":1},{"id":"GO:0000920","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0070676","count":1}]},{"hash":"684517407685297265","title":"Unknown","description":"The GO terms are highly heterogeneous, covering ubiquitination, exocyst regulation, CVT-mediated vacuolar targeting, neural migration, lymphocyte aggregation, and other disparate processes, with no clear shared function tying the proteins together. The absence of a coherent theme and the presence of diverse biological contexts suggest the cluster does not reflect a single functional module.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:2000222","count":1},{"id":"GO:0032966","count":1},{"id":"GO:0021830","count":1},{"id":"GO:0032258","count":1}]},{"hash":"1952742581929111153","title":"Diverse Regulation of Cellular Processes","description":"The top GO terms are all regulatory in nature, spanning positive and negative regulation across a variety of biological processes (MHC II biosynthesis, cellular senescence, prostaglandin biosynthesis, macrophage apoptosis, oocyte maturation, transcription, DNA repair, and differentiation). This pattern suggests the proteins function as regulators rather than a single coherent pathway, representing a cluster of regulatory roles across multiple processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045348","count":2},{"id":"GO:2000773","count":1},{"id":"GO:0042595","count":1},{"id":"GO:1900195","count":1},{"id":"GO:0031393","count":1}]},{"hash":"1884904150371683752","title":"Ubiquitination and histone regulation","description":"The top GO terms are dominated by ubiquitination-related processes (protein ubiquitination, autoubiquitination, and K63-linked histone ubiquitination) with supporting signals from histone catabolic process and regulation of related pathways, suggesting the cluster centers on ubiquitin-mediated regulation, including chromatin-associated modifications.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0048490","count":2}]},{"hash":"2224003128217343809","title":"Calcium and potassium ion transport in skeletal muscle","description":"The terms cluster around moving Ca2+, K+, and Na+ across membranes, including calcium transport between cytosol and ER, T-tubule organization, and regulation of fast-twitch muscle contraction, pointing to a module of calcium/potassium homeostasis linked to excitation-contraction in skeletal muscle. This supports a cohesive label focused on ion transport and muscle function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036376","count":2},{"id":"GO:0030007","count":2},{"id":"GO:0097623","count":2},{"id":"GO:0071383","count":1},{"id":"GO:0051928","count":1}]},{"hash":"621627626086331334","title":"Ubiquitination and chromatin regulation","description":"The terms show a strong emphasis on protein ubiquitination\u2014including general ubiquitination, autoubiquitination, and specific K63-linked ubiquitination\u2014as well as histone modification (histone catabolic process and histone H2A K63 ubiquitination). While some items touch broader processes like JNK signaling and adaptive immunity, the central theme appears to be post-translational regulation via ubiquitin, often linked to chromatin-related processes. This supports a label around ubiquitin-mediated regulation and chromatin effects, with some residual breadth.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":2},{"id":"GO:1900095","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0046328","count":2}]},{"hash":"1611622371064044196","title":"TNF-induced Extrinsic Apoptosis Signaling","description":"Based on GO terms, the proteins are enriched for apoptosis-related processes, especially the extrinsic pathway and TNF response (execution phase of apoptosis, extrinsic apoptotic signaling, response to TNF). A few terms related to development/transcription are present but appear ancillary. The dominant theme is TNF-driven apoptotic signaling, so the label captures the core function of the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0034612","count":2},{"id":"GO:0001824","count":1}]},{"hash":"580439388377867013","title":"Ubiquitin-Dependent Proteostasis and Stress Signaling","description":"The GO terms center on ubiquitin-related processes (K6- and K63-linked ubiquitination), aggresome assembly, and protein degradation, together with stress- and inflammatory-signaling pathways (JNK cascade, NF-kappaB activation, TNF signaling, and histone turnover). This points to a cohesive theme of ubiquitin-mediated proteostasis linked to cellular stress responses.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0036205","count":3}]},{"hash":"2173324715775256731","title":"Mitotic DNA Replication Machinery","description":"The cluster is defined by GO terms tying to mitotic DNA replication initiation and progression, including mitotic DNA replication, preinitiation complex and GINS complex assembly, and DNA strand elongation in mitotic replication, with related repair/restart processes like break-induced replication, indicating a cohesive function in assembling and carrying out mitotic DNA replication.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902975","count":2},{"id":"GO:0000727","count":2},{"id":"GO:1902983","count":2},{"id":"GO:1902969","count":2},{"id":"GO:0032508","count":2}]},{"hash":"1336723426767069953","title":"Unknown","description":"The top GO terms span diverse functions from cytoskeletal/epithelial development to vesicle transport, immune antigen presentation, transcription, and neural/sperm-related processes, with no clear unifying pathway and no edges linking the proteins. This lack of a cohesive theme makes a specific, reliable label inappropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0006888","count":1},{"id":"GO:0035721","count":1}]},{"hash":"536577951728151133","title":"RNA Splicing Regulation and ncRNA Silencing","description":"The cluster is dominated by GO terms about mRNA splicing via the spliceosome, regulation of alternative splicing, and ncRNA-mediated gene silencing (including miRNA pathways), pointing to a cohesive role in post-transcriptional RNA processing and gene-expression control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048025","count":1},{"id":"GO:1905663","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0034462","count":1}]},{"hash":"876609109637491988","title":"Unknown","description":"The terms include neural development, sterol biosynthesis, hormone signaling, cuticle development, and general regulatory processes, which do not point to a single cohesive function for the proteins. Without a unifying theme, the cluster is best labeled Unknown with no confidence.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045726","count":1},{"id":"GO:0045201","count":1},{"id":"GO:0032443","count":1},{"id":"GO:1902177","count":1},{"id":"GO:0042921","count":1}]},{"hash":"1378805669031682464","title":"Neural crest migration and axon guidance","description":"The top GO terms point to neural crest\u2013derived development and neural connectivity, including neural crest cell migration, axon guidance via semaphorin-plexin signaling, axon extension, and melanocyte differentiation, all of which emphasize neural development and cell\u2013cell adhesion. Some terms appear unrelated (vitamin D3 metabolism, symbiont entry, T cell proliferation), but the dominant theme centers on neural crest\u2013driven migration and neural wiring.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070640","count":1},{"id":"GO:0036486","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0086072","count":1},{"id":"GO:1902287","count":1}]},{"hash":"1950096000353851976","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045948","count":1},{"id":"GO:0006384","count":1},{"id":"GO:0031990","count":1},{"id":"GO:0006383","count":1},{"id":"GO:0034402","count":1}]},{"hash":"893419453599591554","title":"Unknown","description":"The terms span RNA modification (tRNA/rRNA pseudouridylation), transcriptional regulation by glucose, ubiquitin-dependent trafficking and degradation, epithelial polarity maintenance, ATP export, and several Drosophila developmental processes (egg chamber formation, bicoid mRNA localization, imaginal disc morphogenesis). This broad mix lacks a single cohesive function or pathway, making it unclear how these proteins form a unified cluster beyond being generally involved in diverse cellular processes. ","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031119","count":1},{"id":"GO:0000455","count":1},{"id":"GO:0000433","count":1},{"id":"GO:0070086","count":1},{"id":"GO:0045199","count":1}]},{"hash":"1003945685044131646","title":"Transmembrane solute and ion transporters","description":"These proteins are annotated with multiple GO terms indicating diverse transmembrane transport activities: sugar transport (galactose, arabinose, fucose), inorganic ion transport (Na+, K+), nitrite/nitrate transport, xenobiotic transport, and a vesicular neurotransmitter loading function. The common thread is membrane-embedded transporter activity enabling movement of small molecules and ions across membranes, making this label a coherent, specific summary of the cluster's function.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0098700","count":1},{"id":"GO:0035725","count":1}]},{"hash":"1774970551968987833","title":"Calcium signaling at neuromuscular junction","description":"Top terms center on calcium import and calcium-response, neuromuscular junction development, and purinergic signaling, with a mechanosensory response. This suggests a cluster of proteins involved in calcium-dependent signaling at the neuromuscular junction and mechanotransduction.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":2},{"id":"GO:0007528","count":2},{"id":"GO:0035590","count":2},{"id":"GO:0009612","count":2},{"id":"GO:0001916","count":2}]},{"hash":"2120890015836970510","title":"Golgi-centered vesicle trafficking","description":"Top GO terms cluster around Golgi-associated vesicle transport and organization (ER-to-Golgi and endosome-to-Golgi routes, vesicle fusion, Golgi ribbon formation, and regulation of Golgi organization). While neuronal and immune secretory roles appear, the unifying theme is Golgi trafficking and organization.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0043311","count":1},{"id":"GO:0001916","count":1},{"id":"GO:0051469","count":1}]},{"hash":"1665596078042182495","title":"Unknown","description":"The top GO terms span diverse, seemingly unrelated processes\u2014from spindle organization and centromeric cohesion to GPCR internalization, intracellular signaling, and adipocyte/chondrocyte differentiation\u2014offering no single cohesive function or pathway to anchor a specific, interpretable cluster name. With such heterogeneity and no clear shared theme, an Unknown label with no confidence is appropriate.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007051","count":1},{"id":"GO:0045988","count":1},{"id":"GO:0021881","count":1},{"id":"GO:0002031","count":1},{"id":"GO:0032423","count":1}]},{"hash":"275232047003017242","title":"Unknown","description":"The top GO terms are diverse and span ubiquitin-related quality control, RNA processing, transcription, signaling, and sensory/viral functions, with no single coherent function tying the proteins together. Therefore there is no clear theme to assign a specific label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1902525","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0046784","count":1}]},{"hash":"1129013998828045533","title":"Mesenchymal cell proliferation","description":"The cluster comprises 3 proteins with a single GO term, GO:0072137 condensed mesenchymal cell proliferation, suggesting a link to mesenchymal cell growth. With only 3 proteins and 2 edges (no triangles) and no additional enriched terms, the functional signal is weak and the label is tentative.","confidence":"Low","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072137","count":1}]},{"hash":"1399480259460014004","title":"Neurodevelopmental signaling and morphogenesis","description":"Based on the GO terms, the cluster centers on neural development and brain morphogenesis: neuroblast division, NMDA receptor activity regulation, epithelial differentiation, and key developmental signaling pathways (Wnt/PCP, Notch, TGF-beta). The inclusion of angiogenesis and GTPase-regulated cytoskeletal remodeling supports associated morphogenesis and vascular development in the neural context. Overall, these terms cohere around neurodevelopmental signaling and tissue shaping, though the set includes broader developmental processes as well. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0030862","count":2},{"id":"GO:2000310","count":2},{"id":"GO:0045746","count":2}]},{"hash":"401363477811612610","title":"Phospholipid Biosynthesis and Choline Metabolism","description":"This cluster is enriched for phosphatidylethanolamine biosynthesis, ethanolamine and choline metabolic processes, and the CDP-choline pathway, indicating a lipid biosynthesis module dedicated to membrane phospholipid production; a few terms about chemical stress responses are likely incidental.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006646","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0019284","count":2},{"id":"GO:1904681","count":2}]},{"hash":"827291890595250300","title":"Mycothiol/Bacillithiol Metabolism","description":"The cluster is dominated by GO terms for mycothiol-dependent detoxification, mycothiol biosynthesis, and bacillithiol biosynthesis, indicating a cohesive theme of thiol-based redox metabolism common to certain Gram-positive bacteria. Other terms appear peripheral (e.g., N-acetylglucosamine metabolism, gallate catabolism), but the strongest signal is for thiol biosynthesis and detox pathways.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010127","count":2},{"id":"GO:0006044","count":2},{"id":"GO:0019396","count":2},{"id":"GO:0010125","count":2},{"id":"GO:0071793","count":2}]}]