[{"hash":"418275510020364860","title":"Wnt and GPCR signaling with adhesion regulation","description":"The cluster includes GO terms for canonical Wnt signaling, GPCR signaling, dopamine response, and tight junction/adhesion-related processes, pointing to a theme of interconnected signaling and cell\u2013cell adhesion regulation. Ubiquitination and nucleolar localization present broader regulatory aspects that can modulate these signaling pathways and protein trafficking, supporting a cohesive but multifaceted functional theme.","confidence":"Medium","size":29,"edges":55,"triangles":14,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:1900026","count":4},{"id":"GO:1903125","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0070830","count":4}]},{"hash":"253798784643086625","title":"Embryonic organ development and RA signaling","description":"Embryonic organ development is reflected by multiple organ-specific terms (heart, placenta, growth plate cartilage, vagina, CNS axonogenesis) and the common thread of DNA-templated transcription plus cellular response to retinoic acid, pointing to RA-regulated transcriptional programs driving embryogenesis. The presence of signaling modules like p38MAPK and some inflammatory terms likely reflect broader regulatory pathways that interact with development but do not override the core developmental theme.","confidence":"High","size":29,"edges":55,"triangles":51,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:0071300","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0001890","count":14},{"id":"GO:0003430","count":14}]},{"hash":"839922472748519130","title":"Neural development and immune/stress signaling","description":"Top GO terms indicate a strong emphasis on nervous system development, dendrite morphogenesis, and forebrain proliferation, pointing to neural development as the core function of this cluster. Supplementary terms such as phospholipid (lipid) homeostasis align with neuronal membrane biology, while responses to hydrogen peroxide, lipopolysaccharide, and complement activation reveal concurrent stress and immune signaling. The combination suggests a cluster centered on neural development with related lipid/membrane and immune-stress processes.","confidence":"Medium","size":29,"edges":117,"triangles":106,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":12},{"id":"GO:0010628","count":11},{"id":"GO:0055091","count":10},{"id":"GO:0048813","count":10},{"id":"GO:0090051","count":8}]},{"hash":"1976930448270560389","title":"Muscle growth signaling and proteostasis","description":"This cluster is enriched for signaling and muscle biology terms, including TGF-beta receptor signaling and positive regulation of skeletal muscle tissue growth, alongside multiple phosphorylation/dephosphorylation and proteostasis-related processes (tyrosine and PI dephosphorylation, autophagosome/proteasome regulation). Together these suggest coordinated signaling that governs muscle growth and muscle cell homeostasis, with control of protein turnover and autophagy.","confidence":"High","size":29,"edges":97,"triangles":205,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":13},{"id":"GO:0007179","count":8},{"id":"GO:0032435","count":7},{"id":"GO:0043087","count":7},{"id":"GO:0070584","count":7}]},{"hash":"1484243235078663429","title":"Diverse-substrate membrane transporters","description":"GO terms indicate transmembrane transport for xenobiotics, nutrients, nitrates/nitrite, phosphate, vitamins, sugars like arabinose, and even neurotransmitter loading into synaptic vesicles. This constellation points to a group of membrane transporter proteins with broad substrate specificity, spanning both nutrient uptake and xenobiotic handling, including vesicular transport. ","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006855","count":5},{"id":"GO:0098700","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0042891","count":5}]},{"hash":"1328719242360392054","title":"Immune-angiogenesis and tissue remodeling","description":"The cluster centers on immune activation (adaptive immunity, lectin pathway complement) combined with vascular and extracellular matrix remodeling (angiogenesis, endothelial migration, cell-matrix adhesion) and signaling through ERK and Wnt pathways, plus cartilage condensation, suggesting coordinated immune responses with tissue vascularization and development.","confidence":"Medium","size":29,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071226","count":14},{"id":"GO:0002250","count":13},{"id":"GO:0043536","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0001525","count":13}]},{"hash":"267291083693282854","title":"Regulation of bone formation and chondrogenesis","description":"The cluster centers on osteoblast and chondroblast differentiation, bone mineralization, and cartilage condensation, with both positive and negative regulation, plus MAPK signaling involvement, pointing to skeletal development (bone and cartilage formation). Some terms like hair follicle morphogenesis and pregnancy are peripheral noise rather than core signals.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":4},{"id":"GO:0030502","count":4},{"id":"GO:0007565","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0014912","count":3}]},{"hash":"109014269734675745","title":"Multi-tissue development and transcriptional regulation","description":"This cluster shows enrichment for diverse developmental processes (pancreas, muscle, bronchiole and neural differentiation) along with core transcription by RNA polymerase II and its negative regulation, indicating a broad theme of lineage specification governed by transcriptional control across multiple tissues.","confidence":"High","size":29,"edges":391,"triangles":3279,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":21},{"id":"GO:0035914","count":16},{"id":"GO:0006366","count":15},{"id":"GO:0000122","count":14},{"id":"GO:0021530","count":14}]},{"hash":"1683754662193882984","title":"Skeletal Muscle Development and Regeneration","description":"The cluster is dominated by GO terms for myoblast proliferation, myotube differentiation, and skeletal muscle tissue regeneration, indicating a core role in muscle development and repair. Co-occurring terms on redox balance, cellular detoxification, and PI3K/AKT signaling suggest supportive metabolic and survival pathways that enable muscle growth and maintenance, with triglyceride metabolism pointing to energy handling in muscle. A few terms like sensory perception of sound or UV protection appear peripheral but do not override the muscle-focused signature.","confidence":"Medium","size":29,"edges":388,"triangles":3228,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":13},{"id":"GO:0006641","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0051897","count":8},{"id":"GO:0051450","count":8}]},{"hash":"2228327442916315860","title":"Unknown","description":"The top GO terms are highly diverse, spanning imprinting regulation, GTPase signaling, invasive growth, cell cycle and proliferation, immune defense, forebrain and skeletal development, ER-stress\u2013induced apoptosis, and metal response. This breadth suggests no single cohesive function characterizes the cluster, making an interpretable, specific label unlikely.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0008283","count":4}]},{"hash":"2293855609493549873","title":"Cell cycle and gene expression machinery","description":"The top GO terms cluster around fundamental cell cycle processes (DNA replication, cell division, chromatid cohesion, microtubule dynamics) and nuclear gene expression (transcription, mRNA export), with an additional signal of vesicle trafficking (ER to Golgi) observed in some proteins. This suggests a cohesive theme of core cell cycle and gene expression machinery, with minor trafficking involvement.","confidence":"Medium","size":29,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0051754","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0006406","count":5}]},{"hash":"774531949728021290","title":"Neural crest migration and axon pathfinding","description":"This cluster centers on neural development signals, including neural crest cell migration and various axon guidance pathways (semaphorin-plexin signaling, branchiomotor and sympathetic neuron guidance, paranode localization). While there are immune terms present (complement activation, innate immune response, B cell activation), the strongest and most coherent theme is neural crest\u2013driven development and axon pathfinding.","confidence":"High","size":29,"edges":234,"triangles":769,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":14},{"id":"GO:0007157","count":13},{"id":"GO:0036486","count":13},{"id":"GO:1902287","count":13},{"id":"GO:0002175","count":13}]},{"hash":"2156186164192799985","title":"Translation and Stress Response","description":"The cluster is dominated by translation (GO:0006412) with 6 proteins, and includes several stress-related terms (response to antibiotic, cold, starvation) and redox homeostasis, suggesting a group connected to protein synthesis with broad stress-response roles. Some outlier terms (e.g., SA node action potential regulation, telomere maintenance) may reflect annotation noise rather than core cluster features.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0055114","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0042594","count":2}]},{"hash":"1314722356905459245","title":"Heart Morphogenesis and Electrical Conduction","description":"Most of the top GO terms cluster around cardiac development and heart structure formation: left ventricular cardiac muscle tissue morphogenesis, outflow tract morphogenesis, heart development, and SA node/Purkinje cell signaling. This pattern indicates a coherent set of proteins involved in cardiac morphogenesis and the electrical conduction system, with the other terms (visual perception, ossification) being less central but not altering the main theme. Therefore, the label captures the predominant function of the cluster.","confidence":"High","size":29,"edges":9,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":14},{"id":"GO:1903244","count":12},{"id":"GO:0043388","count":11},{"id":"GO:0098907","count":11},{"id":"GO:0003220","count":11}]},{"hash":"1929483162778382431","title":"RNA Metabolism and Translation","description":"The cluster shows a strong enrichment for translation and RNA metabolism terms (translation, tRNA modification/processing, RNA processing, RNA hydrolysis), pointing to core gene-expression and protein-synthesis activities. While some neural development terms (neuron migration, sensory perception of sound) and immune/defense terms appear, the prevailing theme centers on RNA-level control of expression, with secondary links to neural processes. ","confidence":"Medium","size":29,"edges":39,"triangles":16,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0006400","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0090502","count":3}]},{"hash":"1189207699908575875","title":"UPR-driven transcription in development","description":"This cluster is strongly enriched for transcription by RNA polymerase II and PERK-mediated unfolded protein response terms, with several development- and morphogenesis-related terms (eye, brain, lung). The combination suggests genes whose expression is modulated by ER stress during developmental processes, rather than a single specific tissue pathway. Confidence: Medium","confidence":"","size":29,"edges":398,"triangles":3444,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0035470","count":11},{"id":"GO:0006990","count":9},{"id":"GO:1990440","count":9},{"id":"GO:0043010","count":8}]},{"hash":"1550371014962570627","title":"Embryonic Development and Transcription Regulation","description":"This cluster's GO terms center on embryonic development processes (placental/trophoblast differentiation, left-right patterning, cartilage morphogenesis, EMT in heart cushion formation) and transcriptional control (DNA-templated transcription; negative regulation of RNA Pol II). The shared theme is regulation of developmental programs via transcriptional regulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0035270","count":3},{"id":"GO:0003323","count":3}]},{"hash":"951574214203119448","title":"Embryonic development and tissue morphogenesis","description":"Proteins in this cluster are annotated with diverse developmental GO terms across multiple tissues (endocrine system development, left-right pattern formation, heart EMT in endocardial cushion formation, placenta development, pancreatic beta-cell development, cartilage morphogenesis, palate formation, hair follicle morphogenesis), indicating a broad embryonic morphogenesis program rather than a single pathway. The label \u201cEmbryonic development and tissue morphogenesis\u201d reflects this shared theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":22},{"id":"GO:0060972","count":22},{"id":"GO:0003198","count":22},{"id":"GO:0060707","count":22},{"id":"GO:0003323","count":22}]},{"hash":"93329377116057420","title":"Craniofacial morphogenesis and developmental signaling","description":"Based on the top GO terms, the cluster is dominated by embryonic cranial skeleton morphogenesis with strong associations to developmental signaling pathways (Wnt, Kit, retinoic acid) and cell-matrix interactions, together with proliferative processes (DNA replication). While a few terms are tangential (NK cell differentiation, imprinting regulation), the core theme is craniofacial development and the signaling networks that govern it.","confidence":"High","size":29,"edges":326,"triangles":1991,"max_degree":28,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":29},{"id":"GO:0006260","count":29},{"id":"GO:0038109","count":28},{"id":"GO:0007160","count":28},{"id":"GO:0090263","count":28}]},{"hash":"1740087452375555300","title":"Pigment cell lipid metabolism and melanosome trafficking","description":"The top GO terms point to lipid metabolism (ether lipids, unsaturated fatty acids) and vesicle transport from endosomes to melanosomes, which is characteristic of pigment cells and melanosome biology. Visual perception and melanosome transport together suggest a retina/pigment-associated context. Several signaling terms (integrin, Wnt, VEGF) can influence pigment cell interactions, vascularization, and cell adhesion in eye tissues. Overall, the cluster seems to unite lipid metabolism with melanosome trafficking in pigment/eye cells.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046485","count":3},{"id":"GO:0007601","count":3},{"id":"GO:2001046","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0006636","count":2}]},{"hash":"317533500569707944","title":"Immune Response and Inflammation Regulation","description":"Reasoning: the top GO terms center on immune-related functions, notably immunoglobulin production and its regulation, as well as inflammatory response modulation, and apoptosis signaling (NF-kappaB-related). This combination points to a cluster of proteins involved in immune defense and control of inflammation, sometimes linked to cell death pathways. While a few terms reflect broader cellular stress (circadian temperature homeostasis, mechanical stimulus), the dominant immune/inflammatory terms justify the label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006919","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0002377","count":5},{"id":"GO:0060086","count":4},{"id":"GO:0050728","count":4}]},{"hash":"554041987159467364","title":"Rho-regulated cytoskeleton, polarity, and junctions","description":"The cluster is dominated by GO terms tied to Rho GTPase signaling and activation, cytoskeletal remodeling (microvillus assembly, dendritic spine morphogenesis), and cell polarity with epithelial tight junction and centrosome localization. This points to a coherent module of cytoskeletal dynamics and cell-cell interface organization across epithelial and neuronal contexts, with some involvement in immune cell signaling as reflected by dendritic cell-related terms.","confidence":"High","size":29,"edges":12,"triangles":3,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035023","count":16},{"id":"GO:0008285","count":15},{"id":"GO:0030033","count":15},{"id":"GO:0060997","count":14},{"id":"GO:0051660","count":14}]},{"hash":"841788732378783597","title":"Cell polarity and junction assembly","description":"Most terms point to cellular polarization, apical/basolateral membrane organization, and junction assembly (microvilli, tight junctions, endothelial barrier), with Rho signaling and centrosome localization underpinning polarity. Some terms relate to protein turnover and proliferation control during remodeling. Overall, the cluster seems to represent polarized cell interfaces rather than a single enzyme or pathway, hence this name with Medium confidence. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030033","count":6},{"id":"GO:0051835","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0051660","count":4}]},{"hash":"948732050535807815","title":"Neurodevelopment and organ morphogenesis","description":"This cluster centers on embryonic development and morphogenesis, with terms covering brain segmentation (rhombomere development) and habenula/retina eye development, as well as branching morphogenesis in lung and ureteric bud. The presence of transcription-related terms (RNA polymerase II\u2013dependent transcription) suggests these proteins include regulators driving developmental programs, combining neurodevelopment with broader organogenesis.","confidence":"High","size":29,"edges":258,"triangles":938,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035284","count":11},{"id":"GO:0021571","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0006366","count":10}]},{"hash":"848386226405952162","title":"Immune and Developmental Signaling","description":"The Top Terms include innate immune response, multiple signaling cascades (NF-kappaB, PI3K, ERK), and diverse developmental processes (angiogenesis, axon guidance, nervous system development, ossification). This mix points to proteins that participate in signaling networks coordinating immune activity with broad developmental and morphogenetic processes across neural, vascular, and skeletal contexts. Therefore, \u201cImmune and Developmental Signaling\u201d is a concise, representative label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":8},{"id":"GO:0043552","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0035023","count":6}]},{"hash":"1109064142456489049","title":"Amino acid and small molecule transporters","description":"These proteins are dominated by transmembrane transport functions for amino acids (D-serine, D-alanine, L-arginine), neurotransmitters (GABA), and related metabolites (carnitine, ammonium), along with cell volume homeostasis. The GO terms collectively point to transport activity across membranes for diverse small solutes, rather than a single signaling or catalytic function, justifying a label of amino acid and small molecule membrane transporters.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042942","count":5},{"id":"GO:0042941","count":5},{"id":"GO:0035826","count":5},{"id":"GO:0006884","count":5},{"id":"GO:0015812","count":5}]},{"hash":"1216517789262074152","title":"Translation and ribosome biogenesis","description":"The cluster centers on translation with GO:0006412 (10 hits) and includes a concrete signal for ribosomal large subunit assembly (GO:0000027) as well as negative regulation of translation, pointing to a cohesive group involved in protein synthesis and ribosome biogenesis. Additional terms related to mitochondrial electron transport and iron-sulfur cluster assembly suggest a close tie to mitochondrial biology and Fe-S dependent processes that support ribosome function, though several other terms (e.g., nitrogen fixation, transcription, insulin secretion regulation) are less representative and likely incidental. Overall, the defining theme is components and regulators of the protein synthesis machinery. ","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0017148","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0009399","count":1}]},{"hash":"880722876916188836","title":"Neuroendocrine signaling and thermoregulation","description":"This cluster centers on neural/neuroendocrine signaling and physiological regulation, highlighted by terms like neuropeptide signaling, dopamine receptor signaling, sensory pain, responses to temperature and prostaglandin stimuli, diet-induced thermogenesis, circadian rhythm, and blood pressure regulation. Together they suggest coordinated neural control of metabolism, thermoregulation, and cardiovascular homeostasis. Some terms (e.g., defense response to bacterium) appear as outliers rather than core themes. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0002024","count":18},{"id":"GO:0071380","count":17},{"id":"GO:0008283","count":17}]},{"hash":"596589145286563501","title":"Immune cell adhesion and immunological synapse regulation","description":"The top GO terms center on heterophilic cell\u2013cell adhesion and multiple layers of immune regulation (NK cell inhibition, macrophage activation suppression, T cell degranulation control) plus synapse assembly and actin remodeling, suggesting a cluster of proteins involved in adhesion-mediated immune communication and immunological synapse formation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":20},{"id":"GO:0002859","count":19},{"id":"GO:0043031","count":19},{"id":"GO:0086072","count":19},{"id":"GO:0043318","count":19}]},{"hash":"1806557376608351802","title":"Developmental signaling and morphogenesis","description":"This set centers on developmental processes across tissues (heart, thymus) and cellular organization (epithelial polarity), alongside neural-related morphogenesis (dendritic spines, synaptic potentiation) and broad signaling pathways (Rho/GTPase, insulin signaling). Together they suggest a module of signals guiding organ development, tissue architecture, and neural connectivity rather than a single specific pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0090162","count":17},{"id":"GO:0060997","count":17},{"id":"GO:0008286","count":17}]},{"hash":"1539432866051602265","title":"Ribosome Biogenesis and Translation with Cell Cycle","description":"The cluster centers on ribosome-related processes (ribosome biogenesis, cytoplasmic translation, tRNA modification, and ribosomal subunit export) and includes cell cycle/division terms, suggesting a cohesive program linking protein synthesis machinery with cell division. The presence of these core terms indicates a functional theme around ribosome assembly and activity coordinated with cell proliferation.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0002181","count":3},{"id":"GO:0007049","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0006400","count":3}]},{"hash":"1353777458698393085","title":"GPCR signaling in cardiovascular and metabolic regulation","description":"The cluster prominently features GO terms tied to GPCR signaling and adenylate cyclase activation (e.g., GO:0010579 and GO:0007189), as well as positive regulation of blood pressure (GO:0045777) and positive regulation of Rho signaling (GO:0035025). Additional terms related to metabolism and thermoregulation (diet-induced thermogenesis, cellular response to temperature) and pain perception suggest GPCR-driven signaling influences on cardiovascular function and metabolic regulation, with some peripheral terms like osteoblast development. Overall, the dominant theme is GPCR-mediated signaling linked to cardiovascular and metabolic processes, with some supporting signals from energy and temperature-related pathways. Confidence: Medium","confidence":"","size":29,"edges":4,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0035025","count":7},{"id":"GO:0019233","count":6}]},{"hash":"942060640742665373","title":"Epithelial polarity and junction assembly","description":"The terms cluster around establishing apical/basal polarity, microvillus assembly, and tight junction formation, along with regulation of Rho signaling and cytoskeletal organization at cell contacts (integrin-mediated adhesion and centrosome localization). While some terms touch broader cytoskeletal signaling or sensory structures, the dominant theme is epithelial cell polarity and junction assembly. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0030033","count":11},{"id":"GO:0035023","count":10},{"id":"GO:0045198","count":9},{"id":"GO:0051835","count":9},{"id":"GO:0051660","count":8}]},{"hash":"1239755702155210618","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster centers on ubiquitin-mediated proteolysis, including autoubiquitination and ERAD, with additional links to histone catabolic processes and regulation of JNK, TNF signaling, and I-kappaB phosphorylation, indicating a cohesive group of proteins involved in ubiquitin-proteasome pathways and signaling regulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0051865","count":13},{"id":"GO:0036205","count":12},{"id":"GO:0085020","count":12},{"id":"GO:0046328","count":12}]},{"hash":"1563523424523847112","title":"Enteric nervous system signaling and gut metabolic regulation","description":"This cluster's top GO terms cluster around enteric nervous system functions (peristalsis, enteric nervous system development, visceral pain perception) and systemic/metabolic signaling (thermogenesis, circadian regulation, ERK signaling, xenobiotic response, renin-angiotensin\u2013mediated blood pressure, and IL-10 production), suggesting a gut-brain axis theme with broader metabolic and immune regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030432","count":23},{"id":"GO:0019233","count":23},{"id":"GO:0071502","count":23},{"id":"GO:0002024","count":23},{"id":"GO:0042493","count":23}]},{"hash":"1917135100639001948","title":"Cardiovascular development and inflammatory regulation","description":"The top GO terms cluster around regulation of blood pressure (renin-angiotensin), vascular smooth muscle contraction, and heart development, indicating cardiovascular developmental/functional roles. They are complemented by immune/inflammatory terms (IL-10 production, inflammatory response, neutrophil killing), suggesting coordinated regulation of cardiovascular function with immune signaling. While there are also terms related to circadian rhythm and retina development, the dominant theme centers on cardiovascular regulation with inflammatory processes, justifying a CV- and immune-regulatory label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":24},{"id":"GO:0042752","count":24},{"id":"GO:0072608","count":24},{"id":"GO:0035625","count":24},{"id":"GO:0060041","count":24}]},{"hash":"1103421033331065660","title":"DNA Repair and RNA Metabolism Stress Response","description":"The cluster is enriched for DNA repair and damage-response terms (DNA repair, response to ionizing radiation, arsenic-containing substance) alongside RNA metabolism and translational regulation terms (tRNA metabolic process, regulation of translational fidelity, P-body assembly), suggesting a coordinated function in genome maintenance and RNA processing under stress.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0010212","count":2},{"id":"GO:0046685","count":1},{"id":"GO:0052046","count":1},{"id":"GO:0035335","count":1}]},{"hash":"850012648195454675","title":"Cardiac development and electrical conduction","description":"Based on the top GO terms, the cluster centers on heart development and cardiac electrophysiology, including heart rate regulation by cardiac conduction, SA node action potentials, and atrial/ventricular membrane depolarization/repolarization, as well as cell\u2013cell adhesion within cardiac tissue. Immune-related terms are present but appear secondary to the dominant cardiac-focused theme, suggesting the proteins collectively participate in heart formation and electrical signaling. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0007157","count":5},{"id":"GO:0019226","count":5},{"id":"GO:0086091","count":5},{"id":"GO:0060371","count":5}]},{"hash":"719442137434427978","title":"Cell cycle control and telomere maintenance","description":"The cluster features multiple GO terms tied to cell division and genome integrity, including negative regulation of CDK activity, mitotic spindle orientation, and centrosome localization, as well as telomere maintenance via telomerase. While there are some developmental terms (face and auditory receptor development) and other processes like mRNA processing, the core signals point to regulation of the cell cycle and chromosome/telomere maintenance, making this a coherent theme for the cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0070198","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007004","count":2}]},{"hash":"1476177213870374099","title":"Neurodevelopment and organogenesis signaling","description":"The top GO terms cluster around nervous system development (including specific brain regions) and development of multiple organs (hair follicles, kidneys, salivary glands). The presence of terms for positive regulation of Wnt signaling and ERK cascades suggests common developmental signaling pathways coordinating tissue formation. Together, these terms indicate a development- and signaling-focused theme across neural and ectodermal organs.","confidence":"High","size":28,"edges":125,"triangles":158,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0043524","count":9},{"id":"GO:0001822","count":9},{"id":"GO:0090263","count":8},{"id":"GO:0031069","count":8}]},{"hash":"1241974956315826444","title":"Embryonic development and morphogen signaling","description":"The top GO terms point to broad developmental processes across tissues (heart, CNS, retina, salivary gland) with key signaling pathways (BMP, Smoothened) and cellular organization (synapse formation, ion channel clustering). This suggests a theme of embryonic patterning and morphogenesis governed by signaling cascades, rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0035023","count":13},{"id":"GO:0050808","count":13},{"id":"GO:0034164","count":12},{"id":"GO:0007417","count":12}]},{"hash":"859903501348463261","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for ribosome assembly/biogenesis (ribosome biogenesis, ribosomal subunit biogenesis, ribosomal large subunit export from nucleus), cytoplasmic translation, and tRNA modification, indicating a core role in ribosome production and protein synthesis. The presence of cell cycle/division terms likely reflects growth coordination with ribosome function.","confidence":"High","size":28,"edges":212,"triangles":773,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":11},{"id":"GO:0000055","count":10},{"id":"GO:0008283","count":10},{"id":"GO:0007049","count":10},{"id":"GO:0006400","count":9}]},{"hash":"514760104277987095","title":"Neuroinflammation and Brain Immune Response","description":"The top GO terms show strong signals for innate and inflammatory immune processes, including positive regulation of inflammatory response, innate immune response, defense against fungi, and astrocyte activation, alongside brain-related terms like substantia nigra development. While there are outliers (memory, spermatogenesis, protein heterotetramerization), the dominant pattern ties neural context with immune/inflammatory signaling, supporting a brain-immune cluster label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":4},{"id":"GO:0007613","count":4},{"id":"GO:0050832","count":4},{"id":"GO:0051290","count":3},{"id":"GO:0007283","count":3}]},{"hash":"331574409510281961","title":"Unknown","description":"The GO terms are highly heterogeneous, including subtelomeric heterochromatin formation and histone acetylation (eukaryotic chromatin regulation), angiogenesis, and several metabolic and acetylation-related processes (N-acetylglucosamine/glucosamine metabolism, spermidine/spermine acetylation, mycothiol biosynthesis). There isn\u2019t a single cohesive function linking these terms for the protein cluster, so it\u2019s not possible to assign a specific, representative label.","confidence":"","size":28,"edges":70,"triangles":97,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":10},{"id":"GO:0017198","count":10},{"id":"GO:0032918","count":9},{"id":"GO:0045150","count":9},{"id":"GO:0032919","count":9}]},{"hash":"2114751773596026021","title":"Amino acid and ion transport","description":"The cluster\u2019s GO terms are dominated by membrane transport activities: D-serine and D-alanine transmembrane transport, L-arginine transport/import, transepithelial ammonium transport, GABA transport, and even ion-specific transport like rubidium, plus a note on cell volume homeostasis. These collectively point to a coherent theme of amino acid and ion/solute movement across membranes, with translation-related terms playing a minor role. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042942","count":2},{"id":"GO:0042941","count":2},{"id":"GO:0035826","count":2},{"id":"GO:0006884","count":2}]},{"hash":"2200251301260914265","title":"ERAD and Deubiquitination Machinery","description":"The main terms point to ER-associated degradation (unfolded protein maintenance in ERAD) and protein deubiquitination, including specific K6- and K29-linked deubiquitinases, plus deglycosylation\u2014core aspects of ER quality control and ubiquitin-mediated proteolysis. Other terms are more peripheral, but the dominant signal is ubiquitin processing in the ER.","confidence":"High","size":28,"edges":46,"triangles":31,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1904378","count":7},{"id":"GO:0044313","count":7},{"id":"GO:0035523","count":7},{"id":"GO:0034140","count":6},{"id":"GO:0006517","count":5}]},{"hash":"677064078125033529","title":"ERAD and deubiquitination regulation","description":"The prominent GO terms center on ubiquitin-dependent ERAD, protein deubiquitination, and regulation of ERAD activity, with additional hints toward NF-\u03baB signaling and cell death. This cluster seems to group proteins involved in ubiquitin\u2011mediated protein quality control and its downstream signaling at the ER.","confidence":"High","size":28,"edges":362,"triangles":2889,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:2000157","count":7},{"id":"GO:1903094","count":7},{"id":"GO:0016579","count":6},{"id":"GO:0008219","count":6}]},{"hash":"1572015834050220348","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0034316","count":8},{"id":"GO:0007275","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0000472","count":6}]},{"hash":"1801080952654215341","title":"RNA splicing and translation regulation","description":"The cluster\u2019s top GO terms center on spliceosome-mediated mRNA splicing and regulation of translation initiation/reinitiation, along with stress-related mRNA stability and ncRNA-mediated gene silencing. This indicates a cohesive group involved in post-transcriptional RNA processing and control of protein synthesis, fitting a distinct functional theme.","confidence":"High","size":28,"edges":274,"triangles":1556,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0031047","count":14},{"id":"GO:0048026","count":14},{"id":"GO:0001731","count":14},{"id":"GO:0002188","count":14}]},{"hash":"2021465711555403555","title":"Neural development and dendrite morphogenesis","description":"The cluster shows strong signals for nervous system development and dendrite morphogenesis, including hippocampus development and axon extension, indicating a focus on neuronal differentiation and morphogenesis. Additional terms for mitotic cell cycle, DNA replication and repair, and protein stability regulation suggest concurrent cell-cycle/dna maintenance roles in proliferating neural progenitors, though the dominant theme remains neural development. The T cell receptor signaling term appears incidental.","confidence":"Medium","size":28,"edges":40,"triangles":5,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":27},{"id":"GO:0007399","count":26},{"id":"GO:0048813","count":26},{"id":"GO:0006260","count":26},{"id":"GO:0051973","count":25}]},{"hash":"377761595414671570","title":"Neural development and RNA processing","description":"This cluster is dominated by RNA processing and protein synthesis terms (mRNA splicing via spliceosome; formation of translation preinitiation complex; translation reinitiation), indicating a focus on gene expression machinery. Coupled with neural development terms (forebrain, retina, spinal cord development), the common theme appears to be regulation of gene expression during neural development. Additional terms (apoptotic signaling, glucose signaling, Okazaki fragment processing) suggest broader cellular context but do not override the neural-development\u2013expression connection. Based on these patterns, the label reflects the most coherent function of the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":10},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:2001235","count":8},{"id":"GO:0030900","count":8}]},{"hash":"1596078981912768175","title":"Yeast filamentous growth and osmosensory signaling","description":"This cluster centers on yeast-shaped morphological switching and stress responses, with terms for pseudohyphal and invasive growth, filamentous growth signaling, and the Sho1 osmosensor pathway, complemented by RNA processing/stress granule dynamics that often accompany stress-induced morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0007121","count":2},{"id":"GO:0001402","count":2},{"id":"GO:0043065","count":2}]},{"hash":"1866536159673482132","title":"Embryonic morphogenesis and cytoskeletal regulation","description":"The GO terms point to embryonic development of organs (kidney/metanephros and cranial skeletal system) and cell fate, alongside cytoskeleton-related processes (microtubule dynamics, pseudopodium assembly) and nuclear transport, suggesting a theme of embryonic morphogenesis coordinated with cytoskeletal and nuclear transport regulation.","confidence":"High","size":28,"edges":203,"triangles":983,"max_degree":21,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007026","count":12},{"id":"GO:0072053","count":11},{"id":"GO:1904888","count":11},{"id":"GO:0045976","count":11},{"id":"GO:0006607","count":11}]},{"hash":"367082359664059490","title":"Neuronal adhesion and synapse formation","description":"The top GO terms are dominated by neural connectivity processes: cell-cell adhesion (heterophilic/homophilic), synapse assembly and glutamatergic transmission, and nervous system development, suggesting a cohesive theme around neuronal adhesion and synapse formation/maintenance. Some bone and smooth muscle terms appear peripherally but do not define the core function of the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0051965","count":12},{"id":"GO:0043931","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0007399","count":10}]},{"hash":"2207914800631127804","title":"Transcription Regulation and Tissue Remodeling","description":"The top GO terms include both regulation of RNA polymerase II transcription (negative and positive) and processes related to ECM remodeling and development (collagen catabolic process, tissue remodeling, blood coagulation, midbrain development). This mixture suggests no single cohesive function, but a combined theme around transcription control coupled with tissue remodeling activities. The lack of interactions (Edges: 0) and multiple disparate terms justify a cautious, representative label with low confidence.","confidence":"Low","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0045944","count":9},{"id":"GO:0030574","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0014068","count":8}]},{"hash":"1630408349073557900","title":"DNA replication and cell cycle regulation","description":"The top GO terms are dominated by meiotic cell cycle, DNA replication, and G1/S transition, indicating a core focus on cell-cycle control and genome duplication. While other terms include Wnt signaling, mRNA stability regulation, and post-translational modifications, these appear to be ancillary regulatory processes that accompany replication and division. The presence of these cell-cycle\u2013related terms across multiple proteins supports labeling this cluster as related to DNA replication and cell cycle regulation. ","confidence":"High","size":28,"edges":11,"triangles":2,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0016055","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0043488","count":4}]},{"hash":"2004011252568932610","title":"Developmental cytoskeleton remodeling and endocytosis","description":"The terms cluster around developmental processes (neuronal projection development, heart and lens differentiation) and cytoskeletal/trafficking activities (Arp2/3 actin regulation, clathrin-mediated endocytosis), with apoptosis also represented. This suggests a theme of cellular morphogenesis involving cytoskeletal dynamics and membrane trafficking, rather than a single tightly defined pathway.","confidence":"Medium","size":28,"edges":27,"triangles":0,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0072583","count":3}]},{"hash":"101295241084042383","title":"Developmental and Immune Regulation","description":"This cluster centers on regulatory processes spanning development (retina, osteoblasts, axis patterning) and immune-related functions (IL-4 signaling, MHC class II biosynthesis, lactation, wound healing), with transcriptional control as a foundational theme. The shared thread appears to be broad regulatory roles coordinating tissue development and immune signaling rather than a single specific pathway.","confidence":"Medium","size":28,"edges":377,"triangles":3250,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0035470","count":11},{"id":"GO:0060041","count":11},{"id":"GO:0071353","count":9},{"id":"GO:0045348","count":9}]},{"hash":"864276230820169270","title":"Innate Immune Activation and Tissue Remodeling","description":"The top GO terms cluster around innate immunity and tissue remodeling: complement activation (classical and lectin pathways), defense against fungus, response to lipopolysaccharide, and blood coagulation, along with collagen catabolic processes. These together suggest inflammatory signaling and extracellular matrix remodeling. While developmental and transcriptional regulation terms appear, the dominant theme is immunity and remodeling, justifying this label. ","confidence":"Medium","size":28,"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":11},{"id":"GO:0032496","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0006958","count":7}]},{"hash":"1212372401202358931","title":"Unknown","description":"The top GO terms span transcriptional regulation, immune/complement activation, coagulation, signaling, ECM remodeling, and development, with no single dominant function tying the cluster together. The proteins appear to participate in diverse, context-dependent pathways, so a concise unifying label isn\u2019t evident.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0006958","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0016055","count":7},{"id":"GO:0007586","count":6}]},{"hash":"770121154163505299","title":"Developmental transcription regulators","description":"The cluster is enriched for transcription regulation by RNA polymerase II (both negative and positive) and DNA-templated transcription, with multiple developmental processes (embryonic and organ development such as heart, midbrain, pancreas morphogenesis, and in utero development), suggesting proteins that coordinate gene expression during organogenesis; a lipopolysaccharide response term is likely secondary.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0032496","count":8},{"id":"GO:0007601","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0035264","count":7}]},{"hash":"81723485740438373","title":"Lipid and microbial metabolism","description":"The top GO terms point to broad metabolic activity, with a focus on lipid-derived metabolism (retinol/retinal, C21-steroid hormone) and various microbial biosynthetic/catabolic processes (lipopolysaccharide biosynthesis, poly-hydroxybutyrate biosynthesis, acetoin catabolism). While some terms (lung development, antibiotic response) are less tightly tied, the common thread is metabolism across lipid pathways and microbial pathways, justifying a label centered on metabolic processes with emphasis on lipids and microbes.","confidence":"Medium","size":28,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042572","count":8},{"id":"GO:0042574","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0046677","count":7},{"id":"GO:0030324","count":7}]},{"hash":"1493132693200446499","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple organs (midbrain, pituitary, tooth odontogenesis, outflow tract morphogenesis, primitive streak formation, inner ear, pancreas, male gonad). The presence of a transcriptional regulation term (negative regulation of transcription by RNA polymerase II) suggests involvement of transcriptional regulators during embryogenesis. An immune-related term (response to lipopolysaccharide) is present but seems less central to the core theme. Overall, the cluster likely comprises developmental regulators coordinating organ formation rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0030901","count":11},{"id":"GO:0021983","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0008584","count":9}]},{"hash":"43266696043001697","title":"Neural Synapse Development and Plasticity","description":"The top GO terms cluster around neuronal signaling and synapse biology: regulation of excitatory postsynaptic potential, dendritic spine morphogenesis, long-term synaptic depression, and JNK pathway regulation, which together point to synapse formation and plasticity. Some terms like heart development and epithelial polarity reflect broader developmental signaling or cell-adhesion contexts that can intersect with neural development, but the dominant theme is neuronal synaptic development and plasticity. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046328","count":7},{"id":"GO:1903760","count":6},{"id":"GO:0007507","count":6},{"id":"GO:2000463","count":6},{"id":"GO:0045794","count":6}]},{"hash":"1613003081944909752","title":"Neuroglial differentiation and cytoskeletal organization","description":"The top terms are dominated by glial/neuronal lineage processes (Bergmann glial cell differentiation, astrocyte development, Schwann cell proliferation, neurofilament bundle assembly) and cytoskeletal organization (microtubule cytoskeleton polarity), with some broader differentiation terms. This points to a cluster centered on neuroglial differentiation and cytoskeleton regulation.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060020","count":11},{"id":"GO:0055015","count":10},{"id":"GO:0035105","count":8},{"id":"GO:0030951","count":8},{"id":"GO:0045616","count":8}]},{"hash":"1063065321497276394","title":"GPCR-cAMP Signaling in Cardiovascular and Sensory Systems","description":"The top GO terms point to GPCR signaling that activates adenylate cyclase and downstream cAMP pathways (GO:0022900, GO:0010579, GO:0007190), with strong links to cardiovascular processes (positive regulation of blood pressure, heart development) and sensory modalities (visual perception, pain perception, morphine response). Prostaglandin signaling and macrophage chemotaxis further support a broad GPCR-mediated signaling theme across tissues. The electron transport chain annotation may reflect general metabolic context rather than a core cluster function. ","confidence":"Medium","size":28,"edges":29,"triangles":0,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":27},{"id":"GO:0022900","count":27},{"id":"GO:0010579","count":27},{"id":"GO:0007190","count":26},{"id":"GO:0007507","count":24}]},{"hash":"1297883117172909839","title":"Dopaminergic neural signaling and drug reward","description":"The cluster is dominated by terms tied to brain signaling and reward: dopaminergic synaptic transmission, ERK cascade regulation linked to dopamine signaling, and behavioral/drug-response terms (morphine, cocaine). Visual perception and visual learning further point to neural processing, supporting a cohesive theme of neural signaling and drug-associated reward, with some peripheral inflammatory-associated terms present but not central. ","confidence":"High","size":28,"edges":368,"triangles":3028,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":24},{"id":"GO:0007507","count":23},{"id":"GO:0007601","count":23},{"id":"GO:0019233","count":23},{"id":"GO:0071380","count":23}]},{"hash":"2039326418592663259","title":"Cardiac development and calcium signaling","description":"Based on the GO terms, the cluster is strongly enriched for cardiac morphogenesis and electrophysiological regulation: left ventricular cardiac muscle tissue morphogenesis; regulation of AV node and SA node action potential; membrane depolarization in AV node; and calcium ion response. There is also broader development signaling and calcium-dependent adhesion, which fit developmental signaling. The ossification term is notable but likely reflects shared calcium signaling roles rather than a bone-specific core function. Overall, the core theme points to heart development with calcium-mediated signaling.","confidence":"High","size":28,"edges":44,"triangles":16,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":19},{"id":"GO:0007275","count":16},{"id":"GO:0051592","count":15},{"id":"GO:0045188","count":14},{"id":"GO:0086045","count":14}]},{"hash":"1861084083227779946","title":"Innate Immunity and Interferon Signaling","description":"The cluster is dominated by GO terms for innate immune response and interferon signaling (including positive regulation of interferon-beta production and type II interferon signaling), as well as dsRNA and LPS-mediated signaling and xenophagy. This points to a module of antiviral/innate immune functions. The presence of a heart development term appears unrelated to the core theme, suggesting possible annotation noise; overall the proteins seem centered on interferon-driven immune responses rather than development.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060335","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0050830","count":4}]},{"hash":"51698909861232383","title":"Calcium signaling in immunity and vascular regulation","description":"This cluster centers on calcium release into the cytosol and immune-related processes (monocyte chemotaxis, IL-10 production, LPS/xenobiotic responses) with links to cardiovascular regulation (renin-angiotensin) and circadian/retinal signaling, suggesting a calcium-dependent signaling module that intersects immune, vascular, and circadian functions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":26},{"id":"GO:0008284","count":26},{"id":"GO:0090026","count":26},{"id":"GO:0042493","count":26},{"id":"GO:0032496","count":26}]},{"hash":"140601788074184761","title":"Pain signaling and cardiovascular remodeling","description":"This cluster combines nociceptive signals (pain and mechanosensation) with cardiovascular-related processes (Wnt signaling linked remodeling, endothelial proliferation/angiogenesis, SA node regulation, and cell migration). The presence of telomere maintenance terms may reflect proliferative contexts in vascular/heart-associated cells. Overall, the data point to a theme of stress- and signaling-driven vascular/heart remodeling rather than a single isolated pathway, supporting this label with medium confidence.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":6},{"id":"GO:0016055","count":5},{"id":"GO:0009408","count":5},{"id":"GO:0032212","count":5},{"id":"GO:1904908","count":4}]},{"hash":"738504861925039408","title":"Cardiovascular GPCR signaling and blood pressure regulation","description":"The cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling (including dopamine receptor pathways) and direct regulation of blood pressure, plus related pathways such as prostaglandin signaling and renin-angiotensin control. Rho signaling and circadian rhythm regulation further tie into vascular tone and physiological timing, supporting a cohesive theme of GPCR-driven cardiovascular signaling. While there are occasional terms for energy metabolism and immune signaling, they appear secondary to the core cardiovascular GPCR module.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":24},{"id":"GO:0045777","count":24},{"id":"GO:0035025","count":24},{"id":"GO:0071380","count":24},{"id":"GO:0022900","count":24}]},{"hash":"1216872023007729535","title":"Adhesion-Mediated Host-Tissue Signaling","description":"The prominent GO term is heterophilic cell-cell adhesion, supported by other terms indicating host-symbiont interaction, cell migration in tissue remodeling, epithelial integrity, and related signaling processes. Together these suggest a cluster of proteins involved in adhesion at host interfaces and the signaling that governs tissue remodeling and development, rather than a single pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0046718","count":10},{"id":"GO:0007414","count":9},{"id":"GO:0002042","count":9},{"id":"GO:0032516","count":9}]},{"hash":"892133220799455820","title":"Cardiac Muscle Function and Hypoxia Response","description":"Based on the prominent GO terms, the cluster centers on cardiac muscle physiology: contraction, ventricular tissue morphogenesis, and regulation of muscle fiber type, with supporting roles for nitric-oxide synthase activity and hypoxia response. Peripheral processes like glycine transport and visual perception appear less central but do not override the cardiac-focused theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051000","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0055010","count":3},{"id":"GO:0032972","count":3}]},{"hash":"438254102064681515","title":"Developmental Signaling and Morphogenesis","description":"The top GO terms center on developmental signaling pathways (Rho regulation, Roundabout/ROBO, Smoothened/Hedgehog, BMP signaling) and tissue morphogenesis (kidney and nervous system development, ossification, myoblast fusion), with neuronal localization aspects. This suggests a cohesive theme of signaling coordination in development and morphogenesis across multiple tissues, making the label Developmental Signaling and Morphogenesis appropriate and representative.","confidence":"Medium","size":27,"edges":232,"triangles":1003,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":16},{"id":"GO:0001822","count":15},{"id":"GO:0007399","count":15},{"id":"GO:0035385","count":15},{"id":"GO:0007224","count":15}]},{"hash":"1746029585256765184","title":"Developmental cell cycle regulation and cell migration","description":"The set of terms points to control of cell proliferation (regulation of cell cycle, embryonic mitotic regulation), nuclear transport, and cytoskeletal dynamics (pseudopodium assembly, GTPase activity) alongside organogenesis signals (renal inner medulla development, cranial skeletal system development, metanephros morphogenesis). This suggests a cohesive theme of coordinating cell division, movement, and differentiation during development. The absence of observed edges may reflect dispersed or condition-specific interactions rather than lack of functional relatedness.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":8},{"id":"GO:0006607","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0015991","count":8},{"id":"GO:0043547","count":8}]},{"hash":"1762405882012427933","title":"Wnt-regulated Embryonic Morphogenesis","description":"This cluster is dominated by GO terms pointing to developmental signaling and morphogenesis, especially positive regulation of canonical Wnt signaling, coupled with diverse embryonic tissue morphogenesis processes (hindlimb, cartilage, hair follicle, lung, blood vessel remodeling) and neuron differentiation. Taken together, the proteins likely participate in a Wnt-driven developmental program influencing multiple organ and tissue formation events, making this label representative of the cluster\u2019s functions.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0035116","count":4},{"id":"GO:0001974","count":4},{"id":"GO:0001502","count":4}]},{"hash":"2067883630671547643","title":"Cell cycle control and developmental signaling","description":"Proteins in this cluster are enriched for DNA replication and nuclear cell cycle regulation, along with signaling pathways (canonical Wnt and Hippo), centrosome cycle, and developmental processes (cranial skeleton morphogenesis, keratinocyte differentiation) plus apoptosis. This points to a coordinated program of cell proliferation, differentiation, and development signaling, especially in craniofacial and epidermal contexts.","confidence":"High","size":27,"edges":123,"triangles":148,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0045944","count":9},{"id":"GO:0090263","count":8},{"id":"GO:0007098","count":8},{"id":"GO:0048701","count":8}]},{"hash":"1923380524607404807","title":"Cell cycle control and proliferation","description":"This cluster is dominated by GO terms for mitotic cell cycle, positive regulation of cell proliferation, and related cell-cycle controls (e.g., negative regulation of CDK activity) plus supporting terms like telomere maintenance and migration. While there are a few unrelated terms (e.g., defense response to Gram-positive bacteria, forebrain development), the core signal points to regulation of cell growth, division, and associated stress responses.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0008284","count":9},{"id":"GO:0006349","count":8},{"id":"GO:0045736","count":8}]},{"hash":"798725169783473226","title":"Axon guidance and cytoskeletal remodeling","description":"The dominant terms cluster around neuronal development and movement\u2014axonogenesis, neuron migration, and axonal fasciculation\u2014along with actin filament network formation and regulation of Rho signaling, indicating cytoskeletal remodeling. Endosome-to-lysosome transport hints at trafficking supporting growth cone navigation. A few terms (innate immune response, megakaryocyte development) are present but appear less central to the cluster\u2019s core theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0007155","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0001764","count":3}]},{"hash":"939473175229037547","title":"Nuclear import and cell cycle control","description":"This cluster center appears to link nuclear import processes (NLS-bearing and ribosomal protein import into nucleus) with cell cycle regulation (G1/S transition, centromeric cohesion) and phosphatase signaling (regulation of phosphoprotein phosphatase, desumoylation) plus TORC1 signaling, suggesting proteins that coordinate nuclear transport with cell cycle progression and growth signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0051754","count":5},{"id":"GO:0043666","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0000060","count":4}]},{"hash":"1001038024476462487","title":"Rho/Ras-regulated cytoskeleton and vesicle signaling","description":"This cluster centers on regulation of Rho and Ras signaling, which control actin dynamics and lamellipodium formation, suggesting a core cytoskeletal motif. Supporting terms include negative regulation of cell movement (neutrophil degranulation, microglial migration, blood vessel remodeling), hyaluronan metabolism, and vesicle-related processes (synaptic vesicle priming, acrosome reaction), plus T cell activation, pointing to broader regulatory networks of cytoskeleton-driven motility and vesicle trafficking across immune and reproductive contexts.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":17},{"id":"GO:0046580","count":16},{"id":"GO:0043314","count":14},{"id":"GO:0060313","count":14},{"id":"GO:0030212","count":14}]},{"hash":"467120815279205947","title":"Post-transcriptional RNA processing and translation initiation","description":"The cluster centers on regulation of mRNA splicing (via spliceosome), polyadenylation, mRNA stability under stress, and components of translation initiation and reinitiation, indicating a cohesive role in post-transcriptional gene expression control.","confidence":"High","size":27,"edges":16,"triangles":0,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0006378","count":12},{"id":"GO:0048025","count":12},{"id":"GO:0045292","count":12}]},{"hash":"2208748292184345952","title":"Membrane trafficking and cell junction organization","description":"The cluster\u2019s top GO terms center on cell surface and junction biology: establishment/maintenance of endothelial barriers, paranodal junction maintenance, receptor clustering, Golgi localization, and protein localization to the cell surface, as well as related secretion processes like glutamate release. While some immune-related terms appear, the prevailing theme is membrane organization and trafficking rather than a single signaling pathway or function.","confidence":"Medium","size":27,"edges":194,"triangles":709,"max_degree":23,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0090557","count":18},{"id":"GO:0070433","count":18},{"id":"GO:0043113","count":17},{"id":"GO:2000009","count":17},{"id":"GO:1903028","count":17}]},{"hash":"629681105173240589","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning stem cell proliferation, erythrocyte maturation, root meristem growth, granulocyte differentiation, dendritic spine morphogenesis, viral processes, and DNA replication, among others. Many terms are deprecated, and there are no edges connecting the proteins, with only ReCIPE re-additions, suggesting a lack of a cohesive shared function. Because there is no single, interpretable theme uniting these processes, a confident label cannot be assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000648","count":3},{"id":"GO:0043249","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0060997","count":2},{"id":"GO:0030851","count":2}]},{"hash":"890884815424731008","title":"Synaptic vesicle trafficking and receptor insertion","description":"The top GO terms point to SNARE complex assembly, vesicle fusion (presynaptic and with Golgi), ER-to-Golgi and intra-Golgi transport, and exocytic insertion of neurotransmitter receptors at the postsynaptic membrane. Together, these reflect a coherent theme of the secretory pathway driving synaptic vesicle trafficking and exocytosis, including receptor trafficking at the synapse.","confidence":"High","size":27,"edges":26,"triangles":0,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0035493","count":6},{"id":"GO:0098967","count":6},{"id":"GO:0090161","count":6},{"id":"GO:0006620","count":6},{"id":"GO:0048280","count":6}]},{"hash":"1271938678012522223","title":"GABAergic synaptic trafficking and cytoskeletal dynamics","description":"The top GO terms cluster around endocytosis and membrane trafficking (GPCR internalization, clathrin-mediated endocytosis), together with cytoskeletal remodeling (filopodium assembly/regulation, small GTPase signaling) and neuronal signaling (GABAergic synaptic transmission). This combination points to a module focused on neuronal membrane trafficking and actin dynamics at synapses, particularly inhibitory ones, with some linkage to mitochondrial dynamics and cell size regulation as supporting contextual processes.","confidence":"High","size":27,"edges":17,"triangles":0,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":20},{"id":"GO:0002031","count":19},{"id":"GO:0072583","count":19},{"id":"GO:1900026","count":18},{"id":"GO:0045792","count":18}]},{"hash":"105565738014188788","title":"Ribosome biogenesis and RNA export","description":"This cluster centers on ribosome production: maturation of rRNA, ribosomal subunit assembly, formation of translation initiation complexes, and export of ribosomal subunits and mRNA from the nucleus, with supporting signals from RNA methylation and regulatory GTPase activity. The combination suggests a module dedicated to ribosome biogenesis and RNA trafficking.","confidence":"High","size":27,"edges":38,"triangles":16,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0000463","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1502465784526908667","title":"mRNA processing and regulation","description":"The proteins are enriched for mRNA processing and regulation terms, including splicing via the spliceosome, polyadenylation, mRNA export from the nucleus, regulation of poly(A) tail shortening, mRNA stability in response to stress, mRNA modification, and ncRNA-mediated gene silencing. Together these terms point to a cohesive theme of post-transcriptional RNA maturation and control, rather than a single metabolic pathway.","confidence":"High","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":19},{"id":"GO:0006378","count":18},{"id":"GO:0010610","count":18},{"id":"GO:0060211","count":15},{"id":"GO:0075525","count":15}]},{"hash":"267180895320328107","title":"General Stress and Xenobiotic Response","description":"This cluster is enriched for terms related to responding to external stressors and xenobiotics (response to antibiotic, response to xenobiotic stimulus, aluminum ion, hydrogen peroxide biosynthesis) and to stress-related processes, with translation as a broad accompanying function. The combined signals point to a theme of defense/detoxification rather than a single precise biological pathway.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0009688","count":2}]},{"hash":"134394463819569737","title":"Wnt-Hippo Signaling and Keratinocyte Differentiation","description":"The top GO terms cluster around signaling pathways that govern cell fate and proliferation\u2014canonical Wnt signaling, Hippo signaling, JNK cascade regulation, and GTPase activity\u2014along with keratinocyte differentiation and apoptosis. The enrichment of these terms suggests a functional module coordinating epithelial cell differentiation and growth control, with associated transcriptional regulation and protein turnover.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0090263","count":14},{"id":"GO:0006915","count":14},{"id":"GO:0030216","count":13},{"id":"GO:0060044","count":13},{"id":"GO:0035329","count":13}]},{"hash":"2131765245340891045","title":"Transcriptional Regulation and Intracellular Transport","description":"The cluster mainly centers on transcriptional regulation (regulation of DNA-templated transcription, DNA-templated transcription) and intracellular transport (intracellular protein transport, autophagosome maturation), with supporting signals relating to metabolic and signaling processes. While some terms are broader (bone development, insulin response), the strongest cohesion is between gene expression control and protein trafficking/ turnover within the cell.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0060335","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0044381","count":3}]},{"hash":"732294919432476571","title":"Cell Adhesion and Immune Signaling","description":"The top GO terms indicate strong involvement in cell\u2013cell adhesion (heterophilic and homophilic), pointing to adhesion molecules. Immune processes are also prominent (complement activation, phagocytosis recognition/engulfment, and B cell receptor signaling), along with a note on host\u2013pathogen interactions (symbiont entry into host cell). Some terms about ossification and heart rate regulation likely reflect broader roles of adhesion-related proteins in bone and cardiac tissues, but the cohesive theme centers on adhesion molecules functioning in immune communication and host interactions.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":19},{"id":"GO:0007156","count":17},{"id":"GO:0043931","count":13},{"id":"GO:0006958","count":13},{"id":"GO:0006910","count":13}]},{"hash":"534274651840886290","title":"Multitissue Development and Patterning","description":"GO terms indicate embryonic development and organogenesis across multiple tissues (eye, heart, pituitary, brain, gonad, inner ear) and patterning processes, with a general role in transcriptional regulation. This points to a cohesive theme of multitissue developmental programs rather than a single tissue-specific function.","confidence":"High","size":27,"edges":15,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0043010","count":8},{"id":"GO:0048048","count":8},{"id":"GO:0007507","count":8}]},{"hash":"795133627562892235","title":"Mitochondrial protein import and respiration","description":"The top GO terms point to mitochondrial processes, including protein insertion into the mitochondrial inner membrane and protein targeting to mitochondrion, as well as aerobic respiration, suggesting a focus on mitochondrial import and energy metabolism. Additional terms related to chaperone transport and vesicle movement along microtubules support broader mitochondrial protein handling and intracellular trafficking, though several terms appear more general stress responses. Overall, the cluster seems centered on mitochondrial protein processing and energy metabolism.","confidence":"Medium","size":27,"edges":49,"triangles":30,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0072321","count":3},{"id":"GO:0045039","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035987","count":2}]},{"hash":"100233709671145325","title":"Transcription Regulation and Cell Cycle Control","description":"Based on the prominent GO terms, the proteins are enriched for DNA-templated transcription and both up- and down-regulation of transcription, together with cell cycle events (G1/S transition, CDK activity, and cell division) and the ER unfolded protein response, suggesting a cluster coordinating transcriptional control with cell-cycle progression and stress management. Some tissue-specific terms (stomatal opening, Leydig/mammary development) may reflect broad annotations or secondary roles rather than defining the core theme.","confidence":"Medium","size":27,"edges":295,"triangles":1809,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0033327","count":11},{"id":"GO:0060749","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0030968","count":10}]},{"hash":"1290165778730528756","title":"RNA Splicing and Nucleolar Localization","description":"Dominant GO terms are RNA splicing and spliceosome dynamics (RNA splicing, spliceosomal complex disassembly, regulation of alternative mRNA splicing) and nucleolar localization (protein localization to nucleolus and its positive regulation). A helicase activity regulation term supports RNA processing roles, with a minor signal for innate immune response that may reflect broader RNA sensing contexts. Overall, the cluster appears to group splicing and nucleolar trafficking functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":4},{"id":"GO:0045087","count":3},{"id":"GO:1904751","count":3},{"id":"GO:1904744","count":3},{"id":"GO:0007175","count":3}]},{"hash":"1446343761890269982","title":"Epidermal differentiation and growth signaling","description":"The top GO terms cluster around keratinocyte differentiation (GO:0030216) and signaling pathways that regulate cell proliferation and fate, notably Wnt (GO:0090263) and Hippo (GO:0060044) signaling, with supporting roles from apoptosis and metabolic/immune signaling (insulin receptor pathway, IL-7 response). Together these suggest a theme of epidermal differentiation tied to growth control and tissue homeostasis, hence the label.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":22},{"id":"GO:0006915","count":21},{"id":"GO:0030216","count":20},{"id":"GO:0060044","count":20},{"id":"GO:0035329","count":20}]},{"hash":"548695479253321981","title":"Unknown","description":"The top GO terms are diverse: several metal ion transport and calcium homeostasis terms co-occur, but many other terms (stilbene catabolic process, P450 epoxygenase, testosterone response, phospholipid dephosphorylation) point to unrelated functions. This lack of a common theme prevents a meaningful, specific label.","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006874","count":5},{"id":"GO:0006825","count":5},{"id":"GO:0071577","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0070574","count":5}]},{"hash":"115407275045708263","title":"Circadian-regulated cardiac and neural development","description":"The cluster is enriched for transcriptional regulation and circadian gene expression, and includes several development terms linked to heart structures (sinoatrial node differentiation, cardiac neural crest-related outflow tract morphogenesis, heart rate regulation) as well as neural patterning components (floor plate, inner ear differentiation). This suggests a shared theme of circadian-modulated developmental programs governing cardiac and neural tissues.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":23},{"id":"GO:0032922","count":21},{"id":"GO:0043503","count":21},{"id":"GO:0003062","count":21},{"id":"GO:0031542","count":21}]},{"hash":"1603833970672218260","title":"Developmental differentiation and transcription regulation","description":"The top GO terms center on DNA-templated transcription and calcium responsiveness, plus a suite of tissue-specific differentiation processes (bone/osteoblast, skeletal muscle, heart outflow tract, lung/airway cartilage, floral meristem identity). This points to proteins that regulate developmental gene expression to drive cell fate decisions across multiple tissues, rather than a single pathway. The floral meristem term may reflect annotation noise or broad developmental regulation. ","confidence":"Medium","size":27,"edges":308,"triangles":2095,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":18},{"id":"GO:0071277","count":17},{"id":"GO:0003151","count":15},{"id":"GO:0045669","count":15},{"id":"GO:0035914","count":14}]},{"hash":"1136582081192448248","title":"ECM Collagen Biosynthesis and Cartilage Remodeling","description":"The cluster centers on collagen production and organization (collagen fibril organization, collagen biosynthetic process, proteoglycan catabolic process) and BMP-related signaling, hallmark features of extracellular matrix (ECM) synthesis and cartilage development. Negative regulation of chondrocyte differentiation and ovulation-associated ECM remodeling link to tissue remodeling in connective tissue and ovarian follicles. Growth-factor signaling terms (VEGF, HGF) reflect ECM dynamics driven by signaling pathways, reinforcing the ECM/cartilage remodeling theme. Thus, this label captures ECM collagen biosynthesis and cartilage development/remodeling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071773","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0032331","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0001542","count":4}]},{"hash":"1913760552223360229","title":"Unknown","description":"The GO terms are highly heterogeneous (ubiquitin-mediated proteolysis, circadian rhythm regulation, plant hormone signaling, development, gravitropism, synaptic endocytosis, IgE isotype regulation, T cell differentiation, t-circle formation, and chromosome passenger complex localization). There is no clear, single biological theme tying these proteins together, suggesting the cluster is functionally mixed or artifactual.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":22},{"id":"GO:0042752","count":15},{"id":"GO:0009742","count":10},{"id":"GO:0045496","count":10},{"id":"GO:0009958","count":10}]},{"hash":"1544016448713917918","title":"Developmental signaling and transcription","description":"These proteins span broad development- and signaling-related processes: transcriptional regulation (DNA-templated transcription), hormone signaling (growth hormone receptor pathway, thyroid hormone response), and differentiation in diverse tissues (neural, pancreatic, phloem). They also include cell-matrix adhesion and actin dynamics, plus endocytic recycling, suggesting roles in morphogenesis, cell movement, and membrane trafficking that support signaling. Overall, the cluster appears to reflect general developmental regulation and hormonal responsiveness rather than a single precise function.","confidence":"Medium","size":27,"edges":17,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0021527","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0030835","count":5}]},{"hash":"1175359436519207981","title":"Vascular inflammation and coagulation signaling","description":"Top terms converge on immune-vascular interplay: response to lipopolysaccharide, blood coagulation, and regulation of arterial pressure by the renin-angiotensin system, with smooth muscle contraction and IL-10 production. This points to a cluster of proteins involved in inflammatory signaling that modulates vascular function. The presence of circadian rhythm regulation and retina development suggests broader regulatory roles but does not override the central vascular-immune theme.","confidence":"Medium","size":27,"edges":47,"triangles":18,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":13},{"id":"GO:0007596","count":13},{"id":"GO:0001991","count":12},{"id":"GO:0042752","count":12},{"id":"GO:0072608","count":12}]},{"hash":"310175568292880662","title":"Cofactor biosynthesis and translation","description":"This cluster is enriched for biosynthetic processes of cofactors (menaquinone, molybdopterin, biotin) and for translation-related functions (translation itself and protein import into the mitochondrial matrix). The combination suggests a theme around production of essential cofactors alongside protein synthesis/import machinery, with some additional metabolic biosynthesis terms reflecting broader metabolic versatility. Overall, the dominant theme links cofactor biosynthesis with translation-related processes, supporting this label.","confidence":"Medium","size":27,"edges":344,"triangles":2758,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006777","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0042619","count":2}]},{"hash":"955012613375483219","title":"GPCR-driven signaling and cardiovascular regulation","description":"The cluster is dominated by GO terms related to G protein-coupled receptor signaling and downstream activation of adenylate cyclase, plus specific links to blood pressure regulation (renin-angiotensin pathway) and circadian rhythm, suggesting a core theme around GPCR-mediated regulatory signaling impacting cardiovascular and temporal processes. Additional terms like interleukin-10 production and retina development hint at broader regulatory roles, indicating a diverse but GPCR-centered signaling cluster.","confidence":"Medium","size":27,"edges":100,"triangles":20,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":21},{"id":"GO:0022900","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0007190","count":20},{"id":"GO:0001991","count":19}]},{"hash":"1935231804821120549","title":"GPCR-driven cardiovascular and metabolic regulation","description":"The top GO terms emphasize GPCR signaling and adenylate cyclase activation, along with regulation of blood pressure and circadian rhythms, suggesting a core function in GPCR-mediated regulation of cardiovascular and metabolic processes. Other terms like electron transport and sensory perception are present but seem secondary to the primary signaling theme. ","confidence":"Medium","size":27,"edges":10,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":21},{"id":"GO:0045777","count":21},{"id":"GO:0007190","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0019233","count":19}]},{"hash":"1320253140508265466","title":"Cardiovascular development and regulation","description":"The top GO terms converge on heart development, regulation of arterial blood pressure via the renin-angiotensin system, and vascular smooth muscle contraction, pointing to a core cardiovascular function. While terms on circadian rhythm and immune/inflammatory processes are present, the strongest signal centers on cardiovascular structure and control, making this a reasonable label. Confidence: Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":26},{"id":"GO:0042752","count":26},{"id":"GO:0072608","count":26},{"id":"GO:0035625","count":26},{"id":"GO:0060041","count":26}]},{"hash":"2208286964897294013","title":"Neuronal plasticity and chromatin regulation","description":"This cluster centers on regulation of short-term neuronal synaptic plasticity, alongside transcriptional and chromatin-level regulation (RNA Pol II repression and histone modifications), plus actin nucleation and a note of cilium assembly. The combination points to a group of proteins involved in activity-dependent neuronal signaling and coordinated chromatin/cytoskeletal remodeling, though the connections are broad rather than a single precise pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0045010","count":3},{"id":"GO:0044648","count":3},{"id":"GO:0010216","count":3}]},{"hash":"1954580598301986675","title":"Ion Transport and Membrane Potential Regulation","description":"The cluster is dominated by GO terms related to ion transport across membranes, especially sodium export, regulation of sodium transporter activity, potassium import, and establishing/maintaining the transmembrane electrochemical gradient, plus transmembrane transport and membrane potential regulation. While some terms touch on lipid biosynthesis and nitric oxide, the core theme is ion transport and electrochemical maintenance across membranes.","confidence":"High","size":27,"edges":51,"triangles":0,"max_degree":23,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0036376","count":4},{"id":"GO:2000649","count":4},{"id":"GO:1990573","count":4},{"id":"GO:1903278","count":4},{"id":"GO:0010248","count":4}]},{"hash":"747679552268873122","title":"Ubiquitin-regulated NF-\u03baB innate immune signaling","description":"This cluster centers on innate immune responses and antiviral defense, linked with ubiquitin-dependent protein turnover and autoubiquitination, and involvement in NF-\u03baB signaling activation (e.g., IKK/NF-\u03baB\u2013related terms and TNF-mediated pathways). The combination of innate immunity, antiviral defense, protein ubiquitination, and NF-\u03baB\u2013related regulation supports a cohesive theme around ubiquitin-regulated NF-\u03baB signaling in innate immunity; a single term about X chromosome inactivation appears incidental. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0042787","count":9},{"id":"GO:0032088","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0051865","count":8}]},{"hash":"585934079426661230","title":"Unknown","description":"The Top Terms span diverse areas (proteoglycan biosynthesis; several vertebrate developmental processes; reproductive binding and secondary sexual characteristics; wound-healing regulation; infection structure formation) with no single cohesive function or pathway tying all proteins together. Therefore a specific label isn\u2019t supported.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0018146","count":6},{"id":"GO:0021680","count":5},{"id":"GO:0075015","count":5},{"id":"GO:0048147","count":5},{"id":"GO:0030879","count":5}]},{"hash":"1343655708718252826","title":"Neural development and myelination","description":"This cluster is dominated by terms for nervous system development, axonal fasciculation, synapse assembly, and myelination, pointing to proteins involved in forming and insulating neural networks. Supporting terms for cell adhesion and collagen/fiber organization align with tissue remodeling during neural development, with a few bone-related terms appearing as broader developmental signals. Overall, the neural development theme is the strongest signal.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007413","count":12},{"id":"GO:0014068","count":12},{"id":"GO:0051965","count":12},{"id":"GO:0042552","count":11},{"id":"GO:0007399","count":10}]},{"hash":"1391094358649100941","title":"Cardiovascular development and immune regulation","description":"The top GO terms cluster around cardiovascular-related processes (regulation of systemic arterial blood pressure by renin-angiotensin, vascular smooth muscle contraction, heart development) and immune/inflammatory signaling (IL-10 production, positive regulation of chronic inflammatory response, neutrophil killing of bacteria), with additional links to circadian rhythm regulation and retina development. This suggests proteins that participate in heart/vascular function plus immune modulation, rather than a single narrow pathway. There are outlier terms like retina development, but the dominant signal is cardiovascular development coupled with immune regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":23},{"id":"GO:0042752","count":23},{"id":"GO:0072608","count":23},{"id":"GO:0035625","count":23},{"id":"GO:0060041","count":23}]},{"hash":"1092268706971329583","title":"Ubiquitin-Dependent Antiviral Signaling and Chromatin Regulation","description":"The terms cluster around ubiquitin-dependent proteolysis and innate antiviral defense, with activation of NF-kappaB and JNK signaling and histone-associated regulation, including K6-linked ubiquitination and histone H4-K20 methylation. This suggests a module where protein turnover and signaling are coordinated with chromatin remodeling to drive antiviral gene expression.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":23},{"id":"GO:0045087","count":14},{"id":"GO:0051607","count":14},{"id":"GO:0036205","count":13},{"id":"GO:0085020","count":13}]},{"hash":"1973456916482394795","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0019509","count":2}]},{"hash":"984441559111161142","title":"Innate Immune Signaling and Ubiquitin-Dependent Turnover","description":"The cluster is enriched for innate immune terms (innate immune response, defense response to virus, cytokine signaling, B cell receptor signaling) and regulatory signaling (JNK cascade) alongside ubiquitin-dependent proteolysis, suggesting a theme of immune signaling with post-translational regulation. Some terms like bone development and gluconeogenesis are less central but may reflect broader cellular remodeling or metabolic regulation accompanying immune responses. Overall, the dominant signal points to innate immune signaling with regulatory protein turnover.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":7},{"id":"GO:0042787","count":6},{"id":"GO:0060348","count":5},{"id":"GO:0046328","count":5}]},{"hash":"1994017067359296972","title":"Neuronal development and signaling regulation","description":"These proteins show enrichment in nervous system development and multiple signaling pathways that regulate neuronal survival and differentiation, including ERK cascade and Hedgehog (Smoothened) signaling, along with apoptosis regulation. The presence of endocytosis and GTPase activity regulation suggests modulation of signaling and trafficking essential for neuronal development. While there are hints of broader tissue contexts (e.g., kidney development, T cell signaling), the dominant theme is neuronal development and its signaling regulators.","confidence":"Medium","size":26,"edges":314,"triangles":2344,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0050852","count":7},{"id":"GO:0006897","count":6},{"id":"GO:0034260","count":6},{"id":"GO:0043524","count":6}]},{"hash":"250423755485545000","title":"Neuronal development and synaptic signaling","description":"The cluster is enriched for GO terms related to brain and nervous system development, regulation of synaptic vesicle exocytosis, and ERK signaling, consistent with neuronal differentiation and synaptic communication. A few terms touch on immune signaling (T cell receptor signaling, interferon production) that may reflect shared signaling components rather than a true immune-focused module.","confidence":"High","size":26,"edges":231,"triangles":936,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":9},{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:2000300","count":8},{"id":"GO:0070374","count":8}]},{"hash":"2034729668304837022","title":"Neural development and transcriptional regulation","description":"The cluster is enriched for neural and brain development terms (forebrain development, neural tube closure, brain development) together with DNA-templated transcription, pointing to transcriptional control during neural development. While some terms span broader organogenesis (vasculogenesis, skeletal, digestive tract development), the neural-related terms dominate, supporting this label as representative of the cluster\u2019s function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0003257","count":6}]},{"hash":"1543039043123108931","title":"Neural and cardiovascular development signaling","description":"This cluster blends neural development and synaptic function terms (substantia nigra development; excitatory postsynaptic potential; regulation of synaptic vesicle exocytosis) with cardiovascular development and function (heart development; regulation of heart rate; angiogenesis), along with stress response processes (cellular response to hypoxia; xenobiotic stimulus) and cell cycle activity, suggesting a coordinated neural-cardiovascular signaling theme.","confidence":"Medium","size":26,"edges":33,"triangles":37,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":8},{"id":"GO:0006469","count":7},{"id":"GO:0060079","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0000278","count":6}]},{"hash":"1111701927322453954","title":"Ribosome Biogenesis and Cell Cycle Regulators","description":"The Top Terms show strong enrichment for ribosome biogenesis and ribosomal large subunit assembly, indicating a nucleolar/biogenesis module. Additional terms related to cell cycle and DNA replication suggest these proteins also participate in coordinating ribosome production with cell cycle progression. Together these points support a label that highlights the core ribosome assembly function with ancillary cell cycle regulation involvement.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006366","count":3}]},{"hash":"1890453944930392664","title":"KIT Signaling and Differentiation Network","description":"The cluster is dominated by KIT signaling and includes connected pathways such as cell-matrix adhesion, Wnt signaling, retinoic acid response, and regulation of apoptotic and growth signaling, suggesting a cohesive KIT-centered signaling and differentiation network in KIT-responsive cells.","confidence":"High","size":26,"edges":289,"triangles":1874,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":26},{"id":"GO:0007160","count":26},{"id":"GO:0090263","count":26},{"id":"GO:0051389","count":26},{"id":"GO:0071300","count":26}]},{"hash":"1052907759970734167","title":"Embryonic organ morphogenesis and kidney development","description":"The top GO terms point to developmental processes underlying organ formation, notably kidney-related morphogenesis (renal inner medulla development, cranial skeletal system development) and maintenance of organ identity. There are also signals of cytoskeletal remodeling and cell cycle regulation during embryogenesis (pseudopodium assembly, centriole cohesion, negative regulation of mitotic cell cycle) and nuclear transport, which are all processes that coordinate tissue morphogenesis. While vacuole inheritance is less clearly linked, the overall pattern supports a theme of embryonic organ development with a focus on kidney and craniofacial structures.","confidence":"Medium","size":26,"edges":82,"triangles":185,"max_degree":21,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0000011","count":10},{"id":"GO:0048496","count":9},{"id":"GO:0015991","count":8},{"id":"GO:0072053","count":7},{"id":"GO:1904888","count":7}]},{"hash":"281000521170609538","title":"Nuclear import and transcription regulation","description":"This cluster's terms cluster around nuclear processes: import into the nucleus (including NLS-bearing protein import) and transcription regulation (RNA polymerase III), with supporting signals for phosphorylation and desumoylation that modulate nuclear signaling. While some terms (e.g., ciliary docking, endothelial proliferation) are peripheral, the core theme points to control of nuclear transport and gene expression.","confidence":"Medium","size":26,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0033674","count":4},{"id":"GO:0000060","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0060188","count":3},{"id":"GO:0006607","count":3}]},{"hash":"640873592378334433","title":"Cofactor and amino acid biosynthesis","description":"This cluster is dominated by GO terms for biosynthetic pathways, including cobalamin and heme biosynthesis, protoporphyrinogen IX, sphinganine, tyrosine, and kynurenic acid, pointing to a cohesive theme of metabolic and cofactor biosynthesis. A couple of outliers related to transcription and insulin signaling are present but less representative of the main metabolic focus.","confidence":"Medium","size":26,"edges":285,"triangles":1805,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0032869","count":9},{"id":"GO:0009236","count":7},{"id":"GO:0019518","count":7},{"id":"GO:0006783","count":7}]},{"hash":"1193983260099500715","title":"ER-Golgi vesicle transport","description":"The dominant GO terms are about ER-to-Golgi and Golgi-to-ER vesicle transport, indicating a core intracellular trafficking module. Additional terms reflect regulatory processes often linked to trafficking (GTPase activity, TORC1 signaling, desumoylation, etc.), suggesting a broader but related functional context.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0070262","count":7},{"id":"GO:0038202","count":6},{"id":"GO:0006890","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1180081992640425835","title":"Osteoclast differentiation and cytoskeletal dynamics","description":"The cluster is enriched for osteoclast differentiation and TGF-beta\u2013mediated signaling, plus strong signals for actin cytoskeleton reorganization, filopodium assembly, integrin-mediated adhesion, and polarity/adhesion processes, all of which are characteristic of differentiating osteoclasts that remodel their cytoskeleton and matrix adhesions. Energy homeostasis may accompany these processes but is secondary to the cytoskeletal/adhesion\u2013driven differentiation theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030316","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0046847","count":2}]},{"hash":"1062076799626651342","title":"Mitotic division and developmental regulators","description":"The cluster is enriched for cell division and mitotic spindle assembly terms, suggesting involvement in the cell cycle. Additional terms for development (skin, neuron projection), ubiquitination, and mRNA processing imply coordinated regulation of gene expression and protein turnover to support proliferation and development, pointing to a theme of mitotic control linked to developmental regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0090307","count":6},{"id":"GO:0006397","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0043588","count":5}]},{"hash":"1418092523347802559","title":"Cardiovascular and neural development and signaling","description":"The terms include heart development and cardiac muscle contraction, plus neural-related processes like myelination and long-term potentiation, along with actin remodeling and signaling pathways. This points to a broad developmental and signaling role spanning cardiac and nervous system contexts rather than a single focused function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0060048","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0060291","count":6}]},{"hash":"1169983037116437732","title":"Ribosome biogenesis and translation","description":"Reason: The strongest signals are ribosome- and RNA-processing related: translation, mitochondrial translation, ribosome biogenesis, rRNA maturation, and tRNA methylation. This suggests a shared role in ribosome assembly and RNA maturation required for protein synthesis; other terms are peripheral.","confidence":"High","size":26,"edges":265,"triangles":1462,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0070131","count":4},{"id":"GO:0006479","count":3},{"id":"GO:0030488","count":2},{"id":"GO:0000462","count":2}]},{"hash":"769241205394303987","title":"Keratinocyte and hair follicle development with cytoskeletal dynamics","description":"This cluster is dominated by epidermal terms (hair follicle morphogenesis, keratinization, keratinocyte differentiation) and cytoskeletal organization (microtubule polarity, neurofilament assembly), suggesting a coherent theme of skin development and cytoskeletal remodeling. Some terms touch glial and cardiac development, but the strongest signal centers on epidermal differentiation and hair follicle formation with associated cytoskeletal processes.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":7},{"id":"GO:0031424","count":7},{"id":"GO:0055015","count":7},{"id":"GO:0035105","count":6},{"id":"GO:0030951","count":6}]},{"hash":"193083509863144294","title":"Post-transcriptional mRNA processing and regulation","description":"The dominant GO terms describe mRNA stability, splicing regulation (including via the spliceosome), poly(A) tail control, mRNA export, and mRNA modification, pointing to a cluster centered on post-transcriptional regulation of gene expression; ncRNA-mediated silencing and related terms support this regulatory context.","confidence":"High","size":26,"edges":78,"triangles":136,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0048025","count":11},{"id":"GO:0060211","count":10},{"id":"GO:0075525","count":10},{"id":"GO:0006406","count":10}]},{"hash":"869088157312830227","title":"Translation Machinery and mRNA Regulation","description":"Most frequent GO terms describe core translation processes (translation, ribosome disassembly, translational initiation/elongation/termination, translational fidelity) and mRNA metabolism (deadenylation-dependent decay), plus specialized translation (selenocysteine incorporation) and RNA-related regulatory processes (siRNA-associated chromatin formation). The inclusion of an antibiotic response term supports a link to ribosome-targeting mechanisms. Together, these terms point to a cluster centered on the translation machinery and post-transcriptional gene expression control.","confidence":"High","size":26,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0032790","count":2},{"id":"GO:0045901","count":2},{"id":"GO:1902802","count":2}]},{"hash":"1876948906164501211","title":"Mixed Developmental and Immune Regulation","description":"This cluster is annotated with diverse developmental terms across multiple tissues (cartilage, inner ear, pituitary, pancreatic cells) alongside immune/defense terms (response to lipopolysaccharide, complement activation, blood coagulation) and general regulatory processes (transcriptional regulation by RNA Pol II, histone acetylation). The GO terms do not point to a single cohesive function, but rather a broad mix of developmental regulation with immune-related processes, suggesting a set of regulatory proteins involved in development and immune signaling rather than a specific pathway. ","confidence":"Low","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":7},{"id":"GO:0021983","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0000122","count":5}]},{"hash":"932852906459248490","title":"Macrophage activation and T cell regulation","description":"The top GO terms center on immune modulation: negative regulation of T cell proliferation, regulatory T cell differentiation, and regulation of macrophage activation, plus antibacterial humoral responses. Additionally, ERK1/ERK2 signaling and lipid remodeling/foam cell differentiation suggest coordinated signaling and lipid handling in immune cells. Together, these terms indicate a cluster focused on immune modulation with a macrophage emphasis and related lipid metabolism.","confidence":"High","size":26,"edges":118,"triangles":192,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0042130","count":10},{"id":"GO:0002361","count":10},{"id":"GO:0010744","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0019731","count":8}]},{"hash":"1055012840697038300","title":"Skeletal and Heart Development","description":"Proteins are heavily annotated with cranial skeletal system development, heart development, osteoblast fate commitment, and osteoclast regulation, plus cell adhesion and cell fusion terms, suggesting a coherent role in skeletal tissue formation/remodeling and cardiac tissue development; nerve growth factor response may reflect broader developmental signaling, supporting a unifying theme of skeletal and cardiovascular development.","confidence":"High","size":26,"edges":11,"triangles":3,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904888","count":24},{"id":"GO:1903760","count":24},{"id":"GO:1900026","count":24},{"id":"GO:0043552","count":24},{"id":"GO:0007507","count":24}]},{"hash":"1667749741432268548","title":"Neurodevelopment and Angiogenesis","description":"This cluster is dominated by neural development terms (neuron development, telencephalon development, neural tube closure) and angiogenesis, pointing to coordinated neurovascular development and growth. Additional terms like insulin receptor signaling and cellular response to peptide hormone stimulus suggest broader growth signaling, while one immune-related term appears less central to the main theme.","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001525","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0048666","count":5}]},{"hash":"1879925156305799506","title":"Developmental transcription regulators","description":"The top GO terms are dominated by regulation of transcription by RNA polymerase II (positive and negative) and DNA-templated transcription, with supporting developmental signals such as heart development and neuron projection development (plus Notch signaling and interferon-related terms). This points to a cluster of proteins that primarily regulate gene expression during development and associated signaling processes, rather than enzymes in metabolism. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0005978","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0045019","count":3},{"id":"GO:0061014","count":3}]},{"hash":"670855441186638974","title":"Endothelial cell migration and angiogenesis","description":"The cluster centers on cell movement and vascular development, with strong signals for cell migration, endothelial proliferation during sprouting angiogenesis, actin cytoskeleton dynamics, and mechanotransduction, plus Notch signaling in heart development\u2014together pointing to vascular remodeling and related cytoskeletal processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":11},{"id":"GO:1903589","count":11},{"id":"GO:0033280","count":11},{"id":"GO:0071260","count":11},{"id":"GO:0050968","count":11}]},{"hash":"1492325994893892565","title":"Neurodevelopment and Synapse Assembly","description":"The major GO terms point to nervous system development, neuron projection development, and refinement of synapses, plus cell-cell adhesion (homophilic/heterophilic), which together indicate roles in neural connectivity and synapse formation. While there are some terms like innate immune response and complement activation present, these appear less central to the cluster's core function, possibly reflecting multifunctional proteins or cross-talk between development and immune pathways.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":14},{"id":"GO:0007399","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0014068","count":13},{"id":"GO:0007156","count":13}]},{"hash":"1216527887271155015","title":"Plant cell cycle regulation and transcription control","description":"The cluster centers on cell cycle control (G1/S transition, regulation of CDK activity, and general cell cycle regulation) and transcription regulation (DNA-templated transcription, negative regulation of RNA Pol II), with additional signals for ER unfolded protein response and a plant-specific process (stomatal opening), suggesting a cohesive plant-focused program tying cell-cycle progression to transcription and stress/signaling responses.","confidence":"Medium","size":26,"edges":14,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":13},{"id":"GO:0000122","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0045737","count":12},{"id":"GO:0030968","count":10}]},{"hash":"1802649575389633289","title":"Neuronal development and actin dynamics","description":"This cluster centers on neural development coupled with actin cytoskeleton remodeling. The top GO terms include actin filament bundle assembly and regulation of actin depolymerization, plus cell-matrix adhesion, indicating cytoskeletal dynamics essential for growth cone navigation and axon guidance. The presence of spinal cord motor neuron differentiation, motor neuron cell fate specification, and motor neuron axon guidance strongly ties the cluster to neuronal development. Platelet aggregation may reflect shared cytoskeletal components, while glucocorticoid signaling regulation and eclosion suggest broader hormonal influences. Overall, the proteins appear to form a module focused on neuronal development driven by actin dynamics.","confidence":"High","size":26,"edges":12,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":8},{"id":"GO:0070527","count":8},{"id":"GO:0021527","count":7},{"id":"GO:0007160","count":7},{"id":"GO:2000324","count":7}]},{"hash":"1400649436095352787","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes (cytoplasmic translation, ribosome biogenesis for both subunits, tRNA modification, nuclear export of ribosomal subunits) with additional links to cell cycle and division, indicating a cluster focused on ribosome assembly and protein synthesis and its coordination with cell growth.","confidence":"High","size":26,"edges":14,"triangles":0,"max_degree":7,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":6},{"id":"GO:0007049","count":6},{"id":"GO:1903833","count":6},{"id":"GO:0006400","count":6},{"id":"GO:0000055","count":6}]},{"hash":"622737008815213998","title":"Developmental signaling and cytoskeletal dynamics","description":"Top terms indicate broad developmental roles (spinal cord, skin, multicellular development, growth) together with cytoskeletal dynamics (microtubule movement), signaling (GTPase regulation), and protein turnover (ubiquitination). This points to a cluster of proteins involved in developmental regulation and cytoskeletal signaling.","confidence":"Medium","size":26,"edges":21,"triangles":0,"max_degree":21,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0021510","count":8},{"id":"GO:0006349","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0051260","count":8}]},{"hash":"975937748335214656","title":"Nuclear RNA processing and splice regulation","description":"The cluster is dominated by GO terms on nuclear mRNA processing, including regulation of stability, splicing via spliceosome, mRNA export, poly(A) tail regulation, and RNA modification, indicating a cohesive module of post-transcriptional mRNA maturation.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":24},{"id":"GO:0031047","count":15},{"id":"GO:0048026","count":15},{"id":"GO:0060211","count":14},{"id":"GO:0075525","count":14}]},{"hash":"798338582380369631","title":"Diverse receptor signaling and stimulus responses","description":"This cluster features GO terms for T cell receptor signaling, olfactory perception, and responses to xenobiotic, cGMP, and cAMP signaling, suggesting a core of receptor-mediated communication and cellular responses to varied stimuli rather than a single pathway.","confidence":"Medium","size":26,"edges":24,"triangles":2,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":12},{"id":"GO:0071321","count":10},{"id":"GO:0007608","count":10},{"id":"GO:0010754","count":10},{"id":"GO:0035690","count":9}]},{"hash":"303456452470363982","title":"Placental and embryonic development and morphogenesis","description":"The top GO terms cluster around placental biology (trophoblast giant cell differentiation, placental/endocrine development, pancreatic cell development) and morphogenetic processes (left/right pattern formation, cartilage morphogenesis, EMT in heart cushion formation), indicating a focus on embryonic development and tissue formation. A few RNA processing/regulation terms are present but do not override the developmental theme.","confidence":"High","size":26,"edges":15,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060707","count":18},{"id":"GO:0035270","count":16},{"id":"GO:0003323","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0060536","count":16}]},{"hash":"1712342865716766450","title":"Neural signaling and sensory perception","description":"This cluster is dominated by neural and sensory-function terms: dopaminergic synaptic transmission, visual/perception and learning, sensory pain perception, and behavioral responses (e.g., to cocaine), all pointing to brain signaling and sensory processing. ERK signaling and prostaglandin responsiveness further support a neural/behavioral regulation theme, with a smaller cluster of cardiovascular terms reflecting broader pleiotropy. Overall, a cohesive neural signaling/sensory processing theme fits best.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0070374","count":18},{"id":"GO:0010759","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0001963","count":17}]},{"hash":"1297132326789398712","title":"Negative Regulation of Signaling Pathways","description":"The top GO terms show multiple instances of negative regulation: ERK/MAPK cascade, T cell receptor signaling, cyclin-dependent kinase activity, and cell proliferation. This suggests the cluster comprises proteins that dampen signaling and cell-cycle progression, including immune signaling and growth-related pathways. Some terms like kinetochore localization and cerebellar cortex formation are context-specific, but the dominant theme is inhibition of signaling and proliferation.","confidence":"High","size":26,"edges":268,"triangles":1544,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000200","count":20},{"id":"GO:0070373","count":20},{"id":"GO:0050860","count":20},{"id":"GO:0045736","count":18},{"id":"GO:0034501","count":18}]},{"hash":"1275527427985063080","title":"Developmental transcriptional regulators","description":"The cluster shows strong enrichment for transcription by RNA polymerase II and its negative regulation, together with diverse embryonic and neural development terms (habenula, brain segmentation, rhombomere development, primitive streak formation, embryonic eye morphogenesis, pancreas development, ureteric bud branching). This suggests proteins that regulate gene expression to coordinate embryonic development.","confidence":"High","size":26,"edges":254,"triangles":1264,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0000122","count":10},{"id":"GO:0021986","count":9},{"id":"GO:0048935","count":8},{"id":"GO:0090009","count":8}]},{"hash":"224553933813326664","title":"Sphingolipid signaling in neural development","description":"This cluster is characterized by strong enrichment for sphingolipid-related processes (sphingoid catabolic process; dihydrosphingosine-1-phosphate pathway; sphingosine-1-phosphate receptor signaling) together with neural development terms (brain development; substantia nigra development). The recurring theme suggests a functional grouping around sphingolipid signaling in brain development, consistent with GPCR-mediated signaling and lipid phosphorylation activities.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0021762","count":4},{"id":"GO:2000064","count":3}]},{"hash":"1431245149613670736","title":"Axon guidance and neuron migration","description":"The cluster is dominated by terms for axon extension/guidance (e.g., axon guidance for corticospinal neurons, retinal ganglion cells), neuron migration, and synapse assembly, indicating a coherent theme of neural development and axon navigation. Some terms about vascular or smooth muscle migration appear as related movement processes but do not override the neural development signal.","confidence":"High","size":26,"edges":18,"triangles":7,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":17},{"id":"GO:0060982","count":12},{"id":"GO:0090260","count":12},{"id":"GO:0014909","count":12},{"id":"GO:0061364","count":12}]},{"hash":"572533067980835525","title":"Inflammation with coagulation and angiogenesis","description":"Proteins in this cluster are enriched for vascular and inflammatory processes: vasodilation, angiogenesis (including positive regulation), acute-phase response, response to lipopolysaccharide, blood coagulation, and fibrinolysis. These terms point to a coordinated inflammatory vascular response and remodeling of the vasculature. Some nervous-system terms (short-term memory, long-term potentiation, visual perception) appear among the top terms but are less central to the core theme and may reflect multifunctionality or annotation overlap. Overall, the dominant signal ties to inflammation-driven vascular changes and coagulation. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042311","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0006953","count":4},{"id":"GO:0007596","count":4}]},{"hash":"1596860532431474793","title":"Ubiquitination-Driven Degradation and Signaling","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis, K6-linked ubiquitination, autoubiquitination, histone ubiquitination) and signaling pathways (regulation of JNK cascade, NF-kappaB activation), suggesting a cluster centered on ubiquitin-mediated protein turnover and modulation of key signaling networks; a few terms about synapse assembly are incidental. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0036205","count":9},{"id":"GO:0085020","count":9},{"id":"GO:1903265","count":9},{"id":"GO:0051865","count":9}]},{"hash":"671346959454932659","title":"Autonomic neuropeptide signaling and blood pressure regulation","description":"This cluster\u2019s top GO terms cluster around autonomic/neuropeptide signaling (neuropeptide signaling pathway, GPCR signaling activating adenylyl cyclase, cAMP activation) and cardiovascular control (positive regulation of blood pressure, regulation of systemic arterial BP by renin-angiotensin). Additional terms related to energy metabolism (electron transport chain, diet-induced thermogenesis) and saliva secretion fit within a broader autonomic/metabolic regulation context. Overall, the proteins likely participate in neuroendocrine signaling that modulates blood pressure and metabolic state.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0019233","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0002024","count":18}]},{"hash":"296906372672225101","title":"Systemic inflammation and vascular regulation","description":"This cluster is enriched for terms tied to inflammation (inflammatory response, response to lipopolysaccharide), coagulation and vasoconstriction, and blood-pressure regulation via renin-angiotensin, plus features of thermoregulation and pain perception. The combination suggests proteins coordinating systemic inflammatory responses with cardiovascular and thermoregulatory controls rather than a single focused process.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":23},{"id":"GO:0071502","count":22},{"id":"GO:0002024","count":22},{"id":"GO:0007596","count":21},{"id":"GO:0045907","count":21}]},{"hash":"577682238728925417","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental processes and tissue morphogenesis, including left-right pattern formation, cartilage morphogenesis, EMT in heart development (endocardial cushion), pancreatic endocrine development, placental/trophoblast differentiation, and broader endocrine system development. While splicing and transcription regulation are more general cellular processes present in many contexts, the dominant signal is embryonic development and tissue morphogenesis. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:1903026","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2}]},{"hash":"504684457726133094","title":"Calcium/cAMP Signaling in Heart and Retina","description":"The cluster\u2019s top GO terms center on heart development and regulation of cardiac muscle contraction, calcium release into the cytosol, and activation of adenylate cyclase, alongside visual system terms like opsin signaling and visual perception. This points to a shared theme of calcium- and cAMP-mediated signaling that governs both cardiac function and retinal signaling. The label captures this dual tissue emphasis with a concise, high-level theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":19},{"id":"GO:0007601","count":18},{"id":"GO:0008284","count":18},{"id":"GO:0055117","count":18},{"id":"GO:0043950","count":18}]},{"hash":"197195440829699191","title":"Vertebrate organ development and inflammatory signaling","description":"The top GO terms include development of heart, lung connective tissue, and kidney glomerulus, pointing to organogenesis. Additionally, inflammatory response, sensory perception of pain, and thermoregulatory/behavioral stress terms (temperature stimulus, diet-induced thermogenesis, fear response) suggest accompanying inflammatory and sensory-stress signaling. Taken together, the cluster seems to capture vertebrate organ development with inflammatory and sensory/stress-related processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0006954","count":11},{"id":"GO:0051209","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0071502","count":10}]},{"hash":"2080439089754539123","title":"Unknown","description":"The top GO terms are highly diverse, spanning xenobiotic and secondary metabolite biosynthesis/catabolic processes, plus a cell cycle regulation term and endothelial cell adhesion, and a general \u201cresponse to food\u201d term. There isn\u2019t a single coherent biological theme that ties these functions together, making a concise, intuitive cluster label difficult; hence Unknown.","confidence":"","size":26,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":25},{"id":"GO:0046232","count":25},{"id":"GO:0032342","count":25},{"id":"GO:0019341","count":25},{"id":"GO:0010241","count":25}]},{"hash":"372451989312934202","title":"Innate Immune Signaling and Vascular Permeability Regulation","description":"The top terms cluster around innate immune response and regulation of vascular permeability/remodeling, with supporting Rho/GTPase signaling that links cytoskeletal dynamics to cell movement and immune cell trafficking. A couple of outlier terms (subtelomeric heterochromatin formation, imaginal disc morphogenesis) are less fitting, but the dominant theme suggests a module coordinating immune signaling with vascular permeability.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0007266","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0043552","count":3}]},{"hash":"873324444204797421","title":"Immune cell chemotaxis and cytokine regulation","description":"Based on the top GO terms, this cluster is enriched for eosinophil and neutrophil chemotaxis, and regulation of inflammatory cytokines (TNF production and IL-10 production). This points to a shared function in guiding immune cell migration and modulating inflammatory signaling. While some terms (circadian rhythm regulation, vascular contraction, retina development) are broader or pleiotropic, the strongest and most frequent signals are immune cell recruitment and cytokine control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048245","count":21},{"id":"GO:0090023","count":21},{"id":"GO:0032720","count":21},{"id":"GO:0001991","count":20},{"id":"GO:0042752","count":20}]},{"hash":"1922314581180499336","title":"Ubiquitin-Dependent Proteolysis","description":"Top terms show a clear enrichment for ubiquitin-dependent protein catabolic process and negative regulation of protein ubiquitination, suggesting the proteins in this cluster are linked to ubiquitin-mediated proteolysis and control of ubiquitination states. Other GO terms (immune signaling, gravitropism, morphogenesis) may reflect incidental annotations or pleiotropy rather than a single cohesive function. Overall, the strongest signal centers on ubiquitin-regulated protein turnover, with weaker, possibly incidental associations. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045496","count":7},{"id":"GO:0009958","count":7},{"id":"GO:0048294","count":7},{"id":"GO:2000176","count":7}]},{"hash":"830690651912489757","title":"Neural development and innate immune signaling","description":"This cluster\u2019s top GO terms are dominated by neural development and connectivity processes (myelination, axonal fasciculation, and positive regulation of synapse assembly), suggesting a core theme around nerve formation and wiring. The presence of innate immune response and lipopolysaccharide response terms, along with signals related to NF-kappaB/PI3K pathways, indicates concurrent immune signaling components that could influence development. A few terms related to muscle development (myoblast fusion) appear, but the overarching pattern aligns best with neural development intertwined with immune signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042552","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0007520","count":4}]},{"hash":"1835548513426183803","title":"Neurodevelopmental Signaling","description":"The top terms show strong enrichment for nervous system development and neural signaling pathways (ROBO and SHH) with positive regulation of BMP signaling, suggesting a core theme of neural development and intercellular signaling networks. While there are other development and immune-related terms present, they appear secondary to the neural signaling pattern, supporting a label of Neurodevelopmental Signaling.","confidence":"Medium","size":25,"edges":266,"triangles":1673,"max_degree":24,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0035385","count":13},{"id":"GO:0007224","count":13},{"id":"GO:0050852","count":13}]},{"hash":"1653145879213137684","title":"Signaling and trafficking regulation","description":"The cluster shows enrichment for positive regulation of multiple signaling pathways (ERK cascade, GTPase activity, Wnt signaling, PI3K activity) along with processes related to ubiquitination, intracellular transport, calcium-dependent exocytosis, and adhesion-driven cell spreading, suggesting a cohesive set of proteins that regulate signaling and trafficking rather than executing a single structural function.","confidence":"Medium","size":25,"edges":11,"triangles":0,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0071260","count":4}]},{"hash":"787266095347806075","title":"Hair Follicle Placode Formation and Wnt Signaling","description":"The top GO terms point to hair follicle placode formation and positive regulation of canonical Wnt signaling, which strongly suggests a hair/skin morphogenesis theme. Additional terms such as substrate adhesion-dependent cell spreading, endosome transport, and TORC2 signaling align with epithelial remodeling and cytoskeletal dynamics required during morphogenesis, while phagosome-lysosome fusion and ribosomal export reflect general cellular processing that supports development. Overall, the cluster appears centered on hair follicle development and related signaling pathways.","confidence":"Medium","size":25,"edges":56,"triangles":43,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071389","count":23},{"id":"GO:0048227","count":23},{"id":"GO:0090263","count":23},{"id":"GO:1900026","count":23},{"id":"GO:0060789","count":23}]},{"hash":"395538532865103008","title":"Rho GTPase-driven cytoskeleton and endocytosis","description":"This cluster centers on GO terms for regulation of Rho/small GTPase signaling, actin cytoskeleton dynamics, cell polarity, migration, and endocytosis, with additional vesicle-transport related terms (endosome-to-postsynaptic membrane) and endothelial morphogenesis, pointing to a cohesive module linking cytoskeletal remodeling to vesicle trafficking.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0006897","count":5},{"id":"GO:0090051","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0090334","count":5}]},{"hash":"1239124542468204838","title":"Rho-dependent actin protrusions","description":"This cluster centers on actin cytoskeleton remodeling that drives the formation of cell surface protrusions such as microspikes, filopodia, and lamellipodia, under the control of Rho GTPase signaling and regulation of GTPase activity. The presence of thymus development and IL-2-related terms likely reflects actin-dependent immune cell functions rather than a separate pathway. Overall, the proteins here coordinate actin polymerization and protrusive structures critical for cell migration and cell\u2013cell interactions.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030035","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0046847","count":6},{"id":"GO:0043547","count":4},{"id":"GO:0031532","count":4}]},{"hash":"824806172573124031","title":"Regulated vesicle trafficking and exocytosis","description":"This cluster centers on vesicle transport, endosomal sorting, and regulated exocytosis, including microtubule-driven transport, vesicle fusion, and calcium-dependent secretion. The GO terms indicate a coordinated secretory pathway across cell types (neuronal, epithelial, pigment cells), rather than a single static function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0031116","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0071985","count":3},{"id":"GO:0031340","count":3},{"id":"GO:1903861","count":3}]},{"hash":"1336665228972370420","title":"Neural and muscular development signaling","description":"This cluster is enriched for nervous system development and axon guidance terms (semaphorin-plexin signaling, branchiomotor neuron axon guidance, trigeminal nerve organization) as well as muscle-related processes (sarcomere organization, heart development). The presence of Rho signaling regulation suggests cytoskeletal remodeling common to neural and muscular development. Some terms (e.g., B cell receptor signaling) are peripheral, but the dominant pattern points to coordinated development of neural and muscular tissues.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0045214","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0007399","count":5}]},{"hash":"1688101219814414905","title":"Autophagy and Endocytosis Regulation","description":"This cluster is dominated by terms related to autophagy (ribophagy; engulfment of target by autophagosome) and endocytosis (ubiquitin-dependent and receptor-mediated), plus intracellular protein transport and related membrane trafficking processes. While a few terms (e.g., dendrite extension) are less directly connected, the strongest signals point toregulated protein turnover and membrane trafficking pathways, suggesting a coherent theme of cellular cargo handling and degradation. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:1903861","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0032443","count":2},{"id":"GO:0034517","count":2},{"id":"GO:0061736","count":2}]},{"hash":"1794019126000535434","title":"Chromosome cohesion and mitotic spindle regulation","description":"The cluster is dominated by processes tied to chromosome cohesion, sister chromatid separation/biorientation, spindle elongation, and mitotic G1/S transitions, all central to cell division. While one term about neurotrophin signaling appears, the overarching pattern is coordination of chromosome segregation and mitotic progression, with related GTPase regulation supporting signaling for these events.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":6},{"id":"GO:0051388","count":4},{"id":"GO:0031134","count":4},{"id":"GO:0007165","count":4},{"id":"GO:0051306","count":4}]},{"hash":"2013764583908328272","title":"Unknown","description":"The GO terms point to a mix of disparate processes (xenobiotic response, lung/bone differentiation, sporulation, ubiquitin-mediated degradation, and MAPK regulation) across different organisms, with no clear single function uniting all proteins, so a concise, representative label cannot be determined.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:0060487","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030437","count":4},{"id":"GO:0071108","count":4}]},{"hash":"1860689648444054239","title":"Neurodevelopment and synaptic signaling","description":"Dominant GO terms point to nervous system development, excitatory synaptic activity, axon extension, and dopamine response, with Wnt signaling and protein stability regulation reinforcing neural signaling roles. Some cell cycle/DNA replication terms may reflect proliferating neural progenitors or shared signaling machinery; the T cell receptor signaling term appears as noise rather than a core neural function.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050852","count":16},{"id":"GO:0007098","count":16},{"id":"GO:0010571","count":16},{"id":"GO:0006260","count":16},{"id":"GO:0090263","count":15}]},{"hash":"1353069529645496825","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":128,"triangles":271,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000462","count":9},{"id":"GO:0006412","count":9},{"id":"GO:0042254","count":8},{"id":"GO:0000463","count":6},{"id":"GO:0001731","count":6}]},{"hash":"346248294212452734","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by translation-related processes: translation in general, cytoplasmic translation, ribosome biogenesis, maturation of LSU rRNA, formation of translation preinitiation complex, and translation reinitiation. Together they point to components of ribosomes and the protein synthesis machinery. A few terms relate to stress response and cell division, but they are less represented, so the core theme is ribosome assembly and translation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0002181","count":6},{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2226888675684160892","title":"Chromatin Remodeling and Heterochromatin Assembly","description":"The cluster is enriched for chromatin-related processes: heterochromatin formation (including rDNA and silent mating-type cassette), transcription initiation-coupled chromatin remodeling, chromatin assembly during DNA replication, and establishment of protein localization to chromatin. This suggests a cohesive role in chromatin organization and transcription regulation, with some connection to germ cell processes (spermatogenesis and male gonad development). Therefore, a concise label capturing chromatin remodeling and heterochromatin maintenance is appropriate.","confidence":"High","size":25,"edges":76,"triangles":78,"max_degree":15,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051290","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0030466","count":9},{"id":"GO:0045815","count":8},{"id":"GO:0071169","count":8}]},{"hash":"588945152641510744","title":"RNA Splicing and Processing Machinery","description":"The cluster is strongly enriched for splicing and RNA processing terms (mRNA splicing via spliceosome, regulation of splicing, translation initiation/reinitiation, RNA polymerase II transcription termination, rRNA processing), indicating proteins that participate in RNA metabolism and processing steps across transcription, splicing, and translation.","confidence":"High","size":25,"edges":293,"triangles":2147,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":15},{"id":"GO:0048026","count":15},{"id":"GO:1901407","count":11},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9}]},{"hash":"2281012948650485260","title":"Post-transcriptional mRNA Processing Regulators","description":"This cluster centers on post-transcriptional control of mRNA fate, with multiple terms pointing to spliceosome-mediated splicing regulation, mRNA stability under stress, poly(A) tail dynamics, and mRNA export. The presence of regulatory ncRNA-mediated silencing and mRNA modification suggests a cohesive RNA-processing regulatory module, possibly active in development contexts (blastocyst formation).","confidence":"High","size":25,"edges":99,"triangles":198,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0048025","count":13},{"id":"GO:0060211","count":11},{"id":"GO:0075525","count":11},{"id":"GO:0006406","count":11}]},{"hash":"310449255709166558","title":"Prostaglandin Biosynthesis and Stress Response","description":"The dominant term is prostaglandin biosynthetic process, indicating a core role in lipid mediator production. Additional terms show growth regulation, toxin response, and various metabolic and DNA repair activities, suggesting a module that combines prostaglandin signaling with cellular stress and metabolic adaptation.","confidence":"Medium","size":25,"edges":194,"triangles":831,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":19},{"id":"GO:0040008","count":11},{"id":"GO:0009636","count":11},{"id":"GO:0009407","count":11},{"id":"GO:0009072","count":11}]},{"hash":"1116025587414774301","title":"Mitochondrial Translation and Metabolic Regulation","description":"This cluster is anchored by translation and gene expression terms (including translation and positive regulation of mitochondrial translation), suggesting a module centered on mitochondrial protein synthesis. The presence of metabolic regulation terms (cholesterol biosynthesis, menaquinone biosynthesis) and xenobiotic/toxic response terms indicates co-regulation of metabolic pathways and stress responses with translation control, pointing to a broader mitochondrial/metabolic regulatory theme rather than a single pathway.","confidence":"Medium","size":25,"edges":134,"triangles":198,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0070131","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045542","count":2}]},{"hash":"711482741880214228","title":"Mitochondrial Oxidative Phosphorylation Machinery","description":"This cluster is dominated by GO terms for mitochondrial energy metabolism: proton transmembrane transport, NADH dehydrogenase to ubiquinone, cytochrome c to oxygen, and complex II assembly, all central to oxidative phosphorylation and aerobic respiration. Additional terms like translation and ribosomal subunit assembly may reflect mitochondrial protein synthesis, while xenobiotic response could be a routine stress-related signal\u2014overall pointing to a mitochondrial bioenergetics module.","confidence":"High","size":25,"edges":279,"triangles":1863,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0006123","count":3},{"id":"GO:0006120","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0006412","count":2}]},{"hash":"83661960123957786","title":"Neural cell adhesion and synapse assembly","description":"This cluster is dominated by GO terms for cell-cell adhesion (heterophilic and homophilic) and nervous system development, along with transmission of nerve impulse and positive regulation of synapse assembly, pointing to neural connectivity and synapse formation. Immune-related terms are present but appear secondary to the neural adhesion/synapse theme.","confidence":"High","size":25,"edges":225,"triangles":1015,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007156","count":10},{"id":"GO:0006958","count":7},{"id":"GO:0019226","count":7},{"id":"GO:0014068","count":6}]},{"hash":"252073428059627811","title":"Nervous-system and organ morphogenesis with apoptosis signaling","description":"The top GO terms cluster around development and morphogenesis across nervous system tissues (forebrain morphogenesis, retina development, retinal ganglion cell axon guidance) and other organs (metanephros morphogenesis, multicellular organism development). There are also signals related to extrinsic apoptotic pathways (death domain receptors, TNF production) and some immune regulation (T cell activation/Treg differentiation), suggesting a theme of developmental morphogenesis with accompanying apoptotic and immune-modulatory signaling.","confidence":"Medium","size":25,"edges":69,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902043","count":3},{"id":"GO:0048853","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0031290","count":2}]},{"hash":"1890463433343973098","title":"Cell-cycle and developmental signaling pathways","description":"This cluster centers on core cell proliferation processes (DNA replication, mitotic cell cycle) and a broad set of signaling and differentiation cues (KIT signaling, Wnt signaling, MAPKK/MAPK-related activity, TORC1 regulation, retinoic acid response) plus differentiation-related terms (NK cell differentiation, imprinting regulation). The common theme is the coordination of cell division with developmental and differentiation signaling, suggesting these proteins function in growth and development contexts rather than a single, isolated pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006260","count":24},{"id":"GO:0000278","count":24},{"id":"GO:0038109","count":23},{"id":"GO:0007160","count":23},{"id":"GO:0090263","count":23}]},{"hash":"2077973855945383015","title":"Neural and brain development","description":"The cluster is dominated by GO terms related to neural development, including brain development, forebrain development, retina development in camera-type eye, and general multicellular organism development. Epigenetic regulation (histone methylation) and transcriptional control, plus cytoskeletal remodeling and spindle functions, likely reflect the cellular and chromatin processes that accompany neural differentiation and development. Together, these terms point to a cohesive theme of neural/brain development with retinal formation.","confidence":"High","size":25,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061087","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0030042","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0051225","count":7}]},{"hash":"1047986391509180141","title":"Rho-driven cytoskeletal remodeling","description":"The cluster is dominated by cytoskeleton- and actin dynamics-related terms: mitotic spindle assembly, lamellipodium and microspike assembly, and Rho protein signal transduction, pointing to actin remodeling and cellular movement/dynamics. Other GO terms like insulin signaling, glucose transport, smell perception, and uterus development are present but seem less central, suggesting a core theme of cytoskeletal regulation by Rho pathways. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0007608","count":4},{"id":"GO:0060134","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0015758","count":4}]},{"hash":"875192977898096076","title":"Unknown","description":"The Top Terms are diverse and do not point to a single coherent function: mRNA deadenylation, immune/MHC regulation, host-virus interactions, radiation response, glycosylation, infection structure formation, sensory perception, heart and multicellular development, and redox homeostasis. With no edges (Max Degree 0) and no shared functional signal, there isn\u2019t a common theme binding these proteins together. Therefore, this cluster is best labeled Unknown with None confidence.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":3},{"id":"GO:0045347","count":3},{"id":"GO:0044829","count":3},{"id":"GO:0071479","count":3},{"id":"GO:0006486","count":3}]},{"hash":"373498646076614336","title":"Central carbon metabolism and amino acid turnover under starvation","description":"The top GO terms cluster around glycolysis, the TCA cycle, gluconeogenesis, and 2-oxoglutarate metabolism, plus amino acid biosynthesis/catabolism, indicating core energy metabolism and amino acid remodeling. The presence of a starvation-response term supports an interpretation of metabolic reprogramming under nutrient limitation. A transport term is ancillary, not redefining the main theme. Overall, this cluster represents central carbon metabolism linked with amino acid turnover under starvation.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":12},{"id":"GO:0006096","count":8},{"id":"GO:0006103","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0017000","count":5}]},{"hash":"2094872762387652922","title":"Cardiac Development and GPCR Signaling","description":"This cluster centers on heart development and cardiac muscle contraction, with strong GPCR signaling components such as desensitization and internalization, and a tachykinin receptor pathway, hinting at receptor-mediated signaling in heart tissue. The presence of ER-to-Golgi vesicle transport and cell adhesion terms suggests concurrent receptor trafficking and tissue organization, supporting a cohesive role for proteins in cardiac development and GPCR signaling networks.","confidence":"High","size":25,"edges":33,"triangles":10,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0008584","count":4}]},{"hash":"1222027502044567239","title":"Embryonic development and tissue morphogenesis","description":"The cluster\u2019s top GO terms are dominated by developmental and morphogenetic processes (endocrine system development, left/right pattern formation, EMT in endocardial cushion formation, cartilage morphogenesis, pancreatic cell development, trophoblast differentiation), pointing to a primary theme of embryonic development and tissue formation. While there are also general gene expression/process terms (spliceosome-mediated splicing, ribosomal export, RNA Pol II regulation), these do not override the developmental focus.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":24},{"id":"GO:0060972","count":24},{"id":"GO:0003198","count":24},{"id":"GO:0000398","count":24},{"id":"GO:0060707","count":24}]},{"hash":"1162171857342370990","title":"TNF/IL-1 driven inflammatory signaling","description":"The top GO terms point to strong inflammatory and immune-activation signals (response to TNF and IL-1, leukocyte migration, monocyte activation), with additional context of epithelial differentiation (keratinocyte differentiation, Notch processing) that may reflect tissue-specific inflammatory responses. Overall, the cluster centers on inflammatory signaling and leukocyte activation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034612","count":12},{"id":"GO:0030216","count":12},{"id":"GO:0007220","count":12},{"id":"GO:0010042","count":12},{"id":"GO:0002523","count":10}]},{"hash":"1144673952536365832","title":"Vascular smooth muscle proliferation and migration","description":"Top GO terms indicate positive regulation of smooth muscle cell proliferation and migration, plus cell-matrix adhesion, prostaglandin biosynthesis, and PI3K/AKT signaling. These features converge on vascular remodeling and inflammatory signaling in blood vessels. Platelet aggregation further supports a vascular context, while remaining terms such as retinol and fructose metabolism appear more peripheral. Taken together, the cluster is best described as signaling and processes driving vascular smooth muscle growth and movement.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0051897","count":9},{"id":"GO:0048661","count":9},{"id":"GO:0001516","count":9},{"id":"GO:0007160","count":8}]},{"hash":"1968477029022196126","title":"Dopaminergic Neuro-Sensory Signaling","description":"This cluster is dominated by terms related to sensory perception (pain, vision) and dopaminergic neurotransmission (synaptic transmission, dopaminergic), plus behavioral responses to cocaine and signaling pathways (ERK/MAPK cascade, prostaglandin response). While there are some cardiovascular terms (heart development, blood pressure regulation), the core theme appears to be neural sensory processing and dopaminergic signaling, with ancillary signaling interactions. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":22},{"id":"GO:0010759","count":22},{"id":"GO:0070374","count":22},{"id":"GO:0007507","count":22},{"id":"GO:0001963","count":22}]},{"hash":"1304413383730455799","title":"Neural signaling and sensory perception","description":"The top GO terms cluster strongly around neural signaling and sensory processes: pain perception, visual perception, dopaminergic synaptic transmission, and morphine response, supported by signaling cascade activities like protein phosphorylation, ERK signaling, and membrane potential regulation. A few terms (heart development, macrophage chemotaxis) appear less central, likely reflecting broader expression patterns rather than core function. ","confidence":"Medium","size":25,"edges":234,"triangles":1110,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0006468","count":15},{"id":"GO:0007190","count":15}]},{"hash":"2059024372675427612","title":"Neural sensory perception and dopaminergic signaling","description":"The cluster is dominated by GO terms tied to nervous system functions: sensory perception (pain, vision), dopaminergic synaptic transmission, visual learning, and behavioral responses to cocaine, along with stimulus responses (temperature, prostaglandin). These indicate a cohesive theme around neural signaling, sensory processing, and reward-related pathways, with a few outliers (e.g., heart development) that may reflect pleiotropy or annotation breadth.","confidence":"High","size":25,"edges":172,"triangles":441,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007601","count":16},{"id":"GO:0010759","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0007507","count":15}]},{"hash":"1180719035249877897","title":"Pain and retina light-sensing functions","description":"The cluster\u2019s top GO terms are dominated by sensory perception of pain and cellular response to temperature, along with photoreceptor maintenance and retina development, indicating a core theme around nociception and retinal/light-sensing biology. While terms related to circadian regulation and broader physiological processes appear, they do not outweigh the retina/pain-centric core. Thus the label reflects the primary function of these proteins as sensors and photoreceptive components.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0071502","count":21},{"id":"GO:0042391","count":21},{"id":"GO:0002024","count":21},{"id":"GO:0045494","count":21}]},{"hash":"280065273140654963","title":"Mitochondrial transport and energy metabolism","description":"This cluster is dominated by mitochondrial-related terms: transport across mitochondrial membranes (NAD, citrate, ATP), the malate-aspartate shuttle, and energy metabolism, along with signals of oxidative stress and apoptosis (response to superoxide, apoptotic mitochondrial changes). A couple of terms appear as noise (e.g., female pregnancy, obsolete genome maintenance), but the overarching theme points to mitochondrial function and redox balance.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008637","count":24},{"id":"GO:0000303","count":24},{"id":"GO:0097274","count":24},{"id":"GO:0035352","count":24},{"id":"GO:0007565","count":24}]},{"hash":"1058562278664230289","title":"Diverse Substrate Membrane Transporters","description":"Most terms indicate transmembrane transport of diverse substrates (xenobiotics, phosphate, nitrate, arabinose, vitamins, 4-hydroxyphenylacetate) and neurotransmitter loading into vesicles, pointing to membrane transporter proteins with broad substrate specificity. Nucleosome assembly appears to be an outlier and not central to the cluster\u2019s function. The lack of network edges does not conflict with a shared functional theme identified by GO annotations; the common thread is membrane transport. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0035461","count":3}]},{"hash":"1155895053738589880","title":"Mitochondrial Transport, Metabolism, and Oxidative Stress","description":"The cluster is dominated by mitochondrial-focused functions: multiple transmembrane transport terms (citrate, NAD, ATP), the malate-aspartate shuttle, and various stress-related responses (fatty acid response, superoxide response) along with apoptotic mitochondrial changes. These together point to a cohesive role in mitochondrial metabolism and redox regulation, with a few outliers likely reflecting annotation noise (e.g., female pregnancy, obsolete terms). Confidence reflects a strong mitochondria-centric theme.","confidence":"High","size":25,"edges":158,"triangles":470,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":25},{"id":"GO:0008637","count":24},{"id":"GO:0000303","count":24},{"id":"GO:0097274","count":24},{"id":"GO:0035352","count":24}]},{"hash":"651947667900008960","title":"Ubiquitin-Dependent Proteolysis","description":"The terms show strong enrichment for ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination, autoubiquitination, ERAD), pointing to the ubiquitin-proteasome system as the core function. Additional terms like regulation of circadian rhythm and innate immune response suggest broader signaling roles linked to ubiquitin-mediated regulation, reinforcing a cohesive label around proteolysis and ubiquitin-dependent control.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0000209","count":10},{"id":"GO:0051865","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0042752","count":7}]},{"hash":"1701464146164837058","title":"Retina development and circadian-vascular regulation","description":"The top GO terms cluster around retina and visual system development (retina development, visual learning) alongside circadian rhythm regulation and vascular/immune processes (blood pressure regulation, vascular smooth muscle contraction, IL-10 production, inflammatory regulation). This suggests a cohesive module tied to visual system maturation with concurrent circadian and vascular-immune regulation, rather than a random mixture of unrelated functions.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":24},{"id":"GO:0040015","count":24},{"id":"GO:0001991","count":23},{"id":"GO:0042752","count":23},{"id":"GO:0072608","count":23}]},{"hash":"328730920491309178","title":"Unknown","description":"The top terms include DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and several tissue-specific differentiation processes (cerebellar granule cell differentiation, trophoblast giant cell differentiation, roof of mouth development), plus miscellaneous processes like collagen catabolic process, microvillus assembly, receptor internalization, blood coagulation, and complement activation. The terms do not converge on a single pathway or cellular function, indicating the cluster may contain proteins with diverse, unrelated roles. Hence, there is no coherent theme to assign a specific label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0021707","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0031623","count":4}]},{"hash":"1701987053613318259","title":"Developmental patterning and morphogenesis","description":"This cluster\u2019s top GO terms center on embryonic development and tissue formation, including left-right patterning, endocrine system development, cartilage morphogenesis, pancreatic cell development, and EMT during heart cushion formation. There are also regulatory processes like transcriptional control and mRNA splicing that commonly support developmental programs. While the terms span diverse tissues, the shared theme is developmental patterning and morphogenesis rather than a single specific pathway. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2}]},{"hash":"826240304793784788","title":"Unknown","description":"The top GO terms span diverse cellular processes (translation initiation, mRNA splicing, cell division, development, nutrient response, protein ubiquitination, and cell fusion) with no single unifying function. There are no edges or cohesive functional hints in the dataset to tie these proteins into a common pathway or process. Therefore, a concise, representative label cannot be determined beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0007584","count":3}]},{"hash":"449802970067066210","title":"Developmental Signaling and Morphogenesis","description":"These proteins cluster around developmental signaling and tissue morphogenesis. GO terms include nervous system development, Roundabout and Shh signaling, T cell receptor signaling, regulation of Rho signaling, myoblast fusion, kidney development, and ossification, suggesting a cohesive theme of developmental signaling networks guiding organogenesis and tissue patterning.","confidence":"High","size":24,"edges":237,"triangles":1344,"max_degree":23,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":12},{"id":"GO:0035385","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0035023","count":12},{"id":"GO:0007520","count":11}]},{"hash":"422303860326644456","title":"DNA Damage Response and Repair","description":"The cluster is dominated by GO terms for DNA replication, DNA repair, DNA damage checkpoint signaling, apoptosis, and cellular responses to ionizing radiation, pointing to a cohesive DNA damage response network. While innate immune and antiviral-related terms appear, the core signal is activation of DNA damage sensing and repair pathways, with associated cell cycle control and programmed cell death as outcomes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0071479","count":2},{"id":"GO:0031571","count":2}]},{"hash":"1606453687537032418","title":"Neuronal Synapse Remodeling and Actin Dynamics","description":"This cluster centers on neuronal synaptic plasticity and development, reflected by long-term synaptic depression, dendritic spine maintenance, and forebrain development, with a strong emphasis on actin cytoskeleton regulation (barbed-end actin capping, Arp2/3 nucleation regulation, and GTPase activity), suggesting coordinated synapse remodeling; innate immune response and oxidative stress terms appear but are less central.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060292","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0097062","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0043547","count":3}]},{"hash":"2114794351537162481","title":"Neuronal development and signaling","description":"The top GO terms cluster around neural development and signaling: regulation of neuron maturation, nerve branching morphogenesis, dopamine response, GPCR signaling, and Wnt signalosome assembly, plus cellular responses to mechanical stimuli. This suggests the proteins function in neural development and neuronal signaling pathways, with maturation and morphogenesis as core themes. Some outliers (ubiquitination, kidney size regulation) appear peripheral to the main neural theme but do not override the dominant neuronal pattern.","confidence":"High","size":24,"edges":35,"triangles":7,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903125","count":9},{"id":"GO:0016567","count":9},{"id":"GO:1903215","count":9},{"id":"GO:0035564","count":9},{"id":"GO:0007186","count":9}]},{"hash":"1219559786484452030","title":"Unknown","description":"The cluster shows a mix of terms centered on basic cellular processes (ER-Golgi vesicle transport, retrograde Golgi-ER transport, ribosome biogenesis, cell division, and mitotic chromatid segregation) alongside unrelated phenotypic terms (pigmentation, male gonad development, aging) and protein interactions (homooligomerization). Because there isn\u2019t a coherent, common function spanning all members, a specific, representative label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006890","count":2}]},{"hash":"2239047611780687581","title":"Intracellular trafficking and autophagy regulation","description":"The top GO terms cluster around intracellular transport, endocytosis, and autophagy-related processes (ribophagy and autophagosome engulfment), with additional signals related to Rho-mediated regulation of vesicle movement and membrane lipid biosynthesis (ergosterol and dolichyl phosphate). This suite suggests a cohesive role in vesicle trafficking, membrane dynamics, and selective degradation pathways, likely in a fungal context. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":10},{"id":"GO:0035023","count":9},{"id":"GO:0032443","count":8},{"id":"GO:0034517","count":8},{"id":"GO:0061736","count":8}]},{"hash":"1502395760847864128","title":"Unknown","description":"The top GO terms span diverse biological themes (ER organization, forebrain development, apoptosis, IL-1 signaling, JNK regulation, T cell receptor signaling, telomere maintenance, DNA repair, viral processes), with no clear single function tying them together. This breadth suggests either multifunctional proteins or annotation noise, making a specific, representative label inappropriate.","confidence":"","size":24,"edges":33,"triangles":5,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007029","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0070498","count":3},{"id":"GO:0046330","count":3}]},{"hash":"7972358049134177","title":"Angiogenesis and vascular remodeling signaling","description":"This cluster is enriched for terms tied to blood vessel formation and vascular function, including positive regulation of angiogenesis, vasoconstriction, cell migration, integrin activation, and small GTPase\u2013mediated signaling. Together they point to endothelial/vascular remodeling and angiogenic signaling pathways; a growth hormone receptor signal term is present but seems ancillary to the core vascular theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0045766","count":7},{"id":"GO:0045907","count":6},{"id":"GO:0060396","count":6},{"id":"GO:0042518","count":6},{"id":"GO:0033623","count":6}]},{"hash":"38316287319648909","title":"Protein oligomerization and developmental signaling","description":"The top GO terms point to protein-protein interactions (homooligomerization, heterotrimerization, positive regulation of protein binding), coupled with signaling control (peptidyl-serine phosphorylation) and developmental pathways (Wnt signaling, endodermal and brown fat differentiation). This suggests a theme around protein complex formation and developmental signaling processes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":9},{"id":"GO:0070208","count":8},{"id":"GO:0033138","count":8},{"id":"GO:0035987","count":7},{"id":"GO:0050873","count":7}]},{"hash":"1616487513941577781","title":"RNA splicing and translation initiation regulation","description":"The proteins show strong associations with spliceosome-mediated mRNA processing and multiple aspects of translation initiation and reinitiation, including regulatory ncRNA-mediated silencing and IRES-dependent viral translation, indicating a cohesive theme of RNA processing coupled to translational control.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0000398","count":9},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8}]},{"hash":"353851311351377067","title":"Ubiquitin\u2013proteasome quality control","description":"This cluster is dominated by GO terms for deubiquitination, sumoylation, ubiquitin-dependent ERAD, aggresome assembly, and proteasome regulation, pointing to a cohesive theme of ubiquitin-mediated protein turnover and quality control. A couple terms about organ development appear peripherally but do not overwhelm the core pattern.","confidence":"High","size":24,"edges":261,"triangles":1755,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":16},{"id":"GO:0016925","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0045648","count":9},{"id":"GO:0010636","count":9}]},{"hash":"1905227976599670871","title":"RNA processing and translation machinery","description":"The top GO terms cluster around translation (GO:0006412) and RNA metabolism, including rRNA/tRNA processing and RNA silencing, indicating a core of RNA processing and protein synthesis components. Some immune-related terms (response to virus, innate immune response) appear but likely reflect multifunctional RNA-binding proteins or annotation noise; odd terms like dosage compensation and facial nerve morphogenesis may be incidental. Overall, the dominant theme is RNA processing coupled with translation.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0009615","count":7},{"id":"GO:0030423","count":6},{"id":"GO:0006364","count":6},{"id":"GO:0045070","count":6}]},{"hash":"1538206735919954047","title":"Neural development and brain energy metabolism","description":"The top GO terms point to neural development, including thalamus and striatum development and tangential migration from the subventricular zone, indicating a brain development theme. Concurrently, metabolic processes such as glycolytic and TCA cycle activity, thiamine biosynthesis, and dopamine catabolic processes suggest associated energy metabolism and neurotransmitter turnover relevant to neural function. Overall, the cluster appears to group proteins involved in brain development with linked metabolic activity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0051301","count":4}]},{"hash":"56263210926850628","title":"Actin Cytoskeleton Remodeling","description":"The cluster is dominated by GO terms for actin dynamics\u2014barbed-end capping, nucleation, and filament network formation\u2014pointing to proteins that coordinate actin remodeling. While other terms touch on development and synaptic plasticity, the strongest signal is actin filament organization, suggesting these proteins function together in cytoskeletal remodeling and related processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051016","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0051639","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0045010","count":5}]},{"hash":"2293545424284111064","title":"Multitissue Development and Signaling","description":"The cluster\u2019s top GO terms span developmental processes in multiple tissues (kidney, bone), neural signaling and memory, cardiac contraction, and stress responses (hypoxia, apoptosis), suggesting a broad, cross-tissue development and signaling role rather than a single, cohesive pathway.","confidence":"Medium","size":24,"edges":169,"triangles":469,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":20},{"id":"GO:0043931","count":18},{"id":"GO:0007269","count":18},{"id":"GO:0060048","count":17},{"id":"GO:0043065","count":17}]},{"hash":"514410686616374725","title":"Embryonic Organ and Neural Development","description":"This cluster centers on developmental processes across multiple tissues: eye/retina development, endocrine pancreas development, bronchial development, and neural lineage specification (spinal cord neurons, oligodendrocytes, cortical interneurons). The recurring theme is embryonic tissue patterning and cell-fate specification, supported by transcriptional regulation terms, rather than a single molecular function. ","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0000122","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0043010","count":11},{"id":"GO:0048048","count":11}]},{"hash":"371999421748908702","title":"Developmental patterning and organogenesis","description":"These proteins show a strong enrichment for embryonic development and morphogenesis terms, including roof of mouth development, left-right pattern formation, hair follicle morphogenesis, endocardial cushion EMT, and endocrine system development, suggesting a common role in embryogenesis and organ formation. Some housekeeping terms appear but do not outweigh the developmental signal.","confidence":"High","size":24,"edges":16,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":16},{"id":"GO:1903026","count":13},{"id":"GO:0035270","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0003198","count":12}]},{"hash":"1420554203148997631","title":"Multi-tissue Development and Neural Differentiation","description":"Top GO terms indicate involvement in development across multiple organs (heart, brain, placenta, uterus, liver) and neural differentiation (brain development, spinal cord neuron differentiation), complemented by processes like cilium assembly and nucleosome assembly that underpin chromatin regulation and cellular structure during development. This suggests a cohesive theme of broad developmental and neurodevelopmental regulation across tissues rather than a single tissue-specific function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0001889","count":3}]},{"hash":"482853744210318421","title":"Lipid and Steroid Metabolism","description":"The terms are dominated by lipid-related biosynthesis and metabolism (sphingolipids, methyl-branched fatty acids, retinol, poly-hydroxybutyrate) and steroid hormone metabolism (C21-steroid), with a secondary hint toward development (lung) and metabolic/catabolic processes, suggesting a cohesive focus on lipid and steroid pathways overall.","confidence":"Medium","size":24,"edges":12,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1902321","count":2},{"id":"GO:0008207","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0045150","count":2}]},{"hash":"173893271293253061","title":"ECM remodeling and coagulation","description":"The cluster shows strong enrichment for extracellular matrix disassembly, collagen catabolic process, and positive regulation of plasminogen activation, as well as Factor XII activation and fibrinolysis-related terms, pointing to a cohesive role in matrix proteolysis and blood coagulation. While there are also developmental and signaling terms (Wnt pathway, axis specification), the ECM/coagulation signals are the most consistently represented, suggesting this as the core theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0016055","count":8},{"id":"GO:0003323","count":7},{"id":"GO:0007313","count":7},{"id":"GO:0007596","count":7}]},{"hash":"249867906138017204","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0009243","count":7},{"id":"GO:0042619","count":7},{"id":"GO:0097171","count":7}]},{"hash":"1114827040455919485","title":"Ubiquitin-Proteasome Regulation of Circadian and Cell Cycle","description":"The proteins in this cluster are strongly linked to ubiquitin-dependent protein catabolism, including SCF-dependent proteasomal degradation and general protein polyubiquitination, which points to proteasome-mediated protein turnover. The presence of GO terms related to circadian rhythm regulation and mitotic G1 DNA damage checkpoint signaling, along with negative regulation of cell proliferation, suggests a coordinated role in cell-cycle control and timing. Additional terms like glycoprotein catabolism and arsenic response fit within broader proteolytic and stress-response contexts, reinforcing a theme of regulated degradation affecting cellular timing and division.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:1903378","count":9},{"id":"GO:0042752","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0000209","count":9}]},{"hash":"1055237146761472800","title":"Endocytic signaling and junction assembly","description":"This cluster centers on receptor internalization and cell-surface signaling, with additional terms linking vesicle trafficking (endosome to melanosome), integrin/VEGF signaling, and junction assembly (paranodal and smooth septate). The common thread is proteins involved in endocytosis and vesicular transport that modulate signaling and cell adhesion/motility, including junction formation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071404","count":11},{"id":"GO:0031623","count":11},{"id":"GO:0007166","count":11},{"id":"GO:0030913","count":11},{"id":"GO:2001046","count":11}]},{"hash":"315557364027913269","title":"Cardiovascular Development and Blood Pressure Regulation","description":"The cluster is dominated by GO terms tied to heart development, vascular smooth muscle contraction, and regulation of systemic arterial blood pressure via the renin-angiotensin system, pointing to a core cardiovascular function. Additional terms touching circadian rhythm, retina development, and inflammatory processes suggest broader regulatory roles, but the dominant theme remains cardiovascular development and blood pressure control.","confidence":"High","size":24,"edges":128,"triangles":249,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":21},{"id":"GO:0042752","count":21},{"id":"GO:0072608","count":21},{"id":"GO:0035625","count":21},{"id":"GO:0060041","count":21}]},{"hash":"1088096531702783509","title":"GABAergic Synaptic Signaling and Neuronal Behavior","description":"The terms are dominated by GABA signaling, ion transport at the synapse (Na+/K+), and synaptic vesicle regulation, with connected concepts in short-term memory and locomotor behavior, suggesting a cohesive neuronal synaptic module centered on GABAergic transmission and related plasticity.","confidence":"High","size":24,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":23},{"id":"GO:0001661","count":23},{"id":"GO:0071805","count":23},{"id":"GO:0060079","count":23},{"id":"GO:0007626","count":23}]},{"hash":"550201293988846442","title":"Cardiac calcium signaling and contraction","description":"The top GO terms converge on calcium handling and cardiac function: SR calcium release into the cytosol, store-operated calcium channel activation, and heart contraction with electrical coupling. ER/SR organization terms support Ca2+ storage and release architecture, pointing to a module of cardiac excitation\u2013contraction coupling via calcium signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":3},{"id":"GO:0097202","count":3},{"id":"GO:0060047","count":2},{"id":"GO:1901846","count":2},{"id":"GO:0014808","count":2}]},{"hash":"1075134179535970865","title":"Regulation of cell differentiation","description":"The proteins are enriched for GO terms about regulating differentiation across multiple lineages (e.g., osteoblast/osteoclast differentiation, BMP signaling, stem cell differentiation, lung epithelial differentiation, cardiac muscle cell differentiation) including several negative regulatory terms. This points to a theme of modulating cell fate and developmental signals rather than a single tissue-specific function, justifying a label focused on differentiation regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045668","count":3},{"id":"GO:0030514","count":3},{"id":"GO:0045671","count":3},{"id":"GO:2000271","count":3},{"id":"GO:0060766","count":3}]},{"hash":"1013487906018200578","title":"Leukocyte Activation and Phagocytosis Signaling","description":"Based on the top GO terms, the cluster is enriched for stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, phagocytosis recognition, leukocyte tethering/rolling, and general leukocyte activation. This points to immune cell activation and phagocytic processes as the core theme. Some development-related terms appear, likely reflecting multi-function annotations, but the dominant signal is immune response. ","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":24},{"id":"GO:0006910","count":24},{"id":"GO:0001502","count":24},{"id":"GO:0072287","count":24},{"id":"GO:0072177","count":24}]},{"hash":"1488103959625747938","title":"Developmental signaling and cytoskeletal dynamics","description":"The proteins appear linked to development across tissues (forebrain, neuron projection, skeletal, and male gonad development) and to signaling pathways (TGF-beta response, PLC-activating GPCR signaling). They also show cytoskeletal remodeling activity (actin depolymerization) and spindle assembly, suggesting a coordinated developmental program involving signaling and cytoskeletal changes. Some immune/ubiquitin-related terms are present but less central to the main theme. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0001501","count":6}]},{"hash":"662151928623904420","title":"Neurotransmitter transport and brain development","description":"These proteins show strong signals for amino acid transport (leucine, proline, glycine) and neurotransmitter handling (serotonin uptake/secretion, dopamine catabolic process), plus developmental terms for brain regions (thalamus development, adenohypophysis development) and glial growth. The combination points to a cluster of transporters and enzymes involved in neural signaling and nervous system development, hence the label. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051610","count":5},{"id":"GO:0015820","count":5},{"id":"GO:0015824","count":5},{"id":"GO:0021794","count":5},{"id":"GO:0061537","count":5}]},{"hash":"909467810633672780","title":"Unknown","description":"The top GO terms span mitochondrial assembly, tight junction assembly, nuclear import, heat response, lung development, Golgi organization, and various immune and differentiation processes, with no single dominant function linking the proteins. This scattered set suggests no cohesive cluster-wide theme, so Unknown with None confidence. ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0006606","count":1},{"id":"GO:0034605","count":1},{"id":"GO:0030324","count":1}]},{"hash":"984098595525120785","title":"Ubiquitination-Driven NF-\u03baB Immune Signaling","description":"Based on the top GO terms, the cluster is centered on ubiquitin-dependent protein degradation and ubiquitin signaling (K48 and K63 linkages), with strong links to NF-\u03baB activation and TNF-mediated pathways, which are core to immune responses. The presence of V(D)J recombination and chromatin modification terms suggests coordinated regulation in immune cells and gene regulation. Together, these terms point to a cohesive theme of ubiquitin-mediated control of immune signaling and transcriptional responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:1903265","count":10},{"id":"GO:0070534","count":8},{"id":"GO:1902187","count":8},{"id":"GO:0070936","count":8}]},{"hash":"946970977118962557","title":"Cardiovascular, circadian, and immune regulation","description":"The cluster is dominated by GO terms related to cardiovascular control (regulation of systemic arterial blood pressure by renin-angiotensin, heart development, vascular smooth muscle contraction) and immune/inflammatory processes (IL-10 production, chronic inflammatory regulation, neutrophil killing). A circadian rhythm regulation term also appears prominently, and a retina development term hints at broader developmental roles. Together these terms suggest a group tied to cardiovascular physiology and immune regulation, with circadian timing as an additional layer of control.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":23},{"id":"GO:0042752","count":23},{"id":"GO:0072608","count":23},{"id":"GO:0035625","count":23},{"id":"GO:0060041","count":23}]},{"hash":"117396988702715088","title":"Rho/Rac Cytoskeletal Signaling and Angiogenesis","description":"The cluster\u2019s top GO terms center on Rho and Rac signaling, filopodium assembly, and endosome organization, with supporting pathways in insulin/IGF signaling and organ development (heart, glomerulus) and angiogenesis. This points to a cohesive theme of cytoskeletal remodeling via Rho/Rac GTPases driving vascular and organ development, justifying a label that emphasizes these interconnected processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0032835","count":3}]},{"hash":"1083223084669191655","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, H2-like K6-linked ubiquitination) with supporting signals to NF-kappaB signaling and histone regulation, suggesting a cluster centered on ubiquitin-mediated protein degradation and its regulatory roles in signaling and chromatin.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":14},{"id":"GO:1903265","count":13},{"id":"GO:0090073","count":13},{"id":"GO:0030433","count":13}]},{"hash":"2135029730704425867","title":"Embryonic development and tissue differentiation","description":"The GO terms cluster around developmental and differentiation processes across multiple tissues, including endocrine system development, pancreatic cell development, left/right patterning, cartilage morphogenesis, EMT in heart development, placental/ trophoblast differentiation, retinal/eye development, and sensory organ formation. This points to a broad theme of embryonic organogenesis and tissue specification rather than a single, specific molecular function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003198","count":2}]},{"hash":"2118055967782058863","title":"Unknown","description":"The GO terms span neural development, reproductive development, immune signaling, STAT-related signaling, insulin secretion, membrane repair, and apoptosis, showing no single cohesive function or pathway linking all proteins. Because the cluster seems to cover multiple disparate systems rather than one clear theme, I cannot assign a specific, representative label with confidence.","confidence":"","size":23,"edges":159,"triangles":428,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0042517","count":6},{"id":"GO:0060068","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0022008","count":6},{"id":"GO:0045087","count":6}]},{"hash":"1039240559830337450","title":"mRNA Processing and Splicing Regulation","description":"This cluster is enriched for GO terms related to post-transcriptional mRNA handling: nuclear export, alternative splicing regulation via the spliceosome, mRNA stability under stress, poly(A) tail dynamics, and general mRNA modification. The convergence on splicing control and mRNA maturation suggests these proteins function together in processing and regulating mature mRNA, rather than transcription or translation. ","confidence":"High","size":23,"edges":167,"triangles":617,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":8},{"id":"GO:0000381","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0006378","count":8},{"id":"GO:0048025","count":8}]},{"hash":"1020021483759460133","title":"ER-Golgi vesicle trafficking and mitosis","description":"The top GO terms cluster around intracellular membrane trafficking (ER-to-Golgi and retrograde Golgi-to-ER transport, endocytosis) and cell division, suggesting a common theme of vesicle transport tied to mitotic processes. Some terms reflect broader signaling or developmental roles, but the strongest link is vesicle trafficking intersecting with the mitotic cell cycle. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0006897","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0051301","count":2}]},{"hash":"777276263140187515","title":"Wnt signaling and vesicle trafficking in development","description":"This cluster is dominated by terms related to the canonical Wnt signaling pathway and multiple intracellular transport processes (ER-Golgi, endosome trafficking, phagosome-lysosome fusion), with supportive themes in development (hair follicle placode formation, adhesion-dependent spreading) and signaling in vascular and mineralocorticoid contexts. The combination suggests proteins that coordinate signaling pathways with vesicular trafficking during tissue development and remodeling.","confidence":"Medium","size":23,"edges":153,"triangles":522,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071389","count":23},{"id":"GO:0048227","count":23},{"id":"GO:0090263","count":23},{"id":"GO:1900026","count":23},{"id":"GO:0060789","count":23}]},{"hash":"485713856703346459","title":"Embryonic Tissue Morphogenesis and Differentiation","description":"The top GO terms cluster around development and morphogenesis across multiple tissues (forebrain, retina, tooth, cartilage, adipose) and include regulatory and signaling responses (EGF). This cohesive set points to a shared function in embryonic tissue formation and lineage differentiation, hence the chosen name.","confidence":"High","size":23,"edges":30,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021846","count":3},{"id":"GO:0048807","count":3},{"id":"GO:0060059","count":3},{"id":"GO:0050872","count":3},{"id":"GO:0002063","count":3}]},{"hash":"1166239336904817512","title":"Transcriptional Regulation and ER Stress in Development","description":"The top GO terms are dominated by transcription by RNA polymerase II and regulation of transcription from Pol II promoters, including several linked to unfolded protein response and ER stress. Developmental patterning terms (axis specification, segment identity) alongside these transcriptional terms suggest a cluster of proteins involved in transcriptional control during development, with links to ER stress responses and related regulatory processes. This combination supports labeling the cluster as primarily about transcriptional regulation with connections to ER stress and developmental pathways.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0035470","count":13},{"id":"GO:0006990","count":12},{"id":"GO:1990440","count":12},{"id":"GO:0044324","count":11}]},{"hash":"7642724494876549","title":"Melanosome Transport and Eye Pigmentation","description":"Top terms cluster around vesicle trafficking (ER-Golgi and Golgi-ER transport, endocytosis) and pigmentation, with eye development also represented. This points to a group of proteins involved in vesicle logistics critical for pigment cell function and ocular morphogenesis, with some ancillary roles in stress or apoptosis pathways. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0001654","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0006888","count":3}]},{"hash":"2240760226644662209","title":"Glutamatergic synapse plasticity","description":"These GO terms cluster around neuronal synapses and glutamate signaling: NMDA receptor clustering, AMPA receptor activity regulation, dendritic spine morphogenesis, ephrin signaling, and long-term synaptic depression. Together they indicate modulations of excitatory synaptic transmission and plasticity, including fear-related behavioral regulation. Occasional terms like apoptotic process or activated T cell proliferation likely reflect annotation noise rather than the core function of the cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0007605","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0050798","count":2},{"id":"GO:0060292","count":2}]},{"hash":"322115902252835470","title":"Developmental Signaling and Cell Migration","description":"The cluster\u2019s top GO terms cluster around signaling pathways (KIT signaling, BMP signaling), guidance cues (semaphorin-plexin signaling, axon guidance), and cell movement/migration (ventral trunk neural crest cell migration, leukocyte aggregation). While endocrine/metabolic terms like vitamin D metabolism and parathyroid hormone secretion are present, the dominant theme is coordinated signal transduction and directed cell movement in development and immune contexts.","confidence":"Medium","size":23,"edges":162,"triangles":727,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":19},{"id":"GO:0038109","count":18},{"id":"GO:2000660","count":18},{"id":"GO:0036486","count":18},{"id":"GO:0070640","count":18}]},{"hash":"1502192035869852197","title":"Mitotic spindle and cell polarity dynamics","description":"The top GO terms point to mitotic processes (mitotic cell cycle, spindle assembly, spindle orientation) and cytoskeletal regulation (actin cytoskeleton reorganization, regulation of cell shape/polarity). Additional signals like Rho pathway regulation and ER-Golgi trafficking support cytoskeletal rearrangements, all aligning with coordinated mitosis and cell polarity themes. This makes the label representative of the cluster\u2019s function.","confidence":"High","size":23,"edges":50,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0031578","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0071963","count":5}]},{"hash":"212973876038455550","title":"Cardiac GPCR signaling and mechanotransduction","description":"Top GO terms point to GPCR-mediated signaling and thrombin-activated receptor pathways, along with cardiac contraction and heart development, plus cellular responses to mechanical stimuli and Rac/MAPK-related GTPase regulation. While there are hints of neural and immune-related terms, the strongest and most cohesive theme is signaling cascades involved in cardiac function and mechanotransduction. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0060048","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007409","count":3}]},{"hash":"1163462351371881219","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034316","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0070208","count":7},{"id":"GO:0000480","count":6},{"id":"GO:0000447","count":6}]},{"hash":"876347696042786714","title":"Collagen ECM Organization and Developmental Signaling","description":"From the Top Terms, the dominant signals are collagen fibril organization and collagen biosynthetic process, indicating extracellular matrix (ECM) assembly. Supporting terms involve keratinocyte and chondrocyte differentiation, and several signaling pathways (integrin-mediated, BMP, VEGF) plus Notch receptor processing, all tying ECM context to tissue development and cell differentiation. This points to a cohesive theme of ECM organization coupled with developmental signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0034612","count":6},{"id":"GO:0007220","count":6},{"id":"GO:0032331","count":6},{"id":"GO:0030216","count":6}]},{"hash":"2198721324782449804","title":"Coagulation and Innate Immunity with ECM Remodeling","description":"This cluster centers on blood coagulation, complement activation, innate immune response, and integrin-mediated signaling that promotes cellular extravasation, with accompanying ECM remodeling and protein turnover (negative regulation of ECM assembly and proteasome-related processes). While some differentiation terms appear, the dominant theme ties coagulation and immune trafficking to remodeling of the extracellular matrix. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0045123","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0006956","count":5}]},{"hash":"2053027309511234566","title":"Ribosome biogenesis and cell wall biosynthesis","description":"This cluster shows strong signals for ribosome biogenesis and LSU rRNA maturation, pointing to roles in ribosome assembly. It also includes several cell wall\u2013related biosynthetic processes (peptidoglycan, UDP-GlcNAc, lipopolysaccharide, fungal-type wall biogenesis) and an antibiotic response term, suggesting a cohesive theme around foundational macromolecule biosynthesis and stress/antibiotic responses. ","confidence":"Medium","size":23,"edges":218,"triangles":1163,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0046677","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0009252","count":3},{"id":"GO:0006048","count":3}]},{"hash":"2205694496017820222","title":"RNA processing and translation initiation","description":"The top GO terms cluster around RNA maturation and handling (mRNA capping, mRNA export, ncRNA silencing) and the control of translation initiation (formation of preinitiation complexes, regulation of GTPase activity), suggesting a coherent theme of RNA processing and translation regulation. Some metabolic salvage terms appear as noise but do not override the main RNA-centric pattern.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006370","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0046835","count":2}]},{"hash":"1372378871348619001","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":8,"triangles":2,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":6},{"id":"GO:0042273","count":6},{"id":"GO:0000480","count":6},{"id":"GO:0000472","count":6},{"id":"GO:0000447","count":5}]},{"hash":"2008208185770926697","title":"Translation Regulation and Nucleotide Metabolism","description":"The cluster is characterized by terms related to cytoplasmic translational initiation and its regulation, alongside nucleotide phosphorylation and coenzyme A biosynthesis, suggesting a link between protein synthesis control and nucleotide metabolism. GTPase activity regulation and stress-response terms (nitric oxide, amino acid starvation) point to signaling and metabolic adaptation that can modulate translation. Although one term relates to oligodendrocyte development and another to ethylene response (plants), these are weaker signals compared to the translation and metabolism themes, so the overall label captures the predominant function.","confidence":"Medium","size":23,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":4},{"id":"GO:0014003","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0071369","count":2}]},{"hash":"1497201731405635186","title":"Kit\u2013Wnt signaling hub for immune development","description":"The cluster is dominated by Kit signaling, canonical Wnt signaling, and NK cell differentiation terms, along with supportive signals for cell-matrix adhesion, retinoic acid response, TORC1 regulation, phosphorylation, and apoptosis. This pattern suggests an integrated signaling module that steers immune cell development (notably NK lineage) while coordinating growth, adhesion, and differentiation cues, consistent with a cohesive Kit\u2013Wnt signaling hub in immune biology.","confidence":"Medium","size":23,"edges":250,"triangles":1710,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":23},{"id":"GO:0007160","count":23},{"id":"GO:0090263","count":23},{"id":"GO:0051389","count":23},{"id":"GO:0071300","count":23}]},{"hash":"2008393892248716549","title":"Cytoskeletal remodeling and cell migration","description":"The cluster is dominated by terms related to actin cytoskeleton organization, filopodium assembly, and Rac/small GTPase signaling, all central to cell migration and adhesion-dependent spreading. Additional terms on heart development and immune signaling (NK T differentiation, IL-7 response, insulin signaling) likely reflect cytoskeletal roles in morphogenesis and immune cell movement. Overall, the shared theme is dynamic cytoskeletal remodeling driving motility and related signaling.","confidence":"High","size":23,"edges":56,"triangles":7,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0016477","count":17},{"id":"GO:0001865","count":17},{"id":"GO:0035020","count":17}]},{"hash":"2096726706719742381","title":"Mitotic Regulation and Hematopoietic Signaling","description":"This cluster features strong signals for cell cycle control and mitosis (negative regulation of CDK activity, kinetochore localization, and DNA replication initiation) alongside pathways linked to hematopoietic differentiation and immune signaling (KIT pathway, NK cell differentiation, retinoic acid response, Wnt signaling, TORC1 regulation) and cell-matrix adhesion. The common thread appears to be mitotic regulation integrated with hematopoietic/immune differentiation signaling, rather than a single straightforward function.","confidence":"Medium","size":23,"edges":78,"triangles":128,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":14},{"id":"GO:0034501","count":14},{"id":"GO:0032298","count":13},{"id":"GO:0038109","count":12},{"id":"GO:0007160","count":12}]},{"hash":"1162870627785827586","title":"Mitochondrial Translation and Energy Metabolism","description":"The strongest signals are mitochondrial-focused: mitochondrial translation, tRNA processing via transamidation, and fatty acid catabolism, which together point to a mitochondria-centric set of metabolic and protein-synthesis functions. Some terms like endoplasmic reticulum organization and kidney development appear as outliers or broader annotations, while polyamine and arginine-related biosynthesis also tie into cellular metabolism. Overall, the cluster seems best named for mitochondrial translation and energy-related metabolism rather than a single different pathway.","confidence":"Medium","size":23,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":7},{"id":"GO:0009089","count":5},{"id":"GO:0009062","count":5},{"id":"GO:0070681","count":5},{"id":"GO:0007029","count":5}]},{"hash":"473962194706575151","title":"Gene Expression Regulation and Tissue Differentiation","description":"This cluster centers on regulation of transcription (RNA polymerase II), circadian gene expression, and multiple tissue differentiation processes (heart, astrocytes, hepatocytes, neural crest derivatives, skeletal muscle, inner ear), suggesting a broad regulatory program governing gene expression linked to development and physiological regulation across tissues.","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001038","count":21},{"id":"GO:0006366","count":21},{"id":"GO:0048712","count":21},{"id":"GO:0032922","count":20},{"id":"GO:0043503","count":20}]},{"hash":"700979556887827042","title":"Neural Sensory Perception and Drug-Triggered Behaviors","description":"The cluster prominently features GO terms tied to sensory perception (visual, pain) and neural signaling, along with behavioral responses to drugs and stimuli (morphine, cocaine, fear). These recurring themes suggest a cohesive emphasis on neural/sensory processing and drug- or stimulus-induced behaviors, despite some tangential terms (e.g., heart development or GPCR-related events) present in the set.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0035625","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0051209","count":6}]},{"hash":"637268490423123640","title":"Neural sensing and drug-response signaling","description":"This cluster centers on neural signaling related to sensation and reward: pain perception, visual processing, dopaminergic synaptic transmission, and drug-induced behaviors (cocaine, morphine) with ERK cascade involvement and prostaglandin signaling. A few terms (macrophage chemotaxis and heart development) appear peripheral or broad, but the dominant pattern is neural sensory/reward signaling.","confidence":"Medium","size":23,"edges":239,"triangles":1506,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0010759","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0001963","count":17}]},{"hash":"112572286644476041","title":"Unknown","description":"The top GO terms are highly diverse (mRNA deadenylation, MHC II biosynthesis regulation, host-mediated viral genome activation, Ras signaling regulation, TORC2 signaling, liver regeneration, lipid glycosylation, base-excision repair, and transcription by RNA Pol II or RNA templates). There is no single coherent function tying these together, and the network has no edges or degree, suggesting heterogeneous or incidental associations rather than a common pathway. Therefore a specific, representative cluster name cannot be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":2},{"id":"GO:0045347","count":2},{"id":"GO:0044829","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0038203","count":2}]},{"hash":"1363246168848629680","title":"Steroid signaling and mitotic/immune regulation","description":"This cluster centers on steroid hormone receptor complex assembly, prostate gland development, and male sex differentiation, pointing to steroid signaling pathways. It also includes cell division and metaphase/anaphase transition terms, indicating a link to mitotic regulation. Additionally, innate immune responses, interferon signaling, and ubiquitination (K11-linked) suggest involvement in protein turnover and immune processes. Overall, the proteins seem to form a module connected to hormonal signaling with concurrent roles in cell cycle control and innate immunity, hence the label. ","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006463","count":19},{"id":"GO:0051301","count":19},{"id":"GO:0030850","count":19},{"id":"GO:0046661","count":19},{"id":"GO:0071357","count":19}]},{"hash":"1112162366934414423","title":"Dopaminergic Neural Signaling and Sensory Processing","description":"The cluster's terms center on dopaminergic synaptic transmission, pain and visual perception, learning, and ERK signaling, pointing to neural signaling and sensory processing with dopaminergic modulation. Some terms (heart development, macrophage chemotaxis) may reflect shared signaling components, but the dominant theme is neuronal signaling and behavior.","confidence":"Medium","size":23,"edges":216,"triangles":1116,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0010759","count":18},{"id":"GO:0070374","count":18},{"id":"GO:0007507","count":18},{"id":"GO:0001963","count":18}]},{"hash":"1820221552542713933","title":"Developmental gene regulation and morphogenesis","description":"Proteins in this cluster are enriched for transcriptional control and chromatin remodeling (negative regulation of RNA Pol II, chromatin remodeling, and Wnt pathway regulation) and include multiple development-related processes such as lens epithelial proliferation, pancreatic development, neural crest migration, branching morphogenesis, and endothelial chemotaxis, suggesting a cohesive role in developmental gene regulation and tissue morphogenesis.","confidence":"Medium","size":23,"edges":74,"triangles":72,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:2001111","count":13},{"id":"GO:0043044","count":13},{"id":"GO:0031018","count":11},{"id":"GO:0071353","count":10}]},{"hash":"1910193622280248284","title":"Steroid and lipid biosynthesis","description":"The top GO terms point strongly to lipid and steroid metabolism, including glucocorticoid and C21-steroid hormone biosynthesis, retinol metabolic and sphingolipid biosynthesis, as well as mycolic acid biosynthesis and related lipid pathways. This suggests the protein cluster centers on lipid-based metabolite production and hormonal steroid pathways, with some peripheral terms (e.g., lung development) that can be connected to these lipid/hormone processes. Minor terms like acetoin catabolic process or antibiotic response appear as noise rather than core themes. Overall, the cohesive theme is steroid and lipid biosynthesis/metabolism.","confidence":"Medium","size":23,"edges":133,"triangles":292,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":19},{"id":"GO:0008207","count":16},{"id":"GO:0046677","count":16},{"id":"GO:0045150","count":16},{"id":"GO:0042572","count":16}]},{"hash":"1999694668470582540","title":"Xenobiotic and lipid metabolism with oxidative stress response","description":"Top GO terms include bile acid, retinol, D-xylose, naphthalene, and doxorubicin catabolic processes, plus cellular responses to hydrogen peroxide and methylglyoxal, and signaling regulation via JAK-STAT and PI3K-AKT. The common theme appears to be detoxification and metabolism of lipids/xenobiotics with an associated oxidative stress and signaling response, suggesting a cohesive cluster of metabolic and stress-signaling proteins.","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0030573","count":23},{"id":"GO:0042572","count":23},{"id":"GO:0070301","count":23},{"id":"GO:0097238","count":23},{"id":"GO:0044598","count":23}]},{"hash":"1041979326521914906","title":"Transcriptional Regulation and Chromatin Remodeling","description":"This cluster features GO terms centered on transcription (DNA-templated transcription, cell differentiation) and chromatin dynamics (histone H2A deubiquitination, heterochromatin formation), suggesting a core theme of transcriptional control modulated by chromatin state. Some plant-related processes (ethylene response, secondary cell wall biogenesis) hint at context-specific regulation, while a term like long-term synaptic potentiation points to transcription-dependent plasticity rather than a single pathway. Taken together, the proteins likely participate in transcription regulation and chromatin remodeling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:1901347","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0072362","count":3},{"id":"GO:0009723","count":3}]},{"hash":"597561737034008455","title":"Xenobiotic and nutrient membrane transporters","description":"This cluster is rich in GO terms for transmembrane transport, including xenobiotic and vitamin transport, various ion transports, and related vesicular transport (neurotransmitter loading into synaptic vesicles). Together these terms point to a cohesive group of membrane transporter proteins involved in shuttling xenobiotics, vitamins, and ions across membranes.","confidence":"High","size":23,"edges":15,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":23},{"id":"GO:0035461","count":23},{"id":"GO:0042891","count":18},{"id":"GO:0071805","count":17},{"id":"GO:0042908","count":16}]},{"hash":"2090400514374735083","title":"Cardiac ion transport and electrical activity","description":"The top GO terms emphasize ion transport (potassium, calcium, magnesium) and membrane depolarization in cardiac tissues (AV node, SA node) as well as left ventricular morphogenesis, pointing to cardiac electrophysiology and ion homeostasis as the core theme; some outliers exist but the dominant signal is heart-related ion regulation and electrical signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0051592","count":5},{"id":"GO:0030317","count":5},{"id":"GO:0010961","count":5},{"id":"GO:0097623","count":5}]},{"hash":"1886888475788302850","title":"Multisubstrate membrane transporters","description":"The top GO terms point to transmembrane transport of a variety of substrates\u2014vitamins, xenobiotics, ions, sugars, and organic anions\u2014as well as related processes like neurotransmitter loading and insulin-responsive glucose uptake. This pattern fits a cluster of transport proteins with broad substrate specificity across membranes.","confidence":"High","size":23,"edges":189,"triangles":732,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":23},{"id":"GO:0006855","count":23},{"id":"GO:0071805","count":22},{"id":"GO:0042908","count":22},{"id":"GO:0042891","count":18}]},{"hash":"2162464370748550567","title":"Multi-linkage deubiquitination network","description":"The top GO terms are dominated by deubiquitination activities across multiple lysine linkages (K48, K63, K11, K29, K6) and related ERAD maintenance, pointing to a core theme of ubiquitin editing and proteostasis machinery. Some transcription/spliceosome terms appear, but the shared thread is multi-linkage DUB activity and ubiquitin-mediated regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":6},{"id":"GO:0006355","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0070537","count":5},{"id":"GO:0035871","count":5}]},{"hash":"2210473326035609176","title":"Endocytosis and immune signaling","description":"The top GO terms cluster around endocytic processes (endocytosis, vacuole inheritance) and immune-related signaling pathways (B cell receptor signaling, Fc receptor\u2013mediated signaling), with additional notes on cell adhesion and polarity. This suggests a theme of vesicle trafficking linked to immune receptor signaling, even though the cluster shows no direct interaction edges. Overall, the proteins appear to participate in endocytic/trafficking roles that influence immune signaling contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0000011","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0043552","count":2}]},{"hash":"1991616579565813745","title":"ECM Remodeling and Angiogenesis Regulators","description":"The cluster centers on collagen fibril organization and both positive and negative regulation of angiogenesis, with supporting signals for cytokine pathways, bone morphogenesis, and NF-kappaB signaling. This suggests a shared role in extracellular matrix remodeling and control of blood vessel formation, with some links to bone and neural development. Overall, these proteins appear to coordinate ECM dynamics and angiogenesis during development and tissue repair.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":8},{"id":"GO:0045766","count":6},{"id":"GO:0016525","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0033689","count":4}]},{"hash":"478473055538505156","title":"Inflammation and vascular regulation","description":"This cluster is dominated by GO terms tying immune/inflammatory signaling (neutrophil chemotaxis, TNF/IL-10 regulation, chronic inflammatory response) to vascular physiology (blood pressure regulation via renin-angiotensin, smooth muscle contraction). Some terms (circadian rhythm, retina development) suggest broader regulatory roles, but the strongest pattern points to immune\u2013vascular regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090023","count":18},{"id":"GO:0032720","count":18},{"id":"GO:0001991","count":17},{"id":"GO:0042752","count":17},{"id":"GO:0072608","count":17}]},{"hash":"2226386485306260926","title":"Systemic Inflammation and Vascular Regulation","description":"This cluster is dominated by inflammatory and vascular-related terms (inflammatory response, blood coagulation, prostaglandin signaling, GPCR signaling, IL-10 production, renin-angiotensin\u2013regulated blood pressure) and ties to circadian rhythm and xenobiotic response, suggesting a cohesive theme of systemic inflammatory signaling influencing vascular function and temporal regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":17},{"id":"GO:0008284","count":16},{"id":"GO:0007596","count":16},{"id":"GO:0071380","count":16},{"id":"GO:0045745","count":16}]},{"hash":"363517685057355965","title":"Cardiovascular development and immune regulation","description":"The cluster centers on cardiovascular-related functions: regulation of systemic arterial blood pressure by renin-angiotensin, heart development, and vascular smooth muscle contraction. It also shows immune-related activity (IL-10 production, neutrophil-mediated killing, chronic inflammatory response) and additional regulatory themes like circadian rhythm and retina development, suggesting broad systemic coordination but with a core emphasis on heart/vascular function and immune signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":18},{"id":"GO:0042752","count":18},{"id":"GO:0072608","count":18},{"id":"GO:0035625","count":18},{"id":"GO:0060041","count":18}]},{"hash":"1663964721904182666","title":"Cardiovascular development and blood pressure regulation","description":"The top GO terms are dominated by heart- and vasculature-related processes: heart development, regulation of systemic arterial blood pressure via the renin-angiotensin system, and vascular smooth muscle contraction. While there are additional terms related to circadian rhythm, immune signaling, and retina development, the strongest, most coherent theme across the list is cardiovascular development and regulation. The absence of edges suggests this is a broad, annotation-driven grouping around cardiovascular function rather than a tightly connected interaction module.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":23},{"id":"GO:0042752","count":23},{"id":"GO:0072608","count":23},{"id":"GO:0035625","count":23},{"id":"GO:0060041","count":23}]},{"hash":"662670988136413652","title":"Cardiac muscle development and cytoskeletal remodeling","description":"The top GO terms cluster around muscle development (striated muscle cell development, cell morphogenesis), cytoskeletal dynamics (actin cytoskeleton organization, Rho signaling), and cardiac electrical activity (AV node and SA node action potential regulation), pointing to a theme of cardiac muscle growth and structural remodeling with cytoskeletal regulation. Some terms (IL-2 regulation, ubiquitin-dependent protein catabolism) appear less related and may reflect broader regulatory connections or noise.","confidence":"Medium","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900041","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0051382","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0000902","count":2}]},{"hash":"2274897262403138858","title":"MAPK signaling and developmental growth","description":"The top GO terms cluster around signaling cascades (positive regulation of ERK1/2 cascade, GTPase activity) and growth/development processes (multicellular growth/development, transcription), with supporting clues from vesicle trafficking and mitotic spindle assembly. This points to a cohesive program of MAPK-driven control of cell growth, adhesion, and division relevant to development.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0035264","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1760107558744134519","title":"Skeletal muscle structure and contraction regulation","description":"The cluster\u2019s top terms center on sarcomere organization, actin filament network formation, muscle attachment, and regulation of force in skeletal muscle, with supporting roles from Rho signaling and cytoskeletal remodeling pathways. This combination points to proteins involved in muscle cell architecture and the control of contraction, rather than general signaling or metabolism alone. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045214","count":5},{"id":"GO:0035023","count":5},{"id":"GO:2000009","count":4},{"id":"GO:0016203","count":4},{"id":"GO:0014728","count":4}]},{"hash":"2251608997706029095","title":"Immune signaling and MAPK/Wnt regulation","description":"These proteins cluster around immune receptor signaling (T cell receptor signaling, mast cell degranulation) and core intracellular cascades (ERK/MAPK), along with regulation of Wnt canonical signaling and focal adhesion dynamics, suggesting a module that coordinates immune signaling with MAPK and Wnt pathway regulation.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0043366","count":16},{"id":"GO:0070374","count":16},{"id":"GO:0050852","count":16},{"id":"GO:0043304","count":16}]},{"hash":"861397336508576580","title":"Developmental signaling and cell activation","description":"This cluster includes GO terms spanning signaling pathways such as Rho regulation and Slit-Robo (Roundabout), alongside developmental processes like heart development and myoblast fusion, as well as sensory and platelet-related signals. While they cover diverse tissues (heart, muscle, nerve, sensory systems, blood), the unifying theme is modulation of signaling cascades that drive development and cell function. The label \u201cDevelopmental signaling and cell activation\u201d captures this shared functional axis without overcommitting to a single process.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0007605","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0010765","count":6},{"id":"GO:0010572","count":6}]},{"hash":"1745145382896444256","title":"RNA processing and splicing with translation initiation","description":"The top terms converge on mRNA maturation and processing (polyadenylation, spliceosome-mediated splicing and its regulation, alternative splicing regulation, mRNA export, poly(A) tail regulation) and extend to translation initiation/reinitiation events, including viral termination-reinitiation. This pattern indicates a cohesive cluster of proteins involved in RNA processing and regulation of gene expression at the mRNA level, with links to translation initiation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0031047","count":9},{"id":"GO:0045292","count":9}]},{"hash":"149391994882001094","title":"Translational Control and Antiviral Defense","description":"This cluster is dominated by terms related to protein synthesis regulation and antiviral responses, including translation, eIF2\u03b1 phosphorylation\u2013mediated translational control, RNA silencing, the interferon-alpha response, and both positive/negative regulation of viral genome replication. While a few terms refer to development or innervation, the core signal points to coordinated control of translation during antiviral defense and RNAi pathways.","confidence":"High","size":22,"edges":229,"triangles":1500,"max_degree":21,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0046677","count":5},{"id":"GO:0035455","count":5},{"id":"GO:0045071","count":5},{"id":"GO:0030423","count":4}]},{"hash":"472034524554650092","title":"mRNA Processing and Splicing Regulation","description":"The cluster centers on mRNA maturation: regulation of splicing via the spliceosome (positive/negative and alternative splicing), mRNA export from the nucleus, and mRNA tail modification/deadenylation, plus regulatory ncRNA-mediated silencing. These collectively indicate a cohesive module focused on mRNA processing and spliceosome control, with a node of RNA-based regulation.","confidence":"High","size":22,"edges":22,"triangles":14,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0060211","count":7},{"id":"GO:0075525","count":7},{"id":"GO:0006406","count":7}]},{"hash":"20875357539476397","title":"Mitochondrial Metabolism and Transcription Regulation","description":"This cluster is dominated by GO terms related to mitochondrial energy metabolism (mitochondrial electron transport, glucose metabolism, pyruvate-to-acetyl-CoA steps, branched-chain amino acid catabolism) and transcriptional control (DNA-templated transcription and regulation of transcription by RNA polymerase II). A few terms point to neural development, but they are fewer and do not define the core function of the set, which appears to center on mitochondrial metabolism paired with transcription regulation.","confidence":"High","size":22,"edges":220,"triangles":1343,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006123","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0010510","count":2},{"id":"GO:0055114","count":2}]},{"hash":"400897063188298397","title":"ERAD and Autophagy Protein Quality Control","description":"The top terms point strongly to cellular protein quality control involving ER-associated degradation (ERAD) and ubiquitin-dependent turnover, plus autophagy-related processes such as aggrephagy and autophagosome maturation. Deglycosylation and regulation of endocytosis further support a broader role in protein trafficking and degradation. Together, these indicate a cohesive cluster of proteins dedicated to identifying and removing misfolded or damaged proteins via ERAD and autophagy pathways.","confidence":"High","size":22,"edges":229,"triangles":1500,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:0006289","count":8},{"id":"GO:1904021","count":8},{"id":"GO:1904378","count":8},{"id":"GO:0006517","count":8}]},{"hash":"1702938091872127310","title":"Spinal cord motor neuron development and axon guidance","description":"The top GO terms emphasize spinal cord neuron differentiation, motor neuron cell fate specification, and axon guidance, with supporting cytoskeletal control and adhesion terms. This points to a cluster focused on spinal cord motor neuron development and their axon pathfinding, despite a few unrelated terms that may reflect broader annotations. ","confidence":"Medium","size":22,"edges":75,"triangles":46,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":7},{"id":"GO:0021527","count":6},{"id":"GO:2000324","count":6},{"id":"GO:0021520","count":6},{"id":"GO:0045805","count":6}]},{"hash":"2215288628996561154","title":"Dopaminergic signaling and drug response","description":"Based on frequent GO terms such as dopaminergic synaptic transmission, sensory perception (pain and vision), response to morphine, and cocaine-related behavioral response, the cluster is best characterized by neural signaling and drug-responsive pathways. The ERK cascade and GTPase regulation terms further support synaptic signaling and plasticity in neurons. While a heart development term is present, the dominant theme across the top terms centers on nervous system signaling and substance-response behavior.","confidence":"Medium","size":22,"edges":154,"triangles":457,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":18},{"id":"GO:0019233","count":18},{"id":"GO:0043278","count":18},{"id":"GO:0010759","count":18},{"id":"GO:0070374","count":18}]},{"hash":"1072333058189591736","title":"KIT/Wnt Signaling and Cell Adhesion","description":"These top GO terms converge on KIT signaling, Wnt pathway activation, and cell-matrix adhesion, with links to growth regulation (retinoic acid response, TORC1), apoptosis, and NK cell differentiation. This suggests a signaling-adhesion module that may govern immune development and cell fate decisions rather than a single narrow function.","confidence":"Medium","size":22,"edges":48,"triangles":18,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":22},{"id":"GO:0007160","count":22},{"id":"GO:0090263","count":22},{"id":"GO:0051389","count":22},{"id":"GO:0071300","count":22}]},{"hash":"1876027621632609639","title":"Angiogenesis and Coagulation in Tissue Remodeling","description":"The cluster is enriched for angiogenesis (GO:0045766), blood coagulation (GO:0007596), and positive regulation of coagulation (GO:0030194), along with tissue remodeling (GO:0048771) and hypoxia response (GO:0001666). This combination points to vascular remodeling and repair processes, rather than a single metabolic pathway; some terms (e.g., midbrain development) may reflect annotation noise. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":6},{"id":"GO:0014068","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0007596","count":5}]},{"hash":"829412181072664092","title":"Steroid and lipid biosynthesis","description":"This cluster is dominated by GO terms for biosynthetic processes of lipids and steroids, including C21-steroid hormone metabolic process, glucocorticoid biosynthetic process, retinol and sphingolipid biosynthesis, and mycolic acid and polyhydroxybutyrate biosynthesis, indicating a cohesive theme around lipid and steroid metabolism across organisms. Some terms like antibiotic response or lung development are less central to this theme, but they do not override the clear lipid/steroid biosynthesis signal. Confidence: Medium.","confidence":"","size":22,"edges":54,"triangles":33,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0046677","count":10},{"id":"GO:0042619","count":10},{"id":"GO:0008207","count":9},{"id":"GO:0045150","count":9}]},{"hash":"2182449790517974099","title":"Insect monoaminergic neural signaling and pigmentation","description":"The top GO terms point to monoaminergic neurotransmitter biosynthesis and loading into synaptic vesicles, histamine production, and memory in insects, plus a term on cuticle pigmentation. Metabolic terms like glutamate catabolism and intracellular pH elevation support neural signaling processes. Although some broad terms (xenobiotic response, plant metabolite pathways) appear, the neural signaling and pigmentation-related terms dominate, suggesting a cluster centered on insect neuronal communication and pigment-related physiology.","confidence":"Medium","size":22,"edges":198,"triangles":990,"max_degree":21,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0010259","count":7},{"id":"GO:0001694","count":7},{"id":"GO:0006538","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0048085","count":7}]},{"hash":"48866241427017585","title":"Brain Development and Synapse Formation","description":"The cluster is strongly enriched for neural development and synaptic connectivity terms: brain and nervous system development, synapse assembly, corticospinal tract morphogenesis, and glutamatergic synaptic transmission, with associated cell-cell adhesion. Although an ossification term appears, the dominant pattern points to neural development and synaptic organization rather than bone formation.","confidence":"High","size":22,"edges":61,"triangles":16,"max_degree":17,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0043931","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0007156","count":16},{"id":"GO:0007399","count":15},{"id":"GO:0051965","count":14}]},{"hash":"1130460898363759928","title":"Rho signaling in neural and smooth muscle development","description":"The cluster is enriched for Rho protein signal transduction and a range of developmental terms across neural and muscle/vascular lineages (forebrain development, neural tube closure, enteric nervous system development, cardiac/smooth muscle differentiation, ductus arteriosus closure, bladder development). This points to a common theme of Rho-mediated cytoskeletal dynamics guiding tissue morphogenesis in neural and smooth muscle contexts, making a cohesive, short label appropriate.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":8},{"id":"GO:0030900","count":8},{"id":"GO:0001843","count":8},{"id":"GO:0045736","count":8},{"id":"GO:2000727","count":8}]},{"hash":"1713066589048579412","title":"Developmental signaling and organ morphogenesis","description":"This cluster includes heart development, BMP and hedgehog signaling, ossification, muscle contraction, and neural/synaptic organization terms, suggesting a coordinated developmental program guiding organogenesis across heart, bone, and nervous system.","confidence":"High","size":22,"edges":22,"triangles":1,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007224","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0050808","count":3}]},{"hash":"805721063281153087","title":"Neuronal signaling and behavior","description":"Top GO terms center on neuronal ion transport (K+, Na+, Ca2+), synaptic signaling (GABA, excitatory postsynaptic potential) and behavioral responses (locomotion, startle, conditioned taste aversion) as well as circadian sleep regulation. This points to a module of neuronal excitability and behavior control. The amyloid fibril regulation term is present but not defining. Overall, \"Neuronal signaling and behavior\" is a good label.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":17},{"id":"GO:0060079","count":16},{"id":"GO:0007214","count":16},{"id":"GO:0001661","count":16},{"id":"GO:0007626","count":16}]},{"hash":"157852906641095413","title":"Telomere maintenance and mitotic spindle regulation","description":"The dominant GO terms point to telomere maintenance (including capping and telomerase involvement), regulation of sister chromatid cohesion, and spindle assembly, plus protein poly-ADP-ribosylation. This pattern suggests a module centered on chromosome stability during cell division, with additional PARP-related modification activity. Some other terms like Wnt signaling or synaptic plasticity appear less representative of the core theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904908","count":9},{"id":"GO:1904355","count":9},{"id":"GO:1904357","count":9},{"id":"GO:0070212","count":9},{"id":"GO:0070213","count":9}]},{"hash":"390190948942183970","title":"Vertebrate embryonic development and morphogenesis","description":"This cluster shows genes associated with embryonic development and tissue morphogenesis across several lineages and organs, including palate/craniofacial formation, hair follicle morphogenesis, cartilage development, mesoderm formation, and organogenesis, as well as patterning processes. The shared theme is developmental programs guiding formation and differentiation during vertebrate embryogenesis, rather than a single tissue-specific function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0031069","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060972","count":5}]},{"hash":"1001722883242903727","title":"Developmental signaling and apoptosis regulation","description":"The leading GO terms point to regulation of apoptotic pathways (intrinsic and extrinsic), DNA damage responses, and developmental/immune processes (embryonic development, thymic T cell differentiation). Additional terms about nicotine response, hypoxia, and ER-to-Golgi transport suggest stress contexts, but the core theme centers on apoptosis control during development and immune signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0033033","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0035094","count":3}]},{"hash":"1252678955969170647","title":"GPCR and insulin signaling in heart and ear development","description":"This cluster centers on GPCR and insulin signaling pathways, with links to heart and inner ear (labyrinthine) development, prostaglandin responsiveness, and vascular development, suggesting a shared theme of signaling-driven development in cardiovascular and sensory organs. Some terms (like spindle assembly or GPCR desensitization) add breadth but do not override the core signaling-development theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0060716","count":4},{"id":"GO:2001275","count":4}]},{"hash":"1763357231528317237","title":"Negative regulation of osteoclast development","description":"The cluster\u2019s top GO terms repeatedly point to inhibiting osteoclast development/differentiation and bone resorption, plus related TNFSF11 (RANKL) signaling and NF-kB pathway activity. While a couple terms touch on unrelated processes (tight junctions, amelogenesis), the dominant theme is suppression of osteoclastogenesis and bone remodeling, making this label representative. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":2},{"id":"GO:0045779","count":2},{"id":"GO:0071847","count":2},{"id":"GO:2001205","count":2},{"id":"GO:0045671","count":2}]},{"hash":"2100854270777446803","title":"Cytoskeletal dynamics in epithelial and neural cells","description":"This cluster centers on processes related to the organization and polarity of the cytoskeleton (microtubules, neurofilaments) and multiple differentiation pathways across tissues, including keratinocytes, astrocytes, Schwann cells, and neurons, suggesting coordinated cytoskeletal remodeling with cell-type differentiation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0035105","count":3},{"id":"GO:0030951","count":3},{"id":"GO:0045616","count":3},{"id":"GO:0097284","count":3}]},{"hash":"1947413962290079400","title":"Heart and craniofacial development with epithelial morphogenesis","description":"This cluster\u2019s GO terms cluster around developmental processes across cardiac, craniofacial, and epithelial tissues: heart development, cranial skeletal system development, skin morphogenesis, polarized epithelial differentiation, and regulation of epidermal cell division. The inclusion of regulators of Rho signaling and ion channel activity fits with coordinated morphogenesis and tissue differentiation. Overall, it reflects a developmental program spanning heart, cranial skeleton, and epidermal tissues rather than a single molecular function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0035024","count":3},{"id":"GO:0043589","count":2},{"id":"GO:1904888","count":2},{"id":"GO:1904908","count":2}]},{"hash":"844142034587956122","title":"Developmental signaling and cytoskeletal dynamics","description":"The terms cluster around developmental processes (brain/kidney development) and signaling pathways that regulate cell shape and movement (Rho signaling, dendrite extension, synaptic vesicle priming, vascular remodeling, and extravasation). There is a common thread of how cells acquire shape and migrate during development, with supporting lipid and membrane-related processes. While not every term fits perfectly, the overall theme centers on development-associated signaling that shapes cellular morphology and tissue remodeling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0043314","count":2}]},{"hash":"88863219977234372","title":"Neural development and actin cytoskeleton dynamics","description":"This cluster is driven by vertebrate neural development terms (floor plate development, oligodendrocyte development, somite specification) alongside robust actin cytoskeleton organization terms (actin filament network formation, parallel actin filament bundle assembly). A brain-derived neurotrophic factor\u2013related response further ties to neural contexts. The presence of a single immune-related term likely reflects noise rather than a core function. ","confidence":"Medium","size":21,"edges":208,"triangles":1293,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0033504","count":6},{"id":"GO:0014003","count":6},{"id":"GO:0001757","count":5},{"id":"GO:0002625","count":5},{"id":"GO:0030046","count":5}]},{"hash":"998886415565661940","title":"Neural Development and Axon Guidance","description":"It centers on neural development and connectivity: Robo/Slit axon guidance, retinal ganglion cell guidance, neuron migration cues, synapse assembly, and myelination, with receptor tyrosine kinase signaling supporting growth and differentiation. Ureteric bud development appears as a minor context term, but overall the cluster reflects neuronal development themes.","confidence":"High","size":21,"edges":105,"triangles":129,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035385","count":5},{"id":"GO:0001657","count":4},{"id":"GO:0021952","count":4},{"id":"GO:0071372","count":4},{"id":"GO:0051965","count":4}]},{"hash":"2283394299969680424","title":"Hormone-driven development and metabolism","description":"The cluster groups proteins associated with hormone- and development-related processes, including responses to retinoic acid and estrogen, fat cell differentiation, circadian regulation of gene expression, bile acid metabolism, and embryonic eye morphogenesis, suggesting a theme of hormone signaling linked to development and metabolic regulation.","confidence":"Medium","size":21,"edges":17,"triangles":4,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":12},{"id":"GO:0071300","count":11},{"id":"GO:0045444","count":11},{"id":"GO:0032922","count":10},{"id":"GO:0008206","count":10}]},{"hash":"1461024754564090215","title":"Dendritic cell activation and NF-kappaB signaling","description":"This cluster centers on immune activation and NF-kappaB pathway regulation, with GO terms for T cell activation, dendritic cell proliferation/differentiation, TNF and interferon responses, and regulation of ubiquitin-related enzymes (deubiquitination/USP activity), suggesting a cohesive dendritic cell\u2013driven immune signaling module.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042110","count":2},{"id":"GO:0044565","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0032609","count":2}]},{"hash":"883538494873381770","title":"Endomembrane trafficking and SNARE regulation","description":"The cluster is enriched for GO terms tied to intracellular membrane trafficking\u2014endosome to lysosome transport, Golgi vesicle fusion, and SNARE complex regulation\u2014pointing to vesicle budding/fusion as a common function. Additional terms related to megakaryocyte/platelet development and leukocyte cytotoxicity may reflect secretory pathways in hematopoietic cells, with JNK and Rho signaling modulating these processes. Overall, the theme is vesicle trafficking and membrane fusion within the secretory/endomembrane system.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0060292","count":3},{"id":"GO:0035855","count":3},{"id":"GO:0030220","count":3},{"id":"GO:0035544","count":3}]},{"hash":"1867121356209803943","title":"Neuronal signaling and brain development","description":"Top terms emphasize neural roles: brain development, neurotransmitter secretion, and phosphoinositide/Rho signaling related to neuronal connectivity. This suggests a cluster centered on neuronal signaling and development. A few terms pertain to immune or epigenetic processes, likely reflecting multi-tasking proteins rather than a neural-specific function. With no network edges, we rely on GO term coherence to name the cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0002316","count":2}]},{"hash":"1675534934104415787","title":"Unknown","description":"Unknown \u2014 no single shared function stands out among terms ranging from DNA repair and chromatin regulation to ribosome assembly, ER membrane insertion, autophagy, GPCR trafficking, neurotransmitter release, and mitochondrial fusion; the cluster appears to be a mix of diverse cellular processes rather than a cohesive module.","confidence":"","size":21,"edges":22,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":6},{"id":"GO:0010216","count":6},{"id":"GO:1901097","count":6},{"id":"GO:0006289","count":5},{"id":"GO:0016925","count":5}]},{"hash":"1670506526963375046","title":"Neural signaling and vesicle trafficking with cytoskeletal regulation","description":"The top GO terms point to neuronal function, with adult locomotory behavior and presynaptic vesicle budding indicating neural signaling and synaptic trafficking. Supporting terms about Rho signaling and stress fiber regulation suggest cytoskeletal control linked to these processes. Development-related terms are present but less central, so the core theme appears to be neural signaling together with cytoskeletal dynamics and trafficking.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0035024","count":3},{"id":"GO:0046626","count":3}]},{"hash":"713789386540210240","title":"Vacuolar amino acid transporters","description":"This cluster is dominated by GO terms for transport of various amino acids (asparagine, serine, arginine, lysine, alanine, glutamine) across the vacuolar membrane, including both import into and export from the vacuole. The presence of multiple specific amino acid transport terms (and a lithium transport term) suggests a family of vacuolar transporter proteins specializing in amino acid handling and related ion transport.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006867","count":3},{"id":"GO:1901482","count":3},{"id":"GO:0061402","count":3},{"id":"GO:0090516","count":3},{"id":"GO:0090518","count":3}]},{"hash":"95296737092716859","title":"DNA replication and centromeric chromatin assembly in neural development","description":"This cluster is dominated by GO terms for DNA replication, DNA biosynthesis, and CENP-A centromeric chromatin assembly, suggesting a core role in DNA maintenance and chromatin organization during cell division. The inclusion of brain development and neuron apoptotic processes points to activity in neural contexts, while inflammatory and antimicrobial defense terms likely reflect broader stress-response links observed in these proteins. Overall, the shared theme centers on DNA replication/chromatin dynamics with a neural development context.","confidence":"Medium","size":21,"edges":177,"triangles":808,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0071897","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0007568","count":4}]},{"hash":"794480282059310543","title":"Gene Expression and Mitochondrial Metabolism","description":"This cluster is dominated by GO terms for transcription and translation, pointing to a gene-expression machinery core (DNA-templated transcription and translation) with tRNA modification supporting translation. The presence of mitochondrial-related processes (mitochondrial electron transport, porphyrinogen/heme biosynthesis, and related metabolic pathways) suggests coordination with mitochondrial metabolism. Together, the terms imply a functional module that couples gene expression machinery with mitochondrial biosynthesis and energy metabolism.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0002098","count":2},{"id":"GO:0006782","count":2}]},{"hash":"493915003311472818","title":"Metabolic Regulation and Stress Signaling","description":"This cluster seems to group proteins involved in metabolic control and cellular stress responses. The top GO terms include regulation of gluconeogenesis and positive regulation of glucocorticoid signaling, suggesting hormone-responsive metabolic regulation. Additional terms point to oxidative stress response (hydrogen peroxide) and proteostasis-related processes (peptidyl-prolyl isomerization, K11-linked ubiquitination), which together support protein folding and turnover under stress. While some terms are obsolete or broad, the recurring themes center on metabolic regulation intertwined with stress signaling and protein homeostasis.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0090526","count":4},{"id":"GO:0031400","count":4},{"id":"GO:2000324","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0000413","count":4}]},{"hash":"155625950251824215","title":"Cytoplasmic Translation and Ribosome Assembly","description":"The cluster is dominated by translation-related GO terms (translation, cytoplasmic translation, translational termination) and ribosome biogenesis (ribosomal large subunit assembly, histidyl-tRNA aminoacylation), indicating a core functional group of protein synthesis machinery in the cytoplasm. A few outliers (antibiotic response, some obsolete terms) exist but do not override the central theme.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":18},{"id":"GO:0000027","count":5},{"id":"GO:0002181","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0006415","count":3}]},{"hash":"1305180224357986603","title":"RNA processing and translation regulation","description":"The cluster\u2019s top GO terms cluster around translation and various RNA metabolism processes, including ribosome biogenesis and assembly, mRNA export from the nucleus, spliceosome-mediated splicing regulation, poly(A) tail control, and helicase activity regulation. This pattern suggests coordinated regulation of RNA maturation, export, and translation, rather than a single pathway.","confidence":"High","size":21,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0051096","count":4},{"id":"GO:0016973","count":4},{"id":"GO:0032781","count":4},{"id":"GO:0000381","count":3}]},{"hash":"262671198293609154","title":"Nuclear transcription and vesicle trafficking","description":"Based on the top GO terms, the cluster centers on nuclear processes (DNA-templated transcription, chromatin modification, nuclear pore localization, Okazaki fragment processing) while also including vesicle trafficking steps (ER-to-Golgi transport, COPII vesicle budding) and TORC1 signaling. This mix suggests proteins involved in both gene expression regulation in the nucleus and components of the secretory pathway, rather than a single cohesive function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0051568","count":6},{"id":"GO:0034729","count":6},{"id":"GO:0030433","count":6},{"id":"GO:1903461","count":5}]},{"hash":"1132451445867144598","title":"mRNA processing and splicing regulation","description":"Based on the top GO terms, the proteins are enriched for post-transcriptional RNA processing: poly(A) tail regulation, mRNA export, spliceosome-driven splicing control, splice site recognition, mRNA modification, and ncRNA-mediated gene silencing. While there are outliers related to viral translation and blastocyst formation, the dominant signal centers on mRNA maturation and splicing regulation.","confidence":"High","size":21,"edges":110,"triangles":341,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":13},{"id":"GO:0075525","count":13},{"id":"GO:0006406","count":13},{"id":"GO:0000381","count":13},{"id":"GO:0016556","count":13}]},{"hash":"145634819003062968","title":"Ubiquitin-regulated ERAD and membrane trafficking proteins","description":"This cluster is characterized by strong signals for ubiquitin-related processes (deubiquitination, sumoylation, ERAD) and a notable term for tail-anchored protein insertion into the ER membrane, indicating a group of proteins involved in ubiquitin-dependent quality control at the ER and associated membrane trafficking. Some terms (NER, erythrocyte differentiation) are less directly linked and may reflect broader functional overlaps, but the dominant pattern supports ER-associated degradation and ubiquitin-regulated trafficking as the core theme.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0034140","count":10},{"id":"GO:0006289","count":9},{"id":"GO:0016925","count":9}]},{"hash":"160873208582345182","title":"Neural development and MAPK signaling","description":"The top terms cluster around brain development and signaling pathways that drive growth and differentiation, notably ERK/MAPK signaling (positive regulation of ERK1/ERK2 cascade) and responses to growth factors such as PDGF, along with related processes like angiogenesis, cell signaling, and neuron-related regulation. While there is some unrelated virus defense term, the dominant theme is neural development linked to growth-factor\u2013driven signaling and cellular remodeling. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0014808","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0007267","count":3}]},{"hash":"1859248388852982968","title":"Lipid and Steroid Biosynthesis","description":"Most of the top GO terms describe lipid- and steroid-related biosynthetic processes (retinol metabolism, sphingolipid biosynthesis, glucocorticoid and C21-steroid hormone biosynthesis, mycolic acid biosynthesis, and poly-hydroxybutyrate biosynthesis). These point to a cohesive theme of lipid metabolism across the proteins. Some terms like mitochondrial complex IV assembly or lung development are peripheral noise rather than core drivers.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0008207","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0045150","count":2}]},{"hash":"1614758557004482978","title":"Immune signaling and development","description":"The cluster\u2019s top GO terms point strongly to immune signaling, with innate immune response, defense against Gram-positive bacteria, and cellular responses to LPS, along with B cell receptor signaling and affinity maturation. However, several development-related terms (multicellular organism development, heart development) and neural/synaptic terms (axonogenesis, long-term synaptic potentiation) also appear, suggesting these proteins participate in signaling networks that influence both immunity and developmental/neuronal processes. The most coherent theme centers on immune signaling, with broader developmental associations.","confidence":"Medium","size":21,"edges":32,"triangles":23,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0071222","count":7},{"id":"GO:0002344","count":6},{"id":"GO:0007409","count":6}]},{"hash":"2293911127610623251","title":"Unknown","description":"The GO terms are very diverse, spanning mitochondrial regulation of apoptosis, transcription, ribosome biogenesis, tRNA processing, Golgi-to-ER transport, Toll-like receptor signaling, and neural tangential migration. The absence of a coherent, single functional theme and the lack of network connectivity (Edges 0) suggest these proteins do not share a common biological role, so no clear cluster name can be assigned beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090200","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0003016","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0006890","count":2}]},{"hash":"1507970322809791468","title":"Chromatin remodeling and histone modification","description":"The terms point strongly to epigenetic regulation: chromatin remodeling, histone acetylation, and histone exchange dominate, suggesting the cluster functions in altering chromatin state to regulate transcription, with a few unrelated terms present but not overriding the main theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900051","count":2},{"id":"GO:0021915","count":2},{"id":"GO:1905524","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0018076","count":2}]},{"hash":"1270783223052318386","title":"T cell regulation and leukocyte trafficking","description":"The proteins in this cluster are enriched for immune-related functions, especially T cell activation and regulation (negative regulation of T cell activation via TCR-MHC, negative regulation of regulatory T cell differentiation, gamma-delta T cell activation, susceptibility to T cell\u2013mediated cytotoxicity) and leukocyte trafficking/inflammatory processes (monocyte extravasation, neutrophil homeostasis, TNF production). Immunoglobulin production also suggests B cell involvement. One term (spermatid development) appears unrelated and may reflect annotation noise. Overall, the cluster reflects coordinated immune activation and movement of leukocytes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002377","count":9},{"id":"GO:2001189","count":8},{"id":"GO:0045590","count":8},{"id":"GO:1904469","count":8},{"id":"GO:0046629","count":8}]},{"hash":"1387132553889802414","title":"Vertebrate neural development and growth signaling","description":"The top GO terms point to vertebrate development across neural tissues (spinal cord, brain, neural tube closure, retina) and growth regulation (multicellular organism growth, TORC1 signaling, GTPase regulation), with hints of epigenetic regulation (histone methylation). This suggests a cohesive theme of neural development intertwined with growth control in vertebrates, rather than a single enzyme activity. A single rRNA processing term appears incidental. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021510","count":5},{"id":"GO:0000447","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0007420","count":4}]},{"hash":"690773569729349640","title":"Unknown","description":"The top GO terms are diverse (heart muscle contraction, visual perception/phototransduction, calcium channel regulation, nuclear import, signaling, and more) with no single cohesive function tying all proteins together. Although there are hints of roles in excitable tissue signaling, the cluster spans multiple unrelated processes, making a specific label unreliable.","confidence":"","size":21,"edges":147,"triangles":625,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060048","count":21},{"id":"GO:0007601","count":21},{"id":"GO:0007602","count":21},{"id":"GO:2000256","count":19},{"id":"GO:0006607","count":19}]},{"hash":"2158044466614522850","title":"TCA Cycle and Nutrient Signaling","description":"Top terms center on energy metabolism (TCA cycle, malate) and nutrient-responsive signaling (response to nutrient, response to cAMP). This suggests a cluster of proteins involved in central carbon metabolism linked to nutrient sensing and stress signaling, hence a label focused on metabolism with nutrient signaling.","confidence":"Medium","size":21,"edges":119,"triangles":349,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0010124","count":6},{"id":"GO:0007584","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0051591","count":5}]},{"hash":"551115972335943439","title":"Vertebrate eye development and embryogenesis","description":"The dominant GO terms point to eye formation (embryonic eye morphogenesis, camera-type eye development, retina development) and early embryonic processes (primitive streak formation), with additional organogenesis signals (lung morphogenesis, PNS neuron development, pancreas differentiation) and transcription regulation. This suggests a cohesive role in vertebrate eye development within broader embryonic development pathways.","confidence":"High","size":21,"edges":85,"triangles":81,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0090009","count":9},{"id":"GO:0043010","count":8}]},{"hash":"1379826439911886647","title":"Hormone and xenobiotic metabolism","description":"This cluster centers on diverse biosynthetic processes (prostaglandin, aldosterone, retinoic acid, ent-kaurene) and related hormone signaling pathways, alongside catabolic and xenobiotic metabolism (carbazole, dioxin, alkaloids), plus related developmental hints (female gonad development). The common thread appears to be broad metabolic functions spanning hormone biosynthesis and xenobiotic/secondary metabolite processing rather than a single specific pathway, hence a Hormone and xenobiotic metabolism label.","confidence":"Medium","size":21,"edges":16,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":11},{"id":"GO:0001516","count":9},{"id":"GO:1900087","count":8},{"id":"GO:0046232","count":8},{"id":"GO:0032342","count":8}]},{"hash":"1351882992865981345","title":"Diverse metabolite biosynthesis","description":"The top GO terms point to a wide range of small-molecule biosynthetic and catabolic processes (ectoine, GABA, beta-alanine, proline, putrescine, biotin, protoporphyrinogen/heme precursors, antibiotic biosynthesis, and even lysine-related pathways). This suggests a cluster of proteins involved in broad metabolite metabolism rather than a single, cohesive pathway, encompassing both biosynthesis and turnover of diverse compounds. The presence of an outlier term like behavioral response to cocaine likely reflects annotation noise rather than a core function of the cluster.","confidence":"Medium","size":21,"edges":42,"triangles":22,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0019491","count":4},{"id":"GO:0009450","count":4},{"id":"GO:0009089","count":4},{"id":"GO:0048148","count":4},{"id":"GO:0006782","count":4}]},{"hash":"1506661252575456001","title":"Embryonic organ morphogenesis","description":"The GO terms point to development and morphogenesis across multiple organs during embryogenesis (pituitary, pancreas, digestive tract, palate, heart outflow tract, hindlimb). This suggests a shared theme of organ formation rather than a single biochemical function, justifying a label centered on embryonic organogenesis. Some regulatory and stress-related terms appear, but the core cluster reflects morphogenetic processes. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0048565","count":4},{"id":"GO:0003148","count":4}]},{"hash":"856617842090424261","title":"Wnt-driven Hair Follicle Development","description":"The top terms cluster around hair follicle morphogenesis and positive regulation of canonical Wnt signaling, with supporting roles for epithelial polarity and membrane trafficking (Golgi-to-plasma membrane transport, endosome transport). This combination suggests coordinated epithelial growth and patterning in hair follicle development, rather than unrelated processes. Confidence: High","confidence":"","size":21,"edges":33,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0055091","count":4},{"id":"GO:0010628","count":4},{"id":"GO:0035088","count":4},{"id":"GO:0031069","count":4}]},{"hash":"1431318816396796177","title":"Cerebellar neuron\u2013glia development and synapse formation","description":"These terms cluster around neural development in the cerebellum and the establishment of synaptic connections. Recurrent terms include cerebellar cortex formation, Bergmann glial differentiation, neuron development, regulation of axon regeneration, and protein localization to synapse, indicating a focus on cerebellar neuron\u2013glia maturation and synaptic organization. The insulin receptor and T cell receptor signaling terms suggest broader signaling context but do not override the central neural development theme. Therefore, 'Cerebellar neuron\u2013glia development and synapse formation' best captures the core function of this cluster.","confidence":"Medium","size":21,"edges":173,"triangles":753,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032435","count":15},{"id":"GO:0008286","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0048666","count":14},{"id":"GO:2001275","count":14}]},{"hash":"827148781600146311","title":"Innate immune recognition and complement activation","description":"The top GO terms cluster around phagocytosis recognition, classical complement activation, C-type lectin receptor signaling, and leukocyte tethering, indicating an innate immune response and leukocyte recruitment. Some terms related to development appear, which may reflect annotation spillover rather than core function. Overall, the cluster is best characterized by innate immune recognition and effector signaling.","confidence":"High","size":21,"edges":71,"triangles":179,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":19},{"id":"GO:0010572","count":13},{"id":"GO:0006958","count":12},{"id":"GO:0002223","count":11},{"id":"GO:0001502","count":11}]},{"hash":"1313337418032384397","title":"Cardiovascular and immune regulation","description":"The cluster centers on cardiovascular functions (heart development, blood pressure regulation via renin-angiotensin, vascular smooth muscle contraction) and circadian rhythm control, paired with immune signaling (IL-10 production, neutrophil-mediated killing, chronic inflammatory regulation). While some terms (retina development, GPCR-EGF transactivation) may reflect broader regulatory roles, the prevalent signals point to a shared theme of cardiovascular regulation intertwined with immune modulation.","confidence":"Medium","size":21,"edges":141,"triangles":472,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":21},{"id":"GO:0042752","count":21},{"id":"GO:0072608","count":21},{"id":"GO:0035625","count":21},{"id":"GO:0060041","count":21}]},{"hash":"2255946630412901717","title":"GPCR-Adenylate Cyclase Signaling Cluster","description":"The top GO terms are dominated by activation of adenylate cyclase and GPCR signaling, including the adenylate cyclase-activating GPCR pathway and blood pressure regulation via renin-angiotensin. This points to a cohesive theme of GPCR-Gs\u2013cAMP signaling with cardiovascular relevance, with additional associations to circadian rhythm and retina that can be linked to GPCR contexts; other terms may reflect general cellular processes. Overall, the dominant signal is GPCR-driven adenylate cyclase signaling.","confidence":"High","size":21,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0007190","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0001991","count":12}]},{"hash":"768798171442168862","title":"Muscle contraction and sarcomere organization","description":"The cluster centers on sarcomere organization, muscle filament sliding, and contraction across cardiac, skeletal (including slow-twitch), and smooth muscle, with related regulation and ATP-dependent activity, indicating proteins involved in muscle structure and contraction mechanics.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0006940","count":2},{"id":"GO:0030049","count":2},{"id":"GO:0001980","count":2},{"id":"GO:0043057","count":2}]},{"hash":"1156798707062111993","title":"Systemic Inflammation and Metabolic Regulation","description":"The top GO terms span pain perception, temperature response, diet-induced thermogenesis, neutrophil chemotaxis, TNF and IL-10 regulation, circadian rhythm, blood pressure regulation, and even retina development, suggesting a broad coordination of inflammatory, metabolic, endocrine, and circadian processes rather than a single, tight pathway. This cluster likely groups proteins involved in systemic homeostasis across nervous, immune, and metabolic axes, hence a label emphasizing integrated regulation of inflammation and metabolism, with some outliers in signaling and development. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0002024","count":17},{"id":"GO:0090023","count":17},{"id":"GO:0032720","count":17}]},{"hash":"1811977866078547609","title":"Unknown","description":"The terms span immune signaling, neural signaling, cell-cycle checkpoints, vesicle trafficking, apoptosis, and development with no single shared function, and there are no edges linking the proteins; therefore no cohesive theme emerges to name the cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0006888","count":2},{"id":"GO:2000002","count":2},{"id":"GO:0043278","count":2}]},{"hash":"1431770008916657016","title":"Glutamatergic synaptic signaling and learning","description":"This cluster shows enrichment for glutamatergic synaptic transmission, neurotransmitter secretion, excitatory postsynaptic potential regulation, and learning-related processes (including vocalization and sound perception), suggesting a cohesive role in excitatory synapse function and associated behaviors.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0051968","count":4},{"id":"GO:0007269","count":4},{"id":"GO:0071625","count":4}]},{"hash":"1554179553575391197","title":"Collagen ECM Organization and Developmental Signaling","description":"The prominent terms point to extracellular matrix (collagen fibril organization) and tissue development processes (keratinocyte differentiation, chondrocyte differentiation, Notch processing, VEGF signaling). The mix suggests a cluster of ECM-associated development in skin and cartilage with vascular signaling modulations; some terms (TNF response, manganese ion) are ancillary but not defining.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":11},{"id":"GO:0034612","count":10},{"id":"GO:1900748","count":10},{"id":"GO:0010042","count":10},{"id":"GO:0030216","count":10}]},{"hash":"998650016680841271","title":"Cardiovascular GPCR signaling and blood pressure regulation","description":"A large portion of the top GO terms point to GPCR-mediated signaling (adenylate cyclase-activating dopamine receptor signaling and GPCR signaling pathways) and cardiovascular regulation (positive regulation of blood pressure; renin-angiotensin\u2013mediated blood pressure control), with related processes like blood coagulation and prostaglandin response, indicating a cluster of proteins involved in vascular signaling and homeostasis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0007596","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0022900","count":13}]},{"hash":"174312931865203143","title":"Vascular and inflammatory regulation","description":"The GO terms indicate regulation of arterial blood pressure by the renin-angiotensin system, vascular smooth muscle contraction, and heart development, together with immune/modulatory roles such as IL-10 production and inflammatory regulation. Additional terms for retina development and circadian rhythm suggest broader regulatory functions but still relate to vascular/immune coordination. Overall, the cluster seems to group proteins involved in vascular function with immune signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":21},{"id":"GO:0042752","count":21},{"id":"GO:0072608","count":21},{"id":"GO:0035625","count":21},{"id":"GO:0060041","count":21}]},{"hash":"2092635541427419329","title":"Retina Development and Visual Processing","description":"The top terms are dominated by eye/retina-related functions (retina development in camera-type eye; visual learning) with supporting circadian regulation and vascular/immune modulation terms, suggesting a cluster centered on retinal/visual biology with related physiological processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":19},{"id":"GO:0001991","count":18},{"id":"GO:0042752","count":18},{"id":"GO:0072608","count":18},{"id":"GO:0035625","count":18}]},{"hash":"1205576991703715977","title":"Angiogenesis and ECM remodeling","description":"The terms converge on blood vessel formation and extracellular matrix dynamics: angiogenesis, endothelial cell migration, collagen fibril organization, and cell\u2013matrix adhesion, along with signaling pathways (ERK, BMP) and matrix proteolysis. The inflammatory signals (interleukin-1 response) and adaptive immune response fit within angiogenic inflammation contexts, supporting a cohesive theme of vascular development coupled with ECM remodeling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0007160","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0071347","count":4},{"id":"GO:0030199","count":4}]},{"hash":"235505019913476854","title":"Vesicle trafficking and cytoskeleton remodeling","description":"The top GO terms cluster around Golgi-to-vacuole transport, acrosome assembly, exocytosis, and actin/microtubule dynamics, indicating a shared theme of vesicle trafficking coupled with cytoskeletal remodeling. While some terms (IL-2 production, locomotion) are peripheral, the core signals point to vesicle transport and cytoskeletal regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001675","count":3},{"id":"GO:0006896","count":3},{"id":"GO:0032258","count":3},{"id":"GO:0006887","count":2},{"id":"GO:0007026","count":2}]},{"hash":"2063772119422043413","title":"Neutrophil chemotaxis and inflammatory signaling","description":"Main terms point to neutrophil chemotaxis and inflammatory cytokine production (IL-8, IL-6), plus signaling pathways triggered by LPS and ATP, indicating an innate immune response and neutrophil recruitment. A few terms such as synaptic vesicle maturation are less central, but the dominant pattern is inflammation and immune cell recruitment.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0032757","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0031663","count":3}]},{"hash":"1424039932008749308","title":"Mitotic spindle and astral microtubule organization","description":"Top terms are dominated by mitosis and microtubule dynamics (metaphase/anaphase transition, spindle organization, astral microtubule organization, pole cell formation), suggesting the cluster centers on cell division machinery. Some other terms (growth factor responses, B cell homeostasis, myelination) appear as peripheral associations but do not define the core theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":4},{"id":"GO:0022027","count":4},{"id":"GO:0035046","count":4},{"id":"GO:0071364","count":3},{"id":"GO:0097011","count":3}]},{"hash":"904273707439537646","title":"Biomineralization and ECM remodeling during development","description":"Top GO terms indicate extracellular matrix disassembly, collagen catabolic processes, and biomineral tissue development (including amelogenesis), along with growth and signaling during development (Wnt pathway). This points to a coherent theme of ECM remodeling integrated with biomineralization and developmental progression, such as tooth enamel formation, rather than discrete individual processes. Confidence reflects this cohesive theme across the terms.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":7},{"id":"GO:0031214","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0030574","count":5},{"id":"GO:0022617","count":5}]},{"hash":"2012474363136590148","title":"Unknown","description":"The Top Terms include both cardiac-related processes (heart development and cardiac muscle contraction) and various nuclear RNA processing and regulation terms (mRNA export, nonsense-mediated decay, pre-mRNA cleavage), plus miscellaneous processes like histone methylation and protein secretion. This mix does not reveal a single cohesive biological function or pathway governing the cluster, suggesting a functionally heterogeneous group rather than a unified theme.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0050714","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0007507","count":2}]},{"hash":"637494358857954029","title":"B cell activation and signaling","description":"The proteins are enriched for B cell\u2013specific processes such as B cell receptor signaling, B cell affinity maturation, and adaptive immune response, with IL-2 production regulation, indicating a theme of B cell activation and antigen-driven signaling (some innate and growth-factor pathways are present but secondary).","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0002250","count":3},{"id":"GO:1900042","count":3}]},{"hash":"1404012366529132893","title":"Immune signaling and developmental pathways","description":"The top GO terms point to strong involvement in immune signaling (STAT phosphorylation, PI3K-AKT signaling, T cell receptor signaling, TH2 cytokine production, IL-27 signaling) alongside developmental processes (nervous system development, kidney development, Roundabout signaling). This pattern suggests a cluster of proteins that integrate immune signaling with developmental cues.","confidence":"Medium","size":20,"edges":172,"triangles":851,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":9},{"id":"GO:0043491","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0048661","count":7},{"id":"GO:0035745","count":7}]},{"hash":"2116492812019146794","title":"Mitochondrial lipid remodeling and energy production","description":"The top GO terms cluster around lipid biosynthesis and remodeling (triglycerides, cardiolipin, ether lipids, phosphatidylcholine) and mitochondrial ATP synthesis coupled to electron transport, pointing to mitochondrial lipid homeostasis as the core theme. Cardiolipin remodeling strongly links to mitochondrial membranes and energy production, while other lipid biosynthetic processes and signaling lipids (platelet activating factor, PC remodeling) fit into a broader lipid metabolism/signaling module. Some terms mention cerebellum morphogenesis and IL-2 production, which may reflect tissue contexts or secondary roles, but the dominant signal is lipid remodeling tied to mitochondrial energy generation.","confidence":"High","size":20,"edges":105,"triangles":293,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":10},{"id":"GO:0035965","count":9},{"id":"GO:0021587","count":9},{"id":"GO:0008611","count":9},{"id":"GO:0042775","count":9}]},{"hash":"1298215545093602304","title":"Developmental signaling and morphogenesis","description":"The GO terms point to tissue patterning and organogenesis through signaling pathways (BMP, SHH via Smoothened, and retina/CNS/heart development), along with related morphogenesis processes. While one term touches ion channels and others touch broader signaling, the strongest common theme is developmental signaling controlling tissue formation and organ development.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071372","count":11},{"id":"GO:0007507","count":9},{"id":"GO:0042517","count":9},{"id":"GO:0034164","count":8},{"id":"GO:0007417","count":8}]},{"hash":"1902258807604668218","title":"Neuronal development and membrane trafficking","description":"This cluster appears to group proteins involved in neuronal development and remodeling, with emphasis on dendritic spine formation, endocytosis, and cell adhesion/motility, plus associated cytoskeletal and membrane dynamics and mitochondrial fission. While cell division is also listed, the neuronal remodeling themes dominate, suggesting a core function in shaping synapses and membrane trafficking in neurons.","confidence":"Medium","size":20,"edges":20,"triangles":0,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0051291","count":8},{"id":"GO:0043525","count":7},{"id":"GO:0033138","count":7},{"id":"GO:1900026","count":6}]},{"hash":"1537762247972475080","title":"Developmental Signaling and Cell Migration","description":"The top GO terms point to diverse signaling pathways (cell-cell signaling, retinoic acid response, TGF-beta response, insulin response, PI3K/STAT signaling) and to cellular movements (neutrophil chemotaxis, smooth muscle migration, mammary gland branching). This suggests a cluster of proteins coordinating growth factor\u2013mediated signaling with cell migration/differentiation processes in development and related immune contexts.","confidence":"Medium","size":20,"edges":58,"triangles":59,"max_degree":13,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0007267","count":20},{"id":"GO:0071300","count":20},{"id":"GO:0043552","count":20},{"id":"GO:0042531","count":20},{"id":"GO:0060444","count":20}]},{"hash":"1576388844735620140","title":"Nucleotide-Excision Repair and Translesion Synthesis","description":"The top GO terms point to DNA repair processes, especially nucleotide-excision repair and translesion synthesis, along with DNA replication and UV-C response, indicating a cohesive DNA damage response and lesion bypass module. The presence of transcription-related terms may reflect regulatory cross-talk with transcription during DNA damage response, but the core signal is repair and damage tolerance. ","confidence":"High","size":20,"edges":56,"triangles":56,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006297","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0042276","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006261","count":2}]},{"hash":"2188890177482914100","title":"Unknown","description":"The top GO terms span vision, transcription regulation, development, mitochondrial processes, signaling, cell junctions, cytoskeleton, endocytosis, and erythroid differentiation, with no clear common theme or shared pathway tying all 20 proteins together. The diversity and lack of interconnections suggest no cohesive cluster function can be inferred from these terms alone.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0060325","count":2},{"id":"GO:0033108","count":1},{"id":"GO:0007266","count":1}]},{"hash":"251204743651475459","title":"RNA processing and translation in neural and eye development","description":"This cluster shows strong signals for RNA biology\u2014formation of translation preinitiation complex, translation reinitiation, and spliceosome-mediated mRNA splicing\u2014along with protein homooligomerization, suggesting a core gene-expression and protein-assembly module. The presence of development terms such as lens fiber differentiation, retina development, and forebrain development points to neural/eye developmental contexts, making the RNA-processing/translation theme best representative. The hypoxia and apoptotic terms appear as secondary stress-related signals rather than defining the cluster\u2019s primary function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0051260","count":8},{"id":"GO:0070306","count":6},{"id":"GO:0071456","count":6}]},{"hash":"1549753668760645062","title":"Embryonic Development and Cell Cycle Regulation","description":"The GO terms converge on developmental processes (kidney and cranial skeletal system development, endoderm fate) and cell-cycle control (regulation of mitotic cell cycle, embryonic), with supporting hints from nuclear import, cytoskeletal dynamics, centrosome cohesion, and calcium signaling. This suggests a cluster of proteins that coordinate early development with regulation of cell division and cell shape changes.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":12},{"id":"GO:0072053","count":10},{"id":"GO:1904888","count":10},{"id":"GO:0045976","count":10},{"id":"GO:0006607","count":10}]},{"hash":"2036515817176551747","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster around rRNA maturation (including 5.8S, SSU, LSU), ribosomal large subunit biogenesis, and cytoplasmic translation, with additional links to general translation and cell cycle processes. This points to a core function in ribosome assembly and protein synthesis, with some RNA processing involvement. Therefore the label captures the main shared function of the cluster.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":4},{"id":"GO:0060416","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1556339461732613417","title":"Neural and Gonadal Development","description":"The top GO terms are split between nervous system development (brain, forebrain, retina, spinal cord, neuron apoptosis) and gonadal development (male gonad, spermatogenesis), with additional terms for mitotic spindle assembly and TORC1 signaling that accompany growth and cell division during development. This suggests a cluster of proteins involved in broad developmental programs across tissues, particularly neural and reproductive organ formation, rather than a single, shared molecular function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0007283","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0090307","count":3}]},{"hash":"2234359838934268672","title":"RNA splicing and processing regulation","description":"The top GO terms cluster around regulation of mRNA splicing via the spliceosome, mRNA export, stability and poly(A) tail regulation, and ncRNA-mediated gene silencing, indicating a cohesive role in post-transcriptional RNA processing and regulatory control rather than a single enzymatic function.","confidence":"High","size":20,"edges":185,"triangles":1052,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":15},{"id":"GO:0048026","count":15},{"id":"GO:0010610","count":15},{"id":"GO:0000381","count":14},{"id":"GO:0060211","count":12}]},{"hash":"92564848566798180","title":"Vertebrate organogenesis and ribosome biogenesis","description":"The top GO terms indicate organ development across tissues (gonad, kidney, lung, pericardium, swim bladder) and spermatogenesis, suggesting a vertebrate organogenesis theme. Additional terms for translation and ribosomal subunit assembly point to basic cellular machinery shared during development. The combination supports a cluster centered on vertebrate organogenesis with concurrent ribosome biogenesis; the heat-stress term is weak and not central.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061408","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0048798","count":2}]},{"hash":"1355658513391379462","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0043966","count":2},{"id":"GO:2001162","count":2}]},{"hash":"1393205843523309268","title":"RNA processing and mRNA splicing regulation","description":"The Top GO terms point strongly to RNA maturation and post-transcriptional control, with emphasis on spliceosome-mediated splicing (including alternative splicing), mRNA export, polyadenylation and tail regulation, and general mRNA modification/stability in response to stress. The presence of regulatory ncRNA\u2013mediated gene silencing further supports a coordinated RNA processing/regulation module rather than protein signaling or metabolic pathways. Hence the cluster most likely reflects a cohesive group of proteins involved in RNA processing and splicing regulation.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":16},{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0006378","count":12},{"id":"GO:0045292","count":12}]},{"hash":"1237105276361715309","title":"Oxidative Stress Response and Redox Homeostasis","description":"The cluster is dominated by GO terms for cellular redox homeostasis, detoxification of oxidants, removal of superoxide radicals, and cellular response to oxidative stress, pointing to a cohesive theme of defending against oxidative damage. The ER protein folding term aligns with oxidative environments in the secretory pathway, reinforcing the redox-focused biology. A few outliers (e.g., tRNA modification, transcription) appear secondary to the main redox-defense signal.","confidence":"High","size":20,"edges":103,"triangles":264,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":17},{"id":"GO:0098869","count":13},{"id":"GO:0055114","count":12},{"id":"GO:0034975","count":11},{"id":"GO:0019430","count":10}]},{"hash":"2237773475693781648","title":"TGF-\u03b2/BMP Signaling Inhibitors","description":"The cluster is dominated by GO terms that negatively regulate TGF-\u03b2 receptor signaling and BMP signaling, and involve SMAD-related regulation and dephosphorylation of threonine residues. This pattern points to proteins that act to suppress TGF-\u03b2/BMP pathway activity, likely via phosphatase activity that inactivates SMADs or related components, with additional links to SMAD complex assembly and downstream cellular responses to TGF-\u03b2 signals.","confidence":"High","size":20,"edges":162,"triangles":817,"max_degree":19,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0030512","count":13},{"id":"GO:0046827","count":9},{"id":"GO:0071560","count":9},{"id":"GO:0042347","count":8},{"id":"GO:0030514","count":8}]},{"hash":"727823181761626065","title":"RNA and protein methyltransferases","description":"The cluster is clearly enriched for methylation-related activities, including rRNA methylation, RNA guanine-N7 methylation, mRNA capping, and various peptidyl methylations, plus histone methylation. This suggests a core group of enzymes that transfer methyl groups to RNA and proteins, with additional terms like cellular growth and senescence reflecting broader regulatory roles or cellular context (e.g., stress responses). Overall, the dominant theme is methylation machinery involved in RNA processing and epigenetic regulation.","confidence":"High","size":20,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0006370","count":4},{"id":"GO:0043985","count":4},{"id":"GO:0009236","count":4}]},{"hash":"1694403447294330779","title":"Innate Immune Signaling and NF-kappaB Activation","description":"This cluster is dominated by innate immune and inflammatory signaling terms: innate immune response, TNF-mediated signaling, TLR4 signaling, positive regulation of canonical NF-kappaB signal transduction, antibacterial humoral response, and mucosal innate immunity. Prostaglandin E stimulus reflects inflammatory mediators, and negative regulation of viral genome replication suggests antiviral defense. A development term appears incidental. Overall, the proteins appear linked to innate immunity with NF-kappaB\u2013driven signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0033209","count":3}]},{"hash":"719434556586992377","title":"Embryonic development and organ morphogenesis","description":"The proteins in this cluster are mainly linked to embryogenesis, patterning, and tissue morphogenesis (endocrine system development, left/right pattern formation, somitogenesis, cartilage morphogenesis, and placental/embryo differentiation), suggesting a shared role in early development and organ formation. A few terms like mRNA splicing via spliceosome are likely incidental.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060707","count":10},{"id":"GO:0003323","count":10}]},{"hash":"490918335895342072","title":"Vertebrate skeletal and cardiac development","description":"Top terms cluster around vertebrate development, highlighting skeletal morphogenesis, growth plate cartilage development, and heart looping, indicating a module for skeletal and cardiac formation; other terms reflect broad cellular processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0071456","count":3},{"id":"GO:0048705","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006378","count":2}]},{"hash":"734446281193676637","title":"Telomere maintenance and telomeric localization","description":"Proteins in this cluster are strongly linked to telomere biology, including maintenance via telomerase, capping, and localization to chromosome telomeric regions. The presence of spermatid nucleus differentiation and spindle assembly terms suggests a meiosis/germ-cell context where telomere dynamics are important. A lone Wnt signaling term is present but appears less central to the core theme. Overall, the cluster centers on telomere maintenance and telomeric chromosome localization in germ cells.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051225","count":6},{"id":"GO:0034720","count":5},{"id":"GO:0007289","count":5},{"id":"GO:1904743","count":4},{"id":"GO:1904908","count":4}]},{"hash":"594508125554837435","title":"Embryonic Development and Organogenesis","description":"Dominant terms describe embryonic development and organ formation, including endocrine system development, left/right patterning, heart cushion EMT, placental and pancreatic lineage specification, and cartilage morphogenesis. A few RNA processing terms are present but do not define the cluster's main function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060707","count":16},{"id":"GO:0003323","count":16}]},{"hash":"220777171327543572","title":"Innate Antiviral Immune Response","description":"The top terms are dominated by innate immune defense and antiviral responses (innate immune response, defense response to virus, type 2 immune response, and related immune signaling terms). A ubiquitin-dependent protein catabolic process may reflect regulation of immune signaling via protein turnover. Some unrelated terms (gravitropism, IgE isotype switching) likely reflect annotation noise or multi-function entries, but the core signal points to immune defense against viruses.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045087","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0045496","count":5},{"id":"GO:0009958","count":5}]},{"hash":"57287535195315362","title":"Neural vesicle trafficking and kidney morphogenesis","description":"The cluster is enriched for synaptic vesicle coating, clathrin-dependent endocytosis, and intracellular transport, signaling robust vesicle trafficking behavior typical of neurons. It also features brain development and several kidney-related developmental terms (renal inner medulla development, metanephros morphogenesis, cranial skeletal development), suggesting a combined theme of neural vesicle dynamics and organ morphogenesis, particularly in kidney development, with ancillary links to cell cycle regulation and nuclear transport.","confidence":"High","size":20,"edges":21,"triangles":1,"max_degree":18,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016183","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0072583","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0072053","count":2}]},{"hash":"10186908077263305","title":"MAPK and TCR signaling regulation in neural-immune contexts","description":"The cluster is dominated by terms related to regulation of MAPK/ERK signaling and T cell receptor signaling, indicating a core theme of signaling pathway modulation. The presence of neural-development terms (cerebellar cortex formation, Bergmann glial differentiation) alongside insulin signaling and axon regeneration suggests this regulation spans both neural and immune contexts, justifying a unifying label focused on MAPK/TCR signaling control across cell types.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050860","count":15},{"id":"GO:0070373","count":15},{"id":"GO:0000200","count":15},{"id":"GO:0021697","count":12},{"id":"GO:0060020","count":12}]},{"hash":"105363435885096563","title":"Antiviral Innate Immune Response","description":"The top GO terms are dominated by innate immune response and defense response to virus, suggesting the proteins collectively relate to antiviral innate immunity. However, there are also terms tied to cell division and various regulatory processes, and there are no network edges among the proteins, which implies the set may be functionally heterogeneous or include annotation noise. Overall, the antiviral immune theme is present but the evidence is moderate in strength.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0090526","count":4},{"id":"GO:0031400","count":4}]},{"hash":"1920706827743044579","title":"Glycan biosynthesis and plant cell surface proteins","description":"The top GO terms point to glycosylation and glycan biosynthesis (arabinogalactan proteins, hydroxyproline-rich glycoproteins, Lewis A epitopes) and associated processes like seed mucilage production and root hair development, all of which center on cell-surface glycoproteins and their modifications to shape plant cell surfaces and tissues.","confidence":"High","size":20,"edges":88,"triangles":180,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0048354","count":7},{"id":"GO:0030311","count":7},{"id":"GO:0042248","count":7},{"id":"GO:0007299","count":7}]},{"hash":"1322252831232174911","title":"Adhesion and angiogenesis in development","description":"The top terms cluster around cell adhesion (cell-matrix and cell-cell), cell migration and sprouting angiogenesis, and multiple developmental processes (including heart morphogenesis). While immune-related terms and thyroid hormone generation appear among the top terms, the dominant theme is adhesion-driven development and vascular remodeling, with heart development as a notable facet.","confidence":"Medium","size":20,"edges":66,"triangles":71,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0006590","count":16},{"id":"GO:0090050","count":16},{"id":"GO:0001867","count":16}]},{"hash":"1808992165511447795","title":"Embryonic Development and Tissue Differentiation","description":"The top GO terms point to diverse developmental processes across multiple tissues\u2014endocrine development, left/right patterning, heart-related EMT in endocardial cushion formation, hair follicle morphogenesis, pancreatic cell development, and trophoblast differentiation\u2014suggesting a broad program of tissue differentiation rather than a single pathway. A few general expression-related terms (splicing, ribosomal export) likely reflect shared machinery supporting these developmental processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":20},{"id":"GO:0060972","count":20},{"id":"GO:0003198","count":20},{"id":"GO:0010957","count":20},{"id":"GO:0031069","count":20}]},{"hash":"451894071921671973","title":"Chromatin Remodeling and Transcription Regulation in Development","description":"This cluster centers on chromatin modification and transcription control, as shown by GO terms for histone demethylation, histone deacetylation, chromatin binding, and negative regulation of RNA polymerase II transcription, plus several development-related terms (lens fiber differentiation, multicellular growth, cell proliferation). Immune response terms are present but likely secondary. Overall, the core theme is chromatin-mediated transcription regulation during development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0045648","count":4},{"id":"GO:0034720","count":3}]},{"hash":"2071711176072946562","title":"Neuronal adhesion and axon junction organization","description":"The cluster is dominated by GO terms for cell\u2013cell adhesion (heterophilic and homophilic), synapse assembly, nervous system development, paranodal junction assembly, and localization to axonal regions (juxtaparanode). This pattern strongly points to proteins coordinating neuronal adhesion and the organization of axonal junctions and nodes of Ranvier, underpinning synapse formation and nervous system structure. Some terms like ossification and symbiont entry appear ancillary or noisy in this context.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007156","count":11},{"id":"GO:0051965","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0000187","count":9}]},{"hash":"2139076992532181460","title":"Heart vascular development and collagen biosynthesis","description":"Proteins in this cluster are enriched for terms related to vascular development (cell migration in sprouting angiogenesis, coronary vasculature development, atrial septum morphogenesis) and extracellular matrix remodeling (collagen biosynthetic process, collagen fibril organization). BMP signaling and cellular responses to BMP and TNF also appear, tying angiogenic regulation to ECM production and remodeling, which together point to a coherent program of heart vasculature formation and ECM maturation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0002042","count":6},{"id":"GO:0050731","count":6},{"id":"GO:0008354","count":6},{"id":"GO:0071356","count":5},{"id":"GO:0060413","count":5}]},{"hash":"1323490621792038596","title":"GPCR signaling in neural-vascular development","description":"This cluster centers on GO terms for GPCR signaling, including adenylate cyclase-activating and PLC-activating pathways, and features positive regulation of Rho signaling, axonal fasciculation, and synapse assembly, pointing to GPCR-driven control of neural connectivity. Vascular-related terms such as positive regulation of blood pressure and negative regulation of angiogenesis/VEGF signaling indicate co-regulation of vascular remodeling. While the electron transport chain term is present, the dominant signal is GPCR-mediated communication coordinating neural development with vascular patterning.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0035025","count":12},{"id":"GO:0051965","count":10}]},{"hash":"1325817124311261467","title":"Neural Sensory Signaling and Circadian Regulation","description":"GO terms converge on neural sensing and processing: sensory perception of pain, temperature stimulus response, and membrane potential regulation reflect neuronal excitability; retinal development and visual learning point to the visual system; regulation of circadian rhythm ties to brain clock functions; other terms (blood pressure regulation, GPCR signaling, and IL-10 production) reflect neuroendocrine and neuroimmune regulation. Overall, the cluster appears to represent neural sensory signaling and its circadian/metabolic regulation rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0042391","count":9},{"id":"GO:0008542","count":9}]},{"hash":"2075470056545733157","title":"Ubiquitin-Dependent Proteolysis and Signaling Regulation","description":"The top GO terms cluster around ubiquitin-mediated protein degradation (including autoubiquitination and histone catabolic processes) and specific ubiquitin linkages (K6 and K63), with links to signaling pathways such as TNF, NF-\u03baB (I-kappaB phosphorylation), and JNK cascade. This suggests the proteins in this cluster function primarily in ubiquitin-dependent proteolysis and in regulating inflammatory signaling pathways. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":10},{"id":"GO:0036205","count":9},{"id":"GO:0085020","count":9},{"id":"GO:1903265","count":9}]},{"hash":"1983875370743052070","title":"Innate and Adaptive Immune Activation","description":"This cluster is dominated by immune-related terms: innate immune response, phagocytosis, complement activation, B cell activation and B cell receptor signaling, and cell adhesion, suggesting a core theme of immune activation and antigen handling. A few terms about paranodal junctions and metabolic processes appear but do not override the overall immune-focused signal.","confidence":"High","size":20,"edges":53,"triangles":32,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050871","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0006911","count":7}]},{"hash":"1476013554932764746","title":"ECM Remodeling in Branching Morphogenesis","description":"This cluster centers on extracellular matrix (ECM) remodeling and morphogenesis, highlighted by terms like basement membrane disassembly, collagen catabolic process, intramembranous ossification, and epithelial tube branching in lung morphogenesis. The recurring theme is ECM proteolysis and structural remodeling during organ development and morphogenesis (lung branching and related processes), with regulation of catalytic activity supporting enzyme control. While decidualization and bradykinin catabolic processes are peripheral, the dominant signal is ECM remodeling during development.","confidence":"High","size":20,"edges":89,"triangles":249,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0046697","count":12},{"id":"GO:0010815","count":12},{"id":"GO:0001957","count":12},{"id":"GO:0034769","count":12},{"id":"GO:0051603","count":12}]},{"hash":"1912080075366369276","title":"Sensory and Circadian Stimulus Response","description":"The top terms cluster around responses to environmental cues (pain, temperature, light) and regulatory signaling, including phototransduction, thermogenesis, circadian rhythm regulation, and cardiovascular signaling, with supporting intracellular signaling (calcium, GTPase) and immune signaling (IL-10). This suggests a cohesive theme of environmental stimulus sensing coupled to signaling pathways that coordinate physiological responses.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0051281","count":6}]},{"hash":"1720606777980498387","title":"Developmental cell adhesion and cytoskeletal signaling","description":"This cluster is dominated by GO terms tied to development (heart and spinal cord), along with strong signals for integrin activation, Rho-driven cytoskeletal dynamics (filopodium assembly, cell spreading), and PI3K/AKT signaling. Together these point to proteins coordinating adhesion and cytoskeletal remodeling in a developmental context, with some neural/neuroendocrine aspects (catecholamine secretion) that may reflect specialized developmental pathways. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0033623","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0033622","count":5}]},{"hash":"981803489928504217","title":"Unknown","description":"The terms span cardiovascular regulation (blood pressure, renin-angiotensin), GPCR signaling, circadian/visual biology (retina development, visual learning), immune modulation (IL-10 production), and core metabolism (electron transport chain), with no single cohesive function tying all proteins together; plus there are no edges, suggesting no clear connected module. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0035025","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0008542","count":18},{"id":"GO:0010579","count":18}]},{"hash":"1842174548052351752","title":"Cell polarity and junction/cytoskeletal signaling","description":"Based on the GO terms, the proteins cluster around cell polarity (centrosome localization), cytoskeletal/cytoskeletal signaling (Rho signaling), and cell-cell junctions (receptor clustering, tight junction assembly, endothelial barrier). The inclusion of dendrite development and synaptic depression also points to neuronal morphology and signaling, suggesting a broader theme of polarity and junction regulation that operates in both neural and epithelial contexts. Together these terms imply a cohesive role in organizing cell shape, contacts, and signaling networks.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":9},{"id":"GO:0051660","count":8},{"id":"GO:0016358","count":8},{"id":"GO:0060292","count":8},{"id":"GO:0007266","count":7}]},{"hash":"2014558014381970596","title":"Immune Response and B Cell Signaling","description":"This cluster is strongly linked to immune system functions: innate and adaptive immune responses, B cell receptor signaling, and immunoglobulin production, plus regulation of IL-2 production. Some terms about heart or skeletal morphogenesis appear less central, likely incidental. Overall, the dominant theme is immune activation and antibody-related processes, justifying the label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0010765","count":5},{"id":"GO:0002250","count":5}]},{"hash":"1319501414636566161","title":"Embryonic development and organogenesis","description":"Most terms point to developmental biology and organ morphogenesis (endocrine system, pancreatic and cartilage development, left\u2013right patterning, hair follicle morphogenesis, placental/trophoblast differentiation, EMT in heart cushion). A spliceosome term may reflect general gene-expression regulation during development, while the vitamin D biosynthesis regulation is minor. Overall, the cluster seems to represent embryonic development and organ morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":10},{"id":"GO:0003323","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0060536","count":10},{"id":"GO:0003198","count":10}]},{"hash":"1116501652158643046","title":"Lymphocyte receptor and integrin signaling","description":"The cluster is enriched for immune-related signaling: integrin-mediated signaling, B cell receptor signaling, and T cell receptor signaling, with related positive regulation of tyrosine phosphorylation, suggesting a module focused on lymphocyte activation and adhesion. Other terms like RNA polymerase transcription/repair and endocrine/pancreatic development are present but less central, so the core theme is immune receptor signaling and cell adhesion.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0006360","count":2}]},{"hash":"397367646728444934","title":"Cardiovascular development and circadian-immune regulation","description":"This cluster\u2019s top GO terms cluster around cardiovascular biology (heart development, vascular smooth muscle contraction, blood pressure regulation via the renin-angiotensin system) alongside circadian rhythm regulation and immune/inflammatory signaling (circadian control, IL-10 production, neutrophil activity, inflammatory response). This suggests a cohesive module coordinating cardiovascular physiology with circadian and immune processes. The retina development term is likely a developmental shared feature among genes and does not negate the dominant theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":18},{"id":"GO:0042752","count":18},{"id":"GO:0072608","count":18},{"id":"GO:0035625","count":18},{"id":"GO:0060041","count":18}]},{"hash":"225437257375235232","title":"Cardiac signaling and contraction","description":"This cluster is characterized by GO terms tied to heart function and signaling, such as cardiac muscle contraction, heart development, tachykinin receptor signaling, GPCR signaling, GPCR internalization, intracellular signal transduction, and PI3K/AKT pathways, suggesting a coherent cardiomyocyte signaling module rather than a generic stress or xenobiotic response.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0002029","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1891374611848625383","title":"Cytoskeleton remodeling and cell motility","description":"Based on the prominent GO terms, this cluster centers on actin cytoskeleton organization and movement, including actin filament bundle assembly, podosome assembly, cell migration, and adhesion-dependent cell spreading, with regulation via GTPase signaling. While there are some development and immune-related terms, the strongest signal is cytoskeletal dynamics and motility, suggesting coordinated regulation of cell shape and movement.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0006897","count":2},{"id":"GO:1900026","count":2}]},{"hash":"1647728645998712907","title":"Endocytosis and Golgi-ER Trafficking","description":"The dominant GO terms point to vesicle movement and membrane trafficking, including endocytosis, retrograde Golgi-to-ER transport, and establishment of Golgi localization, with small GTPase signaling reinforcing the trafficking theme. Additional terms about adherens junctions and cell spreading fit with trafficking of adhesion molecules, and the Cvt pathway reflects intracellular cargo routing. Overall, the cluster centers on vesicle transport processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0034332","count":3},{"id":"GO:1900026","count":3}]},{"hash":"697257647319496689","title":"Membrane Transporters and Innate Immunity","description":"The terms point to core membrane transport activities (xenobiotic, vitamin, phosphate transmembrane transport) and vesicle-related processes (neurotransmitter loading), suggesting transporter roles in cellular trafficking. Coupled with innate immune functions (phagocytosis, innate immune response, interferon signaling), these proteins may participate in immune-related transport or signaling. While there are some development and chromatin terms, they appear less central to the cluster\u2019s main theme. ","confidence":"Medium","size":19,"edges":19,"triangles":2,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0009952","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0006348","count":2}]},{"hash":"1722845041643380469","title":"Ribosome Biogenesis and Nuclear Import","description":"The cluster is dominated by GO terms for translation, ribosome biogenesis, ribosomal subunit assembly, and nuclear import of ribosomal proteins (NLS-bearing proteins) along with nuclear pore complex assembly, indicating a group of proteins involved in ribosome assembly in the nucleus and transport of ribosomal components through the nuclear pore; other terms reflect broader regulatory roles but the core theme is ribosome production and nucleocytoplasmic transport.","confidence":"High","size":19,"edges":25,"triangles":31,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0060188","count":3}]},{"hash":"1143442459533790268","title":"Mitochondrial Translation and tRNA Modification","description":"The cluster shows strong signals for translation, especially mitochondrial translation, and a specific tRNA wobble uridine modification, pointing to a module involved in mitochondrial protein synthesis and RNA modification rather than broad regulation or metabolism. The cohesive translation-centric terms suggest a mitochondria-associated translation cluster.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051572","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0032543","count":2}]},{"hash":"1478334316966252082","title":"Plant Signaling and RNA Processing Proteins","description":"Top terms show plant hormone signaling (cytokinin pathway; auxin transport), RNA processing (translation preinitiation complex formation; mRNA splicing), and membrane trafficking (intracellular transport; late endosome to Golgi). Additional hints include ubiquitination and GTPase activation, suggesting regulatory roles. The combination points to a plant-focused set of proteins that connect signal transduction with RNA metabolism and trafficking, rather than a single enzymatic activity.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009736","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0000398","count":3},{"id":"GO:2000012","count":2},{"id":"GO:0070979","count":2}]},{"hash":"1489298964225827814","title":"Neural development and cell adhesion","description":"These proteins show strong enrichment for cell\u2013cell adhesion terms (heterophilic, homophilic, calcium-dependent) and neural development processes (nervous system development, synapse assembly, neuronal stem cell maintenance). Additional morphogenesis signals (bone ossification, lung branching) and growth regulation through adhesion reinforce a developmental program centered on neural tissue organization via adhesion-mediated signaling. Overall, the cluster appears dominated by neural development linked to cell adhesion.","confidence":"High","size":19,"edges":73,"triangles":37,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0007399","count":8},{"id":"GO:0043931","count":7},{"id":"GO:0051965","count":7}]},{"hash":"656818516454639638","title":"Male reproductive development","description":"This cluster\u2019s top GO terms strongly point to male reproductive biology, including prostate gland development, male sex differentiation, and steroid hormone receptor complex assembly, suggesting a theme around male reproductive development and hormonal signaling. However, several other terms pertain to general metabolic pathways (glycolytic and other biosynthetic processes), which weakens the overall cohesiveness. Therefore, the label fits but with low confidence.","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0006463","count":6},{"id":"GO:0030850","count":6},{"id":"GO:0046661","count":6},{"id":"GO:0046835","count":6}]},{"hash":"1070999328208111650","title":"Neuronal development and PI3K/MAPK signaling","description":"The cluster is enriched for positive regulation of PI3K activity and PI3K/AKT signaling, plus ERK1/ERK2 cascade, indicating coordinated PI3K/MAPK pathway regulation. The presence of neuron migration and cellular responses to retinoic acid, along with calcium signaling-related terms and cell\u2013cell signaling, points to roles in neuronal development and signaling. This combination supports a cohesive label centered on neuronal development with PI3K/MAPK involvement.","confidence":"High","size":19,"edges":38,"triangles":25,"max_degree":16,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0001764","count":8},{"id":"GO:0051897","count":8},{"id":"GO:0051281","count":8}]},{"hash":"963692323589038478","title":"Cell cycle and ribosome biogenesis","description":"This cluster is dominated by GO terms related to cell division (cell cycle, mitotic processes, spindle assembly) and protein synthesis (ribosome biogenesis, cytoplasmic translation, ER polarization). Together these suggest a cohesive functional module centered on cell proliferation and the machinery for making proteins, which underpins growth and division. The presence of a neuron projection development term is less central and may reflect shared components with broader developmental pathways, but it doesn't override the cell-cycle/translation signal.","confidence":"Medium","size":19,"edges":49,"triangles":26,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0042254","count":8},{"id":"GO:0000747","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0031175","count":8}]},{"hash":"399744677606202600","title":"Developmental and apoptotic signaling cluster","description":"The terms show a cohesive signal for developmental processes (forebrain development, multicellular organism development, neural tube closure) together with apoptosis programs (intrinsic ER-stress\u2013induced pathway, execution phase). Transcription (DNA-templated transcription) likely reflects regulatory control. Some immune-related terms exist but seem secondary, so the main theme is development with associated apoptotic regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0001843","count":4}]},{"hash":"139328749552223877","title":"Xenobiotic and nutrient membrane transporters","description":"These proteins are enriched for transmembrane transport functions across a range of substrates: xenobiotics, vitamins, ions, and neurotransmitters. The top GO terms include xenobiotic transmembrane transport, vitamin transport, potassium and phosphate ion transport, sodium-independent organic anion transport, and neurotransmitter loading into synaptic vesicles, pointing to a coherent theme of membrane transporters rather than a single substrate class.","confidence":"High","size":19,"edges":17,"triangles":5,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006855","count":11},{"id":"GO:0035461","count":11},{"id":"GO:0046677","count":8},{"id":"GO:0071805","count":8},{"id":"GO:0042908","count":8}]},{"hash":"1111035287249969168","title":"Growth Factor Signaling and Morphogenesis","description":"These proteins appear to participate in signaling networks responsive to multiple stimuli (retinoic acid, TGF-beta, insulin, M-CSF) and linked to core pathways like PI3K and STAT phosphorylation, indicating active signal transduction processes. The presence of terms related to morphogenesis and migration (mammary duct branching, smooth muscle migration, neutrophil chemotaxis) suggests a theme of growth factor\u2013driven signaling that coordinates tissue remodeling and immune cell movement. ","confidence":"High","size":19,"edges":7,"triangles":2,"max_degree":2,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0007267","count":13},{"id":"GO:0071300","count":13},{"id":"GO:0043552","count":13},{"id":"GO:0042531","count":13},{"id":"GO:0071560","count":13}]},{"hash":"780906335767372954","title":"Telomere maintenance and DNA replication","description":"Genes in this cluster are enriched for DNA repair, DNA replication, and telomere maintenance via telomerase, suggesting a cohesive module of chromosome maintenance. While a few neural-related terms appear, the dominant signal centers on telomere biology and genome stability, with telomerase-regulated maintenance at the core.","confidence":"High","size":19,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051973","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0007399","count":2}]},{"hash":"1831963688811984264","title":"Neuronal signaling and sensory perception","description":"This cluster centers on neural communication and sensory processing, as reflected by dopaminergic synaptic transmission, visual perception/learning, pain perception, and signaling cascades (ERK, GTPase regulation). While terms like heart development and macrophage chemotaxis appear, the dominant theme ties to neuronal signaling and sensory responses.","confidence":"Medium","size":19,"edges":160,"triangles":792,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0010759","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0007507","count":14}]},{"hash":"1099820038122460736","title":"GTPase-driven cell migration and morphogenesis signaling","description":"These terms cluster around small GTPase\u2013mediated signaling, podosome assembly regulation, and cell migration, with supporting pathways in PI3K/AKT signaling and responses to retinoic acid and TGF-\u03b2, plus branching morphogenesis in mammary glands and related migratory processes. The proteins are therefore best described as coordinating cytoskeletal dynamics and directional movement during development and tissue remodeling.","confidence":"High","size":19,"edges":56,"triangles":77,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":15},{"id":"GO:0071803","count":15},{"id":"GO:0016477","count":13},{"id":"GO:0043491","count":12},{"id":"GO:2001275","count":12}]},{"hash":"2024722933834259074","title":"Developmental patterning and morphogenesis","description":"The proteins show strong enrichment for transcriptional regulation by RNA polymerase II along with multiple development- and morphogenesis-related processes (left/right patterning, somitogenesis, embryonic eye morphogenesis, lens and cardiac tissue proliferation, and vascular wound healing), indicating a module tied to developmental gene expression and organogenesis. A few terms (e.g., IgE isotype switching) may be less central but do not override the core developmental theme.","confidence":"High","size":19,"edges":43,"triangles":8,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060972","count":7},{"id":"GO:0048294","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0048048","count":6}]},{"hash":"312238671567025207","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms emphasize embryonic development and tissue morphogenesis across diverse lineages\u2014endocrine system development, mesoderm formation, cartilage and hair follicle morphogenesis, pancreas and placental development, and left-right patterning. This pattern suggests a broad developmental program rather than a single tissue-specific function, justifying a label tied to embryogenesis and organ formation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0003323","count":14}]},{"hash":"2204458099750041672","title":"Vertebrate Embryogenesis and Organogenesis","description":"The cluster shows a cohesive theme of vertebrate embryonic development across multiple tissues, including eye development (camera-type eye, embryonic eye morphogenesis), somite formation and regulation, primitive streak formation, skeletal system development, pituitary development, and midbrain development, all tied together by transcriptional regulation (negative regulation of transcription by RNA polymerase II). This suggests a module of developmental regulators guiding early organogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0043010","count":4},{"id":"GO:0048048","count":4},{"id":"GO:0001757","count":4}]},{"hash":"398145532729497842","title":"Neural, Eye, and Heart Development with Wnt Signaling","description":"The top GO terms point to vertebrate organogenesis across neural (midbrain, neural crest), ocular (visual perception, camera-type eye development), and cardiac (heart development) tissues, all linked by Wnt signaling and transcriptional regulation by RNA polymerase II. This suggests a coordinated developmental program rather than a single enzymatic activity, justifying a label centered on neural/eye/heart development with Wnt signaling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0016055","count":4}]},{"hash":"1736900011170336080","title":"Integrin signaling and cell\u2013matrix adhesion","description":"The top GO terms cluster around integrin-mediated signaling, cell-matrix adhesion, and heterotypic cell adhesion, indicating an adhesion/ECM interaction module. Additional terms like skin development, blood coagulation, and extravasation fit tissue remodeling and vascular contexts where adhesion is central, supporting an integrin/adhesion-focused group.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0070208","count":6},{"id":"GO:0007161","count":5},{"id":"GO:0035987","count":5},{"id":"GO:0045123","count":5}]},{"hash":"2165986229974396146","title":"Innate Immune Recognition and Phagocytosis","description":"Based on the top GO terms, the cluster is enriched for innate immune functions: complement activation via the lectin pathway, stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, leukocyte tethering/rolling, and phagocytosis recognition, indicating roles in pathogen sensing, signaling, and uptake. Although a few development-related terms appear, they are outweighed by immune-related terms, suggesting the cluster mainly represents innate immune recognition and phagocytic processes.","confidence":"High","size":19,"edges":93,"triangles":241,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0002223","count":10},{"id":"GO:0006910","count":10},{"id":"GO:0001502","count":10},{"id":"GO:0072287","count":10}]},{"hash":"1765112668090000084","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around development and tissue formation across multiple organs (embryogenesis, left-right patterning, EMT in heart development, placenta/placental differentiation, cartilage morphogenesis, pancreas, gonad development). This points to a cohesive theme of developmental differentiation and organogenesis rather than a single molecular pathway, so the label reflects the common function of the protein set.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":5}]},{"hash":"564042595212773611","title":"Neuronal adhesion and development","description":"The proteins are enriched for terms involving neuron cell\u2013cell adhesion, calcium-dependent adhesion, and regulation of synaptic vesicle clustering, plus neuronal stem cell maintenance, indicating roles in neural adhesion and synaptic organization during development; some terms hint at related inner-ear neural contexts, but the core signal is neural adhesion and development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060488","count":19},{"id":"GO:0007156","count":19},{"id":"GO:2000807","count":19},{"id":"GO:0016339","count":19},{"id":"GO:0060711","count":19}]},{"hash":"821746174471088904","title":"Embryonic organogenesis and endocrine differentiation","description":"The top GO terms cluster around embryonic development and organ formation, including pancreatic cell development, endocrine system development, left/right patterning, placental/trophoblast differentiation, and EMT-related processes, suggesting the proteins participate broadly in early development and endocrine lineage specification. The presence of cell adhesion and cartilage morphogenesis terms further supports a developmental/structural coordination role, despite the lack of network edges in this cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":5}]},{"hash":"1953695502141686133","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":20,"triangles":1,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":4},{"id":"GO:0036494","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0070843","count":3},{"id":"GO:0071374","count":3}]},{"hash":"294570504453801067","title":"Cardiovascular GPCR signaling and metabolic regulation","description":"The cluster centers on GPCR-activated signaling leading to blood pressure control (positive regulation of BP; renin-angiotensin\u2013dependent regulation), with additional links to energy metabolism (adenylate cyclase activation, electron transport chain, diet-induced thermogenesis) and circadian regulation, suggesting an integrated cardiovascular\u2013metabolic signaling theme. Some terms (pain, saliva) are peripheral, but the core theme is GPCR-driven cardiovascular and metabolic regulation.","confidence":"Medium","size":19,"edges":13,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":15},{"id":"GO:0007190","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0019233","count":14}]},{"hash":"1650781982435514007","title":"Neural and circadian regulation of physiology","description":"Top GO terms indicate neural activity (regulation of membrane potential, sensory perception of pain), thermoregulation (cellular response to temperature stimulus, diet-induced thermogenesis), circadian control (regulation of circadian rhythm), vascular/immune signaling (blood pressure regulation by the renin-angiotensin system and IL-10 production), retinal development, and stress-related apoptosis. Together, these point to a cluster involved in physiological homeostasis coordinated by neural signaling, circadian timing, and immune-vascular cross-talk, rather than a single molecular function.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":12},{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0001991","count":10}]},{"hash":"445548574811575156","title":"GPCR-Mediated Thermogenic and Cardiovascular Regulation","description":"The cluster is dominated by GPCR signaling terms (adenylate cyclase-activating pathways, prostaglandin signaling, dopamine receptor signaling) linked to cardiovascular regulation (blood pressure, renin-angiotensin) and thermogenesis (temperature response, diet-induced thermogenesis). The inclusion of energy metabolism (electron transport chain) supports a metabolic, thermogenic context. Together these terms point to a coherent theme of GPCR-driven metabolic and cardiovascular control.","confidence":"High","size":19,"edges":8,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0071380","count":12}]},{"hash":"962324530588380095","title":"RNA Pol II transcription and RNA processing","description":"Most terms point to transcriptional regulation by RNA polymerase II (preinitiation complex assembly, elongation, and negative regulation) and to RNA processing (mRNA splicing) and associated chromatin modification (histone H3 acetylation). While a few terms relate to adipogenesis or bone remodeling, the dominant theme is transcription control and RNA processing, making this a coherent cluster for transcription-related functions.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0045600","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1889209117005275855","title":"Negative regulation of immune cell activation and cytotoxicity","description":"The top GO terms cluster around suppression of NK and T cell activity, reduced cytotoxic functions, and dampened macrophage activation, suggesting a coordinated downregulation of immune signaling and immune synapse formation. Some adhesion-related terms may reflect broader cell-contact processes but the overall pattern points to immune response attenuation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002859","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0051963","count":8},{"id":"GO:0043031","count":8}]},{"hash":"171948880347955797","title":"Embryonic Development and Morphogenesis","description":"This cluster centers on developmental and tissue morphogenesis processes, including endocrine system development, left/right pattern formation, cartilage and pancreas development, and EMT in heart structures, with supporting gene expression regulation (splicing, transcription) elements typical of developing tissues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0000398","count":16},{"id":"GO:0060707","count":16}]},{"hash":"1545089544391260665","title":"Cardiovascular development and inflammatory regulation","description":"The top GO terms heavily emphasize heart development, regulation of blood pressure, and vascular smooth muscle contraction, pointing to cardiovascular development and function. Immune-related terms (IL-10 production, neutrophil killing, inflammatory response) suggest coordinated immune regulation alongside cardiovascular processes. Some terms about circadian rhythm and retina development hint broader systemic regulation, but the strongest shared theme is cardiovascular regulation with immune modulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":17},{"id":"GO:0042752","count":17},{"id":"GO:0072608","count":17},{"id":"GO:0035625","count":17},{"id":"GO:0060041","count":17}]},{"hash":"742530165022831049","title":"Unknown","description":"The annotated GO terms are highly diverse, spanning ubiquitin-dependent proteolysis, circadian rhythm regulation, nervous system and immune signaling, plant hormone signaling, muscle organization, gravitropism, and development. There is no single coherent function or pathway that ties these terms together for this cluster, making a precise label inappropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0042752","count":7},{"id":"GO:0007399","count":6},{"id":"GO:2001200","count":6},{"id":"GO:0050853","count":6}]},{"hash":"1802993330639021752","title":"Regulated Signaling Pathways","description":"The top GO terms are dominated by regulation of signaling across diverse contexts (cAMP/adrenergic signaling, GPCR-related pathways, circadian regulation, and inflammatory signaling), with supporting roles in vascular tone (blood pressure, smooth muscle contraction) and retina/circadian biology. This suggests a cluster of proteins that modulate signaling networks rather than executing a single pathway, hence a label focused on regulation of signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043950","count":15},{"id":"GO:0071880","count":15},{"id":"GO:0001991","count":14},{"id":"GO:0042752","count":14},{"id":"GO:0072608","count":14}]},{"hash":"1238256506923198594","title":"Unknown","description":"The top GO terms are diverse (apoptosis, hematopoiesis, muscle differentiation, retinal neuron death, dendritic spine regulation, Rac signaling, sodium transport, locomotion) with no clear common pathway or interaction pattern. Because edges are zero, there is no cohesive function tying these proteins together, so a precise, representative label can't be confidently assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0097194","count":4},{"id":"GO:0045792","count":4},{"id":"GO:0030097","count":4},{"id":"GO:0097473","count":4}]},{"hash":"1510977679778084049","title":"B cell and dendritic cell activation signaling","description":"The GO terms cluster around positive regulation of B cell activation and B cell receptor signaling, dendritic cell differentiation, chemokine production, and complement activation, indicating coordinated adaptive immune signaling involving B cells and antigen-presenting cells.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0001798","count":2},{"id":"GO:0006958","count":2},{"id":"GO:2001200","count":2},{"id":"GO:0050871","count":2}]},{"hash":"202723996712539745","title":"Pain and Vision Signaling Pathways","description":"This cluster is dominated by sensory perception and vision-related GO terms (pain, temperature stimulus, thermogenesis, visual perception, visual learning, regulation of opsin signaling) with supportive signaling features (GPCR internalization, calcium release); cardiovascular terms appear less central, suggesting the core theme is sensory/visual signaling rather than cardiovascular processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0071502","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0008542","count":7},{"id":"GO:0051209","count":7}]},{"hash":"250549436644495138","title":"Sugar catabolism and carbohydrate metabolism","description":"The top GO terms point to catabolic processes for various carbohydrates (L-arabinose, rhamnose, glycerol) and general carbohydrate phosphorylation, suggesting a theme around carbohydrate metabolism and energy production. Some signaling-related terms appear, but they are less cohesive with the dominant sugar-catabolic pattern, which provides the strongest single theme for this cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045880","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0071372","count":2},{"id":"GO:0043154","count":2},{"id":"GO:0006590","count":2}]},{"hash":"527431663787127604","title":"Multicellular development and signaling proteins","description":"The terms point to developmental processes across tissues (neuron projection development, spinal cord and skeletal system development, multicellular organism development, fertilization) and associated signaling activities (Rho/GTPase regulation). Additional terms like ribosome biogenesis, extrinsic apoptotic signaling, and nutrient response suggest a broader cellular context, but the dominant theme is development with signaling, justifying a label focused on multicellular development and signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0007338","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1513483526936475438","title":"Neural signaling and myelination","description":"This cluster centers on nervous system signaling and function, with calcium signaling, GPCR/Wnt pathways, synaptic vesicle cycling, and peripheral myelination, suggesting a neural development/signaling theme. Some terms reflect broader developmental processes, but the neural focus is most prominent.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0007613","count":5},{"id":"GO:0032516","count":5},{"id":"GO:1900242","count":5},{"id":"GO:0048741","count":5}]},{"hash":"1166792071951266620","title":"Embryonic development and morphogenesis","description":"The proteins in this cluster are associated with multiple developmental processes across tissues, including embryogenesis, mesoderm formation, tissue and organ morphogenesis (cartilage, hair follicles, pancreas, placenta), and left-right patterning. This suggests the set represents a developmental program rather than a single pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":17},{"id":"GO:0060972","count":17},{"id":"GO:0003198","count":17},{"id":"GO:0060707","count":17},{"id":"GO:0003323","count":17}]},{"hash":"1402560646054209186","title":"Mineralized tissue development and wound healing","description":"This cluster shows enrichment for processes linked to bone/teeth formation (intramembranous ossification, amelogenesis) and tissue remodeling (cell adhesion, wound healing, endodermal differentiation). The common thread appears to be mineralized tissue development and related repair rather than a single metabolic pathway; some metabolism terms are present but less central. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033627","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0035313","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0006879","count":2}]},{"hash":"1602404202818043552","title":"Cell signaling and vesicle trafficking","description":"The cluster\u2019s top GO terms point to intracellular signaling cascades (activation of GTPase activity; JUN phosphorylation; regulation of ephrin receptor signaling; regulation of synaptic plasticity via receptor localization) and vesicle transport (COPII-coated vesicle cargo loading), suggesting a core theme of signal transduction linked to cargo movement within cells. Additional terms related to innate immune response, vitamin D response, and heart-related action potential regulation indicate these signaling and trafficking processes operate across diverse tissues, making the cluster representative of broad, coordinated signaling plus trafficking activity.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0045737","count":4},{"id":"GO:0007258","count":4},{"id":"GO:1901187","count":4},{"id":"GO:1900383","count":4}]},{"hash":"873464741837876779","title":"Muscle development and actin cytoskeleton","description":"This cluster is dominated by GO terms tied to muscle development (skeletal muscle fiber development, heart development) and actin-based processes (actin filament-based movement, actin filament bundle assembly), together with cardiac muscle contraction, pointing to a shared role in assembling and regulating the muscle cytoskeleton and contractile machinery. Regulatory signals like Wnt and thrombin pathways may reflect broader control rather than core function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0030048","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0045162","count":3}]},{"hash":"2226113678436106636","title":"Cytoskeletal signaling and cell-communication pathways","description":"This cluster features multiple signaling routes that regulate the cytoskeleton and intercellular communication, including Wnt, ephrin receptor, ERK cascades, and T cell receptor signaling, along with Rho-mediated cytoskeletal dynamics and axon guidance components. The shared theme is signaling-driven cytoskeletal remodeling and cell\u2013cell interactions across diverse contexts.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050771","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0048013","count":5}]},{"hash":"2136354861294129507","title":"Neuronal morphogenesis and synaptic vesicle dynamics","description":"The top GO terms cluster around neuronal development and synaptic function: midbrain morphogenesis, adult locomotory behavior, synaptic vesicle budding, and filopodium assembly, all tied together by GTPase-driven cytoskeletal remodeling. While a few terms touch on broader cellular processes (e.g., autophagy or vascular/neutrophil regulation), the dominant signal points to neuron development and synaptic vesicle dynamics. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0032258","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3},{"id":"GO:1904693","count":3}]},{"hash":"2294547775059596809","title":"Mitotic Cell Cycle and DNA Replication Proteins","description":"This cluster is driven by strong enrichment in DNA replication, mitotic cell cycle, and kinetochore localization terms, pointing to proteins involved in DNA synthesis and chromosome segregation during cell division. A few developmental or signaling terms appear, which may reflect broad regulatory roles or annotation spillover, but the dominant theme is cell-cycle\u2013related functions. Confidence in this label is Medium.","confidence":"","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0000278","count":5}]},{"hash":"436754355149239602","title":"Endosome-lysosome trafficking and exocytosis","description":"This cluster shows a cohesive set of GO terms tied to endocytic and lysosomal pathways: endocytosis, endosome-to-lysosome transport, protein localization to endosome, vesicle docking in exocytosis, and protein targeting to vacuole, plus calcium-dependent exocytosis. Together they point to vesicle trafficking between endosomes and lysosomes and exocytic machinery; some apoptosis-related terms appear but do not define the core function of the group.","confidence":"High","size":18,"edges":33,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0036010","count":10},{"id":"GO:0043524","count":10},{"id":"GO:0006897","count":9},{"id":"GO:0071260","count":9},{"id":"GO:0006623","count":9}]},{"hash":"960056404537715086","title":"Immune signaling and cell adhesion","description":"The top GO terms cluster around signaling pathways (KIT, Wnt, MAPKK-related regulation, retinoic acid response), cell-matrix adhesion, NK cell differentiation, and regulation of kinase activity and apoptosis. This suggests a cohesive theme of signaling and adhesion processes that govern immune cell development and function, especially in hematopoietic/NK-lineage contexts and interactions with the extracellular matrix.","confidence":"Medium","size":18,"edges":147,"triangles":728,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":18},{"id":"GO:0007160","count":18},{"id":"GO:0090263","count":18},{"id":"GO:0051389","count":18},{"id":"GO:0071300","count":18}]},{"hash":"439130117155651432","title":"Golgi-to-endosome transport with Rap signaling","description":"The cluster is dominated by intracellular transport terms (Golgi localization, endosome transport, retrograde transport) indicating a cohesive role in Golgi-to-endosome trafficking. The presence of Rap signaling and GTPase activation terms suggests accompanying regulatory signaling processes that coordinate this trafficking; NF-kB related terms appear secondary to this core transport function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0000042","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1499217743256895889","title":"Embryonic neural development and lineage specification","description":"The cluster\u2019s top GO terms center on neural development and cell fate decisions in the CNS (floor plate development; spinal cord motor neuron and oligodendrocyte lineage specification; cerebral cortex GABAergic interneuron differentiation; subpallium neuron fate commitment) with supplementary terms for somitogenesis and development of other organs (bronchiole, lung vasculature, endocrine pancreas). This suggests a common theme of embryonic patterning and lineage specification across neural and non-neural tissues, supported by transcription by RNA polymerase II reflecting active gene regulation during these programs.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0033504","count":10},{"id":"GO:0021530","count":10},{"id":"GO:0021520","count":10},{"id":"GO:0021892","count":10}]},{"hash":"1882982009807754475","title":"Dopamine/Adrenergic GPCR Signaling in Heart and Retina","description":"The cluster is enriched for GO terms describing dopamine receptor signaling that activates adenylate cyclase and PLC, along with adrenergic receptor signaling, cAMP and GTPase regulation, plus phototransduction and heart development. This suggests a common theme of GPCR-mediated signaling influencing cAMP/PLC pathways in cardiac and retinal contexts, with potential links to proliferation. ","confidence":"High","size":18,"edges":40,"triangles":21,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":15},{"id":"GO:0007507","count":14},{"id":"GO:0043950","count":14},{"id":"GO:0010513","count":14},{"id":"GO:0043547","count":14}]},{"hash":"430414032591571496","title":"Neural development and sensory pathways","description":"The top GO terms are dominated by neural/sensory processes such as axonogenesis, Schwann cell development, and visual/sensory perception, suggesting the proteins largely participate in nervous system and sensory functions. Some annotations (e.g., heart development, immune defense) appear as secondary or broad roles, but the central theme is neural development and sensory pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007409","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0046826","count":12},{"id":"GO:0006351","count":12}]},{"hash":"1083842212321029713","title":"Pollen wall formation and anther development","description":"The cluster shows strong signals for pollen-related processes (pollen exine formation, anther dehiscence) and glycosylation, suggesting involvement of secretory pathway proteins in pollen wall assembly; other terms reflect general nucleotide turnover and metabolic activity linked to development. Overall, the dominant theme is pollen wall formation and anther development.","confidence":"High","size":18,"edges":118,"triangles":448,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0071405","count":11},{"id":"GO:0010584","count":11},{"id":"GO:0006487","count":11},{"id":"GO:0046706","count":11},{"id":"GO:0009901","count":11}]},{"hash":"223495028419527510","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":139,"triangles":626,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0009089","count":4},{"id":"GO:0007584","count":4},{"id":"GO:0051591","count":4}]},{"hash":"1029789720610955147","title":"RNA splicing and rRNA maturation","description":"This cluster is strongly enriched for GO terms related to spliceosome-mediated mRNA splicing, mRNA processing, and maturation/biogenesis of rRNA subunits, indicating a cohesive RNA-processing module involved in both mRNA splicing and ribosome assembly. A minority term about viral genome replication appears but does not define the main functional theme. ","confidence":"High","size":18,"edges":8,"triangles":0,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0008380","count":4}]},{"hash":"1631178282737365025","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042981","count":3},{"id":"GO:0043392","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0000380","count":2}]},{"hash":"485097047236840641","title":"Circadian and hypoxia-regulated transcription","description":"This cluster is dominated by DNA-templated transcription with strong signals for circadian regulation of gene expression and hypoxia-related signaling (HIF-1\u03b1) as well as xenobiotic response, indicating a cohesive transcriptional network that integrates circadian timing and stress responses. Additional terms like regulation of aerobic respiration and phosphorelay signaling support a broader stress- and signal-transduction\u2013driven transcription program; tissue-context terms may reflect broader expression patterns rather than a single tissue specialty.","confidence":"Medium","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":18},{"id":"GO:1903715","count":17},{"id":"GO:0032922","count":17},{"id":"GO:0001922","count":17},{"id":"GO:0061419","count":17}]},{"hash":"1958307224476336163","title":"Acetylation-Driven Chromatin and Sugar Metabolism","description":"The cluster\u2019s top GO terms are dominated by acetylation processes (spermidine, spermine, N-terminal serine, and histone acetylation) alongside carbohydrate metabolism (N-acetylglucosamine and glucosamine) and a chromatin-related term (subtelomeric heterochromatin formation), with mycothiol biosynthesis also present. This points to a cohesive theme around acetylation chemistry tied to metabolism and chromatin regulation, though a few older/obscure annotations may reflect historical mappings. Overall, acetylation-related functions best explain the cluster.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0032918","count":17},{"id":"GO:0045150","count":17},{"id":"GO:0032919","count":17},{"id":"GO:0006348","count":17},{"id":"GO:0017198","count":17}]},{"hash":"1352537688500169199","title":"Ubiquitin-Proteasome Regulation of Circadian Rhythm and Cell Cycle","description":"These proteins cluster around ubiquitin-dependent proteolysis, including SCF- and ERAD-related pathways, and connect to circadian rhythm regulation, cell-cycle checkpoints, and stress responses (arsenic exposure, oxidative stress-induced apoptosis). The common thread is targeted protein degradation coordinating circadian and cell-cycle control under stress.","confidence":"High","size":18,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0046685","count":5},{"id":"GO:1903378","count":5}]},{"hash":"768023024647670744","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0006361","count":3},{"id":"GO:0006363","count":3},{"id":"GO:0006362","count":3}]},{"hash":"1253820298332640175","title":"Spliceosome-driven mRNA processing and stress response","description":"The cluster is heavily enriched for post-transcriptional RNA processes: multiple spliceosome-mediated splicing terms (both constitutive and regulatory/alternative), regulation of mRNA stability in response to stress, mRNA export, and localization to cytoplasmic stress granules, plus poly(A) tail regulation. Together these indicate a coherent group of proteins involved in splicing, mRNA maturation, and stress-responsive RNA regulation.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0000398","count":10},{"id":"GO:0010610","count":10},{"id":"GO:0000381","count":7}]},{"hash":"2305591009285474274","title":"ECM Remodeling and Coagulation with Complement Activation","description":"These proteins cluster around extracellular matrix remodeling: collagen catabolic process and ECM disassembly, plus ECM\u2013cell adhesion. They also strongly relate to coagulation and complement activation (classical and lectin pathways), with supporting signals from tissue-specific processes like amelogenesis and inflammatory mediators (IL-8, fractalkine). The overall theme is extracellular matrix remodeling integrated with immune and coagulation pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030574","count":10},{"id":"GO:0007596","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0022617","count":9}]},{"hash":"578689765322997776","title":"Neural development and transcriptional regulation","description":"This cluster centers on neural and embryonic development with transcriptional control, as shown by terms like peripheral nervous system neuron development, motor neuron axon guidance, and inner ear development, plus primitive streak formation. The presence of transcription-related terms (negative regulation of transcription by RNA polymerase II, transcription by RNA Pol II) suggests factors that coordinate gene expression during early development and neural patterning, with additional links to pituitary/hypothalamus development and muscle formation, indicating broader developmental roles.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0090009","count":6},{"id":"GO:0048935","count":6},{"id":"GO:0008045","count":5},{"id":"GO:0007517","count":5}]},{"hash":"1958601383197929011","title":"Neurodevelopment and Eye Morphogenesis","description":"The proteins cluster around vertebrate neural and eye development, with GO terms for spinal cord neuron differentiation, forebrain and rhombomere development, and retina/camera-type eye formation, embryonic eye morphogenesis, and related brain structures. This cohesive theme supports a label focused on neural development and eye morphogenesis (with some broader organogenesis signals).","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":18},{"id":"GO:0044708","count":18},{"id":"GO:1904081","count":18},{"id":"GO:0030900","count":18},{"id":"GO:0043010","count":18}]},{"hash":"990357368758840702","title":"Embryonic organogenesis and transcriptional regulation","description":"This cluster combines GO terms for DNA-templated transcription and transcriptional regulation with multiple embryonic development processes across diverse organs (gonads, eye, pancreas, heart, placenta) and timing (in utero development), suggesting it groups proteins that regulate transcription to drive organogenesis. Confidence: High","confidence":"","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0008584","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0031018","count":6}]},{"hash":"1167264890320707883","title":"Developmental Transcription and Hormone-Responsive Tissues","description":"The proteins in this cluster are characterized by transcription-related GO terms (DNA-templated transcription, transcription elongation fidelity) alongside multiple organ and tissue development terms (cornea, endocardium, mammary and Harderian glands, embryonic genitalia) and steroid hormone response. This points to a theme of transcriptional regulation during vertebrate development and hormone signaling across diverse tissues, with a minor note about an obsolete term present. ","confidence":"Medium","size":18,"edges":22,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0050718","count":5},{"id":"GO:0061303","count":5},{"id":"GO:0071899","count":4},{"id":"GO:0001195","count":4}]},{"hash":"715419546916635066","title":"Fatty acid biosynthesis and metabolism","description":"The dominant GO terms are all linked to fatty acid biosynthesis and various fatty-acid metabolic pathways (including medium- and very-long-chain fatty acids, and fatty-acyl-CoA metabolism), with related acetyl-CoA production steps. While a few terms like seed coat development or siderophore biosynthesis appear ancillary or cross-species annotation quirks, the primary signal is lipid metabolism, supporting a cohesive label for this cluster.","confidence":"High","size":18,"edges":109,"triangles":315,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006633","count":8},{"id":"GO:1902987","count":8},{"id":"GO:0008206","count":7},{"id":"GO:0001579","count":7},{"id":"GO:0010214","count":7}]},{"hash":"1489196233403392533","title":"Developmental Transcriptional Regulation","description":"The terms cluster around both positive/negative regulation of RNA polymerase II transcription and diverse developmental processes (midbrain, roof of mouth, pancreatic B cell development, EMT in heart, trophoblast differentiation). This suggests proteins involved in controlling gene expression during development and morphogenesis, rather than a single tissue-specific function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0003323","count":4}]},{"hash":"1529520651944781075","title":"Axon guidance and synaptic regulation in sensory neurons","description":"These terms cluster around neural development and synaptic function. Retinal ganglion cell axon guidance, branching morphogenesis of a nerve, and axonal fasciculation point to axon pathfinding and nerve formation, while positive regulation of excitatory postsynaptic potential, anterograde synaptic vesicle transport, and long-term synaptic depression reflect modulation of synaptic transmission and plasticity. Sensory perception of sound and regulation of behavioral fear response suggest broader neural circuit functions. Together, they indicate a cohort of proteins coordinating axon guidance and synaptic regulation in sensory neurons.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":3},{"id":"GO:0048755","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007413","count":2}]},{"hash":"1812312899140080071","title":"Actin-Driven Cell Migration and Cytoskeletal Signaling","description":"The cluster shows strong representation of actin-related processes (actin filament bundle/microspike assembly, barbed-end capping) and cell migration, supported by small GTPase signaling and pathways like EGFR and TGF-beta that regulate cytoskeletal dynamics. Innate immune response terms align with migratory, motile cell behavior in immune contexts, reinforcing a cohesive theme of cytoskeletal remodeling driving movement.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0007173","count":4},{"id":"GO:0060335","count":4},{"id":"GO:0060670","count":4}]},{"hash":"446888266252278813","title":"Actin-driven migration and adhesion","description":"This cluster is enriched for adhesion-dependent cell spreading, fibroblast migration, and assembly of actin-based protrusions (filopodium, lamellipodium), together with activation of GTPase signaling, pointing to cytoskeletal remodeling that drives cell movement; developmental terms (midbrain morphogenesis, heart development) suggest motility-related morphogenesis roles. ","confidence":"High","size":18,"edges":20,"triangles":3,"max_degree":16,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":11},{"id":"GO:0090630","count":10},{"id":"GO:0010765","count":9},{"id":"GO:0010763","count":9},{"id":"GO:1904693","count":9}]},{"hash":"1871041908077308693","title":"Sensory perception and neural signaling","description":"The cluster is enriched for GO terms tied to sensory modalities and neural signaling, including sensory perception of pain, visual perception, regulation of membrane potential, and temperature- and prostaglandin-related responses. This pattern points to proteins involved in sensory transduction and neural signaling, with additional links to inflammatory and exocrine processes (saliva secretion) and immune cell chemotaxis, suggesting a broader neuro-immune signaling module.","confidence":"Medium","size":18,"edges":24,"triangles":2,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0042391","count":12},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0007507","count":10}]},{"hash":"973229084546634234","title":"Cardiovascular, circadian, and immune regulation","description":"The top terms show regulation of membrane potential and blood pressure (cardiovascular), regulation of circadian rhythm, and multiple immune/inflammatory processes (IL-10 production, neutrophil killing, chronic inflammatory response), plus vascular smooth muscle contraction and retina development. This suggests a broad theme of coordinating physiological homeostasis across vascular, circadian, and immune systems, with some terms being more peripheral (e.g., retina development). Overall, a cohesive but diverse regulatory role is implied.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":13},{"id":"GO:0001991","count":12},{"id":"GO:0042752","count":12},{"id":"GO:0072608","count":12},{"id":"GO:0035625","count":12}]},{"hash":"887426913635213497","title":"Thermo-sensory and immune signaling cluster","description":"The top GO terms point to temperature- and pain-related responses, thermogenesis, and immune-related processes (neutrophil chemotaxis, TNF regulation), with additional signals in Rho/GTPase pathways and core energy metabolism. This suggests proteins involved in sensing thermal/chemical stress and coordinating immune and signaling responses, with metabolic activity as a supporting context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0045777","count":8},{"id":"GO:0035025","count":8}]},{"hash":"1924322947262945229","title":"Chromatin remodeling and developmental regulation","description":"Top GO terms point to chromatin-based transcription control (negative regulation of transcription by RNA polymerase II; chromatin remodeling) along with several developmental processes (embryonic eye morphogenesis; somite specification; cardiac right ventricle formation). This combination suggests a cluster of proteins involved in regulating gene expression through chromatin state during development, with ancillary links to DNA repair and cell-cycle regulation (base-excision repair; regulation of cell cycle; cellular response to UV-C). While not all terms describe a single unified function, the dominant theme is chromatin-mediated transcriptional control impacting developmental programs.","confidence":"Medium","size":18,"edges":14,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:1905053","count":2},{"id":"GO:0010256","count":2},{"id":"GO:0032288","count":2},{"id":"GO:0048048","count":2}]},{"hash":"1435134431804497325","title":"Insulin/IGF signaling and metabolic regulation","description":"This cluster is enriched for GO terms related to insulin receptor signaling, insulin-like growth factor receptor signaling, and downstream metabolic processes such as positive regulation of fatty acid beta-oxidation and glycogen biosynthesis, indicating a cohesive insulin-driven metabolic control theme. Some terms about apoptosis or mRNA processing appear peripheral, but the dominant signal points to insulin/IGF signaling and energy metabolism. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032000","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0048009","count":3},{"id":"GO:0010748","count":3},{"id":"GO:2001275","count":3}]},{"hash":"400491616605301529","title":"Cell-Cell Adhesion in Immune and Neural Contexts","description":"The cluster is dominated by cell-cell adhesion terms (both heterophilic and homophilic), with supporting themes of immune signaling (innate immunity, NK cell regulation, T cell costimulation, macrophage activation) and junctional/neuronal-cardiac contexts (paranodal junctions, AV node adhesion, actin cytoskeleton regulation by adhesion). Together, these indicate proteins that mediate contact-dependent communication across immune, neural, and heart tissues through adhesion and associated signaling.","confidence":"High","size":18,"edges":5,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0002859","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0030913","count":11},{"id":"GO:0031295","count":11}]},{"hash":"8569366895405934","title":"Unknown","description":"The GO terms span xenobiotic catabolism, biosynthesis, and unrelated processes (cell cycle, adhesion, feeding response), with no single, cohesive function for the cluster.","confidence":"","size":18,"edges":73,"triangles":119,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":18},{"id":"GO:0046232","count":18},{"id":"GO:0032342","count":18},{"id":"GO:0019341","count":18},{"id":"GO:0010241","count":18}]},{"hash":"2001040884544397581","title":"Cardiovascular development and immune regulation","description":"This cluster centers on heart-related processes and vascular function\u2014heart development, regulation of systemic blood pressure, vascular smooth muscle contraction\u2014alongside immune/inflammatory signaling (IL-10 production, chronic inflammatory response, neutrophil killing). Some terms (circadian rhythm, retina development) are broader but do not override the main cardiovascular/immune theme, suggesting proteins involved in vascular development and inflammatory regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":13},{"id":"GO:0042752","count":13},{"id":"GO:0072608","count":13},{"id":"GO:0035625","count":13},{"id":"GO:0060041","count":13}]},{"hash":"1228667326936026439","title":"Neuroendocrine Stress and Metabolic Regulation","description":"This cluster coalesces around themes of stress response and metabolic control: temperature- and pain-related signaling, diet-induced thermogenesis, circadian rhythm regulation, vascular tone and blood pressure control, IL-10 production, and osmotic-stress\u2013related p53 signaling. Taken together, these terms suggest a broad neuroendocrine-metabolic stress network rather than a single, cohesive pathway. Outliers like retina development and obsolete signaling terms may reflect multifunctionality or annotation noise. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0001991","count":15},{"id":"GO:0042752","count":15}]},{"hash":"392761424118652666","title":"Immune activation and phagocytosis","description":"The top GO terms point to innate and adaptive immune responses (innate immune response; B cell activation and BCR signaling; T cell proliferation), along with phagocytosis and receptor-mediated endocytosis, and complement activation. This suggests the cluster represents immune signaling and phagocytic processes.","confidence":"High","size":18,"edges":13,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048260","count":7},{"id":"GO:0050871","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0042102","count":6},{"id":"GO:0006958","count":6}]},{"hash":"1553455816183620422","title":"Neural and cardiac electrical signaling","description":"This cluster centers on signals involved in nervous system and heart electrophysiology. The top GO terms point to sensory detection of mechanical stimuli in sound, paranodal junction assembly, transmission of nerve impulses, and atrial cardiac action potentials with regulation of heart rate by cardiac conduction, all pointing to electrical signaling in excitable tissues. Some terms (KIT signaling, neural crest migration, vitamin D3 metabolism, and IL-1 signaling regulation) suggest additional developmental or signaling roles, but the dominant pattern is neuronal conduction together with cardiac conduction.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":6},{"id":"GO:0030913","count":5},{"id":"GO:0086014","count":5},{"id":"GO:0086091","count":5},{"id":"GO:2000649","count":5}]},{"hash":"2230438908450829035","title":"Cardiovascular development and inflammatory regulation","description":"These proteins are enriched for GO terms related to cardiovascular biology (blood pressure regulation by the renin-angiotensin system, vascular smooth muscle contraction, heart development) and immune/inflammatory processes (IL-10 production, chronic inflammatory response, neutrophil killing). Additional terms on circadian rhythm and retina development suggest broader physiological regulation but still align with cardiovascular and inflammatory signaling. Overall, the cluster appears to group components involved in cardiovascular development with immune/inflammatory modulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":18},{"id":"GO:0042752","count":18},{"id":"GO:0072608","count":18},{"id":"GO:0035625","count":18},{"id":"GO:0060041","count":18}]},{"hash":"122496275084534055","title":"Cardiovascular development and immune regulation","description":"Based on the GO terms enriched in this cluster, the proteins are associated with cardiovascular processes (regulation of systemic arterial blood pressure by renin-angiotensin, vascular smooth muscle contraction, heart development) as well as immune and inflammatory signaling (interleukin-10 production, positive regulation of neutrophil killing, chronic inflammatory response). Although some terms also touch on circadian rhythm and retina development, the dominant theme ties vascular development and function to immune regulation, suggesting these proteins participate in orchestrating cardiovascular and inflammatory pathways. The mix indicates a broad regulatory role across cardiovascular development and immune signaling rather than a single narrow function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":16},{"id":"GO:0042752","count":16},{"id":"GO:0072608","count":16},{"id":"GO:0035625","count":16},{"id":"GO:0060041","count":16}]},{"hash":"1950629915506801889","title":"Ubiquitin-Dependent Protein Turnover and Signaling","description":"This cluster centers on ubiquitin-mediated proteolysis and regulation of signaling pathways. The top GO terms include ubiquitin-dependent protein catabolic process and protein autoubiquitination, plus ubiquitination linked to K6, indicating proteasome-directed turnover. Additional terms involve histone catabolic process and histone H4-K20 methylation, suggesting chromatin-related roles of ubiquitination. Signaling terms like activation of NF-kappaB-inducing kinase, regulation of JNK cascade, and positive regulation of TNF signaling pathway point to downstream effects on NF-\u03baB and JNK signaling. Collectively, these proteins likely participate in ubiquitin-dependent protein degradation and modulation of inflammatory signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0090073","count":7},{"id":"GO:0036205","count":6},{"id":"GO:0085020","count":6},{"id":"GO:1903762","count":6}]},{"hash":"1013913748160836534","title":"Synaptic actin remodeling and Rho GTPase signaling","description":"The strongest shared theme among the top GO terms is neuronal synaptic function tied to cytoskeletal dynamics: actin cytoskeleton organization, synaptic vesicle budding, and regulation/activation of Rho-family GTPases. While a few terms touch on unrelated processes (heart development, B cell homeostasis, sensory perception of sound), the predominant pattern points to synaptic signaling and actin remodeling driven by Rho GTPases.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0001782","count":2}]},{"hash":"668047139751930354","title":"GTPase/MAPK Development Signaling","description":"This cluster centers on regulation of Rho GTPase signaling and JNK/MAPK cascades, with related GO terms for GTPase activity, retinoic acid signaling, calcium/IP3 signaling, and development-related processes like brain development and B cell differentiation. The proteins appear to participate in broad signaling networks that guide development and differentiation in neural and immune contexts.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0002316","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1527257696734157795","title":"Nuclear envelope and centrosome organization","description":"Top GO terms focus on nuclear envelope organization, nuclear membrane anchoring, centromere clustering, nucleokinesis, and centrosome localization, indicating a cluster involved in nuclear architecture and the coordination of genetic material with the cytoskeleton during cell division and migration. A few terms about collagen, osteoblast differentiation, and bone remodeling are present but appear as secondary associations rather than core themes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032967","count":2},{"id":"GO:0021817","count":2},{"id":"GO:0090292","count":2},{"id":"GO:0072766","count":2},{"id":"GO:0090286","count":2}]},{"hash":"2164075103152512070","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"This cluster is enriched for ubiquitin-dependent protein catabolic processes and various ubiquitination types (K6-, K63-linked), together with innate immune and antiviral defense terms, and signaling regulation (JNK, TNF). The combination suggests proteins coordinating ubiquitin-mediated signaling in innate antiviral responses.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":8},{"id":"GO:0036205","count":6},{"id":"GO:0085020","count":6}]},{"hash":"1252289128867129118","title":"Neural development and synapse assembly","description":"The dominant terms trace neural connectivity and synaptic formation: positive regulation of synapse assembly, axonal fasciculation, CNS and nervous system development, and cell adhesion. While there are some immune-related terms (complement activation, innate immune response), the core signal is neural development and synaptic assembly, suggesting these proteins function in neural network formation and maintenance.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":11},{"id":"GO:0014068","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0007413","count":8}]},{"hash":"1853613492208301381","title":"Unknown","description":"The GO terms span several distinct themes (immune signaling via interferon response and NF-kappaB regulation) alongside endosome trafficking and biotic-stimulus responses, plus seemingly unrelated processes like bone morphogenesis/mineralization, glucose import, and synaptic vesicle clustering, yielding no single coherent function for the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0035456","count":2},{"id":"GO:0099638","count":2}]},{"hash":"1271111413685487440","title":"Immune cell development and cytokine signaling","description":"The predominant GO terms describe differentiation and maturation of immune cells (NK T cells, B cells), and cytokine-driven responses (IL-7, IL-4) and hematopoiesis. Some terms like insulin signaling and heart development are less central, suggesting the core theme is immune development with associated signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001865","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0098761","count":5},{"id":"GO:0002344","count":5},{"id":"GO:0035023","count":5}]},{"hash":"1173020231952535945","title":"Hematopoiesis and immune signaling pathways","description":"The GO terms cluster around multiple signaling cascades (KIT, Wnt, retinoic acid, insulin, growth hormone receptor, STAT phosphorylation, GM-CSF, T cell activation) that regulate blood cell formation and immune cell function, indicating a cohesive theme of signaling networks governing hematopoiesis and immunity.","confidence":"Medium","size":17,"edges":115,"triangles":467,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":16},{"id":"GO:0090263","count":16},{"id":"GO:0071300","count":16},{"id":"GO:0060396","count":16},{"id":"GO:0030097","count":16}]},{"hash":"1081432669798625048","title":"Synapse Formation and Dendritic Spine Morphogenesis","description":"The cluster is dominated by GO terms tied to synapse development and spine maturation (synapse organization, dendritic spine morphogenesis, protein localization to synapse) with a clear role for cytoskeletal signaling via regulation of Rho protein signal transduction. While there are broader developmental terms (myoblast fusion, embryonic cranial skeleton morphogenesis, angiogenesis), the strongest, most frequent terms point to synapse formation and spine remodeling as the main shared function.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0050808","count":10},{"id":"GO:0060997","count":9},{"id":"GO:0007520","count":8},{"id":"GO:0048701","count":8}]},{"hash":"274680009195615653","title":"Oogenesis translational control and axis formation","description":"The top GO terms cluster around regulation of translation initiation and preinitiation complex formation, mRNA stabilization, and poly(A) tail regulation, alongside dorsal/ventral axis specification in oocytes and ovarian structures. Wnt signaling regulation (positive and negative) further ties to developmental axis patterning, and the presence of dendritic spine morphogenesis hints at a broader Wnt-related context. Altogether, these terms point to a module that governs when and where maternal mRNA is translated during oogenesis and axis formation, with Wnt signaling modulating this process.","confidence":"Medium","size":17,"edges":24,"triangles":3,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0090263","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0008069","count":3}]},{"hash":"2099374861792910027","title":"Unknown","description":"The GO terms span multiple unrelated processes\u2014glycogen and lipid metabolism, tRNA amidotransferase/mitochondrial translation, ER organization, and various glycan biosyntheses\u2014without a single cohesive function linking the proteins. No clear theme emerges to justify a specific label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":4},{"id":"GO:0009062","count":3},{"id":"GO:0070681","count":3},{"id":"GO:0007029","count":3},{"id":"GO:0019876","count":3}]},{"hash":"757738670816612005","title":"B cell signaling and cytoskeletal remodeling","description":"The cluster\u2019s top GO terms cluster around B cell receptor signaling and its positive regulation, along with Rho-mediated signal transduction and lamellipodium assembly, which together point to actin cytoskeleton remodeling during immune cell activation and migration. The inclusion of B cell differentiation regulation further supports an immune-activation theme. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050861","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0038028","count":3},{"id":"GO:0030032","count":3}]},{"hash":"1615916198051499742","title":"Spliceosome-driven mRNA splicing and processing","description":"A cluster whose GO terms are dominated by mRNA splicing via the spliceosome, with multiple entries for regulation of splicing (positive/negative) and related mRNA maturation steps such as export, modification, and tail shortening. This suggests a cohesive group of proteins involved in nuclear mRNA processing and spliceosome-mediated regulation, with some related regulatory ncRNA interactions. Despite a few outliers, the core theme is clear: spliceosome-dependent mRNA splicing and processing.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":11},{"id":"GO:0031047","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0060211","count":6}]},{"hash":"2245650041795618568","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":131,"triangles":611,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0071051","count":15},{"id":"GO:0060303","count":15},{"id":"GO:0071049","count":15}]},{"hash":"2039225638470394261","title":"Spliceosome-driven mRNA processing and translation control","description":"The top GO terms cluster around spliceosome-mediated splicing (including alternative splicing), mRNA processing steps such as polyadenylation regulation, mRNA export, and aspects of translation initiation and reinitiation, with an additional note on ncRNA-mediated silencing. This points to a cohesive group of proteins involved in mRNA maturation and subsequent control of translation, suggesting a single functional theme of RNA processing coupled to translation regulation.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":10},{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0045292","count":8},{"id":"GO:0001731","count":8}]},{"hash":"2019854656201169181","title":"Membrane Transporters","description":"The cluster is dominated by transmembrane transport terms (potassium ion, galactose, phosphate, nitrate, fucose, and 4-hydroxyphenylacetate transport), pointing to a group of membrane transport proteins. There are also GO terms related to regulation of transcription and cell cycle, but they are less frequent and may reflect regulatory subunits or adjacent functions. Overall, the core theme is membrane transport.","confidence":"High","size":17,"edges":29,"triangles":21,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071157","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0071805","count":3}]},{"hash":"1968637119280752263","title":"Cholesterol metabolism and lipid transport","description":"This group is enriched for cholesterol biosynthesis, homeostasis, efflux, and intestinal absorption terms, plus sphingolipid metabolism and steroid hormone signaling, indicating a cohesive lipid/cholesterol metabolism module; a few unrelated terms may reflect annotation noise.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061038","count":3},{"id":"GO:0042632","count":3},{"id":"GO:0071383","count":3},{"id":"GO:0071404","count":3},{"id":"GO:0006695","count":3}]},{"hash":"1326630222162465790","title":"Rac-dependent cell migration and polarity","description":"Proteins here cluster around actin cytoskeleton remodeling and motility: small GTPase (Rac) signaling, filopodium/podosome assembly, adhesion-dependent spreading, and cell migration, with concurrent epithelial polarity establishment. While some terms like insulin signaling and heart development hint at broader roles, the dominant signals point to Rac-regulated migration and polarity processes.","confidence":"High","size":17,"edges":37,"triangles":3,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":10},{"id":"GO:0007264","count":10},{"id":"GO:0090162","count":9},{"id":"GO:0046847","count":9},{"id":"GO:0043552","count":7}]},{"hash":"968550180502019492","title":"Ribosome Biogenesis and Translation Initiation","description":"The strongest signals are maturation of SSU-rRNA and formation of translation preinitiation complex, which point to ribosome assembly and translation initiation. While other terms reflect various metabolic or stress-related processes, the translation-related terms provide a coherent theme for this cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0019284","count":3},{"id":"GO:0009088","count":3}]},{"hash":"1750560316643566101","title":"Unknown","description":"The GO terms span ubiquitin-mediated proteolysis, ER-stress\u2013related apoptosis, metal response, and various developmental and immune processes with little evident shared function. There is no clear single theme among these terms, so a cohesive label cannot be confidently assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0032995","count":3},{"id":"GO:0070317","count":3},{"id":"GO:0000209","count":3}]},{"hash":"6280989031100102","title":"Ubiquitin-dependent proteolysis","description":"This cluster is dominated by ubiquitin-mediated protein turnover, including ubiquitin-dependent degradation, ER-associated degradation, and autoubiquitination, with supporting links to NF-\u03baB and JNK signaling regulation. The presence of histone catabolic and ubiquitin-linked terms suggests roles in chromatin turnover as well. Overall, the proteins likely function in tagging substrates for degradation and modulating signaling via ubiquitin pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0030433","count":10},{"id":"GO:1903265","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0036205","count":8}]},{"hash":"247109129328895994","title":"Epigenetic Regulation of Immune Gene Expression","description":"The cluster centers on chromatin and transcription control, with GO terms for DNA-templated transcription and multiple histone methylation marks (H3K9, H3K4, H4K20) plus heterochromatin formation. The concurrent enrichment for innate/adaptive immune responses, IL-2 production, and B cell receptor signaling suggests these proteins coordinate epigenetic regulation of immune gene expression, likely in immune cells. Some histone-term entries are labeled obsolete, but they still indicate chromatin-modifying activity relevant to transcription in an immune context. ","confidence":"Medium","size":17,"edges":9,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0036124","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0034773","count":3}]},{"hash":"1801421275193574123","title":"Neural signaling and sensory perception","description":"This cluster centers on nervous system-related functions: sensory modalities (pain and vision), temperature-related responses, membrane potential regulation, and signaling pathways (ERK cascade), plus ion transport that influences excitability. While developmental terms appear, the dominant pattern is neural signaling and sensory processing with supportive thermogenesis and ion-channel activity.","confidence":"Medium","size":17,"edges":31,"triangles":9,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0007601","count":8},{"id":"GO:0007507","count":7}]},{"hash":"8433256707818531","title":"Spinal Motor Neuron Development and Axon Guidance","description":"The top GO terms converge on spinal cord neuron differentiation, motor neuron cell fate specification, and motor neuron axon guidance, with supporting roles for cell-matrix adhesion and actin cytoskeleton regulation\u2014hallmarks of motor neuron development and pathfinding. Some terms about peripheral developmental processes appear incidental, but the dominant theme is spinal motor neuron differentiation and axon guidance.","confidence":"High","size":17,"edges":109,"triangles":375,"max_degree":16,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0021527","count":10},{"id":"GO:0007160","count":10},{"id":"GO:2000324","count":10},{"id":"GO:0021520","count":10},{"id":"GO:0045805","count":10}]},{"hash":"2114569010573617001","title":"Adaptive Immunity and ECM Remodeling","description":"This cluster\u2019s top GO terms cluster around immune activation (adaptive immune response, B cell receptor signaling, complement activation) and extracellular matrix interactions (collagen fibril organization, cell-matrix adhesion, heterotypic cell-cell adhesion). There are also vascular and developmental notes (vasoconstriction, CNS and skeletal system development), but the strongest common theme appears to be immune signaling intertwined with ECM remodeling and adhesion, suggesting roles in immune cell activation within tissue contexts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007417","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0002250","count":7},{"id":"GO:0050853","count":6},{"id":"GO:0030199","count":6}]},{"hash":"928898236587526691","title":"Chromatin regulation and transcription control","description":"The cluster\u2019s top GO terms cluster around chromatin organization and transcriptional regulation: DNA methylation\u2013dependent constitutive heterochromatin formation, nucleosome positioning/spacing, and DNA-templated transcription, with several terms describing regulation of transcription during different cell-cycle transitions. Some obsolete terms and an isolated metabolism term appear, but the dominant signal points to chromatin state control and transcriptional regulation.","confidence":"High","size":17,"edges":114,"triangles":418,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060303","count":14},{"id":"GO:0016584","count":14},{"id":"GO:0060766","count":11},{"id":"GO:0045668","count":11},{"id":"GO:0006346","count":9}]},{"hash":"1637416595275187614","title":"Neural and craniofacial development","description":"These proteins cluster around developmental processes, notably forebrain and eye morphogenesis (forebrain development, camera-type eye development, embryonic eye morphogenesis), palate/roof-of-mouth development, and spinal cord\u2013associated neuron differentiation, with transcriptional regulation during neural development also represented. The shared theme is neural and craniofacial morphogenesis, suggesting these proteins coordinate development of brain and sensory structures. Confidence: High","confidence":"","size":17,"edges":8,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":15},{"id":"GO:0000122","count":15},{"id":"GO:0006366","count":13},{"id":"GO:0021527","count":12},{"id":"GO:0044708","count":12}]},{"hash":"2164673480297009314","title":"Cerebellar development and glial differentiation","description":"The top GO terms include cerebellar cortex formation and Bergmann glial cell differentiation, pointing to cerebellar neural development and glial lineage specification as the central theme. Additional signaling terms (insulin receptor, growth hormone receptor, T cell receptor signaling) and regulation of cell proliferation/mitosis suggest broader developmental signaling and neural regeneration processes that accompany cerebellar development. Overall, the cluster is best described as cerebellar development with glial differentiation.","confidence":"High","size":17,"edges":13,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":9},{"id":"GO:0008286","count":9},{"id":"GO:0050852","count":9},{"id":"GO:2001275","count":9},{"id":"GO:0021697","count":9}]},{"hash":"438909883070708101","title":"Oxidative stress response and detoxification","description":"Proteins in this cluster are enriched for glutathione metabolism, detoxification of oxidants, and responses to toxic substances, plus toxin catabolic and starvation-related metabolic processes. Nucleotide-excision repair and aromatic amino acid metabolism suggest broader cellular maintenance under stress. Taken together, the group seems to coordinate defense against oxidative damage and detoxification with general metabolic adjustment. A few terms about calcium signaling hint at additional regulation, but the dominant theme is stress defense and detoxification.","confidence":"Medium","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006749","count":15},{"id":"GO:0042594","count":15},{"id":"GO:0040008","count":15},{"id":"GO:0098869","count":15},{"id":"GO:0009636","count":15}]},{"hash":"1854668068399848839","title":"Cardiometabolic and Circadian Signaling","description":"The enriched GO terms point to control of blood pressure and vascular regulation (renin-angiotensin pathway), energy metabolism (electron transport chain, diet-induced thermogenesis), and signaling pathways (GPCR and Rho), with links to circadian rhythm and even immune modulation (IL-10). While diverse, they collectively suggest a role in integrating metabolic state, cardiovascular function, and daily rhythmic regulation. ","confidence":"Medium","size":17,"edges":13,"triangles":1,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0035025","count":10},{"id":"GO:0022900","count":10}]},{"hash":"447836965201417569","title":"Cell-cycle and microtubule dynamics","description":"These proteins appear linked to core cell division and cytoskeletal processes: microtubule polymerization, centrosome separation, G1/S transition, and regulation of the cell cycle. Some terms hint at broader cytoskeletal or structural roles (keratinization, locomotion). A few GO terms (photosystem II assembly, vitamin K metabolism, peptidyl-glutamic acid carboxylation) are outliers not clearly tied to this core theme, but the dominant signals point to cell-cycle control and microtubule dynamics.","confidence":"Medium","size":17,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0031987","count":2},{"id":"GO:0046785","count":2},{"id":"GO:0051299","count":2},{"id":"GO:0042373","count":1}]},{"hash":"1812519072096659845","title":"Endocrine and placental development","description":"The terms cluster around endocrine system development (prolactin secretion, pancreatic cell development) and placental/trophoblast differentiation, with related morphogenesis processes (left-right patterning, cartilage morphogenesis, heart cushion EMT), indicating a developmental program focused on endocrine and extraembryonic tissue formation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070459","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2}]},{"hash":"582395740570806596","title":"Immune Inflammation Signaling","description":"Top GO terms are dominated by immune/inflammatory processes (pyroptotic inflammatory response, IL-1 alpha production, dendritic cell antigen processing/presentation, response to ischemia), with some transcription regulation and signaling terms. Overall, the strongest shared theme across annotations is immune activation and inflammation, despite a few outlier terms like forebrain development and Wnt signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0009236","count":3},{"id":"GO:1902510","count":3},{"id":"GO:0070269","count":2}]},{"hash":"1713332702553330988","title":"Embryonic Development and Tissue Morphogenesis","description":"These terms cluster around embryogenesis, tissue differentiation, and morphogenesis across multiple organs\u2014endocrine system development, left/right patterning, EMT in heart development, pancreatic cell development, cartilage and hair follicle morphogenesis, and placental differentiation. The presence of these diverse yet development-centric processes suggests a cohesive theme of embryonic development and tissue formation, with Spliceosome-related terms likely reflecting general RNA processing tied to broad gene expression during development. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0003323","count":14}]},{"hash":"956866845189978845","title":"Positive Regulation of Signaling and Cell Migration","description":"This cluster is dominated by GO terms about upregulating signaling pathways (PI3K signaling, ERK cascade) and promoting cell movement or migration (mast cell chemotaxis, neuron migration), with additional ties to differentiation and immune activation (myoblast differentiation, smooth muscle proliferation, granzyme B production, CD8+ T cell proliferation). The common theme is positive regulation of signaling that governs cellular movement and immune-related functions, suggesting a cohesive label around signaling-driven migration and activation.","confidence":"Medium","size":17,"edges":46,"triangles":64,"max_degree":14,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0002551","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0045663","count":8},{"id":"GO:0048661","count":8}]},{"hash":"1028703528359951851","title":"Unknown","description":"The terms span cardiac electrophysiology, adipose differentiation, GPCR signaling, foam cell regulation, telomere maintenance, mechanosensation, cell migration, and angiogenesis, with no clear shared pathway; thus there isn't a cohesive function for the cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0010745","count":5},{"id":"GO:1904908","count":4}]},{"hash":"1120815107886686958","title":"Actin dynamics and cell migration","description":"The top terms point to actin cytoskeleton remodeling: GTPase activity regulation, actin filament bundle assembly, and cell migration, with epithelial polarity establishment reinforcing a cytoskeletal\u2013polarity axis. Some terms touch cardiac development and SA node activity, which can involve coordinated cytoskeletal changes during heart morphogenesis, while a few terms relate to mitosis or telomere maintenance that may be less connected. Overall, the cluster is best characterized by actin dynamics and cell motility themes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0016477","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0090162","count":5},{"id":"GO:0007205","count":5}]},{"hash":"871337015840945719","title":"Developmental and immune signaling","description":"The proteins cluster across multiple signaling pathways (KIT, Wnt, retinoic acid, TORC1) and processes such as cell-matrix adhesion, apoptosis, and NK cell differentiation, suggesting a shared theme of signal transduction guiding development and immune differentiation rather than a single dedicated pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":13},{"id":"GO:0007160","count":13},{"id":"GO:0090263","count":13},{"id":"GO:0051389","count":13},{"id":"GO:0071300","count":13}]},{"hash":"2066565758365766602","title":"Actin dynamics and cell migration","description":"This cluster centers on actin cytoskeleton dynamics and regulation, with terms like actin filament organization, Rho GTPase signaling regulation, and pathways describing cell motility and leading-process extension in neural migration. Endocytosis and membrane remodeling terms align with cytoskeletal-driven membrane changes, suggesting a cohesive role in reorganizing the actin network to drive movement and associated membrane trafficking. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0097320","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0021816","count":3},{"id":"GO:0007015","count":3}]},{"hash":"1104666438682147636","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"This cluster centers on ubiquitin-dependent protein catabolic processes (including ERAD and K6-linked ubiquitination) and innate immune signaling (defense against virus; NF-\u03baB and JNK pathways), implying proteostasis-linked modulation of antiviral responses.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0051607","count":10},{"id":"GO:0036205","count":9}]},{"hash":"2015412121164391236","title":"Neurodevelopment and Developmental Processes","description":"Based on GO terms such as neurogenesis, axonal fasciculation, lens fiber cell differentiation, neuron/glial apoptotic processes, and multicellular organism development, the proteins seem to cluster around neural development with broader developmental roles, though immune-related terms are present but less central.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007413","count":2},{"id":"GO:0006936","count":2},{"id":"GO:0070306","count":2}]},{"hash":"251320050660668402","title":"Innate immune signaling via NOD-like receptors","description":"Most terms point to innate immunity and inflammatory signaling, including innate immune response, cytokine signaling, and the NOD-like receptor pathway (GO:0070431). The defense against Gram-positive bacteria and chemokine production support this, while bone development and mechanotransduction hints suggest possible osteoimmune interactions. Thus the cluster is best described as innate immune signaling with NOD-like pathway involvement.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0070431","count":5}]},{"hash":"2205911775375064186","title":"ER-Golgi trafficking and Golgi organization","description":"This cluster is marked by GO terms focused on ER-Golgi vesicle transport, ER membrane organization, and vesicle fusion with the ER, along with positive regulation of organelle assembly and Golgi organization. The inclusion of terms related to mast cell degranulation and arachidonate secretion also points to secretory pathway activity. Together, these terms suggest a cohesive group of proteins involved in regulating the ER-to-Golgi trafficking and Golgi structure within secretory pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902953","count":1},{"id":"GO:1903358","count":1},{"id":"GO:0090158","count":1},{"id":"GO:1902117","count":1},{"id":"GO:0006890","count":1}]},{"hash":"191598020628040535","title":"Immune signaling and vesicle trafficking","description":"The cluster\u2019s top GO terms center on immune signaling (B cell receptor signaling, T cell homeostasis) and membrane/trafficking processes (ER-to-Golgi transport, PI biosynthesis, GTPase regulation, focal adhesion assembly), suggesting a functional module that links signaling with vesicle trafficking and cytoskeletal interactions. Some terms like pigmentation and retina development may be incidental annotations.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0046854","count":2},{"id":"GO:0048041","count":2}]},{"hash":"1024205096020843716","title":"Actin dynamics and secretory granule trafficking","description":"The top GO terms cluster around actin cytoskeleton remodeling (actin nucleation and polymerization), centrosome localization and microtubule anchoring, and intracellular trafficking of granules (secretory granules, stress granules). This points to a shared theme of cytoskeletal organization guiding granule transport and localization, with NK cell differentiation reflecting cytoskeleton-dependent immune functions. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0032825","count":2},{"id":"GO:0032252","count":2},{"id":"GO:0034063","count":1}]},{"hash":"489499976707841244","title":"Regulated vesicle exocytosis and membrane trafficking","description":"The GO terms cluster around neural development and brain formation, with strong emphasis on exocytosis (calcium-dependent and synaptic vesicle exocytosis) and membrane localization, suggesting a set of proteins that coordinate vesicle docking/fusion and directed trafficking during development; some yeast-specific terms imply conserved secretion and polarized growth roles across species.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0045956","count":3},{"id":"GO:1903078","count":3},{"id":"GO:0031321","count":3}]},{"hash":"1324008674394482782","title":"Mitotic growth and vesicle trafficking in development","description":"Cluster enriched with mitotic cell cycle and cell division terms, along with brain and skin development and multicellular growth, plus COPII-coated vesicle budding and Golgi-to-ER retrograde transport. This pattern points to a core theme of cell proliferation and developmental processes supported by vesicle trafficking, with a possible incidental immune-related term. ","confidence":"Medium","size":16,"edges":58,"triangles":92,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007420","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0090114","count":7},{"id":"GO:0035264","count":7}]},{"hash":"525921172609685232","title":"Actin Cytoskeleton in Mitosis and Contractile Ring","description":"Top terms converge on actin cytoskeleton remodeling during mitosis, including Rho-family GTPase regulation, mitotic contractile ring assembly/localization, actin-based vesicle transport, centrosome positioning, and Golgi inheritance, indicating a cohesive theme of cytokinesis and organelle partitioning driven by actin dynamics.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":3},{"id":"GO:0070493","count":3},{"id":"GO:1903477","count":3},{"id":"GO:0051661","count":3},{"id":"GO:0030050","count":3}]},{"hash":"1638493464622860400","title":"Neural crest migration and axon guidance","description":"This cluster centers on neural development, especially neural crest migration and axon pathfinding. Key GO terms include semaphorin-plexin signaling, axonal fasciculation, branchiomotor and sympathetic neuron guidance, and trigeminal nerve organization, consistent with cranial nerve patterning. The angiogenesis and immune terms are less central and likely incidental.","confidence":"High","size":16,"edges":29,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0036486","count":3},{"id":"GO:1902287","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0021785","count":3}]},{"hash":"1338927903912695200","title":"Chromatin-based transcriptional repression in development","description":"The cluster is enriched for chromatin/epigenetic processes (heterochromatin formation, histone turnover) and transcriptional control (negative regulation of RNA Pol II, DNA-templated transcription), with developmental signals such as rostrocaudal neural tube patterning and somatic stem cell division. This combination suggests proteins coordinating chromatin state and transcription to regulate development.","confidence":"Medium","size":16,"edges":102,"triangles":359,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0042981","count":6},{"id":"GO:0030466","count":6},{"id":"GO:0000183","count":6},{"id":"GO:0021903","count":6}]},{"hash":"169582295171160387","title":"Developmental signaling and cell adhesion","description":"Top GO terms indicate positive regulation of Wnt and Kit signaling and cell-matrix adhesion, all central to developmental signaling and tissue organization. The presence of multicellular organism development supports this theme, while regulation of translation and proteasomal degradation suggests coordinated control of protein levels during signaling. Immune-like responses to lipopolysaccharide and nitric oxide indicate additional stress/inflammatory signaling that can intersect development and adhesion processes. Taken together, the cluster seems to represent proteins involved in signaling and adhesion that drive development, with regulatory control of protein turnover and expression.","confidence":"Medium","size":16,"edges":77,"triangles":188,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032436","count":6},{"id":"GO:0045727","count":6},{"id":"GO:0019509","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0071732","count":6}]},{"hash":"1723803075805874477","title":"RNA Splicing and RNA Processing Machinery","description":"The cluster\u2019s top GO terms strongly point to RNA processing and splicing, including spliceosome and snRNP assembly, mRNA cis-splicing via spliceosome, and spliceosomal complex assembly. Additional terms for rRNA maturation, tRNA processing, and P-body assembly suggest a broader RNA metabolism and RNA-protein complex organization role, indicating these proteins cooperatively form the RNA processing machinery in the cell.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":14},{"id":"GO:0045292","count":14},{"id":"GO:0033962","count":12},{"id":"GO:0030490","count":12},{"id":"GO:0000387","count":12}]},{"hash":"1294640673457292653","title":"Metabolic signaling and matrix remodeling","description":"The cluster mixes metabolic/energy signaling (glucose response, insulin processing, SREBP pathway) with extracellular matrix remodeling and proteolytic processes (ECM disassembly, fibrinolysis, blood coagulation, and regulation of proteolysis), suggesting a functional theme at the intersection of metabolism and tissue remodeling. This combination supports a cohesive label distinct from purely metabolic or purely remodeling categories.","confidence":"Medium","size":16,"edges":31,"triangles":20,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0022617","count":3},{"id":"GO:0030070","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0071333","count":3}]},{"hash":"1804947730789744790","title":"Ribosome Biogenesis and Translation Machinery","description":"The top GO terms cluster around translation and ribosome biology\u2014cytoplasmic and mitochondrial translation, ribosome assembly and biogenesis, and rRNA processing\u2014indicating a protein set focused on making and using ribosomes for protein synthesis.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000027","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1226729668175236037","title":"Nuclear receptor signaling and transcription regulation","description":"The terms point to transcriptional control (DNA-templated transcription; RNA Pol II/III transcription regulation) and signaling via nuclear receptors (dexamethasone response and retinoic acid receptor signaling) along with SMAD and ERK pathway involvement, suggesting a cohesive role in receptor-mediated transcriptional regulation. Some terms are context-specific, but the core theme is transcriptional regulation driven by steroid and growth factor signaling.","confidence":"Medium","size":16,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0048387","count":2},{"id":"GO:0010744","count":2},{"id":"GO:0070374","count":2}]},{"hash":"399764224513280158","title":"Integrin signaling and cytoskeleton remodeling","description":"These proteins cluster around adhesion- and signaling-driven control of cell movement and shape. The prominent GO terms (integrin-mediated signaling, substrate adhesion-dependent spreading, cell migration, and morphogenesis) point to cytoskeletal remodeling governed by Rho-family GTPases. Endocytic recycling and insulin receptor signaling suggest connected receptor trafficking and growth signaling that support adhesion and motility. While mitotic cell cycle and uterus development terms exist, the dominant theme is adhesion-associated signaling coordinating migration and morphogenesis.","confidence":"Medium","size":16,"edges":48,"triangles":69,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:1990126","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0000902","count":3}]},{"hash":"1928329830795794357","title":"Vertebrate neurodevelopment and organogenesis","description":"The top GO terms cluster around developmental processes in vertebrates, especially neural development (spinal cord neuron differentiation, forebrain development) and organogenesis (heart development, eye morphogenesis, rhombomere development, nail development). An outlier term for innate immune response may reflect annotation pleiotropy or cross-talk, but the dominant theme is multi-tissue developmental processes with a strong neural component.","confidence":"Medium","size":16,"edges":28,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0021527","count":1},{"id":"GO:0044708","count":1},{"id":"GO:1904081","count":1}]},{"hash":"492346081072975280","title":"Zinc ion transport and homeostasis","description":"This cluster is defined by GO terms centered on zinc handling: zinc import across plasma membrane, intracellular zinc ion homeostasis, zinc ion detoxification, and cellular response to zinc ion starvation. A couple of ancillary terms (limb development and localization to the ciliary transition zone) appear but the dominant signal is zinc transport and homeostasis, suggesting these proteins work together to regulate cellular zinc levels and detoxification. ","confidence":"High","size":16,"edges":19,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0060173","count":2},{"id":"GO:0044749","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0034224","count":2},{"id":"GO:0006882","count":2}]},{"hash":"2290425835064501055","title":"Steroid and lipid biosynthesis","description":"The cluster shows strong enrichment for GO terms related to steroid hormone metabolism (C21-steroid hormone metabolic process, glucocorticoid biosynthetic process) and various lipid biosynthesis pathways (retinol metabolic process, sphingolipid biosynthetic process, mycolic acid biosynthetic process, poly-hydroxybutyrate biosynthetic process), suggesting a shared function in producing lipid-based biomolecules and steroid hormones. Some peripheral terms like oxidation-reduction and antibiotic response are present but do not define the main theme.","confidence":"High","size":16,"edges":103,"triangles":348,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0008207","count":8},{"id":"GO:0046677","count":8},{"id":"GO:0045150","count":8},{"id":"GO:0042572","count":8}]},{"hash":"267179036461815733","title":"Glycosaminoglycan metabolism and angiogenesis","description":"Top GO terms point to carbohydrate and proteoglycan remodeling (galactose metabolism/catabolism, glycosphingolipid metabolism, keratan sulfate proteoglycan catabolic process) with vascular development processes (angiogenesis, vasculogenesis). While there are a few mitochondrial translation-related terms, the prevailing theme centers on ECM carbohydrate metabolism and blood vessel formation, making this a representative, concise label. ","confidence":"Medium","size":16,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006012","count":3},{"id":"GO:0019388","count":3},{"id":"GO:0006687","count":3},{"id":"GO:0042340","count":3},{"id":"GO:0070184","count":2}]},{"hash":"1232411240641361861","title":"Cyclic nucleotide signaling and GPCR regulation","description":"The cluster\u2019s top terms center on cyclic nucleotide signaling (cGMP and cAMP pathways), including cellular response to cGMP and cAMP catabolic processes, and regulation of receptor guanylyl cyclase signaling. There is also an association with sensory GPCR functions (sensory perception of smell) and related vascular and regulatory processes, suggesting a shared theme around cyclic nucleotide\u2013mediated signaling and GPCR-driven responses across contexts.","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071321","count":6},{"id":"GO:0007608","count":6},{"id":"GO:0019933","count":6},{"id":"GO:0010754","count":6},{"id":"GO:0043117","count":4}]},{"hash":"357804106574647689","title":"Nuclear mRNA processing and splicing regulation","description":"Most GO terms cluster around nuclear mRNA maturation and processing\u2014spliceosome-mediated and regulated splicing, mRNA export, and poly(A) tail modification\u2014indicating a cohesive RNA-processing module.","confidence":"High","size":16,"edges":71,"triangles":185,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":9},{"id":"GO:0075525","count":9},{"id":"GO:0006406","count":9},{"id":"GO:0000381","count":9},{"id":"GO:0016556","count":9}]},{"hash":"1185584242146328504","title":"Multitissue developmental differentiation","description":"The GO terms cluster around developmental and morphogenetic processes across multiple tissues (endocrine system development, left/right pattern formation, hair follicle morphogenesis, pancreatic cell development, EMT in endocardial cushion), with additional hints of gene expression regulation (mRNA splicing, RNA polymerase II regulation) and ribosome export. This points to broad developmental differentiation rather than a single pathway or organ, so a broad label capturing cross-tissue development is appropriate.","confidence":"Medium","size":16,"edges":16,"triangles":1,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0010957","count":10},{"id":"GO:0031069","count":10}]},{"hash":"2255146008986317850","title":"Transcriptional Regulation and Cell Cycle Control","description":"The cluster centers on DNA-templated transcription, regulation of the cell cycle (including G1/S transition), and the ER unfolded protein response, pointing to proteins involved in controlling gene expression and cell division under stress. While a few terms refer to tissue-specific development or plant processes, these appear less representative of the core function, so the dominant theme is transcriptional regulation linked to cell cycle and stress responses.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0033327","count":8},{"id":"GO:0060749","count":8},{"id":"GO:0071157","count":7},{"id":"GO:0032026","count":6}]},{"hash":"1732387338692767560","title":"Inflammation and coagulation signaling","description":"This cluster is dominated by immune/inflammatory and coagulation-related GO terms: interleukin-1 beta production, positive regulation of Toll signaling, leukocyte migration in inflammatory response, and regulation of fibrinogen levels/blood coagulation, suggesting a shared role in inflammatory signaling and coagulation. While some developmental or digestive terms appear, they seem less central to the core theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0007586","count":7},{"id":"GO:0030194","count":6},{"id":"GO:0048771","count":6}]},{"hash":"1994704401892636946","title":"Immune signaling and angiogenesis","description":"This cluster shows a coherent mix of immune-related processes (adaptive immune response, neutrophil chemotaxis, macrophage CSF stimulus) together with angiogenic and endothelial signaling (angiogenesis, endothelial cell migration, collagen-activated receptor signaling) and key signaling cascades (ERK/STAT phosphorylation). This pattern suggests coordinated immune activation with vascular remodeling and inflammatory signaling.","confidence":"High","size":16,"edges":52,"triangles":72,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":10},{"id":"GO:0070374","count":9},{"id":"GO:0038063","count":8},{"id":"GO:0002250","count":8},{"id":"GO:0043536","count":8}]},{"hash":"1268645220430237010","title":"Spinal motor neuron development and axon guidance","description":"The cluster is dominated by GO terms for spinal cord motor neuron differentiation, lateral motor column neuron migration, spinal cord motor neuron cell fate specification, and motor neuron axon guidance, with supporting processes like cell-matrix adhesion and actin regulation that enable migration and pathfinding. Some terms are less directly related, but the primary theme is motor neuron development and guidance.","confidence":"High","size":16,"edges":72,"triangles":157,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":13},{"id":"GO:0070527","count":13},{"id":"GO:0021527","count":12},{"id":"GO:0007160","count":12},{"id":"GO:2000324","count":12}]},{"hash":"204076177283867214","title":"Adaptive immune signaling and cell adhesion","description":"These proteins cluster around adaptive immune signaling: multiple GO terms point to B cell receptor signaling, Fc receptor pathways, and IL-2 production. Additional terms reflect leukocyte motility and adhesion (neutrophil chemotaxis, integrin-mediated signaling, substrate adhesion-dependent spreading) and downstream ERK activation, with angiogenesis as a related vascular response, suggesting a module coordinating immune activation with cell adhesion/migration and vascular processes.","confidence":"High","size":16,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":8},{"id":"GO:0007417","count":7},{"id":"GO:1900042","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0070374","count":7}]},{"hash":"220232397125499175","title":"Axon paranodal/juxtaparanodal organization","description":"The top GO terms cluster around nervous system axon domain organization, including paranodal junction assembly and localization to the juxtaparanode region of axons, plus axis specification, pointing to proteins involved in axon domain formation and neuronal patterning. A few immune or transcription-related terms are present but represent broader or secondary roles; the strongest signal is axon organization.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0030913","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0070986","count":5},{"id":"GO:0002315","count":5},{"id":"GO:0071205","count":5}]},{"hash":"1037308321730279109","title":"Mitochondrial respiration and apoptosis","description":"The cluster is dominated by GO terms relating to mitochondrial electron transport (ubiquinol to cytochrome c; cytochrome c to oxygen), coupled with apoptotic processes and oxidative stress-related activities (hydrogen peroxide metabolism, regulation via dephosphorylation). This pattern points to a cohesive functional module centered on mitochondrial energy production and its control of programmed cell death, with supporting links to redox signaling.","confidence":"High","size":16,"edges":28,"triangles":8,"max_degree":11,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0006122","count":4},{"id":"GO:0034465","count":4},{"id":"GO:0006123","count":4},{"id":"GO:0010730","count":4}]},{"hash":"392478407082707448","title":"Neural crest migration and axon guidance","description":"These proteins are primarily associated with neural development, especially neural crest cell migration and axon pathfinding. The top GO terms include multiple guides for nerve projection and axon guidance (semaphorin-plexin signaling, branchiomotor neuron axon guidance, sympathetic neuron projection guidance, trigeminal nerve organization) and cell-cell adhesion, which often underpins guidance cues. Some terms about ossification and complement activation appear, but the dominant theme is neural development and axon navigation.","confidence":"High","size":16,"edges":13,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0043931","count":10},{"id":"GO:0006958","count":10},{"id":"GO:0036486","count":10}]},{"hash":"2008483560930494231","title":"Neural development and adhesion proteins","description":"The cluster is dominated by neural-development terms (nervous system development, axonal fasciculation, interneuron migration) and strong cell-adhesion signals (homophilic/heterophilic adhesion) with synapse assembly, pointing to proteins coordinating neural connectivity via adhesion and guidance. Bone development and immune terms are present but secondary.","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0043931","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0007399","count":9}]},{"hash":"1994707540875602446","title":"Neuronal Synapse Regulation and Receptor Trafficking","description":"The terms cluster around synaptic transmission control, receptor internalization and clustering, and GABA signaling, with related facets like pain perception regulation and ethanol response, all pointing to neuronal communication and receptor dynamics at synapses. A few outliers (e.g., ectoine transport) exist, but the core signal supports a synaptic, neurotransmission-focused theme.","confidence":"High","size":16,"edges":18,"triangles":0,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031623","count":5},{"id":"GO:0051930","count":5},{"id":"GO:0045471","count":5},{"id":"GO:0050806","count":5},{"id":"GO:0030433","count":4}]},{"hash":"2015972499436779693","title":"Mitochondrial respiration and protein turnover","description":"The top GO terms point to mitochondrial energy production (proton transmembrane transport, mitochondrial electron transport, aerobic respiration) and protein turnover/assembly (protein catabolic process, negative regulation of proteolysis, positive regulation of protein oligomerization). This suggests a cohesive cluster centered on mitochondrial energy metabolism together with maintenance of protein complexes, fitting well with respiration and proteostasis functions.","confidence":"High","size":16,"edges":69,"triangles":145,"max_degree":15,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1902600","count":5},{"id":"GO:0009060","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0032461","count":3},{"id":"GO:0042447","count":3}]},{"hash":"78337716370798028","title":"Nervous system development and axon guidance","description":"The cluster\u2019s top GO terms cluster around nervous system development, axonal fasciculation, neuronal development and synaptic plasticity regulation, with additional hints from Hedgehog signaling (Smoothened) and mechanotransduction. This combination strongly suggests a cohesive role in neuronal development, axon pathfinding, and synaptic signaling modulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0007413","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0071260","count":4}]},{"hash":"745065014554961084","title":"Developmental differentiation across tissues","description":"The top GO terms point to differentiation and development across multiple tissues, including oligodendrocyte differentiation (glial cells), SA node\u2013related cardiac activity, and sprouting angiogenesis (endothelial cell proliferation). There are also motifs of cell migration and telomere/cell-cycle regulation, suggesting broader morphogenesis and tissue development rather than a single pathway. This cluster seems to reflect multi-tissue differentiation and organogenesis rather than a specific function, so a cross-tissue developmental label fits best.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":8},{"id":"GO:1904908","count":7},{"id":"GO:0098907","count":7},{"id":"GO:1904355","count":7},{"id":"GO:0050966","count":7}]},{"hash":"2249296656130010649","title":"Ubiquitin-Dependent Chromatin Regulation","description":"The cluster is dominated by ubiquitin-related protein turnover and chromatin-modifying activities, including ubiquitin-dependent proteolysis and ERAD, histone modifications (H4-K20 methylation, H4-K16 acetylation, H2A K63 ubiquitination), and transcription-related signaling (NF-kappaB pathway, V(D)J recombination). This points to a cohesive theme of coordinating protein degradation with chromatin remodeling and transcriptional control.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0090073","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0070512","count":6},{"id":"GO:0007250","count":6}]},{"hash":"103084908589539341","title":"Mitochondrial Apoptosis and Metabolic Transport","description":"The cluster\u2019s top GO terms center on mitochondrial processes and apoptosis (apoptotic mitochondrial changes, hepatocyte apoptotic process, negative regulation of necroptotic process) plus oxidative stress response (response to superoxide) and several mitochondrial membrane transport functions (NAD, citrate, and ATP transmembrane transport). This combination suggests a mitochondria-centric module involved in regulating cell death and handling metabolic/redox transport across mitochondrial membranes. Some terms (like female pregnancy) seem less specific but do not override the dominant mitochondrial/apoptotic theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0008637","count":3},{"id":"GO:0000303","count":3},{"id":"GO:0097274","count":3}]},{"hash":"691536921070560790","title":"Cardiovascular development and immune regulation","description":"The GO terms strongly point to cardiovascular functions, with regulation of systemic arterial blood pressure via the renin-angiotensin system, heart development, and vascular smooth muscle contraction. Additional terms touch on circadian rhythm, retina development, and immune/inflammatory processes (IL-10 production, neutrophil-mediated killing, chronic inflammatory response), suggesting broader but coherent links between cardiovascular development, circadian regulation, and immune modulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":15},{"id":"GO:0042752","count":15},{"id":"GO:0072608","count":15},{"id":"GO:0035625","count":15},{"id":"GO:0060041","count":15}]},{"hash":"1229186815445154293","title":"Heart and vascular development with inflammatory signaling","description":"The top GO terms cluster around heart development, regulation of arterial blood pressure, vascular smooth muscle contraction, and immune/inflammatory activity (IL-10 production, chronic inflammatory response, neutrophil killing). Together these point to cardio-vascular development and function intertwined with inflammatory signaling. Some terms (circadian rhythm regulation, retina development) are broader developmental cues, but the core theme centers on heart/vascular processes coupled to immune regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":15},{"id":"GO:0042752","count":15},{"id":"GO:0072608","count":15},{"id":"GO:0035625","count":15},{"id":"GO:0060041","count":15}]},{"hash":"1425431959540994041","title":"Neural development and synaptic signaling","description":"The cluster\u2019s top GO terms emphasize brain and spinal cord development and synaptic plasticity (long-term potentiation), along with signaling processes like tyrosine phosphorylation and Rho signaling. While some terms touch on lens development or immune defense, the dominant theme is neural development and synaptic modulation, making this label representative for the cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0021510","count":2}]},{"hash":"1489098742062630181","title":"Developmental gene regulation and signaling","description":"The top terms are dominated by transcriptional regulation and developmental processes (DNA-templated transcription, imprinting regulation, multicellular development, neural tube closure, adipocyte differentiation, cell-matrix adhesion) with associated growth/signaling (TORC1). Some terms also reflect neural signaling and stress responses (dopamine, cadmium, defense to Gram-positive bacteria), suggesting a broad developmental and signaling theme with ancillary stress pathways. Overall, the cluster appears to center on developmentally regulated transcription and signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1567668214225012359","title":"ECM Remodeling and Amelogenesis","description":"The dominant GO terms point to collagen catabolic process, extracellular matrix disassembly, proteolysis, and tissue remodeling, with amelogenesis suggesting enamel formation. Together these imply proteins involved in extracellular matrix remodeling during tooth development and related tissue remodeling, while a few unrelated terms may be incidental. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":5},{"id":"GO:0030574","count":4},{"id":"GO:0022617","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0097186","count":4}]},{"hash":"692752068499641413","title":"Systemic stress signaling and sensory responses","description":"The GO terms span stress-related processes across tissues: hepatocyte apoptotic process, cardiac action potential regulation, detection of mechanical and chemical stimuli for pain, thermal sensing and cold response, vasopressin secretion, endothelial remodeling, and metabolic regulation. This mix suggests a multisystem stress signaling/sensory-response theme rather than a single tissue-specific function, so the label emphasizes broad stress signaling combined with sensory perception.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":6},{"id":"GO:0098907","count":5},{"id":"GO:0050966","count":5},{"id":"GO:1903444","count":5},{"id":"GO:1903759","count":5}]},{"hash":"1238435727886861753","title":"Chlorophyll and porphyrin metabolism","description":"Most top GO terms center on chlorophyll biosynthesis and catabolic processes, plus heme/tetrapyrrole biosynthesis (protoporphyrinogen IX). This points to a pigment/porphyrin metabolism theme; a few lipid-catabolic terms are present but do not redefine the cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015996","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0052651","count":3},{"id":"GO:0006660","count":3},{"id":"GO:2000124","count":3}]},{"hash":"1376749877941541590","title":"Neurodevelopmental Growth Signaling via ERK and Hedgehog","description":"The cluster is dominated by terms tied to brain development and multicellular growth, with clear signals from the ERK1/ERK2 cascade and the Smoothened (Hedgehog) pathway, plus active cell division and proliferation. Additional terms point to fundamental cellular machinery involved in protein synthesis and processing, such as ribosome biogenesis and ER-Golgi vesicle transport, and to post-translational modification via ubiquitination. The presence of mitochondrial outer membrane permeabilization hints at apoptosis regulation during development. Taken together, these terms suggest a cohesive module coordinating neurodevelopmental growth with key signaling pathways and essential cellular functions. Confidence: Medium","confidence":"","size":15,"edges":31,"triangles":10,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0097345","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0035264","count":5}]},{"hash":"369055567367467808","title":"Developmental signaling and apoptosis regulation","description":"This cluster shows enrichment in tissue development (heart, hippocampus) together with signaling pathways (Hippo, neurotrophin/TRK, glucocorticoid response) and apoptosis-related processes (extrinsic signaling, execution phase), suggesting a common theme of developmental signaling guiding cell fate and programmed cell death across tissues.","confidence":"Medium","size":15,"edges":42,"triangles":31,"max_degree":9,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0097192","count":5},{"id":"GO:0001782","count":5},{"id":"GO:0051384","count":5}]},{"hash":"1148281755547136167","title":"tRNA aminoacylation and translation","description":"This cluster is dominated by GO terms tied to tRNA charging (lysyl-, aspartyl-, and other aminoacylation), tRNA wobble modification, and the process of translation, indicating a core function in protein-synthesis machinery. Telomere-related terms appear as secondary associations for some proteins, but the central theme is translation/charged tRNA biology.","confidence":"High","size":15,"edges":21,"triangles":4,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070154","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0071915","count":6},{"id":"GO:0006430","count":6},{"id":"GO:0016233","count":6}]},{"hash":"492976775945805119","title":"Hypoxia-Responsive NO Signaling in Heart","description":"The cluster is enriched for terms like response to hypoxia, positive regulation of nitric oxide biosynthesis, nitrosative stress, regulation of blood pressure, heart development, and oxidant detoxification, pointing to a module involved in cardiovascular adaptation to low oxygen and NO signaling. Some outliers (nitrogen fixation, bicarbonate transport) may reflect broader metabolic associations, but the dominant theme is hypoxia/NO-related cardiovascular regulation.","confidence":"Medium","size":15,"edges":42,"triangles":64,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":8},{"id":"GO:0045429","count":8},{"id":"GO:0032966","count":7},{"id":"GO:0008217","count":7},{"id":"GO:0051409","count":7}]},{"hash":"2143517563995105812","title":"T cell signaling and cytoskeletal remodeling","description":"The top GO terms point to T cell receptor signaling and thymus development, complemented by ephrin receptor signaling and strong actin cytoskeleton dynamics (actin filament branching, podosome assembly) and GTPase activity regulation. The combination of T cell\u2013related signaling, thymic development, and cytoskeletal remodeling supports a theme of T cell activation and migration, with development-context signals (retinoic acid response, Wnt signaling) as supporting context. Overall, this cluster appears to represent T cell signaling intertwined with cytoskeletal remodeling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0090135","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0048013","count":4}]},{"hash":"1617904577176570853","title":"Ubiquitin-dependent NF-\u03baB and TNF signaling","description":"The cluster is dominated by GO terms for various ubiquitin linkages (K6, K63, K48), ubiquitin-dependent protein catabolic process, and autoubiquitination, along with positive regulation of canonical NF-\u03baB signaling and TNF-mediated signaling, and negative regulation of necroptosis. While histone catabolic process appears, the core theme centers on ubiquitin-regulated protein turnover and inflammatory signaling pathways. This supports labeling as ubiquitin-driven regulation of NF-\u03baB/TNF signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036205","count":4},{"id":"GO:0085020","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0043123","count":4},{"id":"GO:1903265","count":4}]},{"hash":"840305956196788720","title":"B cell activation and antigen presentation","description":"This cluster centers on B cell\u2013related signaling and activation (B cell receptor signaling, positive regulation of B cell activation) and antigen processing/presentation (MHC class I), suggesting a module of adaptive humoral immunity. The presence of innate-related terms (phagocytosis, innate immune response, complement activation) and hypersensitivity regulation indicates integration with broader immune and inflammatory processes, but the core theme remains B cell\u2013driven activation and antigen handling.","confidence":"High","size":15,"edges":22,"triangles":7,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0006911","count":6},{"id":"GO:0050871","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0042493","count":5}]},{"hash":"565223120980685971","title":"SNARE-driven vesicle trafficking and exocytosis","description":"These proteins cluster around vesicle transport pathways from the ER to the Golgi, through endosomes, with SNARE complex assembly and calcium-regulated exocytosis driving neurotransmitter-receptor insertion at the postsynaptic membrane. The GO terms coalesce around vesicle trafficking, Golgi dynamics, and exocytic delivery, consistent with a core vesicle trafficking/exocytosis function, potentially with neuronal specialization.","confidence":"High","size":15,"edges":41,"triangles":38,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:1903078","count":7},{"id":"GO:0090161","count":7},{"id":"GO:0045022","count":6},{"id":"GO:0034498","count":6}]},{"hash":"53211857316689071","title":"Chromatin remodeling and transcription elongation","description":"The top GO terms cluster around chromatin organization (nucleosome assembly, histone acetylation regulation) and transcription elongation by RNA polymerase II, with related chromatin decondensation, plus some cell-cycle\u2013related terms (microtubule polymerization, budding growth). This suggests a shared role in chromatin structure and transcriptional control during cell division, so the label emphasizes chromatin remodeling and transcription regulation as the core theme.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0006368","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0035041","count":2},{"id":"GO:0015031","count":2}]},{"hash":"1930527556668419261","title":"Cell growth and division with vesicle trafficking","description":"The terms point to core processes of cell cycle progression (mitotic cell cycle, cell division, DNA replication, transcription) and growth signaling (TORC1, GTPase regulation) that also involve extensive vesicle trafficking between ER/Golgi and endosomes. This suggests a cluster coordinating growth, replication, and intracellular transport rather than a single narrow function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0070262","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0051028","count":3}]},{"hash":"2266487689911343476","title":"Translation and Ribosome Biogenesis","description":"The proteins cluster around translation-related processes, including cytoplasmic and mitochondrial translation, ribosomal large subunit assembly, and translational termination, with occasional tRNA aminoacylation; together these terms point to a core role in ribosome-associated protein synthesis across cellular compartments.","confidence":"High","size":15,"edges":85,"triangles":267,"max_degree":14,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0002181","count":4},{"id":"GO:0032543","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0006415","count":3}]},{"hash":"1628020907378768220","title":"Ubiquitin-Proteasome Regulation in Mitosis and DNA Repair","description":"These proteins are strongly enriched for ubiquitin-related and proteasome-focused GO terms (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; free ubiquitin chain polymerization; K63-linked ubiquitination), coupled with mitotic control (G2/M transition, exit from mitosis, chromosome segregation) and DNA damage response (DNA double-strand break processing, nucleotide-excision repair). The pattern suggests a coordinated role in marking substrates for degradation during mitosis and coordinating repair pathways, placing the cluster at the intersection of cell-cycle progression and genome maintenance.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":15},{"id":"GO:0007059","count":15},{"id":"GO:0000086","count":15},{"id":"GO:0070911","count":15},{"id":"GO:0016032","count":15}]},{"hash":"1215778862336140216","title":"Unknown","description":"The GO terms span immune responses (innate and adaptive) and B cell proliferation, signaling (JNK, insulin), chromatin organization, and cytoskeletal/neuronal processes (actin assembly, dendritic spine morphogenesis, excitatory postsynaptic potential). There is no single coherent function linking these terms, so a specific cluster label cannot be justified.","confidence":"","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0006348","count":3},{"id":"GO:0030890","count":3},{"id":"GO:0046328","count":3}]},{"hash":"675569378342682248","title":"Developmental Signaling and Metabolic Regulation","description":"This cluster centers on regulation of signaling pathways (STAT phosphorylation, NF-kappaB activity) and processes tied to development and tissue remodeling (ossification, wound healing, left/right asymmetry) as well as metabolic control (insulin signaling, fat cell differentiation) and growth. The common thread is modulation of signaling that influences growth, differentiation, immune responses, and morphology, rather than a single narrow function.","confidence":"Medium","size":15,"edges":14,"triangles":0,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042511","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0006924","count":3},{"id":"GO:0007565","count":3},{"id":"GO:0046627","count":3}]},{"hash":"1103782871349543399","title":"Oocyte meiosis and chromatin regulation","description":"The strongest signals are meiotic processes (meiotic spindle assembly, oocyte maturation, polar body extrusion) together with chromatin/DNA regulation (DNA-templated transcription, G-quadruplex DNA formation, rDNA heterochromatin formation), suggesting a cluster of proteins involved in meiosis in oocytes and chromatin remodeling/maintenance. Other terms like intracellular protein transport and phospholipid catabolic process appear ancillary and do not define the core theme. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0090306","count":2},{"id":"GO:0071919","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0009395","count":2}]},{"hash":"2304368023140192420","title":"Embryonic morphogenesis and chromatin regulation","description":"The terms point to embryonic cranial skeleton morphogenesis, skin and gonad development, and chromatin modification processes (histone acetylation, DNA methylation). Even with several obsolete terms, the recurring theme is developmental regulation coupled with epigenetic control, suggesting these proteins work together to guide embryogenesis through chromatin-level mechanisms.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0043046","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0043982","count":2}]},{"hash":"1260119953229639445","title":"Developmental cell-cell adhesion and signaling","description":"The cluster centers on cell-cell adhesion (heterophilic, homophilic, and calcium-dependent) and includes development-related processes such as nervous system development, synapse assembly, bone ossification, and lung morphogenesis, with additional immune signaling terms (B cell receptor signaling, innate immune response) that can involve adhesion and communication between cells. This suggests a coherent theme of adhesion-mediated signaling in development, making the label representative.","confidence":"Medium","size":15,"edges":21,"triangles":7,"max_degree":5,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0043931","count":8},{"id":"GO:0007156","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0051965","count":6}]},{"hash":"1152857462741802855","title":"Mitochondrial RNA processing and ATP synthase assembly","description":"This cluster centers on organelle RNA processing and assembly of energy-production complexes, with strong signals for mitochondrial RNA processing, mitochondrial large ribosomal subunit/ATP synthase complex assembly, and cellular respiration. The chloroplast rRNA processing term suggests a broader organelle RNA-processing theme, while folate and lipoate metabolism connect to cofactors needed for energy metabolism, supporting a cohesive function in organelle gene expression and oxidative phosphorylation.","confidence":"Medium","size":15,"edges":22,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033615","count":2},{"id":"GO:0045333","count":1},{"id":"GO:1901259","count":1},{"id":"GO:1902775","count":1},{"id":"GO:0000963","count":1}]},{"hash":"253451792050478966","title":"Calcium signaling in cardiac and skeletal muscle","description":"The cluster centers on calcium-related processes and muscle function: detection of calcium ions, regulation of calcium import, and contraction-related terms (cardiac and skeletal muscle contraction, voltage-gated calcium channel activity, and muscle development). While a few outliers (NLS import, hydrogen peroxide biosynthesis) exist, the dominant theme ties calcium signaling to muscle physiology, especially in cardiac and skeletal contexts.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0005513","count":8},{"id":"GO:0090281","count":8},{"id":"GO:0098735","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0006607","count":7}]},{"hash":"1878071271732303406","title":"Gene Expression and Chromatin Regulation in Development","description":"The top GO terms point to core gene-expression control: translation initiation and reinitiation, transcription, and mRNA processing, alongside chromatin modification signals (histone H3 acetylation and H3-K27 methylation) and processes tied to genome maintenance and cell division (DNA repair, sister chromatid cohesion) and development. Together these terms suggest a cohesive theme of coordinating transcriptional and translational output with chromatin state and cell-cycle\u2013related development, even though the cluster shows no direct interactions. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0008283","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0043966","count":4}]},{"hash":"1580117235334567516","title":"Cardiac and sensory system development","description":"These proteins co-occur with GO terms centered on heart and conduction system development (including regulation of heart rate, sinoatrial node differentiation, and cardiac neural crest contributions to outflow tract morphogenesis) as well as neural/ear development (floor plate, inner ear auditory receptor cell differentiation, vestibular nucleus). While some terms touch broader developmental processes (circadian regulation, skeletal muscle adaptation), the dominant theme is developmental programs shaping cardiac and sensory neural tissues, justifying this label.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0032922","count":15},{"id":"GO:0043503","count":15},{"id":"GO:0003062","count":15},{"id":"GO:0031542","count":15},{"id":"GO:0070368","count":15}]},{"hash":"1053761208804692714","title":"Broad Developmental Differentiation and Signaling","description":"This cluster includes GO terms spanning neuron differentiation (spinal cord, medial motor column), organ morphogenesis (metanephric S-shaped body, phloem, pancreatic D cell development), cell-matrix adhesion, cytoskeletal regulation, endocytic recycling, and hormone signaling (growth hormone receptor, thyroid hormone response), suggesting a general theme of developmental differentiation and intercellular signaling across multiple tissues rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":13,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":11},{"id":"GO:0007160","count":11},{"id":"GO:0030835","count":11},{"id":"GO:0003324","count":11},{"id":"GO:0032458","count":11}]},{"hash":"1470257661504268195","title":"Multilineage Differentiation and Development","description":"The top GO terms cluster around differentiation across multiple lineages (erythrocytes, granulocytes, dendritic cells, mammary epithelium, neurons) and stem cell maintenance, with an additional developmental process (primitive streak formation). This suggests the proteins are involved in broad differentiation programs during development rather than a single, shared pathway, though there is a general theme of transcriptional regulation in development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0044130","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0045648","count":5}]},{"hash":"637024218281986039","title":"Cellular stress response and organelle turnover","description":"Top terms indicate cold/stress response, peroxisome autophagy, organelle pH regulation, and tissue maintenance signals (BMP, stem cell homeostasis), suggesting a theme of cellular homeostasis under stress and during development.","confidence":"Medium","size":15,"edges":60,"triangles":121,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050826","count":3},{"id":"GO:0030242","count":3},{"id":"GO:0006810","count":3},{"id":"GO:0048642","count":2},{"id":"GO:0070236","count":2}]},{"hash":"2013078344753266926","title":"Development and Immune Signaling Pathways","description":"The top GO terms point to multiple signaling pathways (EGFR, Wnt, retinoic acid, interferon, estrogen receptor, angiogenesis) and processes like B cell differentiation and morphogenesis, suggesting a cluster of proteins involved in coordinating signaling during development and immune-related differentiation rather than a single pathway. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060335","count":7},{"id":"GO:0007173","count":6},{"id":"GO:0086098","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0071300","count":6}]},{"hash":"478103826333479298","title":"Diverse substrate transmembrane transporters","description":"Top GO terms indicate transport across membranes for a wide range of substrates (nitrate, galactose, phosphate, potassium, sialic acid, fucose, 4-hydroxyphenylacetate, xenobiotics) and a vesicle-loading function related to neurotransmitters. This suggests a cluster of membrane transport proteins with diverse substrates, including vesicle-associated transport, rather than a single specific pathway. ","confidence":"Medium","size":15,"edges":21,"triangles":5,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":8},{"id":"GO:0098700","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0015757","count":5}]},{"hash":"1009045955907301959","title":"Unknown","description":"Top terms span immune signaling, transcriptional regulation, mRNA processing, cell cycle/spindle assembly, chromatin modification, synapse formation, plant hormone response, and apoptosis, with several obsolete GO terms; there is no cohesive functional theme tying the proteins together.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0070459","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0051225","count":2}]},{"hash":"337703877681338833","title":"Osteoblast differentiation and cranial bone formation","description":"The top GO terms cluster around bone development and osteoblast lineage, including bone development, cranial skeletal system development, osteoblast fate commitment, and positive regulation of canonical Wnt signaling, with supporting signals from retinoic acid response and cell spreading/adhesion processes. Although innate immune signaling appears, the strongest and most coherent theme is osteogenesis and cranial bone formation, aided by Wnt/RA pathways and cellular adhesion dynamics.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060335","count":11},{"id":"GO:0060348","count":11},{"id":"GO:0045087","count":11},{"id":"GO:1904888","count":10},{"id":"GO:0090263","count":10}]},{"hash":"2109032683022199787","title":"Endosome trafficking and signaling regulators","description":"This cluster emphasizes membrane trafficking and signaling processes, including receptor recycling, regulation of endosome size, and synaptic glutamatergic transmission, with Rho-mediated signaling and transcriptional regulation also represented. Together these terms suggest a cohesive theme of coordinating endosomal trafficking with intracellular signaling and gene regulation at membranes and synapses, with ancillary links to angiogenesis.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034968","count":2},{"id":"GO:0001881","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0035249","count":2}]},{"hash":"320423988945169747","title":"Unknown","description":"The terms span ER protein folding, lipid/sphingolipid metabolism, nitrogen metabolism, and tissue-specific differentiation across species, with no single dominant function uniting the proteins. Therefore there is no meaningful label beyond Unknown.","confidence":"","size":15,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":2},{"id":"GO:0035307","count":2},{"id":"GO:0032443","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0032286","count":1}]},{"hash":"257104546577270115","title":"Redox-Linked Metabolic Enzymes","description":"The cluster\u2019s terms point to metabolism across several pathways, with redox-related processes (oxidation-reduction, oxidant detoxification) as a unifying theme, plus diverse catabolic and biosynthetic activities (uracil catabolism, stilbene catabolism, AMP salvage, carbohydrate phosphorylation, menaquinone biosynthesis, nitrogen utilization, proteolysis). Although the GO terms are varied and some are obsolete, the common thread is metabolic and redox-related enzyme function. ","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009097","count":3},{"id":"GO:0006212","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0044209","count":2}]},{"hash":"1983698944830914267","title":"Developmental chromatin modification","description":"The top GO terms cluster around histone acetylation (H4 and H3) and regulation of DNA-templated transcription, with accompanying developmental processes such as imaginal disc formation and sensory organ precursor fate, suggesting proteins that modulate chromatin state to control gene expression during development.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0046529","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0016360","count":3}]},{"hash":"2103304400124802565","title":"Neuroimmune control of inflammation and vascular signaling","description":"The top GO terms cluster around immune/inflammatory regulation (negative TNF production, IL-10 production, chronic inflammatory response), neural signaling (neuropeptide signaling), and vascular control (renin-angiotensin\u2013regulated blood pressure, smooth muscle contraction), plus circadian rhythm regulation. This points to a shared theme of neuroimmune interactions that modulate vascular function and inflammatory tone. Some outliers (retina development, GPCR-EGFR transactivation) may reflect broader signaling cross-talk but do not dominate the cluster. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032720","count":13},{"id":"GO:0007218","count":13},{"id":"GO:0001991","count":12},{"id":"GO:0042752","count":12},{"id":"GO:0072608","count":12}]},{"hash":"1490835173156017030","title":"Cardiovascular development and blood pressure regulation","description":"Top GO terms are dominated by heart development, regulation of systemic arterial blood pressure by circulatory renin-angiotensin, and vascular smooth muscle contraction, pointing to a cardiovascular development/function theme. Additional terms (retina development, circadian rhythm, inflammatory signaling) suggest broader regulatory roles, but the core cluster centers on cardiovascular biology with related developmental and regulatory processes. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":15},{"id":"GO:0042752","count":15},{"id":"GO:0072608","count":15},{"id":"GO:0035625","count":15},{"id":"GO:0060041","count":15}]},{"hash":"1443767784906463755","title":"Inflammation and vascular regulation","description":"The cluster is dominated by inflammatory-related GO terms (inflammatory response, sensory perception of pain, LPS response, interleukin-10 production) alongside vascular processes (blood coagulation, regulation of smooth muscle contraction, vasoconstriction, and regulation of systemic arterial blood pressure by the renin-angiotensin system). This combination points to a coherent theme where immune signaling and inflammatory responses intersect with vascular tone and coagulation, with circadian rhythm modulation indicating broader systemic regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0045986","count":15},{"id":"GO:0045907","count":15},{"id":"GO:0032496","count":15},{"id":"GO:0007596","count":15}]},{"hash":"281648224709130408","title":"Ribosome maturation and DNA replication factors","description":"The cluster\u2019s top GO terms center on ribosome biogenesis (maturation of 5.8S and LSU rRNA) and DNA replication, suggesting proteins involved in nucleolar ribosome assembly and genome duplication. Other terms point to transcriptional regulation, mRNA export, and apoptosis/inflammatory signaling, which may reflect broader nucleic acid metabolism and stress-response roles. Overall, the common thread appears to be nucleic acid\u2013related processing tied to ribosome assembly and DNA replication.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0070940","count":2}]},{"hash":"960824018457822310","title":"Neural development and innate immune signaling","description":"This cluster centers on neural development and connectivity processes\u2014myelination, axonal fasciculation, paranode localization, and synapse assembly\u2014together with innate immune signaling activities such as innate immune response and chemokine production. The co-occurrence of these neural and immune-related terms suggests a theme of neurodevelopment coupled with immune modulation, rather than a single isolated pathway. Some autophagy and PI3K-related terms appear but are less central to the main pattern.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0016239","count":4},{"id":"GO:2001200","count":3},{"id":"GO:0002175","count":3}]},{"hash":"1918341478999850367","title":"Retina GPCR signaling and circadian regulation","description":"The top GO terms cluster around retina development in camera-type eye, neuropeptide signaling, GPCR signaling and ERK cascade activation, and regulation of circadian rhythm, pointing to a signaling-centric function related to ocular tissue and circadian control. Peripheral terms like renin-angiotensin regulation and IL-10 production are less central to this core theme, suggesting a primary focus on retina-associated signaling pathways. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":10},{"id":"GO:0008284","count":10},{"id":"GO:0007218","count":10},{"id":"GO:0008283","count":10},{"id":"GO:0043547","count":10}]},{"hash":"1680615398955104608","title":"Unknown","description":"The GO terms are too heterogeneous to reveal a single cohesive function: heart electrophysiology, lung differentiation, memory/synaptic plasticity, immune signaling, ubiquitination, mRNA processing, and lipid mediator synthesis appear together only loosely. With no network edges and several obsolete terms, there is no clear shared pathway or process to label the cluster meaningfully; hence Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0060487","count":4},{"id":"GO:0007616","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0060291","count":4}]},{"hash":"1042156984844575254","title":"Developmental gene regulation and RNA processing","description":"The terms cluster around gene expression control (mRNA splicing, ribosomal subunit export, RNA polymerase II regulation) together with diverse developmental processes (hair follicle morphogenesis, endocrine system development, left-right patterning, EMT in heart formation, and trophoblast differentiation), suggesting a theme of developmental regulation linked to RNA processing and transcriptional control.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":9},{"id":"GO:0000055","count":9},{"id":"GO:1903026","count":9},{"id":"GO:0032298","count":9},{"id":"GO:0031069","count":8}]},{"hash":"536043125779757515","title":"Muscle membrane repair and neuromuscular signaling","description":"The cluster centers on processes like myoblast fusion and plasma membrane repair\u2014key aspects of muscle development and fiber integrity\u2014along with signals related to Rho-mediated cytoskeletal changes and synaptic transmission. While apoptotic regulation and lipid biosynthesis terms appear, the prominent themes of muscle membrane dynamics and neuronal communication (glutamatergic signaling) point to coordinated muscle growth, repair, and neuromuscular signaling.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0007520","count":9},{"id":"GO:0001778","count":8},{"id":"GO:0031914","count":8},{"id":"GO:0043065","count":8}]},{"hash":"499256507021562729","title":"Skeletal muscle development and actin remodeling","description":"The cluster\u2019s top GO terms cluster around skeletal muscle fiber development, thin filament assembly, and actin cytoskeleton processes (Arp2/3 complex\u2013mediated actin nucleation and actin filament bundle assembly), pointing to a cohesive function in muscle differentiation and actin organization. Less central terms like subtelomeric heterochromatin formation and histone acetylation appear incidental. Overall, the dominant signal supports muscle development linked to actin remodeling.","confidence":"High","size":14,"edges":29,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":8},{"id":"GO:0043982","count":8},{"id":"GO:0034314","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0043981","count":8}]},{"hash":"183296183427209113","title":"Mitotic spindle assembly and microtubule dynamics","description":"The GO terms are dominated by mitotic spindle-related processes (centrosome separation, spindle pole dynamics, microtubule polarity and depolymerization) and plus-end\u2013directed transport along microtubules, indicating a core role in microtubule cytoskeleton regulation during cell division. Some terms also touch on neuronal structural maintenance, reflecting broader microtubule network functions in neurons, but the central theme is spindle organization and microtubule dynamics. Thus, the cluster best reflects Mitotic spindle assembly and microtubule dynamics.","confidence":"High","size":14,"edges":11,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0099607","count":12},{"id":"GO:0007100","count":12},{"id":"GO:0030951","count":12},{"id":"GO:0000073","count":12},{"id":"GO:0072383","count":12}]},{"hash":"1538314237511356605","title":"Plant meiosis and gametogenesis","description":"Top terms point to meiotic recombination and chromosome pairing in plants, including chiasma assembly and double-strand break repair, along with pollen and embryo sac development. While there are general translation and cytoskeletal processes, the strongest signals define plant meiosis and gametogenesis as the cluster\u2019s core function.","confidence":"High","size":14,"edges":47,"triangles":63,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032232","count":2},{"id":"GO:0006414","count":2},{"id":"GO:0071479","count":2},{"id":"GO:1990145","count":2},{"id":"GO:0006302","count":2}]},{"hash":"1733732462525929153","title":"Immune activation and antiviral defense","description":"The cluster centers on immune system functions: innate immune response, T cell activation, B cell proliferation, and cellular responses to viruses and dsRNA, plus defense against bacteria. Regulatory terms (negative regulation of T cell differentiation and Th2 cytokine production) indicate immune modulation. While a coagulation and pregnancy term appear, they likely reflect inflammation-related processes rather than a separate pathway. Overall, this set represents an immune activation module with antiviral components.","confidence":"High","size":14,"edges":59,"triangles":126,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0007565","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0002286","count":2}]},{"hash":"1174616284041415854","title":"Bone and cartilage formation","description":"Based on the GO terms, the strongest connections are to skeletal development processes, including cartilage condensation and intramembranous ossification, along with collagen signaling that mediates extracellular matrix interactions in bone. Other terms point to broader tissue morphogenesis, but the core theme is skeletal tissue formation.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0006367","count":2},{"id":"GO:2000534","count":1},{"id":"GO:0043589","count":1}]},{"hash":"1865586470259649282","title":"Brain development and ER-Golgi transport","description":"The top terms center on brain and spinal cord development and neuron-related processes, alongside COPII vesicle coating/budding and protein transport, pointing to a role in neuronal development that relies on the secretory pathway. Insulin signaling appears but is secondary to the main themes. ","confidence":"Medium","size":14,"edges":25,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0071560","count":2}]},{"hash":"674835424176394883","title":"MAPK-regulated neuronal signaling and brain development","description":"The top GO terms cluster around GPCR signaling and MAPK cascades (ERK/JNK) with brain development, plus related neuronal regulation like apoptosis and migration. Although there are broader terms such as xenobiotic response and chemotaxis, the prevailing theme is neuronal signaling and development driven by GPCR-mediated MAPK regulation, with some associated migration-related processes.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":9},{"id":"GO:0043552","count":9},{"id":"GO:0007420","count":9},{"id":"GO:0031584","count":9},{"id":"GO:0046330","count":9}]},{"hash":"1622961525652384912","title":"Cell Polarity and Cytoskeletal Dynamics","description":"This cluster centers on signaling pathways that regulate actin cytoskeleton remodeling and cell adhesion, including small GTPase signaling, podosome/filopodium assembly, and regulation of cell spreading and polarity. Although it spans EGFR, Wnt, and TCR signaling, these cues converge on cytoskeletal dynamics and cell shape control, forming a coherent theme of motility-associated signaling.","confidence":"High","size":14,"edges":17,"triangles":5,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007173","count":11},{"id":"GO:0007264","count":11},{"id":"GO:0090263","count":10},{"id":"GO:1900026","count":10},{"id":"GO:0050852","count":10}]},{"hash":"740797027821119213","title":"Ribosome biogenesis and translation machinery","description":"Most frequent GO terms cluster around ribosome biogenesis, translation, tRNA processing, and rRNA maturation (e.g., GO:0006412, GO:0042254, GO:0008033, GO:0000462). There are additional RNA processing and surveillance terms, which fit with the broader RNA metabolism associated with ribosome function. Some MAPK signaling terms (JNK/p38) may reflect regulatory cross-talk rather than core function. Overall, the dominant theme is the ribosome assembly and translation machinery.","confidence":"High","size":14,"edges":85,"triangles":307,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046330","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0048025","count":4},{"id":"GO:0008033","count":3}]},{"hash":"1735213734533546877","title":"Immune Development and NF-kB Signaling","description":"The Top Terms heavily point to immune system processes, including T cell and B cell homeostasis, innate immune response, and spleen development, with strong representation of canonical NF-kappaB signaling. These features together suggest a cluster of proteins involved in immune system development and regulation rather than housekeeping functions, despite a few developmental terms like cartilage condensation. Overall, the cluster appears to reflect lymphoid development and NF-kB\u2013mediated signaling.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001502","count":4},{"id":"GO:0043029","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0010572","count":3}]},{"hash":"89776564900567371","title":"Mitotic Cycle with Redox and tRNA Modifications","description":"This cluster is strongly enriched for mitosis-related terms (G2/M transition, M phase, dephosphorylation), suggesting roles in cell cycle control. Also present are redox and transsulfuration processes, indicating coordination between redox state and cell division. The tRNA seleno-modification and wobble thiolation terms imply links to RNA modification or translation during the cell cycle or stress. Some terms (spinal cord development, obsolete enzyme site formation) are less clearly connected, but do not override the dominant mitotic/redox theme.","confidence":"Medium","size":14,"edges":86,"triangles":314,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0019346","count":7},{"id":"GO:0070329","count":7},{"id":"GO:0000087","count":7}]},{"hash":"1928775964403469486","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for rRNA maturation (SSU/LSU/5.8S), ribosomal large subunit assembly and preribosome assembly, plus translation and ribosomal export, indicating proteins involved in ribosome biogenesis and the protein synthesis process.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0000463","count":1},{"id":"GO:0000027","count":1}]},{"hash":"1581200535179031615","title":"Microtubule-driven division and neuron migration","description":"Top GO terms cluster around microtubule nucleation, spindle assembly, cytokinesis, division site positioning, and cytoplasmic microtubule organization, indicating a theme of microtubule dynamics governing cell division. The presence of neuron migration suggests these same cytoskeletal processes also underpin cellular movement in neuronal contexts. The interleukin-4 response term is peripheral and does not define the core function. ","confidence":"Medium","size":14,"edges":45,"triangles":75,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001764","count":8},{"id":"GO:0051301","count":6},{"id":"GO:0043093","count":6},{"id":"GO:0007020","count":6},{"id":"GO:0051256","count":6}]},{"hash":"1082108176492783706","title":"RNA Processing and Splicing Regulation","description":"The top GO terms cluster around post-transcriptional control: mRNA polyadenylation, tail shortening, mRNA export, mRNA modification, and regulation of splicing via the spliceosome, plus ncRNA-mediated gene silencing and stress-related mRNA stability. This points to a coherent theme of RNA processing and regulation after transcription. A couple of outliers (blastocyst formation and viral translation termination-reinitiation) exist but do not dominate the signal.","confidence":"High","size":14,"edges":20,"triangles":5,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":11},{"id":"GO:0010610","count":11},{"id":"GO:0060211","count":10},{"id":"GO:0075525","count":10},{"id":"GO:0006406","count":10}]},{"hash":"1558742568278130881","title":"Antigen Processing and Proteolysis","description":"The top GO terms cluster around immune-related processing, especially antigen processing and presentation via MHC class II, paired with proteolysis including membrane protein proteolysis and autoprocessing. This points to a set of proteins involved in generating and presenting peptide antigens through proteolytic pathways. Other terms like digestion and amyloid-beta metabolism reflect broader proteolytic activity but align with the central theme of processing proteins for immune presentation.","confidence":"Medium","size":14,"edges":19,"triangles":1,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070305","count":3},{"id":"GO:0002803","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0019886","count":3},{"id":"GO:0033619","count":3}]},{"hash":"2046221312633215164","title":"Innate Immune Activation and Inflammation","description":"The cluster is dominated by GO terms tied to innate immune sensing and inflammatory pathways, including TLR7 signaling, NLRP3 inflammasome assembly, and interferon-\u03b1 production, plus responses to triacylated bacterial lipoproteptides. Some terms touch on development processes (bone, angiogenesis) that may reflect remodeling contexts, but the core theme is innate immune activation. ","confidence":"High","size":14,"edges":36,"triangles":24,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":9},{"id":"GO:0060348","count":7},{"id":"GO:0016525","count":7},{"id":"GO:0019800","count":7},{"id":"GO:0007409","count":7}]},{"hash":"1633451306752107840","title":"Transcriptional Regulation and Cell Cycle Signaling","description":"The top GO terms indicate a focus on regulation of DNA-templated transcription and the G2/M transition, with several signaling pathways (Wnt, insulin, integrin) and differentiation terms, suggesting proteins that coordinate gene expression with cell cycle progression and signal transduction. Some terms are peripheral (sperm capacitation, cholesterol biosynthesis), but the core theme is transcriptional control linked to mitotic entry and signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0048240","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090090","count":2},{"id":"GO:0046626","count":2}]},{"hash":"364014870177156179","title":"DNA replication and centrosome cycle","description":"This cluster is dominated by GO terms related to DNA replication, the centrosome cycle, and DNA-templated transcription, indicating a core association with cell cycle progression and replication machinery. Developmental terms like embryonic skeleton morphogenesis and budding growth suggest additional roles in development, while other terms such as hypoxia response and ion transport are likely ancillary or annotation noise. ","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007098","count":7},{"id":"GO:0048701","count":7},{"id":"GO:0010571","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0006813","count":7}]},{"hash":"1128239962897613807","title":"Cardiac GPCR signaling and cell migration","description":"This cluster centers on GPCR signaling pathways (acetylcholine and thrombin receptors) that regulate cardiac muscle contraction and heart development, with cytoskeletal dynamics (Rho signaling, lamellipodium assembly) and cell migration. The mix of heart-related GO terms and motility-related terms points to a theme of GPCR-driven cardiovascular development and cellular movement, with some peripheral neuronal terms.","confidence":"High","size":14,"edges":13,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0070493","count":3}]},{"hash":"144360203719595197","title":"Hexosamine and PPP carbohydrate metabolism","description":"These proteins are enriched for carbohydrate-related processes, including the pentose phosphate shunt (PPP) and its oxidative branch, as well as several amino-sugar pathways (N-acetylneuraminate, N-acetylglucosamine, and glucosamine metabolism) and UDP-N-acetylglucosamine biosynthesis. This pattern suggests a cohesive cluster centered on hexosamine/aminosugar metabolism and the pentose phosphate pathway, with a few calcium-transport terms likely representing secondary roles. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009051","count":3},{"id":"GO:0019262","count":3},{"id":"GO:0005975","count":3},{"id":"GO:0006048","count":3},{"id":"GO:0006098","count":3}]},{"hash":"2135714997965863973","title":"Cocaine-Responsive Dopaminergic Synapse Plasticity","description":"This cluster is dominated by terms tied to dopaminergic synaptic transmission, excitatory postsynaptic potentials, long-term potentiation, and cocaine-related behavioral responses, pointing to cocaine-triggered modulation of dopamine-associated synapses and synaptic plasticity. The additional terms for xenobiotic response, vesicle cycling regulation, and mitochondrial protein import suggest supportive neuronal stress and metabolic components aligned with synaptic function.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0060291","count":3}]},{"hash":"1943445732737118387","title":"Prostaglandin biosynthesis and inflammatory signaling","description":"The dominant GO term is prostaglandin biosynthetic process, and related terms point to inflammatory/immune signaling and stress responses (cell-matrix adhesion, monocyte chemotaxis regulation, estradiol response, starvation, glutathione metabolism, nitric oxide storage). Together these suggest a cluster of proteins involved in lipid mediator (prostaglandin) production and coordinated inflammatory/redox signaling.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":13},{"id":"GO:0071460","count":12},{"id":"GO:0043200","count":12},{"id":"GO:0071638","count":12},{"id":"GO:0042994","count":12}]},{"hash":"1305654427201414259","title":"Adhesion-Driven Signaling and Migration in Development","description":"Proteins are enriched for integrin-mediated signaling, substrate adhesion-dependent spreading, actin filament interactions, and cell migration, alongside developmental processes like heart development and branching morphogenesis. The inclusion of pathways such as Wnt signaling and retinoic acid response suggests a developmental signaling network where adhesion and cytoskeletal remodeling drive morphogenesis. Overall, the cluster reflects adhesion-mediated signaling coordinating movement and organogenesis.","confidence":"High","size":14,"edges":16,"triangles":4,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007229","count":8},{"id":"GO:0034446","count":8},{"id":"GO:0090263","count":7},{"id":"GO:0071300","count":7},{"id":"GO:1904531","count":7}]},{"hash":"63582310725054210","title":"GTPase-regulated vesicle trafficking","description":"This cluster is dominated by small GTPase\u2013mediated signaling and positive regulation of GTPase activity, pointing to control of vesicle trafficking. Supporting terms include synaptic vesicle budding, calcium-dependent exocytosis, Golgi-to-transport vesicle pathways, and lysosomal membrane organization, all tied to membrane dynamics; a few apoptotic-process terms may reflect broader cellular stress responses rather than core cluster function.","confidence":"High","size":14,"edges":86,"triangles":310,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0033028","count":6},{"id":"GO:0090162","count":6}]},{"hash":"1969801014156556387","title":"TGF-\u03b2/SMAD signaling in skeletal development","description":"The cluster is dominated by GO terms for TGF-\u03b2 receptor signaling and SMAD complex assembly, pointing to TGF-\u03b2/SMAD pathway activity. Supporting this, there are multiple terms describing mesoderm formation, chondrocyte differentiation, and embryonic cranial skeleton morphogenesis, indicating a role in skeletal development and lineage specification. Some terms for DNA-templated transcription and sumoylation suggest broader regulatory functions, but the prevailing signal centers on developmental processes tied to TGF-\u03b2/SMAD signaling.","confidence":"High","size":14,"edges":64,"triangles":135,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":7},{"id":"GO:0007179","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0016925","count":5},{"id":"GO:0071276","count":5}]},{"hash":"1819605832829227794","title":"Neural and Eye Development","description":"The top GO terms are dominated by neural development and ocular formation, including spinal cord association neuron differentiation, forebrain and rhombomere development, globus pallidus development, as well as retina and camera-type eye development and embryonic eye morphogenesis. A single term about odontogenesis appears but the prevailing signal ties to neural patterning and eye morphogenesis, suggesting the cluster represents genes involved in neural and eye development programs. ","confidence":"High","size":14,"edges":36,"triangles":36,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":14},{"id":"GO:0044708","count":14},{"id":"GO:1904081","count":14},{"id":"GO:0030900","count":14},{"id":"GO:0043010","count":14}]},{"hash":"959968816458538960","title":"Motor neuron differentiation and axon guidance","description":"Several top GO terms describe motor neuron differentiation and specification in the spinal cord (e.g., spinal cord motor neuron cell fate specification, medial motor column neuron differentiation, visceral motor neuron differentiation) and axon guidance. Although there are broader neural development terms (midbrain development, pituitary gland development), the clustering signal is dominated by motor neuron development and pathfinding, justifying a label focused on motor neuron differentiation and axon guidance.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0048935","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0021527","count":4}]},{"hash":"2176530120164989822","title":"Cardiac development and vascular remodeling with inflammation","description":"This cluster combines cardiac-specific development signals (ventricular trabecula morphogenesis, multicellular organism development) with angiogenesis regulation, cell-matrix adhesion, and hyaluronan biosynthesis, plus inflammatory and mechanical-stimulus responses. Together these terms point to heart development involving vascular remodeling and immune/mechanical signaling.","confidence":"High","size":14,"edges":26,"triangles":12,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0071260","count":9},{"id":"GO:0032496","count":9},{"id":"GO:1903588","count":9},{"id":"GO:0006954","count":9}]},{"hash":"104243079658979206","title":"Neuronal adhesion and synapse assembly","description":"The cluster strongly centers on nervous system development, cell\u2013cell adhesion (both homophilic and heterophilic), and synapse assembly/organization, with links to actin cytoskeleton regulation by cell adhesion and paranodal junction assembly. While there are a few outliers (bone ossification, immune regulation), the dominant signal ties to neural connectivity and synapse formation.","confidence":"High","size":14,"edges":26,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0007156","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0030913","count":5}]},{"hash":"261434102482483990","title":"T Cell Activation and Regulation","description":"GO terms in this cluster point to T cell costimulation, positive regulation of T cell proliferation, gamma-delta T cell activation, and modulation of T cell activation via TCR-MHC interactions, as well as TNF production and immunoglobulin production. While a few terms touch on innate complement activation and ion transport regulation, the dominant theme is adaptive immune signaling and control of T cell responses. High","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0042102","count":3},{"id":"GO:2000649","count":3},{"id":"GO:0002377","count":3}]},{"hash":"1914641753005372047","title":"Nuclear gene expression and RNA processing","description":"Dominant terms center on DNA-templated transcription regulation and transcription itself, plus spliceosomal complex assembly and deubiquitination pathways (K6, K29, K48). This points to nuclear processes governing gene expression and RNA maturation. A few terms (spermatogenesis, dendritic spine morphogenesis) appear peripheral, suggesting some annotation noise. Overall, the cluster reflects nuclear gene expression control and RNA processing.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0006351","count":4},{"id":"GO:1904378","count":4},{"id":"GO:0044313","count":4},{"id":"GO:0035523","count":4}]},{"hash":"453494960451727154","title":"GPCR-GTPase-MAPK Signaling Regulators","description":"These proteins appear to regulate signaling pathways, with GO terms pointing to positive regulation of GTPase activity (Rho family), GPCR signaling (adenylate cyclase activation), and the ERK1/2 MAPK cascade, plus tissue-process terms like heart development and visual perception. The common theme is regulatory signaling rather than structural metabolism, suggesting a GPCR/Rho/MAPK signaling regulator cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0008283","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0035025","count":6}]},{"hash":"1949041222442253998","title":"Embryonic development and tissue differentiation","description":"The top GO terms cluster around developmental patterning and organogenesis (left/right pattern formation, placental and pancreatic development, trophoblast differentiation, endocardial cushion EMT, cartilage morphogenesis, myofibril assembly), indicating a theme of developmental processes and differentiation across tissues. Some terms (mitochondrial complex IV assembly, interferon response) are more general or secondary and do not define the cluster's main function. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030239","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060536","count":1}]},{"hash":"302810144555286227","title":"Innate Immune Cytokine Regulation","description":"The top GO terms cluster around innate immune signaling, including NLRP3 inflammasome assembly, regulation of IL-2 and cytokine production, and defense against protozoa, indicating a coherent theme of inflammatory regulation. Some neural-related terms appear (synaptic assembly at NMJ, glial differentiation), which may reflect neuro-immune interactions, but the dominant signal is innate immune and cytokine regulation.","confidence":"Medium","size":14,"edges":20,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:1900227","count":4},{"id":"GO:1903077","count":4},{"id":"GO:0008582","count":4},{"id":"GO:1900041","count":4}]},{"hash":"2276250356953135228","title":"Cardiovascular development and blood pressure regulation","description":"The prominent GO terms center on cardiovascular functions, especially regulation of systemic arterial blood pressure via the renin-angiotensin system, vascular smooth muscle contraction, and heart development, suggesting a core theme of cardiovascular development and blood pressure control. Additional terms related to circadian regulation and inflammatory signaling appear as secondary connections, which can intersect with cardiovascular physiology but do not redefine the cluster\u2019s primary function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0072608","count":6},{"id":"GO:0035625","count":6},{"id":"GO:0060041","count":6}]},{"hash":"2120532967568905613","title":"Quinone biosynthesis with organic-acid catabolism","description":"Based on the top terms, the core function appears to be quinone biosynthesis (phylloquinone and menaquinone), with accompanying organic-acid and amino-acid catabolic pathways, suggesting a metabolic module rooted in quinone production and broader microbial metabolism. Additional terms like antibiotic biosynthesis and xenobiotic response imply broader secondary metabolism and detoxification capabilities, but quinone biosynthesis is the strongest signal.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0002098","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0017000","count":2}]},{"hash":"205924173660769729","title":"Unknown","description":"The top GO terms span highly diverse processes across different organisms (plant chlorophyll and stilbene catabolism, beta-ketoadipate and prostaglandin catabolic pathways, hypoxia response, plant development, brain development, and even protein demethylation). There is no single coherent function or pathway tying these proteins together, making a confident, specific label inappropriate. Therefore, Unknown with no confidence.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":6},{"id":"GO:0098869","count":4},{"id":"GO:0015996","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0021762","count":4}]},{"hash":"78382686209387100","title":"Cardiovascular and Endoderm Development","description":"The GO terms include cardiac muscle cell differentiation, pharyngeal arch artery morphogenesis, and endoderm development, pointing to heart/vasculature formation and germ layer patterning; other terms like fat cell differentiation and response to vitamin D suggest broader developmental signals but the main theme appears to be cardiovascular/endoderm development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0009409","count":2},{"id":"GO:0045444","count":2}]},{"hash":"2214800112831984328","title":"Ubiquitin-Proteasome Proteolysis","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes and protein polyubiquitination, including SCF-dependent proteasomal degradation, indicating a cluster centered on the ubiquitin-proteasome system. Some terms on circadian regulation and synapse assembly appear but do not override the core proteolysis theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0000209","count":4},{"id":"GO:0042752","count":3},{"id":"GO:0060386","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1528439277337335490","title":"Neuronal synaptic signaling and memory","description":"The terms converge on neural communication: ion channels (Na/K), GABA signaling, excitatory postsynaptic potentials, vesicle fusion regulation, and memory/behavior terms (short-term memory, conditioned taste aversion), pointing to synaptic transmission and memory processes in neurons.","confidence":"High","size":14,"edges":18,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":14},{"id":"GO:0007214","count":13},{"id":"GO:0001661","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0060079","count":13}]},{"hash":"2290925283907295924","title":"Plant cell wall polysaccharide biosynthesis","description":"The top GO terms point to synthesis of plant cell wall components such as glucuronoxylan and homogalacturonan, mucilage production, and plant-type secondary cell wall biogenesis, along with related glycosylation processes (O-linked glycosylation via GalNAc and mannose). This suggests a cohesive theme of plant cell wall biosynthesis and polysaccharide assembly, with glycosylation acting in concert with wall biochemistry. A distractor term like skeletal muscle regeneration appears irrelevant to this plant-focused cluster. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0006012","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0010417","count":2}]},{"hash":"423972999159806863","title":"Bacterial DNA Repair and Replication","description":"Based on top GO terms, the cluster is enriched for DNA maintenance: base-excision repair, DNA repair, DNA alkylation repair, and DNA-templated DNA replication, which point to genome maintenance in bacteria. There are a couple of cell-wall related terms (teichoic acid biosynthesis, cell wall organization) that likely reflect co-occurring functions or annotation noise, but the dominant signal ties to DNA repair and replication.","confidence":"Medium","size":14,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":4},{"id":"GO:0019350","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0006307","count":2},{"id":"GO:0010606","count":2}]},{"hash":"2087311715513703967","title":"Cardiovascular development and regulation with immune signaling","description":"The top GO terms cluster around heart development, regulation of systemic arterial blood pressure, vascular smooth muscle contraction, and circadian rhythm, with immune-related processes like IL-10 production and neutrophil activity also present. Together these suggest a coherent theme of cardiovascular development and function that is modulated by immune signaling, with some ancillary links to circadian and broader systemic regulation (retina development and osmotic stress response providing supporting context).","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":14},{"id":"GO:0042752","count":14},{"id":"GO:0072608","count":14},{"id":"GO:0035625","count":14},{"id":"GO:0060041","count":14}]},{"hash":"939594911844408639","title":"Neuronal actin remodeling and spine morphogenesis","description":"The terms cluster around actin cytoskeleton remodeling (barbed-end capping, filament/bundle and filopodium/ruffle assembly) and neuronal spine morphogenesis (dendritic spine morphogenesis), with Rac signaling linking these processes and a note on spinal cord development, suggesting the proteins collectively drive actin-driven neuronal structural changes and spine formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":3},{"id":"GO:0021510","count":3},{"id":"GO:1900029","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0016601","count":2}]},{"hash":"524902104826768564","title":"GPCR signaling in pain and cardiovascular regulation","description":"The top GO terms point to G protein-coupled receptor signaling and its downstream effects, including GPCR internalization, adenylate cyclase activation, dopamine receptor signaling, prostaglandin response, and impacts on smooth muscle function, blood pressure regulation, and circadian rhythm. This suggests a cohesive theme of GPCR-mediated signaling coordinating pain perception with autonomic cardiovascular regulation, with circadian modulation as a broader context. Some terms are broader (e.g., cell proliferation) but do not override the shared GPCR-centric theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0002031","count":6},{"id":"GO:0007190","count":6},{"id":"GO:0051482","count":6},{"id":"GO:0045986","count":6}]},{"hash":"2134238779699137394","title":"ER and Nuclear Envelope Organization","description":"Most top GO terms describe endoplasmic reticulum processes (inheritance, tubular network organization, ER stress response, ER-dependent peroxisome organization) and nuclear envelope activities (nuclear pore complex assembly, mitotic nuclear membrane reassembly), suggesting a coherent ER/nuclear envelope biology cluster. A couple terms refer to taste perception and abscisic acid response, likely non-specific annotations or cross-species noise, but they don\u2019t dominate the cluster. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048309","count":2},{"id":"GO:0050913","count":2},{"id":"GO:0050916","count":2},{"id":"GO:0071786","count":2},{"id":"GO:0032581","count":2}]},{"hash":"2156225781352862939","title":"Cardiovascular signaling and telomere regulation","description":"The top GO terms are dominated by cardiovascular-related processes such as SA node cell action potential regulation, SA node cell communication with atrial cardiac muscle, and endothelial cell proliferation involved in angiogenesis, suggesting a cardiovascular signaling/remodeling theme. There are also telomere-related terms (telomere maintenance, telomere capping, and chromatid cohesion) that hint at a complementary telomere-regulation aspect. This combination points to a cluster centered on heart/vascular signaling with an ancillary telomere regulation component.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904908","count":3},{"id":"GO:0098907","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0050966","count":3},{"id":"GO:0016477","count":3}]},{"hash":"1829770961559517861","title":"Synaptic vesicle trafficking and autophagy","description":"The top GO terms point to vesicle trafficking and fusion processes (synaptic vesicle docking, neurotransmitter secretion, receptor localization to the synapse, intracellular transport) as well as autophagy-related steps (cytoplasm-to-vacuole targeting, autophagosome maturation, endosome trafficking). This coherence suggests a cluster focused on coordinated vesicle movement and turnover, spanning synaptic/secretion contexts and autophagic pathways. Therefore, a label emphasizing vesicle trafficking with autophagy captures the shared function.","confidence":"High","size":13,"edges":26,"triangles":8,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0032258","count":4},{"id":"GO:1904050","count":4},{"id":"GO:1902685","count":4},{"id":"GO:0045022","count":4},{"id":"GO:0097352","count":4}]},{"hash":"2228333932624432681","title":"Circadian-regulated Development and Metabolism","description":"The set includes circadian rhythm regulation terms (positive regulation of circadian rhythm; cellular response to circadian signals) linked with hormonal and developmental processes (retinoic acid and estrogen responses, eye morphogenesis, adipogenesis, vestibular reflex) and metabolism (bile acid metabolism). This suggests a theme of circadian control coordinating development and metabolic/hormonal signaling, rather than a single narrow pathway. ","confidence":"Medium","size":13,"edges":24,"triangles":11,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":11},{"id":"GO:0032922","count":7},{"id":"GO:0008206","count":7},{"id":"GO:0060005","count":7},{"id":"GO:0071391","count":7}]},{"hash":"1219596359720230985","title":"Skeletal muscle fiber formation and actin assembly","description":"The cluster shows strong enrichment for skeletal muscle-specific processes such as skeletal muscle fiber adaptation, thin filament assembly, and actin filament bundle assembly, indicating a cohesive focus on muscle development and cytoskeletal remodeling. Other terms like mesenchyme migration and gene expression regulation are broader developmental signals but do not outweigh the muscle/actin theme. Overall, the dominant muscle/actin signals justify this label.","confidence":"High","size":13,"edges":68,"triangles":199,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043503","count":6},{"id":"GO:0030240","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0010628","count":6},{"id":"GO:0051017","count":6}]},{"hash":"2256858702689078037","title":"Neuronal Synaptic Signaling and Plasticity","description":"The top GO terms are dominated by neuronal communication and plasticity (glutamatergic transmission, long-term potentiation, and regulation of synaptic plasticity), with supporting notes on cell fate (apoptosis regulation) and differentiation (myoblast fusion). This suggests a cluster centered on neural signaling and its regulation, with related roles in cell survival and differentiation. The plant-specific term (abscisic acid signaling) appears as annotation noise within a mixed set, not changing the overall theme.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":8},{"id":"GO:0060963","count":8},{"id":"GO:0031914","count":8},{"id":"GO:0035249","count":8},{"id":"GO:0090153","count":8}]},{"hash":"352196165092807373","title":"Dopamine/Adrenergic GPCR Signaling in Retina and Heart","description":"This cluster is enriched for GPCR signaling terms, notably dopamine receptor signaling and adrenergic receptor signaling, coupled to cAMP and PLC pathways, and supported by positive regulation of GTPase activity and PI biosynthesis. Tissue-specific terms include heart development, retina development, and phototransduction, suggesting a shared signaling network active in retinal and cardiac contexts.","confidence":"High","size":13,"edges":37,"triangles":46,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":13},{"id":"GO:0007507","count":12},{"id":"GO:0007191","count":12},{"id":"GO:0043950","count":12},{"id":"GO:0010513","count":12}]},{"hash":"1328770707802236403","title":"Nuclear Transport and RNA Processing","description":"The top terms cluster around nuclear import/export and RNA processing activities: ribosomal large subunit export, mRNA export, and NLS-dependent protein import. While a few terms are less directly related (desumoylation regulation, GTPase activity, xenobiotic response, and a couple cell-cycle or differentiation terms), the dominant signal is coordinated nuclear trafficking and RNA handling.","confidence":"Medium","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":5},{"id":"GO:0000060","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0043547","count":4}]},{"hash":"461209430325210122","title":"Unknown","description":"The top terms span several unrelated processes (metabolic/growth signaling via SREBP and TORC1, translation initiation/reinitiation, hypoxia response, DNA repair, apoptosis, and forebrain development), with no clear single function tying them together and no edges connecting proteins, so a cohesive label isn\u2019t identifiable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0035948","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0001731","count":3}]},{"hash":"812442341716594663","title":"Vertebrate neural development and embryogenesis","description":"The prevailing GO terms cluster around neural development (brain development, forebrain development, neural tube closure) and broader embryonic morphogenesis (skin development, skeletal morphogenesis, multicellular organism development), with transcriptional regulation and apoptosis modulation also represented. An immune-defense term appears but is less central to the core theme. Overall, the cluster seems to represent vertebrate neural development during embryogenesis.","confidence":"High","size":13,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0007420","count":5},{"id":"GO:0048705","count":5},{"id":"GO:0001843","count":5}]},{"hash":"1658750188902822295","title":"Actin cytoskeleton dynamics and morphogenesis","description":"This cluster is defined by multiple actin-related GO terms: actin cytoskeleton organization, nucleation, polymerization, and pointed-end capping, along with dendritic spine morphogenesis, and links to skeletal muscle thin filament assembly and megakaryocyte development. The combination suggests a cohesive theme centered on actin remodeling driving cell shape changes and morphogenesis, with supporting roles in signaling and membrane remodeling.","confidence":"High","size":13,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051694","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0045010","count":3},{"id":"GO:0030041","count":3}]},{"hash":"935144482163146205","title":"Myoblast fusion and cytoskeletal remodeling","description":"This cluster is driven by signals for muscle cell fusion and cytoskeletal dynamics: positive regulation of myoblast fusion, lamellipodium assembly, integrin activation, GTPase activation, and PI3K/AKT signaling, all pointing to muscle development and cell motility. Translation-related terms are present but appear less central to the main theme.","confidence":"Medium","size":13,"edges":22,"triangles":6,"max_degree":5,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0007049","count":3},{"id":"GO:1901741","count":3},{"id":"GO:0008344","count":3}]},{"hash":"1521042683998344364","title":"Gene Expression and Cell Cycle Control","description":"This cluster centers on transcription and translation initiation/regulation (DNA-templated transcription; formation of translation preinitiation complex; translation reinitiation), along with mRNA transport and chromatin/chromosome-related processes (chromatin assembly; centrosome cycle; TORC1 signaling; GTPase regulation). Together these terms point to coordinated control of gene expression with cell growth and division, rather than a single specific pathway. Neural tube closure appears developmentally contextual but does not dominate the theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0070262","count":2}]},{"hash":"698614104660635849","title":"Neuronal synaptic plasticity and signaling","description":"The GO terms cluster around synaptic plasticity (long-term potentiation, regulation of neuronal synaptic plasticity), excitatory transmission (EPSP), calcium-channel regulation, and astrocyte activation, all pointing to neuronal communication and memory-related processes. While a few terms (e.g., heart-rate regulation) are peripheral, the dominant theme is neuronal signaling and plasticity.","confidence":"High","size":13,"edges":16,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":6},{"id":"GO:1901387","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0048143","count":5},{"id":"GO:0002027","count":5}]},{"hash":"815887641445586631","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"The cluster is dominated by ubiquitination and proteasome-related terms (K11- and K63-linked ubiquitination, SCF-dependent proteasomal degradation, ubiquitin chain polymerization) alongside cell-cycle processes (G2/M transition, mitotic cell cycle) and DNA double-strand break processing, with additional hints toward embryonic development. This points to a group of proteins that tag substrates for degradation to regulate mitosis and genome maintenance, including components of the ubiquitin-proteasome system and its regulators. Confidence: High","confidence":"","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":13},{"id":"GO:0000086","count":13},{"id":"GO:0001701","count":13},{"id":"GO:0031146","count":13},{"id":"GO:0000278","count":13}]},{"hash":"2293365806094451143","title":"Embryonic morphogenesis and organogenesis","description":"The top GO terms point to broad developmental and morphogenetic roles across skeletal, neural, vascular, and cardiac tissues (skeletal system morphogenesis, neural tube closure, forebrain development, vasculogenesis, heart field cardioblast proliferation), complemented by transcription and cell division processes (DNA-templated transcription, mitotic spindle assembly, cell population proliferation). This combination suggests proteins involved in embryonic development and organ formation rather than a single pathway.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048705","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0043547","count":3}]},{"hash":"2179572590867308863","title":"Motile cilium assembly and movement","description":"The strongest shared function in the top terms is ciliogenesis and motility: axoneme assembly, motile cilium assembly, and cilium movement involved in cell motility are all present, indicating a cohesive theme of ciliary biogenesis and function. Other terms like hair follicle morphogenesis and TGF-beta signaling may relate to ciliary signaling roles in skin development, but the dominant pattern centers on ciliogenesis and movement.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0030511","count":2},{"id":"GO:0071318","count":2},{"id":"GO:0031069","count":2},{"id":"GO:1903026","count":2}]},{"hash":"83353852542379078","title":"Secretory Trafficking and Vesicle Transport","description":"This cluster centers on intracellular vesicle trafficking and secretion, with multiple terms describing ER-Golgi and Golgi-to-plasma-membrane transport, retrograde endosome-to-Golgi routing, and receptor recycling. Additional terms for mucus secretion and NK cell degranulation point to secretory granule function, while regulation of intracellular transport and vacuolar targeting supports a cohesive trafficking theme.","confidence":"High","size":13,"edges":18,"triangles":6,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":3},{"id":"GO:0042147","count":3},{"id":"GO:1900483","count":3},{"id":"GO:0043320","count":3},{"id":"GO:0070254","count":3}]},{"hash":"2115193862962241121","title":"Chromatin remodeling and histone modification","description":"This cluster shows enrichment for chromatin-level regulation, including chromatin remodeling, histone exchange, and various histone modifications (acetylation and methylation/dimethylation). These processes reflect epigenetic control of transcription and development, aligning with terms related to neural development and transcription regulation. Therefore, the label emphasizes epigenetic chromatin dynamics as the core theme.","confidence":"High","size":13,"edges":20,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1900051","count":2},{"id":"GO:0021915","count":2},{"id":"GO:1905524","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0018076","count":2}]},{"hash":"638665857150895435","title":"Negative Regulation of Signaling Pathways","description":"The top GO terms cluster around downregulation of signaling cascades, including T cell receptor signaling, ERK/MAPK, PI3K-AKT, and JAK-STAT pathways, plus peptidyl-tyrosine dephosphorylation. This pattern suggests proteins that negatively regulate cellular signaling, possibly via phosphatase activity or inhibitory interactions. The explicit term about symbiont-mediated suppression of host signaling reinforces a theme of immune/signal dampening, even though a couple of unrelated terms appear in the list. ","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":13},{"id":"GO:0070373","count":13},{"id":"GO:0000200","count":13},{"id":"GO:0098783","count":10},{"id":"GO:0051895","count":10}]},{"hash":"1322915109576664668","title":"Neural development and vision signaling","description":"Based on the strongest GO terms, the cluster is enriched for neural development and sensory/vision-related processes (visual perception, presynapse assembly, and sensory neuron axon guidance), suggesting a core theme around neural development and vision signaling. Some terms related to cell cycle and obsolete metabolic processes add noise, but the dominant signal points to neural/sensory functions.","confidence":"Medium","size":13,"edges":69,"triangles":211,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0019236","count":11},{"id":"GO:0050709","count":11},{"id":"GO:0010224","count":11}]},{"hash":"1618747732094375392","title":"Vertebrate Eye and Neural Development","description":"The top GO terms cluster around neural and ocular development in vertebrates: retina development, camera-type eye development, embryonic eye morphogenesis, forebrain and spinal cord neuron differentiation, and hindbrain patterning (rhombomere). These converge on a coherent theme of brain/eye formation, with a minor outlier in odontogenesis likely reflecting shared craniofacial developmental pathways rather than a core function of the cluster.","confidence":"High","size":13,"edges":14,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":13},{"id":"GO:0044708","count":13},{"id":"GO:1904081","count":13},{"id":"GO:0030900","count":13},{"id":"GO:0043010","count":13}]},{"hash":"2018195362508115403","title":"Ribosome Assembly and rRNA Maturation","description":"This cluster centers on ribosome biogenesis: multiple GO terms describe maturation of SSU- and LSU-rRNA, 5.8S rRNA, and overall ribosomal large subunit biogenesis, plus protein homooligomerization which fits ribosomal protein assembly. While there are ancillary processes like DNA-templated transcription and developmental or stress responses, the dominant signals point to ribosome production and maturation.","confidence":"High","size":13,"edges":50,"triangles":83,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0008284","count":3}]},{"hash":"902634721543005240","title":"Glycosylation and Glycosphingolipid Biosynthesis","description":"The top GO terms cluster around carbohydrate metabolism, glycosylation (galactosylation) and glycosphingolipid biosynthesis, suggesting a common role in modifying cell surface glycoconjugates and membrane lipids. Such modifications can influence membrane trafficking, protein secretion, glucose transport, and even neural differentiation processes like cerebellar granule cell development, making glycan/lipid biosynthesis the most coherent theme for this cluster.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0033580","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0030259","count":2},{"id":"GO:2000534","count":1}]},{"hash":"764185087709438261","title":"TGF-\u03b2\u2013driven differentiation and signaling","description":"This cluster is enriched for transforming growth factor beta signaling and tissue differentiation terms (lens fiber cell differentiation, seminiferous tubule development), alongside transcriptional regulation and cytoskeletal dynamics (DNA-templated transcription, actin filament capping, GTPase regulation, phosphorylation). The overall pattern points to signaling pathways guiding developmental differentiation and associated gene expression and cytoskeletal remodeling.","confidence":"Medium","size":13,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0070306","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0051016","count":6},{"id":"GO:0072520","count":6}]},{"hash":"1804609032829311382","title":"ECM and vascular development","description":"This cluster is driven by GO terms tied to extracellular matrix organization and vascular-related development (blood vessel maturation, lung and kidney development), pointing to roles in tissue remodeling and angiogenesis. Receptor clustering and regulation of signaling are consistent with matrix-associated signaling, while transport and minor immune-related terms are ancillary. Overall, the prominent themes are ECM remodeling and vascular/organ development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0043113","count":5},{"id":"GO:0001970","count":5},{"id":"GO:0090281","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0010751","count":5}]},{"hash":"2047365715334933308","title":"Fatty acid metabolism and transport","description":"The cluster is dominated by GO terms centered on fatty acid metabolism across chain lengths (medium-, long-, very long-chain) and related transport/import, plus associated acyl-CoA metabolism. This suggests a cohesive lipid-processing module, with strong signals for fatty acid catabolism and cellular transport. A few outlier terms (seed coat development, siderophore biosynthesis) appear less relevant to the core function but do not overshadow the main lipid-centric theme.","confidence":"High","size":13,"edges":73,"triangles":237,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008206","count":10},{"id":"GO:0001579","count":10},{"id":"GO:0010214","count":10},{"id":"GO:0019427","count":10},{"id":"GO:0019290","count":10}]},{"hash":"2296765928053198641","title":"Vascular Remodeling and Coagulation","description":"The top GO terms center on coagulation, fibrinolysis, angiogenesis, tissue remodeling, and complement activation, which together point to a vascular remodeling/hemostasis theme. Some development- or transcription-related terms appear peripherally, but the core cluster seems anchored in angiogenesis and coagulation processes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0045944","count":5},{"id":"GO:0055123","count":5},{"id":"GO:0031639","count":5}]},{"hash":"1161029260499232511","title":"Multi-tissue development and differentiation","description":"This cluster's top GO terms span brain, bone, kidney development, immune differentiation, cell adhesion, polarity, and protein localization, all pointing to broad roles in developmental processes rather than a single pathway. The shared theme is coordinated development and tissue differentiation across diverse lineages.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0002315","count":6},{"id":"GO:0045176","count":6},{"id":"GO:0090002","count":5},{"id":"GO:2000114","count":5},{"id":"GO:0007420","count":5}]},{"hash":"2225695610979524388","title":"Steroid Hormone Development and Regulation","description":"These proteins show enrichment for endocrine development and hormone-responsive transcription, with Leydig cell differentiation, estrogen stimulus response, and mammary gland alveolus development pointing to steroid hormone signaling. The presence of circadian regulation of gene expression supports rhythmic control of hormone pathways, while other terms reflect broader developmental or stress-related processes; overall, the link is plausible but not exclusive, giving a Medium confidence. ","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0033327","count":3},{"id":"GO:0060749","count":3},{"id":"GO:0032922","count":2}]},{"hash":"2239921820898827552","title":"Developmental signaling and epigenetic regulation","description":"The set is enriched for Wnt signaling (GO:0016055) alongside several epigenetic-related terms (DNA methylation in gene expression and gamete generation, heterochromatin formation, epigenetic programming). This points to a theme of development tied to regulation of gene expression through chromatin and methylation. Other terms like biomineral tissue development fit the developmental angle, while phytochelatin biosynthesis and proteolysis are ancillary. The lack of interactions suggests these proteins may participate in diverse contexts but share a common focus on developmental signaling and epigenetic control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0030194","count":3},{"id":"GO:0031214","count":3},{"id":"GO:0046938","count":2}]},{"hash":"204582156055948501","title":"Plant metabolism and development","description":"The GO terms span several plant-specific metabolic processes (stilbene, alkaloid, strigolactone, uracil, triglyceride catabolism) plus a developmental process (secondary shoot formation). This mix suggests proteins involved broadly in plant metabolism with some developmental regulation, rather than a single tight pathway, justifying a general label for a plant-focused metabolic cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":4},{"id":"GO:0010223","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0019433","count":4}]},{"hash":"780105831811033948","title":"Developmental morphogenesis across tissues","description":"The top terms all point to varied developmental and morphogenetic processes across multiple tissues (craniofacial/roof of mouth development, left-right patterning, EMT in heart cushion, hair follicle morphogenesis, mesoderm and cartilage formation, pancreatic cell development, trophoblast differentiation). Their common theme is broad embryonic development and tissue morphogenesis rather than a single pathway, so a label emphasizing developmental morphogenesis across tissues fits best.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0010957","count":5}]},{"hash":"858391400918929793","title":"Innate and adaptive immune activation","description":"The GO terms reveal both innate immune processes (phagocytosis, complement activation, innate immune response) and adaptive signaling (B cell receptor signaling, B cell activation, dendritic cell differentiation) along with cell adhesion. This suggests a cohesive cluster of immune activation genes spanning innate and adaptive responses.","confidence":"High","size":13,"edges":14,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0043031","count":5},{"id":"GO:0050871","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0045087","count":4}]},{"hash":"1182426213699519930","title":"Pro-angiogenic PI3K-AKT-ERK signaling","description":"This cluster is enriched for terms that promote angiogenesis and endothelial cell behaviors through PI3K/AKT and ERK pathways, including positive regulation of PI3K signaling, AKT activation, ERK cascades, tyrosine phosphorylation, and VEGF/PDGF receptor\u2013driven angiogenic signaling.","confidence":"High","size":13,"edges":69,"triangles":200,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0032148","count":3},{"id":"GO:0043536","count":3}]},{"hash":"1987077849272879127","title":"Neural development and myelination","description":"The dominant terms point to neural development processes: axonal fasciculation, synapse assembly, and myelination, along with peripheral nervous system development and otolith morphogenesis, suggesting a cohesive role in neuronal formation and maturation. A few immune-related terms appear but are less represented and do not define the cluster. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007413","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0032474","count":4}]},{"hash":"832224902354321308","title":"CNS Myelination Regulation","description":"The strongest signals in the top GO terms are about myelination and CNS maintenance (CNS myelination, CNS myelin maintenance, positive regulation of myelination, regulation of myelination), suggesting the cluster centers on myelination-related processes in the nervous system. Additional terms reflect broader regulatory and stress-response roles (e.g., negative regulation of protein kinase activity, transcription regulation, response to heat), but they appear secondary to the core myelination theme.","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0009408","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0031643","count":3},{"id":"GO:0031285","count":3}]},{"hash":"588473994483490015","title":"Unknown","description":"The set includes keratinization, mRNA processing, telomere maintenance, SA node signaling, pain mechanism, cell migration, and endothelial sprouting; these represent distinct biological themes with no dominant shared function, so there is no coherent label beyond Unknown.","confidence":"","size":13,"edges":32,"triangles":22,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":6},{"id":"GO:0006397","count":3},{"id":"GO:1904908","count":2},{"id":"GO:0098907","count":2},{"id":"GO:1904355","count":2}]},{"hash":"108491169911901798","title":"Mitochondrial metabolism and translation","description":"The cluster centers on protein synthesis (translation and tRNA wobble modification) alongside mitochondrial energy processes (mitochondrial electron transport, ubiquinone biosynthesis) and nucleotide biosynthesis (UTP/CTP), with a growth-related term also present. Some outliers (cerebral cortex migration, obsolete ciliary signaling) likely reflect annotation noise. Overall, the dominant signal ties mitochondria-driven metabolism to peptide synthesis and nucleotide production.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0006744","count":2}]},{"hash":"2300677877731535683","title":"Organelle biogenesis and membrane trafficking","description":"The GO terms cluster around assembly and organization of organelles (mitochondrial complex IV assembly, ER inheritance, ER tubular network organization, peroxisome organization, nuclear pore complex assembly, mitotic nuclear membrane reassembly) and membrane trafficking (protein transport into membrane rafts), with lipoprotein metabolism as a related lipid-handling facet; a couple of taste perception terms may be incidental. This supports a label focused on organelle biogenesis and intracellular transport.","confidence":"Medium","size":13,"edges":11,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0042157","count":2},{"id":"GO:0048309","count":1},{"id":"GO:0050913","count":1},{"id":"GO:0050916","count":1}]},{"hash":"139482095047193658","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitin-mediated proteolysis, including ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein degradation, polyubiquitination, and autoubiquitination. These collectively point to the ubiquitin-proteasome system as the unifying theme. A few other terms (developmental and stress-response related) are present but appear ancillary to the core proteolytic function.","confidence":"High","size":13,"edges":13,"triangles":5,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0031146","count":6},{"id":"GO:1903378","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0021678","count":5}]},{"hash":"161336400056706969","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045600","count":3},{"id":"GO:0018146","count":2},{"id":"GO:0006478","count":2},{"id":"GO:0050427","count":2},{"id":"GO:0030573","count":2}]},{"hash":"1015111388573176632","title":"Cardiovascular regulation and inflammation","description":"This cluster\u2019s top GO terms center on cardiovascular control (blood pressure regulation by renin-angiotensin, vascular smooth muscle contraction, heart development) and inflammatory signaling (IL-10 production, chronic inflammatory response, neutrophil-mediated killing), with additional links to circadian rhythm and some development pathways. The common thread appears to be proteins coordinating cardiovascular function with immune/inflammatory signaling and circadian regulation, rather than a single specific process.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":11},{"id":"GO:0042752","count":11},{"id":"GO:0072608","count":11},{"id":"GO:0035625","count":11},{"id":"GO:0060041","count":11}]},{"hash":"1468325748854562831","title":"Neurovascular development and immune signaling","description":"Enrichment spans vascular development (angiogenesis, BMP signaling), neural development (axon guidance, trigeminal nerve development), and immune processes (MHC I antigen presentation, dendritic cell differentiation, complement activation). The co-occurrence suggests a functional cluster of proteins mediating neurovascular patterning and immune crosstalk during development, rather than a single isolated pathway.","confidence":"Medium","size":13,"edges":69,"triangles":200,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035479","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0006958","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0045765","count":3}]},{"hash":"315881703672887875","title":"Unknown","description":"The top GO terms span ribosomal export, telomere maintenance and capping, SA node signaling, angiogenesis, mechanosensory pain detection, cell migration, brown fat differentiation, and NF-kappaB regulation. This broad mix shows no single cohesive biological function or pathway tying all proteins together, so there isn\u2019t a clear, specific label to assign.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:1904908","count":2},{"id":"GO:0098907","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0050966","count":2}]},{"hash":"632900017428387973","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0090051","count":2},{"id":"GO:0097498","count":2}]},{"hash":"526375304776598505","title":"Plant defense and secondary metabolism","description":"These terms cluster around plant defense and metabolism: antimicrobial/defense compounds (antibiotic biosynthesis, stilbene catabolism), detoxification, pigment turnover (chlorophyll catabolism), and development (secondary shoot formation). The mix suggests a plant-centric theme of defense-related secondary metabolism and related growth processes, rather than a single cohesive molecular function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0015996","count":4},{"id":"GO:0000902","count":3}]},{"hash":"328783170425463143","title":"Drosophila oogenesis and meiotic cytoskeleton","description":"The GO terms cluster around oocyte development, karyosome formation, germarium-derived fate, pole plasm RNA localization, polar body extrusion, and cytoskeletal processes like formin-nucleated actin cables and cleavage furrow formation, which together reflect germline development and meiosis in oocytes. Some terms related to xenobiotic or transcription regulation appear peripheral but do not define the core function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030717","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0007294","count":2}]},{"hash":"1561763744313648530","title":"Developmental signaling and membrane trafficking","description":"The cluster centers on signaling (EGFR pathway and small GTPases) and membrane trafficking (Golgi to plasma membrane transport), with several development-related terms (kidney development, neural tube patterning, photoreceptor development) and epithelial organization (bicellular tight junction assembly). This suggests a cohesive theme of signaling and membrane dynamics coordinating development and tissue organization, with auxiliary links to autophagy-related localization and metal homeostasis.","confidence":"Medium","size":12,"edges":25,"triangles":17,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007173","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0043001","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0034497","count":3}]},{"hash":"376300629798640794","title":"Rho-GTPase\u2013Mediated Development","description":"This cluster is characterized by strong enrichment for developmental processes across several organs (heart, brain, nervous system, skeletal system) and growth regulation, combined with terms tied to Rho family GTPase signaling and regulation of exocytosis. The overlap of structural development terms with Rho-GTPase\u2013driven signaling suggests a coherent theme where Rho pathways coordinate morphogenesis and tissue differentiation, with exocytotic regulation supporting cellular remodeling during development.","confidence":"High","size":12,"edges":62,"triangles":182,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0045956","count":12},{"id":"GO:0007266","count":12},{"id":"GO:0007399","count":12},{"id":"GO:0001501","count":12}]},{"hash":"426429879366729392","title":"Microtubule dynamics and spindle organization","description":"The top GO terms cluster strongly around microtubule cytoskeleton functions: kinetochore\u2013microtubule attachments, centrosome separation, and maintenance of microtubule polarity, plus-end\u2013directed transport, and depolymerization of cytoplasmic and axonemal microtubules. Neuron-related terms point to microtubule roles in neuronal structure and projection maintenance, supporting a unifying theme of microtubule-based organization in both cell division and neurons. This label captures the dominant functional signal.","confidence":"High","size":12,"edges":48,"triangles":111,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0099607","count":11},{"id":"GO:0007100","count":11},{"id":"GO:0030951","count":11},{"id":"GO:0000073","count":11},{"id":"GO:0072383","count":11}]},{"hash":"1002105219178377737","title":"Developmental signaling and organogenesis","description":"The cluster\u2019s GO terms center on development across multiple tissues (nervous system, kidney, hair follicle, muscle) and key signaling pathways (ROBO, SHH, Wnt, T cell receptor). This suggests proteins collaborate in developmental signaling and organogenesis, with a peripheral note of immune-related response that is less central to the core theme. ","confidence":"Medium","size":12,"edges":59,"triangles":156,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0042832","count":3},{"id":"GO:0035385","count":3}]},{"hash":"2127894277215055377","title":"Hormone-responsive development and signaling","description":"The top GO terms point to hormonal regulation (insulin stimulus, estradiol) influencing development (brain, eye) and cell proliferation, with additional references to circadian rhythms and intracellular trafficking. This pattern suggests a cluster of proteins involved in hormone-driven developmental signaling, complemented by general cellular transport processes, rather than a single, tightly connected pathway. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0033629","count":2},{"id":"GO:0032355","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0007420","count":2}]},{"hash":"2163406616471364968","title":"Rho GTPase Signaling and Dendritic Spine Maintenance","description":"The cluster is dominated by GO terms for Rho protein signal transduction and GTPase activity regulation, with neural functions such as dendritic spine maintenance and long-term synaptic depression implying actin remodeling underlying synaptic plasticity. Additional terms related to protein transport and cell spreading suggest broader roles in cytoskeletal dynamics and adhesion.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0060292","count":2},{"id":"GO:0097062","count":2}]},{"hash":"667041870964731561","title":"Golgi\u2013ER and endosome trafficking","description":"The top GO terms cluster around vesicle transport in the secretory pathway, especially ER-to-Golgi and Golgi-to-ER retrograde transport, plus Golgi-to-endosome and Golgi-to-plasma membrane routes, as well as endocytosis. This cohesive theme implies proteins functioning in vesicle trafficking through the Golgi-ER-endosome network; a few development terms may reflect broader roles or annotation noise.","confidence":"High","size":12,"edges":20,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0006890","count":8},{"id":"GO:0006897","count":7},{"id":"GO:0006623","count":7},{"id":"GO:0035646","count":6}]},{"hash":"52274137552909102","title":"Integrin-mediated adhesion and migration","description":"This cluster is dominated by GO terms tied to cell-matrix and cell\u2013cell adhesion (calcium-independent adhesion, integrin signaling, heterotypic adhesion) and cell movement (extravasation, smooth muscle cell migration). The pattern suggests a cohesive functional theme around integrin\u2011mediated adhesion and the associated migratory/trafficking processes, with apoptosis and differentiation terms likely reflecting broader developmental signaling intertwined with adhesion pathways.","confidence":"High","size":12,"edges":17,"triangles":8,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007161","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0035987","count":5},{"id":"GO:0045123","count":5},{"id":"GO:0034113","count":5}]},{"hash":"2216688375267302211","title":"KIT/Wnt signaling and immune cell differentiation","description":"The cluster is enriched for signaling pathway terms (KIT signaling, canonical Wnt signaling, MAPKK-related regulation, TORC1 modulation, phosphorylation), alongside immune-related differentiation (natural killer cell differentiation) and cell-matrix adhesion. This points to a module of signaling regulators governing immune cell development and interactions with the extracellular matrix, rather than a single functional theme. ","confidence":"Medium","size":12,"edges":33,"triangles":39,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":12},{"id":"GO:0007160","count":12},{"id":"GO:0090263","count":12},{"id":"GO:0051389","count":12},{"id":"GO:0071300","count":12}]},{"hash":"1213943620485275855","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042619","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0009243","count":2},{"id":"GO:1902128","count":2}]},{"hash":"962785946438948944","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000472","count":8},{"id":"GO:1990417","count":8},{"id":"GO:0071051","count":8},{"id":"GO:1904574","count":8},{"id":"GO:0006605","count":8}]},{"hash":"1160681437151443512","title":"Glycerophospholipid biosynthesis and metabolism","description":"The top GO terms include phospholipid biosynthetic process and glycerophospholipid metabolic process, indicating lipid biosynthesis and lipid metabolism as the strongest signal in this cluster. While several annotations are obsolete and other terms touch on broad small-molecule catabolic pathways, the lipid-related terms most clearly tie the proteins together into a lipid metabolism-focused group.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0008654","count":3},{"id":"GO:0042355","count":3},{"id":"GO:0006650","count":3}]},{"hash":"689082624560027159","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"Most top GO terms point to ubiquitin-dependent protein catabolic processes (K63-linked ubiquitination, autoubiquitination, ERAD-related pathway) and immune functions (innate immune response, defense against virus, regulation of JNK cascade, B cell homeostasis). The cluster therefore seems to group proteins involved in ubiquitin-mediated degradation that also modulate immune signaling, with a minor outlier term for placenta morphogenesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0070534","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0060669","count":5},{"id":"GO:2000059","count":5}]},{"hash":"940250449416135918","title":"Cell division and thymus development","description":"These proteins show links to cell division processes (centrosome cycle, spindle assembly) and to thymus/organ development (thymus epithelium morphogenesis, thymocyte migration), suggesting a theme of mitosis-related regulation within developmental contexts. While some GO terms are obsolete, the combination points to a cluster centered on cell division with roles in thymic morphogenesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":1},{"id":"GO:0043972","count":1},{"id":"GO:0048513","count":1},{"id":"GO:1904388","count":1},{"id":"GO:0044648","count":1}]},{"hash":"763832189087162258","title":"Stress-responsive RNA splicing and mRNA processing","description":"Top GO terms cluster around spliceosome-mediated splicing (cis splicing, alternative splicing, regulation of splicing), plus mRNA stability, export, and poly(A) tail regulation, with supportive links to stress responses (ischemia, amino acid signaling). This pattern points to a cohesive module of RNA maturation and surveillance under stress.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":7},{"id":"GO:0045292","count":6},{"id":"GO:0048025","count":6},{"id":"GO:0008069","count":5},{"id":"GO:0060211","count":5}]},{"hash":"1646946110733688287","title":"Neural development and dopaminergic signaling","description":"Most represented GO terms relate to nervous system function\u2014pain perception, dendrite morphogenesis, and dopaminergic synaptic transmission\u2014along with signaling (ERK cascade) and ion transport relevant to neuronal activity. Although some terms touch on development or immune cell migration, the dominant pattern points to neural development and synaptic signaling, justifying this label.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0071805","count":6},{"id":"GO:0006349","count":5},{"id":"GO:0048240","count":5}]},{"hash":"534637844233196156","title":"Chromatin regulation and ubiquitin signaling","description":"This cluster centers on chromatin-level control and ubiquitin-mediated signaling, as shown by terms related to heterochromatin formation, centromere complex regulation, histone modification, and dosage compensation, plus multiple ubiquitination processes (K63, K29, autoubiquitination). While some terms relate to apoptosis or fertilization, the core signal points to chromatin organization and genome stability regulation through ubiquitin pathways.","confidence":"Medium","size":12,"edges":26,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033128","count":4},{"id":"GO:0030466","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0035519","count":3}]},{"hash":"2092210421612280812","title":"Diverse Transmembrane Transport","description":"Proteins in this cluster are enriched for a range of transmembrane transport processes, covering vitamins, xenobiotics, ions, neurotransmitter loading, and various substrates (galactose, phosphate, nitrate, hydroxyphenylacetate). The common theme is transport across membranes of diverse small molecules, indicating transporter-like functions.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":12},{"id":"GO:0006855","count":12},{"id":"GO:0042891","count":9},{"id":"GO:0071805","count":8},{"id":"GO:0098700","count":7}]},{"hash":"587516722084346857","title":"Dopaminergic Neuronal Signaling and Survival","description":"This cluster features neuronal functions (dopaminergic synaptic transmission, neuron projection development, neuron cellular homeostasis) alongside stress and survival pathways (regulation of apoptosis and necroptosis, unfolded protein response, TLR signaling, transcriptional regulation). The common thread appears to be dopaminergic neuron signaling coupled with cellular stress responses and survival regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034121","count":2},{"id":"GO:0002014","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0070050","count":2},{"id":"GO:0071157","count":2}]},{"hash":"2282946556731228887","title":"Neuronal vesicle trafficking and mitochondrial dynamics","description":"This cluster combines exocytosis and endosome organization (vesicle trafficking), small GTPase signaling and Rho pathway regulation (cytoskeletal control), with mitochondrial fission and transport, plus neuron-specific terms such as neuron projection maintenance and efferent axon development in the posterior lateral line nerve. The co-occurrence of trafficking, cytoskeletal regulation, and mitochondrial dynamics in a neuronal/sensory context supports a module dedicated to coordinating vesicle trafficking with mitochondrial dynamics in neurons.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070493","count":2},{"id":"GO:0006887","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007264","count":2}]},{"hash":"526554278707167168","title":"Ubiquitin-Mediated Innate Immune Signaling","description":"The terms highlight innate immune response and ubiquitin-related regulatory processes (K63-linked ubiquitination, autoubiquitination, and ubiquitin-dependent catabolic activity), with outputs in NF-\u03baB and JNK signaling and links to nitric oxide response and programmed necrosis. This supports a cohesive cluster of proteins coordinating ubiquitin-driven innate immune signaling and stress-induced cell fate decisions.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0070534","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0032088","count":4}]},{"hash":"726301660755106750","title":"Cardiac and inner ear neural development","description":"These terms cluster around developmental programs for heart and sensory\u2013neural tissues: heart rate regulation, sinoatrial node differentiation, cardiac neural crest\u2013driven outflow tract morphogenesis, floor plate formation, vestibular nucleus development, and inner ear auditory receptor cell differentiation. The circadian regulation of gene expression may reflect temporal modulation of development, while an unrelated plant process term likely represents annotation noise. Overall, the cluster appears to reflect a module of cardiac and neural\u2013sensory development.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032922","count":8},{"id":"GO:0043503","count":8},{"id":"GO:0003062","count":8},{"id":"GO:0031542","count":8},{"id":"GO:0070368","count":8}]},{"hash":"1484552908448382602","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":43,"triangles":67,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":6},{"id":"GO:0006478","count":6},{"id":"GO:0045600","count":6},{"id":"GO:0050427","count":6},{"id":"GO:0030573","count":6}]},{"hash":"1399889394095555940","title":"Lipid Metabolism and Stress Response","description":"The cluster is dominated by GO terms tied to lipid metabolism (PPAR signaling, regulation of fatty acid biosynthesis) and broad cellular stress/nutrient responses (response to nutrients, hypoxia detection, xenobiotic response, and protein folding). These together suggest a theme of metabolic regulation intertwined with stress/adaptation mechanisms. Some outliers (like plant hormone signaling and bone resorption) are present but do not define the core function. ","confidence":"Medium","size":12,"edges":18,"triangles":5,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0033160","count":6},{"id":"GO:0042304","count":6},{"id":"GO:0035357","count":6},{"id":"GO:0031670","count":6},{"id":"GO:0070483","count":6}]},{"hash":"2266994329864560094","title":"Inflammation-Linked Transcriptional Regulation","description":"The cluster is enriched for transcriptional regulation by RNA polymerase II (both negative and positive regulation), and also shows multiple immune and inflammatory processes (IL-8 and fractalkine production, acute-phase response, defense against Gram-positive bacteria) plus tissue remodeling signals (angiogenesis, smooth muscle cell-matrix adhesion). This combination suggests proteins that coordinate gene expression during inflammatory and immune responses, rather than a single, tightly defined enzymatic pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0045415","count":4},{"id":"GO:0050754","count":4},{"id":"GO:2000097","count":4}]},{"hash":"944103983828859338","title":"GABAergic and cholinergic synaptic signaling","description":"This cluster is dominated by terms tied to neuronal communication: GABA signaling and acetylcholine receptor signaling, along with ion transport and membrane depolarization that underlie postsynaptic potentials. The presence of locomotory behavior and conditioned taste aversion links these signaling pathways to neural circuit outputs. Together, these motifs point to synaptic transmission as the core function of the cluster.","confidence":"High","size":12,"edges":47,"triangles":86,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":9},{"id":"GO:0007605","count":7},{"id":"GO:0007214","count":7},{"id":"GO:0001661","count":7},{"id":"GO:0071805","count":7}]},{"hash":"1783749513412910070","title":"Membrane trafficking and junction assembly","description":"This cluster centers on membrane-associated processes: transcytosis, tight junction and eisosome assembly, and regulation of cell adhesion and PKC signaling. While a few terms touch immune or nervous system processes (B cell signaling, myelination, neuronal plasticity), the common thread appears to be membrane organization and trafficking rather than a single cohesive pathway.","confidence":"Medium","size":12,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050861","count":4},{"id":"GO:0002337","count":4},{"id":"GO:0048172","count":4},{"id":"GO:0090038","count":4},{"id":"GO:0035208","count":4}]},{"hash":"880500467127901827","title":"Muscle and immune vesicle trafficking","description":"This cluster shows enrichment for vesicle transport along actin filaments and secretory granule localization, plus muscle-related terms (cardiac muscle development; regulation of skeletal muscle contraction) and immune-related terms (T cell mediated immunity; positive regulation of opsonization). The common theme appears to be trafficking and secretion of vesicles in muscle and immune cells, rather than a single unified pathway. ","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0048739","count":4},{"id":"GO:1903028","count":4},{"id":"GO:1903923","count":4},{"id":"GO:0030050","count":4}]},{"hash":"670736557799984450","title":"KIT signaling and NK cell differentiation","description":"The prominent KIT signaling term (GO:0038109) together with NK cell differentiation (GO:0001779) points to KIT-driven signaling in immune cell development; accompanying terms like cell-matrix adhesion, Wnt signaling, retinoic acid response, and apoptosis regulation suggest a broader differentiation and survival signaling network associated with NK lineage and developmental cues.","confidence":"High","size":12,"edges":16,"triangles":3,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":12},{"id":"GO:0007160","count":12},{"id":"GO:0090263","count":12},{"id":"GO:0051389","count":12},{"id":"GO:0071300","count":12}]},{"hash":"661464132485349165","title":"Sugar Catabolism Pathways","description":"The proteins are enriched for multiple sugar- and carbohydrate-related catabolic processes (xylose, arabinose, rhamnose, fucose, glycerol) and carbohydrate phosphorylation, suggesting a cohesive role in sugar utilization; quorum sensing may reflect regulatory coordination rather than a core metabolic step.","confidence":"High","size":12,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":6},{"id":"GO:0006541","count":4},{"id":"GO:0019569","count":4},{"id":"GO:0019563","count":4},{"id":"GO:0019301","count":4}]},{"hash":"1834782819677260789","title":"Blood Pressure Regulation and Cardiovascular Signaling","description":"This cluster centers on GO terms for blood pressure control (positive regulation of blood pressure, regulation of systemic arterial blood pressure via renin-angiotensin) and signaling pathways (adenylate cyclase activation, GPCR signaling, phospholipase C activity). Coagulation and monocyte chemotaxis relate to vascular function/inflammation, while circadian rhythm and electron transport chain terms may reflect broader metabolic context. Overall, the dominant theme is cardiovascular regulation and signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":11},{"id":"GO:0007190","count":10},{"id":"GO:0007596","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0090026","count":10}]},{"hash":"85161213740611756","title":"Neural Ion Transport and Auditory-Motor Signaling","description":"The cluster centers on ion transport and membrane excitability (potassium import, membrane repolarization, ATP-dependent activity) alongside neural/ sensory functions (sensory perception of sound, locomotory behavior, and related signaling). This suggests proteins involved in neuronal signaling that enable movement and hearing. Peripheral terms like inflammatory response and tube diameter regulation are present but don\u2019t redefine the core theme. ","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0086009","count":2},{"id":"GO:1901018","count":2}]},{"hash":"1184835810345454368","title":"Neuronal differentiation and cytoskeletal remodeling","description":"These proteins point to neural development processes (forebrain radial glial differentiation, dendrite development, ephrin receptor signaling) combined with cytoskeletal dynamics (actin filament branching, podosome/adhesion-related remodeling, Golgi localization). The overlap of differentiation signals with cytoskeletal remodeling and cell adhesion suggests a cohesive role in neurite outgrowth, neuronal differentiation, and migration. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":7},{"id":"GO:1900026","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0051683","count":7},{"id":"GO:0035641","count":7}]},{"hash":"2101544467475074699","title":"Innate Immune Signaling and Cytoskeletal Dynamics","description":"Most terms center on innate immune processes (innate immune response, interferon signaling) and immune receptor signaling (Fc receptor signaling). Several terms involve cytoskeletal regulation and membrane trafficking (Rho signaling, actin crosslinking, endocytic recycling), which often accompany receptor signaling in immune cells. A few terms point to broader signaling pathways (EGFR, Wnt, angiotensin) and development, suggesting the proteins may participate in general signaling networks and cytoskeletal remodeling beyond immunity. Overall, the cluster seems to reflect immune signaling with coordinated cytoskeletal changes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060335","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0060368","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0051764","count":4}]},{"hash":"1429316951445046669","title":"Unknown","description":"The top terms span pain perception, temperature response, thermogenesis, saliva secretion, blood pressure regulation, circadian rhythm, IL-10 production, GPCR-EGF signaling, retina development, and osmotic-stress\u2013related apoptosis, with no clear shared function or pathway. The lack of network edges and the broad, disparate themes suggest no cohesive label beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0046541","count":7},{"id":"GO:0001991","count":6}]},{"hash":"1367081434773913267","title":"Unknown","description":"The GO terms show a mix of DNA repair, proteostasis, and cell-cycle processes, alongside plant reproductive and chlorophyll biosynthesis terms, indicating no single cohesive function for the cluster. The absence of edges supports this being a heterogeneous set rather than a distinct pathway.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0048455","count":2}]},{"hash":"1551193115755226837","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":6,"triangles":0,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007014","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0061158","count":7},{"id":"GO:1903886","count":7},{"id":"GO:1903883","count":7}]},{"hash":"479873779748841547","title":"Cell Polarity and Epithelial Morphogenesis","description":"The top GO terms emphasize epithelial apical/basal polarity, tight junction assembly, and centrosome localization, all central to cell polarity and tissue organization. Additional terms touch on planar cell polarity and morphogenetic processes like neural plate elongation and cochlea development, suggesting a broader developmental theme centered on polarity-driven morphogenesis. Overall, the cluster is best described as involving cell polarity and related morphogenetic processes.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0019933","count":4},{"id":"GO:0090179","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0051660","count":4}]},{"hash":"1753565896551508284","title":"Neural Development and GPCR-Mediated Sensory Signaling","description":"Based on the GO terms, this cluster is enriched for brain and embryonic development, inner ear development, and sensory perception of bitter taste, alongside regulation of GPCR signaling and GABAergic signaling. The inclusion of inositol phosphate metabolic processes suggests linkages to GPCR-related signal transduction pathways. Together these points indicate a cohesive theme of neural/sensory development and GPCR-driven signaling.","confidence":"High","size":12,"edges":19,"triangles":5,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:1900087","count":7},{"id":"GO:0008277","count":7},{"id":"GO:0050913","count":7},{"id":"GO:1902634","count":7}]},{"hash":"559169813865769702","title":"Steroid and Xenobiotic Metabolism Cluster","description":"The top GO terms clustered around biosynthesis and breakdown of diverse small molecules and xenobiotics (aldosterone biosynthesis, 9-cis-retinoic acid biosynthesis, ent-kaurene oxidation to kaurenoic acid, vancomycin biosynthesis, carbazole and dibenzo-p-dioxin catabolic, alkaloid catabolic), indicating a metabolism-focused group handling various secondary metabolites and xenobiotics. A couple of terms (endothelial cell-cell adhesion, positive regulation of G1/S transition) are less aligned with metabolism and may reflect broader cellular roles or annotation noise, but the dominant signal points to a steroid/xenobiotic metabolism theme. ","confidence":"Medium","size":12,"edges":63,"triangles":193,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":12},{"id":"GO:0046232","count":12},{"id":"GO:0032342","count":12},{"id":"GO:0019341","count":12},{"id":"GO:0010241","count":12}]},{"hash":"1755991291286008060","title":"ECM Remodeling and Cardiac-Vascular Development","description":"The top GO terms cluster around extracellular matrix organization (collagen fibril organization) and integrin-mediated cell adhesion, with angiogenesis (VEGF signaling) and cardiac muscle cell differentiation, pointing to a module involved in ECM remodeling supporting heart and vascular development; energy metabolism terms like glycogen biosynthesis appear as ancillary features. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0032331","count":3},{"id":"GO:0033631","count":3},{"id":"GO:1900748","count":3},{"id":"GO:0030199","count":3}]},{"hash":"2284613041372739870","title":"Cardiac conduction and vascular development","description":"The top GO terms cluster around heart-specific functions (regulation of SA node action potential, SA node to atrial muscle communication) and vascular remodeling (endothelial cell proliferation in angiogenesis), along with general cell migration. While a couple of telomere maintenance and mechanosensation terms appear, the strongest signals point to cardiovascular signaling and remodeling, suggesting a label centered on cardiac conduction and vascular development. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:1904908","count":5},{"id":"GO:0098907","count":5},{"id":"GO:1904355","count":5},{"id":"GO:0050966","count":5},{"id":"GO:0016477","count":5}]},{"hash":"247644472011731069","title":"Coagulation, fibrinolysis, and proteolysis","description":"The GO terms are dominated by blood coagulation, fibrinolysis, and proteolysis, with supporting themes of digestion, defense against Gram-positive bacteria, and vascular signaling (angiogenesis and Wnt). This pattern suggests a cluster of extracellular proteases and regulators involved in coagulation and tissue remodeling, linking proteolysis to vascular biology and immune defense.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0006508","count":3},{"id":"GO:0050830","count":3}]},{"hash":"232963529097135749","title":"Tissue Morphogenesis and Organ Development","description":"The proteins are enriched for development-related GO terms spanning endocrine system development, left-right pattern formation, hair follicle morphogenesis, and pancreatic cell development, suggesting a role in tissue and organ formation. The presence of spliceosome-mediated mRNA splicing, ribosomal subunit export, and RNA polymerase II regulation implies involvement of core gene-expression machinery that supports developmental programs across multiple tissues.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0010957","count":12},{"id":"GO:0031069","count":12}]},{"hash":"1187720156088967662","title":"ECM secretion and collagen biosynthesis regulation","description":"Top GO terms indicate a focus on regulation of extracellular matrix component secretion and collagen biosynthesis, pointing to ECM remodeling as the core theme. Additional terms involving intracellular protein transport and cellular extravasation support a broader secretory/trafficking context that underpins ECM deposition. An outlier term (ergosterol biosynthetic process) is present but. overall the ECM-related regulation appears to be the dominant signal.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0002692","count":2}]},{"hash":"2170028722201646108","title":"ER stress\u2013linked apoptosis regulation and calcium homeostasis","description":"This cluster shows enrichment for GO terms centered on negative regulation of apoptotic signaling in the context of ER stress, along with endoplasmic reticulum calcium ion homeostasis and calcium transport into the cytosol, suggesting proteins that help prevent ER-stress\u2013driven cell death and maintain calcium balance. Some terms about Purkinje cell differentiation and immunoglobulin regulation appear, but the dominant pattern ties to apoptosis regulation via ER stress and calcium signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":2},{"id":"GO:0021702","count":2},{"id":"GO:0090005","count":2},{"id":"GO:0032469","count":2},{"id":"GO:1904721","count":2}]},{"hash":"1861951568323679315","title":"Cytokine Signaling and Developmental Processes","description":"This cluster shows strong representation of cytokine signaling pathways (interleukin-27-mediated signaling, T-helper 2 cell cytokine production, regulation of STAT phosphorylation) alongside development-related processes (BMP signaling, heart development, striated muscle myosin thick filament assembly, and neural localization to the juxtaparanode region). The proteins thus appear to participate in immune signaling and developmental regulation, supporting a label focused on cytokine signaling and developmental processes.","confidence":"High","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0070106","count":8},{"id":"GO:0035745","count":8},{"id":"GO:0042517","count":8},{"id":"GO:0044708","count":7},{"id":"GO:0071206","count":7}]},{"hash":"1487202520661783683","title":"TLR7\u2013NLRP3 Innate Immune Signaling","description":"Most proteins are annotated with innate immune and antiviral defense terms, including inflammatory response, TLR7 signaling, NLRP3 inflammasome assembly, and interferon-\u03b1 production, pointing to Toll-like receptor\u2013driven pathogen sensing and defense against viruses and bacteria; one outlier cell-cycle term is present but does not define the core theme.","confidence":"High","size":11,"edges":6,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0045842","count":3}]},{"hash":"2117637389305695314","title":"Mitochondrial dynamics and apoptosis","description":"The cluster is enriched for apoptotic processes and mitochondrial fusion/fission (mitochondrial fragmentation in apoptotic process, mitochondrial fusion, mitochondrial morphogenesis, and positive regulation of mitochondrial fusion), with a connected role for calcium signaling (positive regulation of voltage-gated calcium channel activity). While other terms like ribosomal export and tRNA modification are present, the dominant signal points to mitochondrial dynamics as a driver of programmed cell death, possibly modulated by calcium signaling. ","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0043653","count":5},{"id":"GO:0070584","count":5},{"id":"GO:0008053","count":5},{"id":"GO:0051260","count":5}]},{"hash":"207773338297199376","title":"Neuronal Synaptic Plasticity and Social Behavior","description":"This cluster is dominated by neuronal synapse terms: dendritic spine morphogenesis, synapse organization, positive regulation of excitatory postsynaptic potential, long-term potentiation and depression, and synapse structural plasticity, plus receptor clustering. The presence of social and vocalization behavior terms suggests involvement in neural circuits governing social communication. Together, these indicate proteins involved in regulating synaptic strength and structural changes in social behavior circuits.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060997","count":8},{"id":"GO:0050808","count":8},{"id":"GO:2000463","count":7},{"id":"GO:0060292","count":7},{"id":"GO:0051835","count":7}]},{"hash":"1814448027728133418","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0031167","count":4},{"id":"GO:0000472","count":4},{"id":"GO:1990417","count":4},{"id":"GO:0071051","count":4}]},{"hash":"1120943467733544710","title":"Chromatin Remodeling and Transcription Regulation","description":"The dominant GO terms point to chromatin dynamics and transcription control: rDNA heterochromatin formation, transcription initiation\u2013coupled chromatin remodeling, DNA replication\u2013dependent chromatin assembly, and negative regulation of RNA polymerase II. These indicate a shared role in shaping chromatin structure to regulate gene expression; a few terms related to immune response or differentiation may reflect broader regulatory involvement rather than core chromatin function.","confidence":"Medium","size":11,"edges":30,"triangles":41,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000183","count":8},{"id":"GO:0045815","count":7},{"id":"GO:0051290","count":7},{"id":"GO:0006335","count":7},{"id":"GO:0000122","count":7}]},{"hash":"1179743230325299044","title":"Embryonic and Neural Development Regulators","description":"The top GO terms point to broad regulatory roles in development and differentiation across tissues (in utero embryonic development, cerebral cortex and pituitary gland development, granulocyte and erythrocyte differentiation, left-right patterning). The inclusion of transcriptional and histone modification regulators suggests these proteins act as upstream regulators shaping gene expression during development. The cluster likely represents factors coordinating developmental timing and lineage specification rather than a single tissue-specific function.","confidence":"Medium","size":11,"edges":18,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:2000648","count":2},{"id":"GO:0045648","count":2},{"id":"GO:0051573","count":2},{"id":"GO:0021983","count":2}]},{"hash":"68330963880958782","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The top GO terms are all about translation and ribosome assembly (translation, cytoplasmic translation, ribosomal small subunit biogenesis), suggesting the cluster mainly comprises components of the protein synthesis machinery. Some other terms (virion attachment, autophagy activation, DNA replication/transcription, cell cycle, glucose catabolism) appear less central and may reflect multifunctional proteins or annotation noise, but the dominant signal points to ribosome-related function.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0019062","count":2},{"id":"GO:0039520","count":2}]},{"hash":"1867640041127735700","title":"RNA Processing and Splicing Regulation","description":"The cluster is dominated by post-transcriptional RNA processing GO terms\u2014mRNA stability regulation, poly(A) tail regulation, mRNA export, splicing regulation by the spliceosome, and RNA modification\u2014indicating proteins involved in mRNA maturation, surveillance, and silencing. While a few terms like viral translation reinitiation and blastocyst formation are less central, the overall theme centers on RNA processing and regulation.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0060211","count":6},{"id":"GO:0075525","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0000381","count":6}]},{"hash":"18656969363287369","title":"Synaptic Vesicle Docking and Exocytosis","description":"The top GO terms converge on vesicle-mediated secretion and synaptic transmission\u2014positively regulating excitatory postsynaptic potentials, receptor localization to synapse, and synaptic vesicle docking\u2014along with the acrosome reaction as another exocytosis-type process. Autophagy/endosome trafficking terms are related to vesicle movement and maturation, supporting a broader vesicle trafficking/exocytosis theme across contexts. Overall, the cluster appears to represent vesicle docking/exocytosis in neural and secretory pathways.","confidence":"Medium","size":11,"edges":24,"triangles":18,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000463","count":5},{"id":"GO:0032258","count":4},{"id":"GO:1904050","count":4},{"id":"GO:1902685","count":4},{"id":"GO:0045022","count":4}]},{"hash":"485675051224754880","title":"Developmental transcription regulation with adipose and cartilage differentiation","description":"This cluster is dominated by GO terms about transcription control (DNA-templated transcription, negative regulation of transcription initiation including RNA Pol II preinitiation complex assembly, and miRNA transcription regulation) and tissue development terms for adipose tissue, fat cell differentiation, cartilage (trachea cartilage development, chondrocyte differentiation), plus a retinoic acid response signal. The combination suggests proteins that regulate developmental programs via transcriptional control, especially adipogenesis and chondrogenesis, with retinoic acid signaling involved. ","confidence":"High","size":11,"edges":15,"triangles":8,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0070384","count":6},{"id":"GO:2000020","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0060534","count":6}]},{"hash":"1304424368328335732","title":"Neuronal plasticity and astrocyte activation","description":"The cluster\u2019s GO terms consistently point to neural signaling and glial responses, with emphasis on neuronal synaptic plasticity regulation, astrocyte activation, and voltage-gated calcium channel activity. Additional terms related to glucocorticoid response and cell shape regulation suggest coordinated transcriptional and structural changes in neural and glial cells under stress or signaling conditions. This supports a coherent theme of neuron\u2013glia communication and activity-dependent regulation.","confidence":"Medium","size":11,"edges":37,"triangles":78,"max_degree":9,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051290","count":9},{"id":"GO:0000122","count":9},{"id":"GO:1901387","count":7},{"id":"GO:0048143","count":7},{"id":"GO:0008360","count":7}]},{"hash":"2263916579160940404","title":"Metal and nitrosative stress with diverse metabolism","description":"This cluster shows enrichment for metal stress (response to copper ion) and nitrosative stress, plus a set of varied metabolic processes (retinoid metabolism, sorbitol, furfural, pyruvate fermentation) and extracellular signaling regulation. The common theme appears to be a generalized stress/metabolism response rather than a single pathway, so the label highlights both stress response and metabolic versatility.","confidence":"Medium","size":11,"edges":17,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046688","count":2},{"id":"GO:0051409","count":2},{"id":"GO:0042573","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0019518","count":2}]},{"hash":"1189432830070311045","title":"Quinone biosynthesis and fatty acid metabolism","description":"Most frequent GO terms center on quinone biosynthesis (phylloquinone and menaquinone) and fatty acid beta-oxidation, with supporting signals for amino acid catabolism and antibiotic biosynthesis. This points to a cluster of proteins involved in central energy metabolism and cofactor production, typical of bacterial metabolic pathways, rather than a single narrow function.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":11},{"id":"GO:0010124","count":11},{"id":"GO:0006635","count":11},{"id":"GO:0017000","count":11},{"id":"GO:0006574","count":11}]},{"hash":"1723166498252549259","title":"Metabolic Stress and Mitochondrial Apoptosis Regulation","description":"These proteins cluster around metabolism (glyoxysome organization, propionyl-CoA biosynthesis, ketone body catabolism, poly-hydroxybutyrate biosynthesis) and mitochondrial apoptosis regulation, with supporting signals from starvation response and broad developmental terms (liver, brain, kidney). The common theme appears to be linking metabolic state to mitochondrial integrity during development and nutrient stress.","confidence":"Medium","size":11,"edges":47,"triangles":108,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":8},{"id":"GO:0007420","count":8},{"id":"GO:1902860","count":7},{"id":"GO:0010111","count":7},{"id":"GO:0042619","count":7}]},{"hash":"271564257587796283","title":"NLRP3 inflammasome-driven pyroptosis and cytokine production","description":"These terms cluster around innate immune activation: NLRP3 inflammasome assembly, pyroptosis, and production of IL-1\u03b2 and IL-18, with ubiquitination and apoptosis components as supporting features. The dominant theme is inflammasome-driven inflammatory response and cell death, rather than mitosis, so the label accurately reflects the core function of the cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:1990001","count":5},{"id":"GO:0070269","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0006915","count":5}]},{"hash":"376968467809077254","title":"Neural Sensory Perception and Dopaminergic Signaling","description":"The top GO terms cluster around neural sensory processes (pain perception, visual perception, visual learning), dopaminergic synaptic transmission, and related behavioral responses (cocaine exposure), along with signaling pathways (ERK1/ERK2 cascade) and some cardiovascular regulation. This suggests a cohesive theme of neural sensory processing and dopaminergic signaling driving behavior, rather than a single enzymatic or structural function. The lack of edges supports a annotation-based grouping rather than direct interactions.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0010759","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0001963","count":11}]},{"hash":"1635102785819814660","title":"Hematopoietic differentiation and neutrophil signaling","description":"This cluster centers on hematopoietic progenitor differentiation, neutrophil chemotaxis, and M-CSF\u2013dependent signaling, with engagement of MAPK/ERK and STAT pathways and receptor clustering, indicating immune cell development and signaling.","confidence":"High","size":11,"edges":24,"triangles":30,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045671","count":8},{"id":"GO:0002244","count":8},{"id":"GO:0071300","count":7},{"id":"GO:0042531","count":7},{"id":"GO:0030593","count":7}]},{"hash":"2206047209680837900","title":"Embryonic development and tissue morphogenesis","description":"This cluster centers on development, patterning, and differentiation across multiple tissues (endocrine, hair, heart, pancreas), with a few housekeeping processes included, suggesting a cohesive theme of developmental morphogenesis rather than a single function.","confidence":"Medium","size":11,"edges":10,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0010957","count":5},{"id":"GO:0031069","count":5}]},{"hash":"2214605420444013685","title":"Neural development and retinoic acid signaling","description":"This cluster is dominated by neural development terms (forebrain development, neural tube development, hindbrain development, olfactory pit development) and by retinoid-related terms (cellular response to retinoic acid, retinol metabolic process), pointing to genes involved in neural patterning and retinoic acid signaling. Some metabolic terms (glucosylceramide metabolism, proline biosynthesis) may reflect general cellular metabolism in developing tissues and are less central to the main theme. Overall, the strongest signal connects neural development with retinoic acid pathways.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006678","count":11},{"id":"GO:0042572","count":11},{"id":"GO:0030900","count":11},{"id":"GO:0021915","count":11},{"id":"GO:0030902","count":11}]},{"hash":"1569593499891685264","title":"Unknown","description":"The top GO terms span diverse biological themes (nitrate assimilation, ergosterol and lipid metabolism, mitochondrial inheritance, nervous system development, sebaceous gland differentiation, limb development, metal ion transport) with no clear, single function tying most proteins together. Therefore there isn\u2019t a reliable, specific label other than Unknown.","confidence":"","size":11,"edges":14,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0032443","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0006809","count":3}]},{"hash":"287357516753293424","title":"Plant cell division and protein oligomerization","description":"The cluster's top GO terms are dominated by protein heterooligomerization and cell division, suggesting a function tied to assembly of protein complexes during cell-cycle processes. Several plant-specific terms (cytokinin signaling, chlorophyll biosynthesis regulation) support a plant-context theme where cell division is linked to protein complex formation. Some unrelated or obsolete terms appear as noise, but do not override the main pattern.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0035955","count":8},{"id":"GO:0009736","count":8},{"id":"GO:1902325","count":8}]},{"hash":"1295017340275590756","title":"Plant secondary metabolism and hormone-related catabolism","description":"This cluster's GO terms point to plant-specific metabolite processing, including stilbene, triglyceride, alkaloid, uracil catabolism, and strigolactone biosynthesis, indicating roles in secondary metabolism and hormone-regulated pathways; the presence of detoxification and secondary shoot formation further supports a plant developmental/metabolic theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046272","count":5},{"id":"GO:0010223","count":5},{"id":"GO:0097755","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0019433","count":5}]},{"hash":"642509259643986740","title":"Neural perception and signaling pathways","description":"These proteins show enrichment for sensory and neural signaling functions: sensory perception of pain; visual perception and visual learning; dopaminergic synaptic transmission; behavioral response to cocaine; plus robust involvement in intracellular signaling via ERK cascade and phosphorylation. While terms like heart development and macrophage chemotaxis appear less directly connected, they may reflect shared signaling modules or pleiotropic roles. Overall, the cluster appears centered on neural sensory processing and signal transduction.","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0010759","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0001963","count":9}]},{"hash":"1817641693797013310","title":"GPCR-Mediated Signal Transduction","description":"The cluster centers on receptor-driven signaling and downstream responses: pain perception, prostaglandin and morphine responses, temperature stimulus, and activation of adenylate cyclase, with protein phosphorylation indicating kinase cascades. While some terms like visual perception and heart development are broader, they can involve GPCR-mediated pathways in retina and cardiovascular development/regulation. Overall, the set reflects GPCR-driven signal transduction and its downstream effects, possibly coupled to energy metabolism.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0006468","count":5}]},{"hash":"1132139087177071485","title":"Plant Cell Wall Biosynthesis and Glycosylation","description":"This cluster centers on plant cell wall biosynthesis and glycosylation. Key terms include glucuronoxylan biosynthesis and plant-type secondary cell wall biogenesis, as well as protein N- and O-linked glycosylation, and general carbohydrate metabolism. Together they point to enzymes/proteins involved in assembling and modifying cell wall polysaccharides and their glycan linkages. A couple of terms unrelated (proteoglycan biosynthesis, infection structure formation) may reflect broader glycan processes or annotation noise but do not override the main theme.","confidence":"High","size":11,"edges":17,"triangles":7,"max_degree":6,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":4},{"id":"GO:0006487","count":4},{"id":"GO:0071555","count":3},{"id":"GO:0010417","count":2},{"id":"GO:0016266","count":2}]},{"hash":"1782120574472171034","title":"Neural development and signaling pathways","description":"The GO terms emphasize nervous system development, retinoic acid response, Wnt and KIT signaling, and transcriptional regulation, suggesting a neural development signaling module; potassium transport and cell-matrix adhesion provide broader context but fit the neural development theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0006813","count":5},{"id":"GO:0046826","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0038109","count":4}]},{"hash":"1256098505643504388","title":"Mitochondrial ion and metabolite transport","description":"Most terms describe transport of ions and metabolites across mitochondrial membranes (manganese, magnesium, phosphate, alpha-ketoglutarate, ATP) and related metabolic stress responses, which together define a mitochondrial transport/metabolism cluster. Some stray terms (e.g., female pregnancy, obsolete urea homeostasis) are noise but do not redefine the core function.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000303","count":4},{"id":"GO:0097274","count":4},{"id":"GO:0007565","count":4},{"id":"GO:1990544","count":4},{"id":"GO:0006828","count":4}]},{"hash":"249350518946011513","title":"Intracellular Trafficking and Organelle Dynamics","description":"The top GO terms cluster around endocytic processes (pinocytosis, receptor internalization) and Golgi retention, plus protein oligomerization, suggesting roles in membrane trafficking and protein organization. Mitochondrial processes (membrane fission, genome maintenance) and related transport hint at broader organelle maintenance. Overall, the proteins appear to be involved in coordinating membrane traffic with organelle dynamics rather than a single focused pathway.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006907","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0000747","count":2}]},{"hash":"391989364889647931","title":"Cardiac signaling, calcium handling, and redox regulation","description":"The top GO terms emphasize heart development, calcium ion transport, and regulation of AV node action potential, suggesting a core theme around cardiac electrophysiology and calcium signaling. Additional terms on redox homeostasis and hydrogen peroxide biosynthesis reinforce a oxidative balance context often linked to cardiac function. While some terms are peripheral (germ cell proliferation, lipid biosynthesis regulation, nuclear import), the strongest, coherent signal across the cluster points to cardiac signaling and calcium regulation with associated redox control.","confidence":"Medium","size":11,"edges":12,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006816","count":3},{"id":"GO:0045454","count":2},{"id":"GO:2000256","count":2}]},{"hash":"1276991893974269014","title":"Retroviral integration and latency","description":"The terms cluster around reverse transcription-like activity (RNA-templated DNA biosynthetic process), DNA integration into the host genome, DNA recombination, and establishment of integrated proviral latency, along with viral entry into the host nucleus. Together these strongly indicate proteins involved in retroviral life cycle steps and proviral latency, despite a few symbiont-related terms that are less central to this theme. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0043137","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0015074","count":3}]},{"hash":"231151053900284892","title":"RNA Processing and Translation","description":"The top GO terms cluster around RNA metabolism and protein synthesis (mRNA processing, deadenylation-independent decay, mRNA localization, and cytoplasmic translation), suggesting this group is involved in gene expression regulation at the RNA level. While some terms relate to signaling or developmental responses (EGF, phorbol ester, chilling fusion, etc.), the dominant pattern points to RNA processing and translation as the core function. Confidence is Moderate because the set includes non-RNA-related terms that temper the overall signal.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":2},{"id":"GO:1904582","count":2},{"id":"GO:0002181","count":2},{"id":"GO:1904628","count":2},{"id":"GO:0060710","count":2}]},{"hash":"1277552075147638829","title":"Membrane Transport and Nutrient Uptake","description":"This cluster is dominated by GO terms for transporting a variety of substrates across membranes (phosphate, potassium, organic anions, urate, glucose, fructose) and even vesicle loading of neurotransmitters, with an additional note on related metabolic processes (ascorbic acid). The common theme is proteins involved in moving or importing nutrients and ions across membranes, sometimes in vesicular contexts, rather than a single signaling or enzymatic pathway.","confidence":"Medium","size":11,"edges":50,"triangles":126,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":11},{"id":"GO:0042891","count":11},{"id":"GO:0043252","count":11},{"id":"GO:0019852","count":11},{"id":"GO:0006817","count":11}]},{"hash":"557568216871140176","title":"Phosphoinositide biosynthesis","description":"The cluster\u2019s top GO terms cluster around inositol phosphate biosynthesis, phosphatidylinositol phosphate biosynthesis, and inositol trisphosphate metabolism, pointing to a shared involvement in phosphoinositide signaling. Several other terms (RNA tail shortening, pollen-related processes, immune and viral interactions) seem unrelated and likely reflect noise or multifunctionality; thus the PI biosynthesis theme is the most coherent label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":2},{"id":"GO:0045347","count":2},{"id":"GO:0044829","count":2},{"id":"GO:1904780","count":2},{"id":"GO:0000821","count":2}]},{"hash":"1151028726022414107","title":"DNA Repair and Oxidative Stress Response","description":"The cluster centers on genome maintenance with base-excision repair and DNA recombination, plus DNA processing activities, and includes stress-related responses such as to hydrogen peroxide and xenobiotics; the presence of positive regulation of G1/S transition links repair with cell-cycle control. Some terms (aging, corneocyte development, PI signaling) are peripheral, but the dominant signals point to DNA damage repair and oxidative stress response.","confidence":"Medium","size":11,"edges":8,"triangles":3,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":8},{"id":"GO:1900087","count":7},{"id":"GO:0006308","count":7},{"id":"GO:0007568","count":7},{"id":"GO:0070301","count":7}]},{"hash":"840563675419771722","title":"Ubiquitin-mediated NF-kappaB/JNK signaling","description":"The top terms cluster around regulation and activation of NF-kappaB signaling (I-kappaB phosphorylation, NIK activity) and the JNK cascade, with multiple items tied to ubiquitin-dependent protein turnover. This points to a cohesive theme of ubiquitin-mediated control of inflammatory signaling pathways, particularly NF-kappaB and JNK, rather than unrelated processes.","confidence":"Medium","size":11,"edges":12,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0085020","count":2},{"id":"GO:1903721","count":2},{"id":"GO:1903762","count":2}]},{"hash":"1697235980790344036","title":"Embryonic development and organ morphogenesis","description":"The proteins cluster around broad embryogenesis topics: endocrine system development, pancreatic cell development, left/right patterning, and cartilage morphogenesis, plus EMT in heart cushion formation and placental/trophoblast differentiation. Signaling pathway terms (JNK and p38 MAPK cascades) further support roles in developmental signaling. Overall, the common theme is early development and tissue formation rather than a single specific function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0003198","count":1}]},{"hash":"1530113713812867021","title":"Hair Keratinization Proteins","description":"The GO terms point to keratinization and hair cycle, suggesting these proteins are involved in hair follicle biology and epidermal keratinization. The cluster likely comprises keratin-related structural proteins that participate in hair formation and turnover, aligning with the listed terms. The lack of network edges doesn't contradict this interpretation, as GO annotations can reflect function even when interactions are sparse in the data.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0042633","count":2}]},{"hash":"1061255975951931352","title":"RNA processing and translational control in development","description":"The cluster centers on translation and RNA metabolism (translation, translational termination, mRNA export, splicing regulation, mRNA modification, poly(A) tail shortening, and ncRNA-mediated silencing) with supporting development cues (nervous system development, blastocyst formation). This pattern suggests a cohesive theme of RNA processing and translational control, particularly in developmental contexts.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006415","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0075525","count":2}]},{"hash":"620100462961024788","title":"Neural and muscle membrane signaling and stress","description":"This cluster centers on membrane repair, myoblast fusion, synaptic transmission, sphingolipid biosynthesis, and regulation of signaling pathways, all linking membrane integrity with survival, development, and cytoskeletal dynamics in neural and muscle contexts. The common theme is membrane-associated signaling and stress responses that coordinate cell survival and function in neurons and muscle cells.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043065","count":6},{"id":"GO:0001778","count":6},{"id":"GO:0031914","count":5},{"id":"GO:0034351","count":5},{"id":"GO:0007520","count":5}]},{"hash":"374241301722967432","title":"Neural development and cytoskeletal dynamics","description":"Top GO terms cluster around neural development (cerebellar granule cell differentiation, spinal cord development) and cell migration, with supporting cytoskeletal processes (microtubule-based movement, mitotic spindle assembly) and neuron-associated functions (sodium ion transport). This suggests proteins in this cluster are linked to neural development and cytoskeletal-driven movement rather than general housekeeping processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0021510","count":3}]},{"hash":"2053381775263910932","title":"Neural Stress Signaling and Glial Response","description":"This cluster combines neural functions (learning/memory and sensory perception of sound) with glial cell apoptosis and broad stress/immune responses (UV, xenobiotic, antibiotic, TNF) plus signaling pathways (Hippo), suggesting a theme of neural cells under stress and inflammatory signaling with glial involvement.","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":3},{"id":"GO:0009411","count":2},{"id":"GO:0043200","count":2},{"id":"GO:0007611","count":2},{"id":"GO:0046677","count":2}]},{"hash":"941088058763348861","title":"Neural development and visual system signaling","description":"The top GO terms point to neural development and function: visual perception, axonogenesis, Schwann cell development, and excitatory synaptic activity, suggesting proteins involved in nervous system differentiation and communication, particularly in vision-related contexts, with broader developmental roles such as heart and angiogenesis indicating shared developmental programs. Confidence: Medium","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0010800","count":6},{"id":"GO:0043065","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0007409","count":6}]},{"hash":"1231919470928515309","title":"Post-transcriptional mRNA processing and export","description":"The dominant GO terms describe post-transcriptional regulation of mRNA, including nuclear export, splicing regulation via the spliceosome, mRNA modification, and regulation of poly(A) tail length. These functions point to a cluster of proteins involved in mRNA maturation and transport rather than primary metabolism or signaling. A few terms also reflect stress-responsive or developmental contexts, but they do not override the central theme. Thus the label captures the main shared function of the cluster.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0048873","count":3},{"id":"GO:0008069","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0071230","count":2}]},{"hash":"268732473752156180","title":"Wing morphogenesis and actin dynamics","description":"The cluster is enriched for actin cytoskeleton remodeling and morphogenesis terms (e.g., regulation of actin cytoskeleton organization, lamellipodium/filopodium assembly) and wing-related developmental processes (antenal morphogenesis, imaginal disc-derived wing hair organization). These patterns point to proteins involved in cell shape changes and epithelial morphogenesis during wing development, with some translation terms likely reflecting general cellular activity. Overall, the functions cohere around cytoskeletal dynamics driving wing morphogenesis.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0048800","count":1},{"id":"GO:0051491","count":1},{"id":"GO:0010592","count":1},{"id":"GO:0032956","count":1}]},{"hash":"1381764935424503286","title":"Kidney and craniofacial morphogenesis","description":"This cluster centers on embryonic organogenesis, highlighted by kidney development terms (renal inner medulla development, metanephros morphogenesis) and craniofacial skeletal development, along with related lineage commitment and morphogenic processes; other GO terms hint at cellular organization during development (nuclear import, GTPase signaling) but the dominant signal is embryonic morphogenesis involving kidneys and skull/face structures.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0072053","count":6},{"id":"GO:1904888","count":6},{"id":"GO:0045976","count":6}]},{"hash":"1715847397227577771","title":"Developmental Vesicle Trafficking and Centrosome Regulation","description":"The cluster shows developmental signals (eye and cranial skeletal development, neuron/adipose differentiation) alongside intracellular trafficking (endosome transport, CVT pathway) and centrosome localization/GTPase regulation, suggesting a role in coordinating development with vesicle trafficking and centrosome function.","confidence":"Medium","size":10,"edges":26,"triangles":41,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0001654","count":4},{"id":"GO:0030182","count":3},{"id":"GO:0032258","count":3},{"id":"GO:1904179","count":3}]},{"hash":"1137402070369210825","title":"Embryonic organ morphogenesis","description":"Most terms point to developmental processes shaping organs (kidney/metanephros, cranial skeleton, endodermal fate) and morphogenesis, with related cell-cycle regulation and cytoskeletal/nuclear transport activities that accompany embryogenesis. While a few terms are more general cellular processes, the prominent theme is embryonic organ development and morphogenesis.","confidence":"High","size":10,"edges":33,"triangles":48,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015991","count":5},{"id":"GO:0072053","count":3},{"id":"GO:1904888","count":3},{"id":"GO:0045976","count":3},{"id":"GO:0006607","count":3}]},{"hash":"1837379452449236300","title":"DNA Damage Repair and UV Response","description":"This cluster centers on DNA repair pathways (NER, TLS), DNA replication, and UV-C\u2013induced damage response, indicating a cohesive role in recognizing and processing DNA lesions. The presence of both error-prone and error-free translesion synthesis terms alongside repair and replication terms supports a repair-focused theme, with a few structural terms present as ancillary features.","confidence":"High","size":10,"edges":34,"triangles":60,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0006297","count":3},{"id":"GO:0042276","count":3},{"id":"GO:0006281","count":3}]},{"hash":"2150738105664932731","title":"Ubiquitin-mediated proteostasis and androgen signaling","description":"Most terms cluster around proteostasis: K11-linked ubiquitination, ER-associated degradation, and unfolded protein response. Converging terms on steroid hormone receptor assembly and prostate/male development suggest androgen-driven signaling. Some terms (cell cycle, gluconeogenesis, interferon response) are less central, reflecting broader cellular stress and metabolism; overall the label reflects a ubiquitin-mediated proteostasis axis with hormone signaling.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0090526","count":7},{"id":"GO:0070979","count":7},{"id":"GO:0007091","count":7},{"id":"GO:1903071","count":7},{"id":"GO:0006463","count":7}]},{"hash":"1351081161735243182","title":"Neurotransmitter and amino acid transport","description":"The top GO terms point to transporters for neurotransmitters and amino acids (serotonin uptake, glycine import and secretion, leucine and proline transport), with several related to neurotransmission and neural signaling. While a couple development terms appear, the prevailing pattern is membrane transport of neuroactive compounds, justifying a label focused on neurotransmitter and amino acid transport in neural contexts.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051610","count":4},{"id":"GO:0015820","count":4},{"id":"GO:0015824","count":4},{"id":"GO:0021794","count":4},{"id":"GO:0061537","count":4}]},{"hash":"1386320330594479636","title":"Immune cell signaling and differentiation pathways","description":"The cluster centers on signaling-related GO terms (KIT signaling, Wnt signaling, MAPKK regulation, TORC1 regulation) and cell interactions (cell-matrix adhesion), together with immune development signals (natural killer cell differentiation) and differentiation-related responses (retinoic acid response, apoptosis). This suggests a cohesive theme of signaling networks governing immune cell development, adhesion, and survival.","confidence":"High","size":10,"edges":22,"triangles":19,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":10},{"id":"GO:0007160","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0051389","count":10},{"id":"GO:0071300","count":10}]},{"hash":"1307741459626755599","title":"Embryonic Development Signaling and Stress Response","description":"The cluster centers on developmental processes (placenta and thymus development) and key signaling pathways (KIT, Wnt, retinoic acid) that drive tissue patterning. The accompanying responses to toxic substances and cadmium, plus MAPK-related activities, suggest a stress or environmental response layer often seen during development. Cell-matrix adhesion adds a remodeling dimension common in organogenesis. Overall, these proteins likely participate in embryonic development through signaling networks with an associated stress-response component.","confidence":"Medium","size":10,"edges":24,"triangles":32,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001890","count":9},{"id":"GO:0000187","count":9},{"id":"GO:0048538","count":9},{"id":"GO:0071276","count":9},{"id":"GO:0009636","count":9}]},{"hash":"1802555212360257486","title":"ER Protein Quality Control and Stress Response","description":"The cluster is dominated by endoplasmic reticulum (ER)\u2013related processes: ERAD (unfolded protein handling in the ER), ER stress\u2013related apoptotic signaling regulation, and tail-anchored membrane protein insertion into the ER membrane, suggesting a core theme of ER protein folding/homeostasis and stress response. Additional terms touch ribosome assembly and regulatory aspects like sumoylation and GPCR trafficking, which can intersect with general protein quality control and cellular stress pathways. Overall, the ER-centric protein homeostasis and stress signaling theme best ties the terms together.","confidence":"Medium","size":10,"edges":43,"triangles":104,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":9},{"id":"GO:0016925","count":9},{"id":"GO:0000028","count":9},{"id":"GO:0071816","count":9},{"id":"GO:1904021","count":9}]},{"hash":"286099277329938125","title":"Developmental transcriptional regulation","description":"The cluster includes terms for DNA-templated transcription and regulation of transcription machinery, alongside diverse developmental processes across multiple tissues (gland, gonad, neural crest, lens, trachea, etc.), suggesting a role in coordinating gene expression during embryonic development and morphogenesis rather than a single tissue-specific function.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0070384","count":6},{"id":"GO:2000020","count":6},{"id":"GO:0060534","count":6},{"id":"GO:0021986","count":6}]},{"hash":"197781414934079514","title":"Motor Neuron Development and Axon Guidance","description":"Most of the top GO terms describe motor neuron differentiation in the spinal cord (medial motor column, visceral motor neurons, cell fate specification) and axon guidance, with additional neural development terms (inner ear, cerebellar signaling) suggesting a broader neural-development context. This indicates the cluster centers on motor neuron development and their axonal pathfinding.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048839","count":9},{"id":"GO:0021527","count":8},{"id":"GO:0021526","count":8},{"id":"GO:0021524","count":8},{"id":"GO:0021520","count":8}]},{"hash":"2051054211543812664","title":"Skeletal and Craniofacial Development (BMP signaling)","description":"These proteins are predominantly involved in bone and cartilage formation and craniofacial patterning, evidenced by chondrocyte/chondroblast and osteoblast differentiation terms and BMP signaling regulation. Additional terms for palate development and heart/placental morphogenesis fit within broad vertebrate developmental processes, reinforcing a theme of embryonic skeletal and craniofacial differentiation guided by BMP signaling.","confidence":"High","size":10,"edges":14,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0002062","count":6},{"id":"GO:0042347","count":5},{"id":"GO:0030513","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0033690","count":5}]},{"hash":"1386062896916984096","title":"Membrane signaling and junction assembly","description":"These proteins are enriched for membrane-related processes: transcytosis, eisosome and tight junction assembly, and regulation of cell-cell adhesion, alongside signaling/modulatory roles (B cell receptor signaling, PKC) and membrane-associated processes like myelination and hemocyte proliferation. The common thread is membrane organization and signaling at cell interfaces rather than a single narrow function.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050861","count":2},{"id":"GO:0002337","count":2},{"id":"GO:0048172","count":2},{"id":"GO:0090038","count":2},{"id":"GO:0035208","count":2}]},{"hash":"453504230744364756","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":39,"triangles":80,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0021591","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0006289","count":3},{"id":"GO:0006310","count":3}]},{"hash":"1469571425899496453","title":"Membrane Localization and Receptor Trafficking","description":"The top GO terms cluster around membrane-associated localization (plasma membrane, cell cortex, apical localization), receptor internalization, and membrane signaling (sphingosine-1-phosphate receptor pathway), with additional links to focal adhesion and growth regulation. This points to a shared theme of membrane localization and receptor trafficking/signaling, despite some development-focused terms that may be organism-specific.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0002315","count":6},{"id":"GO:0046621","count":6},{"id":"GO:0045176","count":6},{"id":"GO:0051894","count":5},{"id":"GO:0072697","count":5}]},{"hash":"164399674639614015","title":"Unknown","description":"The top GO terms span diverse processes including xenobiotic and secondary metabolite catabolism/biosynthesis, plus unrelated roles in cell cycle regulation, endothelial adhesion, and response to food. There isn\u2019t a single coherent function tying these terms together, so a specific label is not warranted.","confidence":"","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":6},{"id":"GO:0046232","count":6},{"id":"GO:0032342","count":6},{"id":"GO:0019341","count":6},{"id":"GO:0010241","count":6}]},{"hash":"2111420117980365793","title":"Rho GTPase\u2013driven actin remodeling and cell protrusions","description":"The cluster centers on Rho signaling and GTPase activation, with strong representation of filopodium and lamellipodium assembly and substrate adhesion\u2013dependent spreading. This points to actin cytoskeleton remodeling governing cell protrusions and motility, with developmental terms like midbrain morphogenesis and heart development providing context for where these processes shape tissue formation. Overall, the proteins appear tied to cytoskeletal dynamics and protrusive cell movement.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:1904693","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0043314","count":5},{"id":"GO:0060313","count":5}]},{"hash":"520734163217278169","title":"GPCR-Mediated Blood Pressure Signaling","description":"The cluster's top terms coalesce around GPCR signaling with downstream adenylate cyclase activation, notably linked to blood pressure regulation (renin-angiotensin pathway) and retina/circadian biology, with additional immune and stress-related terms. The electron transport chain term appears less cohesive with the core GPCR-focused theme, suggesting some pleiotropy or broader metabolism, but the dominant signal supports GPCR-driven signaling in cardiovascular and circadian contexts.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0007190","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0001991","count":7}]},{"hash":"1866321750486585659","title":"Chemical Sensing and Taste Perception","description":"Most terms describe detection and processing of chemical stimuli, including pheromone response and taste perception (including bitter taste). This points to a shared function in chemosensation and gustatory signaling, even though some other terms (dopamine signaling, circadian regulation) reflect broader downstream effects.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019236","count":7},{"id":"GO:0007606","count":7},{"id":"GO:0001580","count":4},{"id":"GO:0050909","count":4},{"id":"GO:0007191","count":3}]},{"hash":"324227768559651165","title":"Hair Cycle and Epidermal Keratinization","description":"The top GO terms are dominated by keratinization and hair cycle, pointing to epidermal differentiation and hair growth as the cluster\u2019s core function. Additional annotations include circadian rhythm regulation, inflammatory signaling, and vascular-related processes, suggesting some pleiotropic roles or annotation overlap. Overall, the cluster appears to represent skin/epidermal biology with a focus on hair cycle activity.","confidence":"Medium","size":10,"edges":33,"triangles":65,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":9},{"id":"GO:0042633","count":9},{"id":"GO:0001991","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0072608","count":1}]},{"hash":"1342862993989326927","title":"Lipid metabolism and organelle dynamics","description":"The cluster is driven by terms tied to lipid handling (lipid droplet organization, adipose tissue development) and organelle dynamics (mitochondrial membrane potential regulation, peroxisome inheritance). These together suggest a core theme of energy metabolism and organelle maintenance. Other terms (innate immune response, NMJ-related processes, BMP signaling) appear more context-specific hints rather than defining the core function, so the label emphasizes metabolism and organelle dynamics as the representative theme.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0034389","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0050905","count":2},{"id":"GO:0051881","count":2}]},{"hash":"2012158501856779165","title":"Cell-cycle control and organelle maintenance","description":"This cluster mixes cell-cycle related terms (positive regulation of G2/M, mitotic spindle disassembly) with DNA repair, ribophagy, mitochondrial assembly, and membrane dynamics (membrane fission, cholesterol transport), plus developmental signals (blastocyst development, Hedgehog pathway regulation). The common thread appears to be intracellular remodeling and quality control of organelles and membranes during division and development, rather than a single signaling pathway. ","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045879","count":4},{"id":"GO:0034517","count":3},{"id":"GO:0090148","count":3},{"id":"GO:0051228","count":3},{"id":"GO:0030301","count":3}]},{"hash":"2123889563703646382","title":"Chromatin assembly and transcription during mitosis","description":"The top terms cluster around centromeric chromatin assembly (CENP-A), DNA-templated transcription, and histone modification, alongside cell division signals like microtubule severing. This points to a shared role in chromatin organization and transcription regulation during mitosis, even though a few terms (e.g., ER-Golgi transport) are less closely aligned. Overall, a chromatin-centric, mitosis-associated function best fits the cluster.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0061641","count":3}]},{"hash":"211569334060374740","title":"Metal ion transport and homeostasis","description":"The top terms are dominated by transport and regulation of metal ions (nitrite, manganese, cadmium, iron) and manganese homeostasis, suggesting a core theme of metal ion transport across membranes. A few immune-related and ethylene signaling terms appear but are less cohesive with the main pattern, which likely reflects broader cross-kingdom annotations. Therefore, the cluster is best described as Metal ion transport and homeostasis. ","confidence":"Medium","size":10,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0030026","count":1},{"id":"GO:0002606","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0071421","count":1}]},{"hash":"976822635847867508","title":"Lipoprotein trafficking and triglyceride metabolism","description":"The terms point to secretory pathway transport (ER to Golgi, endosome to Golgi, general protein transport) alongside lipid-focused processes (lipoprotein transport, triglyceride homeostasis, chylomicron remodeling, lipid catabolic process). This pattern suggests a functional cluster of proteins that coordinate vesicle trafficking relevant to lipoprotein processing and triglyceride handling within the ER-Golgi network. Confidence: Medium","confidence":"","size":10,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0010898","count":1},{"id":"GO:0034371","count":1}]},{"hash":"1192906839158677258","title":"Oxidative stress response and protein maintenance","description":"The cluster features redox-related processes: cellular redox homeostasis, oxidant detoxification, deglutathionylation, and ER stress response, plus protein repair and a prolyl hydroxylation step. Together these terms point to a network focused on sensing and mitigating oxidative stress and maintaining protein integrity (folding, modification, and turnover), with transcriptional regulation as a downstream response. ","confidence":"Medium","size":10,"edges":14,"triangles":5,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0018401","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034976","count":3}]},{"hash":"1849545551466155813","title":"Unknown","description":"The GO terms show a mix of lipid metabolism (ergosterol and unsaturated fatty acid biosynthesis, sphingolipid metabolism) and membrane trafficking (ER to Golgi vesicle transport), but also diverse, seemingly unrelated processes (mitochondrial inheritance, myelin maintenance, sebaceous gland differentiation, nitrate/NO metabolism, maternal axis). There isn\u2019t a single cohesive function tying all terms together, so a specific label is not recoverable from these data.","confidence":"","size":10,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032443","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0006809","count":4}]},{"hash":"1303170898957514759","title":"Carbohydrate and Lipid Metabolism","description":"Top terms cluster around sugar and lipid metabolic processes, including glycogen, starch, trehalose, and sucrose biosynthesis/metabolism, plus lipid catabolic and cholesterol biosynthetic processes. While there are a few outliers (obsolete term, xenobiotic response), the dominant theme is central metabolism of carbohydrates and lipids, justifying this label.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007584","count":2},{"id":"GO:0016042","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006695","count":2}]},{"hash":"1090303889674233609","title":"Cardiovascular development and blood pressure regulation","description":"The top GO terms strongly point to heart development, blood pressure regulation via the renin-angiotensin system, and vascular smooth muscle contraction, suggesting a cardiovascular-focused cluster. Some terms on circadian rhythm and immune modulation appear as peripheral associations or pleiotropic functions in these proteins, but the dominant themes tie to cardiovascular development and regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":10},{"id":"GO:0042752","count":10},{"id":"GO:0072608","count":10},{"id":"GO:0035625","count":10},{"id":"GO:0060041","count":10}]},{"hash":"1908364460748895572","title":"Developmental Signaling and Inflammation","description":"The top GO terms point to developmental signaling and morphogenesis, especially heart-related development (ventricular trabecula morphogenesis; cardiac neural crest cell development) and Notch receptor processing, alongside terms tied to differentiation (keratinocyte differentiation) and inflammatory/immune processes (response to TNF, leukocyte migration). The presence of both developmental/morphogenetic and inflammatory terms suggests a broad cluster centered on developmental signaling with ancillary immune-related functions, rather than a single, cohesive pathway. Given the mix, a general but informative label is Developmental Signaling and Inflammation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034612","count":5},{"id":"GO:0007220","count":5},{"id":"GO:0030216","count":5},{"id":"GO:0002523","count":5},{"id":"GO:0010042","count":5}]},{"hash":"1055030821510476388","title":"Chromatin remodeling and histone modification","description":"This cluster\u2019s terms are dominated by chromatin-related processes: chromatin remodeling, histone acetylation, and histone exchange. While a couple terms touch insulin/glucose signaling, the strongest and most consistent signal is epigenetic regulation of chromatin structure and histone modifications, suggesting coordinated control of gene expression through chromatin state.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:1900051","count":2},{"id":"GO:0021915","count":2},{"id":"GO:1905524","count":2},{"id":"GO:0035948","count":2}]},{"hash":"526668104335016553","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":19,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048477","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0042493","count":2}]},{"hash":"50083347388110174","title":"Unknown","description":"Top GO terms are diverse, spanning epidermal growth factor receptor signaling, heart-related signaling, cranial skeletal development, Wnt signaling, dendritic cell chemotaxis, synaptic vesicle uncoating, retinoic acid response, autophagosome assembly, and interferon signaling. The wide range of processes suggests no single cohesive function tying all proteins together, making a precise, representative label impractical. Therefore the cluster is best described as Unknown with no confidence in a specific label.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007173","count":8},{"id":"GO:0086098","count":8},{"id":"GO:1904888","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0002408","count":8}]},{"hash":"1486033025374796045","title":"Developmental and immune signaling with endocytosis","description":"Frequent GO terms relate to receptor signaling pathways (EGFR, Wnt), responses to retinoic acid, and interferon signaling, together with cranial skeletal development and dendritic cell chemotaxis. The presence of endocytosis suggests vesicle trafficking is involved, potentially linking receptor signaling to developmental and immune processes.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007173","count":9},{"id":"GO:0086098","count":9},{"id":"GO:1904888","count":9},{"id":"GO:0090263","count":9},{"id":"GO:0002408","count":9}]},{"hash":"1978236982535733616","title":"ER-Golgi Vesicle Trafficking","description":"This cluster is dominated by GO terms for vesicle transport between the endoplasmic reticulum and the Golgi, including both forward and retrograde transport (ER\u2192Golgi, Golgi\u2192ER) and broader intracellular protein transport. The presence of endosome-to-Golgi retrograde transport and related trafficking terms supports a unifying role in the secretory pathway. Some terms like brain development or pigmentation appear incidental or organism-specific, but the vesicle-traffic signal is strong enough to define the cluster.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043473","count":2}]},{"hash":"13789496140065958","title":"Lectin-mediated innate immunity and leukocyte trafficking","description":"This cluster is dominated by innate immune functions: activation of the lectin pathway of complement, signaling through C-type lectin receptors, and processes related to phagocytosis and leukocyte tethering/rolling. While a few developmental terms appear (cartilage and metanephric morphogenesis), the strongest and most recurrent signals describe immune recognition and response via lectin-based pathways, suggesting a cohesive theme around innate immunity rather than development. ","confidence":"Medium","size":9,"edges":15,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":7},{"id":"GO:0051873","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0060355","count":7},{"id":"GO:0002223","count":6}]},{"hash":"819377832729890442","title":"Embryonic Morphogenesis and Cytoskeletal Regulation","description":"The terms cluster around embryonic development and morphogenesis (in utero development, embryonic eye morphogenesis, growth plate cartilage development) and are reinforced by cytoskeletal and polarity-related processes (microtubule polymerization, gamma-tubulin complex localization to spindle poles, establishment of bipolar cell polarity). This suggests proteins involved in developmental tissue shaping that rely on microtubule dynamics and cell polarity, with some broader differentiation terms aligning with morphogenesis. ","confidence":"Medium","size":9,"edges":12,"triangles":3,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0048048","count":3},{"id":"GO:0060528","count":3},{"id":"GO:0003417","count":3},{"id":"GO:0031115","count":3}]},{"hash":"188679003516110302","title":"Neural development and brain morphogenesis with cilium assembly","description":"The top GO terms point to neural development and brain morphogenesis (brain, forebrain, retina, and spinal cord development) and neuron-related apoptosis, with cilium assembly contributing to neurodevelopment. TORC1 signaling and positive regulation of protein autophosphorylation hint at growth and signaling regulation during development, tying these processes together.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031954","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0051402","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0060271","count":3}]},{"hash":"953599568334062741","title":"RNA processing and splicing regulators","description":"The GO terms center on mRNA maturation and processing, including poly(A) tail regulation, mRNA export, spliceosome-mediated and alternative splicing regulation, and general RNA modification, with additional regulatory RNA silencing signals. These collectively point to proteins that govern RNA fate from processing to export and splicing, justifying a label focused on RNA processing and splicing control.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060211","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0016556","count":2}]},{"hash":"287773706556024076","title":"DNA Damage Response with Transcription and Translation","description":"The cluster centers on transcriptional control (DNA-templated transcription, termination/elongation) and translation, with links to DNA damage signaling pathways (p53 mediator, gamma radiation, UV response). This suggests a cohesive stress-response module where DNA damage triggers transcriptional programs and regulates translation to manage cell fate. The presence of both transcriptional and translational GO terms alongside p53- and UV/gamma-related terms supports a single, unified DNA damage response cluster.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0006353","count":3},{"id":"GO:0031564","count":3},{"id":"GO:1902167","count":3},{"id":"GO:0071480","count":3}]},{"hash":"2039169937646969091","title":"RNA splicing and processing machinery","description":"This cluster is driven by GO terms for spliceosomal complex assembly and mRNA processing, suggesting proteins involved in RNA maturation and splicing; other terms are sporadic (viral capsid assembly, viral release, mitochondrial protein import, unfolded protein response), but the RNA-related signals are the strongest.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000733","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0051301","count":1},{"id":"GO:0019069","count":1}]},{"hash":"1025717028303467254","title":"Innate immune signaling and apoptotic cues","description":"This cluster is characterized by GO terms pointing to innate immune activation (cellular response to lipopolysaccharide; positive regulation of interferon-beta production; regulation of Fc receptor signaling) and apoptosis-related membrane changes (phosphatidylserine exposure on apoptotic cell surface), along with cytoskeletal/membrane remodeling (barbed-end actin filament capping, cholesterol homeostasis) that commonly accompany phagocytosis and clearance of dying cells. A few terms about transcription and growth appear less related and may be incidental. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0051016","count":2},{"id":"GO:0032728","count":1},{"id":"GO:0042797","count":1},{"id":"GO:0006359","count":1}]},{"hash":"143364029876817489","title":"Neuronal signaling and sensory perception","description":"These nine proteins are enriched for nervous system functions: pain perception, vision, dopaminergic synaptic transmission, and behavioral responses to drugs such as morphine and cocaine. ERK signaling and GTPase regulation point to neuronal signal transduction and plasticity. A few terms like heart development and macrophage chemotaxis might reflect shared signaling pathways rather than direct neural roles, but the dominant theme is neural signaling and sensory/drug response.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0043278","count":8},{"id":"GO:0010759","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0007507","count":8}]},{"hash":"318597059725647030","title":"ER-Golgi Secretory Transport","description":"The dominant GO terms describe vesicle trafficking within the secretory pathway, especially ER-to-Golgi and Golgi-to-ER transport, ERGIC fusion, and Golgi-to-plasma membrane cargo movement. Additional terms reference intracellular protein targeting and secretory processes (NK cell degranulation, mucus secretion). Together these indicate a cluster centered on ER\u2013Golgi\u2013secretory vesicle transport.","confidence":"High","size":9,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0043001","count":3},{"id":"GO:0042147","count":3},{"id":"GO:0090316","count":3}]},{"hash":"183596619169795869","title":"Ribosome Biogenesis and Translation","description":"Proteins in this cluster are enriched for translation-related GO terms, including translation, cytoplasmic translation, and ribosomal large subunit assembly/export, as well as tRNA modification. This points to involvement in ribosome production and the protein synthesis machinery, with secondary links to cell cycle processes. The dominant theme is ribosome biogenesis and translation.","confidence":"High","size":9,"edges":6,"triangles":0,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0002181","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1903833","count":2}]},{"hash":"468430863955637258","title":"Meiosis and germline recombination","description":"This cluster centers on meiotic processes and recombination (joint molecule formation, male meiosis I, telomere maintenance via recombination, heteroduplex formation) and germline development signals (oocyte fate, axis polarity, blastocyst growth). The presence of DNA damage response terms (response to X-ray/xenobiotic stimulus) supports a link to meiotic DNA repair, reinforcing a meiosis/recombination-focused function.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000722","count":9},{"id":"GO:0006268","count":9},{"id":"GO:0042493","count":9},{"id":"GO:0030491","count":9},{"id":"GO:0007294","count":9}]},{"hash":"1691965745568649159","title":"Cilia and flagella cytoskeletal dynamics","description":"The cluster centers on cytoskeletal remodeling driving cilia and flagella movement and assembly, with explicit terms for microtubule severing, Arp2/3-driven actin nucleation, and sperm axoneme assembly/motility. The mix of cilium and flagellum\u2013related GO terms, plus microtubule/actin dynamics, strongly ties the proteins to motile organelle function rather than other processes.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0001403","count":2},{"id":"GO:2000601","count":2}]},{"hash":"191602320913338610","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070843","count":6},{"id":"GO:0071374","count":6},{"id":"GO:0035719","count":6},{"id":"GO:0032781","count":6},{"id":"GO:0051259","count":6}]},{"hash":"164014336504647077","title":"Immune signaling and proteostasis","description":"The top GO terms point to immune signaling activities (stimulatory C-type lectin receptor signaling; antigen processing and presentation via MHC I) and proteostatic regulation (SCF-dependent ubiquitin\u2013proteasome degradation, regulation of mRNA stability). While Wnt signaling terms are present, the strongest shared theme among the terms is immune signaling intertwined with protein turnover and gene regulation, suggesting a cluster of signaling and proteostasis-related proteins. ","confidence":"Medium","size":9,"edges":29,"triangles":43,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0002479","count":2},{"id":"GO:0043488","count":2}]},{"hash":"2094698131073275439","title":"Negative Regulation of Immune Cell Activation","description":"The top GO terms cluster around dampening immune responses\u2014negative regulation of NK cell cytotoxicity, macrophage activation, and cytotoxic T cell degranulation, plus suppression of IL-1 signaling. This suggests the proteins function in immune regulation and signaling, with supportive roles in cell adhesion and hematopoietic signaling (Kit pathway). Some terms (neural crest migration, vitamin D3 metabolism) may reflect broader or incidental roles, but the core theme is reduced immune activity and communication.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002859","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0043031","count":4},{"id":"GO:0086072","count":4},{"id":"GO:2000249","count":4}]},{"hash":"1763851667545112071","title":"Vertebrate embryogenesis and organogenesis","description":"This cluster centers on vertebrate embryonic development and organ morphogenesis. The top GO terms include eye development (camera-type eye development, embryonic eye morphogenesis), neural tube patterning (floor plate development), somitogenesis, and development of organs such as lung, pancreas, and thymus, indicating a broad developmental program rather than a single pathway. The inclusion of transcription by RNA polymerase II aligns with general gene expression control during development, supporting a label of vertebrate embryogenesis and organogenesis.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0043010","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0001701","count":5}]},{"hash":"784657249066418109","title":"Retinoid metabolism and related stress responses","description":"The top GO terms are strongly centered on retinol and retinoic acid metabolism (retinol, retinoic acid) suggesting a core theme around vitamin A metabolism. Additional terms point to stress-related responses (copper ion, nitrosative stress) and a few other metabolic processes, indicating the cluster may comprise proteins involved in vitamin A metabolism with concurrent stress-response roles and some ancillary metabolic activities. Confidence: Medium","confidence":"","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046688","count":7},{"id":"GO:0051409","count":7},{"id":"GO:0042573","count":7},{"id":"GO:0042572","count":7},{"id":"GO:0019518","count":7}]},{"hash":"812871972890243686","title":"Unknown","description":"The top GO terms are scattered across metal ion transport (cadmium, copper), calcium homeostasis, actin cytoskeleton regulation, LPS/heptose biosynthesis, and other diverse metabolic processes, with no clear shared function linking all proteins. Hence there is no coherent theme to label; the cluster is Unknown with None confidence. ","confidence":"","size":9,"edges":19,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0030836","count":2}]},{"hash":"665702016888258735","title":"Immune response, extrinsic apoptosis, and complement activation","description":"This cluster\u2019s top GO terms center on immune signaling and effector mechanisms: positive regulation of extrinsic apoptotic signaling via death receptors, activation-induced T cell death, inflammatory response, classical complement activation and MAC formation, and immunoglobulin-mediated immunity. While there are also a few development-related terms, the dominant theme is immune activation together with apoptosis and complement pathways, suggesting a cohesive immune-response module with cell death and lytic effector activity.","confidence":"High","size":9,"edges":13,"triangles":7,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2001241","count":5},{"id":"GO:0006924","count":5},{"id":"GO:0007157","count":4},{"id":"GO:0033564","count":4},{"id":"GO:0006954","count":4}]},{"hash":"1420194939246463132","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":2},{"id":"GO:0018023","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0018013","count":2}]},{"hash":"773572116384922126","title":"Craniofacial and cardiac development transcription regulation","description":"The top GO terms indicate developmental processes (roof of the mouth, endocrine development, left-right patterning, EMT in heart formation) combined with transcriptional regulation (RNA polymerase II\u2013mediated transcription and its negative regulation). This suggests proteins functioning together to regulate gene expression during craniofacial and heart morphogenesis.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0006366","count":4},{"id":"GO:0007576","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1458083734345645433","title":"Phototransduction and sensory GPCR signaling","description":"The top GO terms point strongly to sensory perception and phototransduction (visual perception, phototransduction) and to GPCR signaling coupled to a cGMP second messenger, which is characteristic of photoreceptor signaling. Additional terms for olfactory perception and thermosensory behavior suggest broader GPCR-based sensory signaling and membrane potential regulation, supported by potassium transport and membrane potential regulation terms. While a few terms like aerotaxis or cardiac muscle contraction seem less directly related, the dominant theme centers on light- and GPCR-mediated sensory signaling. This name therefore captures the core function represented by the cluster.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007602","count":5},{"id":"GO:0009454","count":3},{"id":"GO:0007608","count":3}]},{"hash":"1629366279462384509","title":"Meiosis and reproductive development","description":"The top GO terms point to reproductive biology and meiotic processes: embryo sac development, pollen development, and reciprocal meiotic recombination, along with double-strand break repair, all central to gametogenesis. Several terms reference maternal processes such as placenta development and parturition, suggesting a broader theme of reproductive development across species. Although a few terms pertain to general cellular functions (mitochondrial outer membrane permeabilization, muscle contraction), the dominant signal is proteins involved in meiosis and reproductive development. Based on this cohesive theme, the cluster is best described as related to meiosis and reproduction.","confidence":"Medium","size":9,"edges":15,"triangles":8,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006302","count":1},{"id":"GO:0009553","count":1},{"id":"GO:0009555","count":1},{"id":"GO:0007131","count":1},{"id":"GO:1903547","count":1}]},{"hash":"412890719583455102","title":"Cholesterol metabolism and lipid signaling","description":"The top GO terms cluster around cholesterol homeostasis and biosynthesis (cholesterol biosynthetic process, cholesterol homeostasis, isoprenoid biosynthetic process), SREBP signaling, LDL particle response, and cholesterol efflux, indicating a cohesive lipid metabolism and cholesterol-regulated signaling theme. Hedgehog-related (Smoothened) signaling and steroid hormone response further tie cholesterol biology to broader regulatory networks affecting tissues such as hair follicles. The sensory perception of sound term appears tangential, not central to this lipid-focused theme. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0042632","count":3},{"id":"GO:0008299","count":3},{"id":"GO:0032933","count":3},{"id":"GO:0071383","count":3}]},{"hash":"883079008249792233","title":"Regulators of cytoskeleton and secretory trafficking","description":"These terms cluster around regulation of cytoskeletal dynamics (actin capping, podosome assembly, microvillus length) and vesicle trafficking/secretion (COPII cargo loading, ECM constituent secretion), with additional signals related to neuronal plasticity and stress responses. The shared theme is regulatory control over structural and trafficking processes, rather than a single cohesive pathway, so the label captures the core commonality across the terms.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":2},{"id":"GO:0040037","count":2},{"id":"GO:2000311","count":2},{"id":"GO:0042771","count":2},{"id":"GO:1901301","count":2}]},{"hash":"1794354671301342000","title":"Skeletal and cardiac development with cytoskeletal remodeling","description":"The top GO terms point to vertebrate developmental processes in skeletal (cranial skeletal system development, osteoblast fate commitment) and cardiac (heart development) lineages. Supporting terms like podosome assembly, cleavage furrow formation, and regulation of Rho signaling highlight cytoskeletal dynamics and cell adhesion that underpin morphogenesis, aligning with both bone/heart development and actin remodeling. While some terms are broader, the dominant theme is development of skeletal/heart tissues coupled with cytoskeletal regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904888","count":2},{"id":"GO:0002051","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0010765","count":2}]},{"hash":"541433983903924496","title":"Transmembrane Nutrient Transporters","description":"The top GO terms cluster around transport of nutrients and metabolites across membranes (biotin, pantothenate, myo-inositol, glucose, sodium export, etc.), which suggests the proteins are primarily membrane transporters for nutrients. The presence of a few immune-related terms (innate immune response, neutrophil degranulation) and ubiquitination might reflect ancillary roles or annotation noise, but they do not dominate the function. ","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":4},{"id":"GO:0071436","count":4},{"id":"GO:0015887","count":4},{"id":"GO:0008292","count":4},{"id":"GO:0015798","count":4}]},{"hash":"81093101230313279","title":"Actin cytoskeleton remodeling and cell adhesion","description":"This cluster is dominated by GO terms related to actin dynamics and its regulation (Rho signaling, cytoskeleton reorganization, microspike assembly, actin crosslinking, cortical patch localization) as well as cell adhesion and polarity controlling cell shape. These collectively point to actin-driven remodeling that governs adhesion, spreading, and polarity, with heart development and IL-2 terms likely reflecting broader signaling roles rather than distinct functions. ","confidence":"High","size":9,"edges":9,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0030035","count":4},{"id":"GO:0007155","count":4},{"id":"GO:1900042","count":4}]},{"hash":"1344362692789899206","title":"Embryogenesis and organ morphogenesis with angiogenesis","description":"Most of the top GO terms point to developmental processes across tissues: left-right patterning, cartilage morphogenesis, epithelial-to-mesenchymal transition in heart development, placental and pancreatic development, and sprouting angiogenesis. The presence of an outlier immune term (complement activation) is minor compared to the developmental signals, so the cluster is best described as embryogenesis and organ morphogenesis with angiogenesis.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2}]},{"hash":"1139296485731225009","title":"Nucleic Acid Metabolism and RNA Processing","description":"The top GO terms cluster around nucleic acid synthesis and processing: deoxyribonucleoside monophosphate biosynthetic process, DNA biosynthetic process, thymidine metabolic process, and rRNA processing, pointing to DNA/RNA metabolism and maturation. A couple of signaling terms (negative regulation of Ras signaling, TORC2 signaling) likely reflect broader growth-regulatory context, but the core theme is nucleic acid metabolism and RNA processing.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":2},{"id":"GO:0038203","count":2},{"id":"GO:0009157","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0071897","count":1}]},{"hash":"1373419898556045591","title":"Neurovascular Signaling and Angiogenesis","description":"The top GO terms point to vascular/ECM processes (angiogenesis, regulation of endothelial cell survival, collagen fibril organization) alongside neural signaling (short-term memory, long-term potentiation) and exocytosis regulation. This conjunction suggests a cluster of proteins involved in coordinated neurovascular communication and vascular remodeling, linking endothelial dynamics with neuronal signaling. Confidence: Medium","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0002027","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0045921","count":2},{"id":"GO:0060291","count":2}]},{"hash":"1687673146207435043","title":"Carbohydrate and Glycerol Catabolism","description":"The cluster shows broad involvement in breaking down multiple carbohydrates (L-arabinose, D-xylose, rhamnose, fucose, glucuronate, xylulose) and glycerol, plus related steps like carbohydrate phosphorylation and glycerol-3-phosphate biosynthesis. This suggests a cohesive theme of carbohydrate utilization and glycerol metabolism across the proteins. Quorum sensing appears as an ancillary note, but the dominant signal is carbohydrate/glycerol catabolism.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":4},{"id":"GO:0019569","count":3},{"id":"GO:0019563","count":3},{"id":"GO:0019301","count":3},{"id":"GO:0042355","count":3}]},{"hash":"654922172551012042","title":"Immune activation and phagocytosis","description":"This cluster centers on immune signaling and responses, with GO terms spanning adaptive signals (B cell activation, B cell receptor signaling, T cell costimulation) and innate processes (phagocytosis recognition/engulfment, innate immune response, complement activation). The presence of cell adhesion and actin cytoskeleton regulation suggests immune synapse formation and cytoskeletal remodeling during immune cell interactions, tying these proteins to immune activation and phagocytic processes.","confidence":"High","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050871","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0006911","count":4}]},{"hash":"1216636460214089308","title":"Neuronal development and cytoskeletal dynamics","description":"Top GO terms point to neural development processes (neural tube closure, neuron projection development, multicellular organism development) with cytoskeletal remodeling (actin filament depolymerization) and cell division (mitotic spindle assembly). Additional terms involve gene expression mechanisms (transcription, translation initiation/reinitiation) and GTPase regulation, suggesting these proteins participate in neural morphogenesis alongside regulation of gene expression and cytoskeletal dynamics. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0002188","count":2}]},{"hash":"1969325122559370025","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046444","count":2},{"id":"GO:0019350","count":2},{"id":"GO:0009611","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0097171","count":2}]},{"hash":"2044178068098660821","title":"Endothelial angiogenesis regulation","description":"This cluster\u2019s top GO terms center on vascular development, especially endothelial cell proliferation in sprouting angiogenesis and endothelial cell delamination, pointing to regulation of angiogenesis in blood vessels. Supporting terms like ubiquitination, calcium signaling, and NF-kappaB-related regulation suggest these proteins participate in broader regulatory signaling that modulates endothelial growth and vascular dynamics. Despite no direct edges observed, the vascular-specific terms dominate, supporting a label focused on endothelial angiogenesis regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903589","count":9},{"id":"GO:0032088","count":9},{"id":"GO:0070212","count":9},{"id":"GO:1903759","count":9},{"id":"GO:0051209","count":9}]},{"hash":"167954815552177137","title":"Organ development and differentiation","description":"The GO terms point to development across multiple organs (seminiferous tubule development, ureteric bud morphogenesis, forebrain development) and related processes like renal ion transport and respiratory system function, with regulatory themes (circadian gene expression, apoptotic signaling). This suggests a broad developmental/differentiation theme for the cluster, even though there are no observed interactions among proteins. The mix of organ-specific development terms supports labeling as an organ development/differentiation cluster, albeit with heterogeneous signals.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0072520","count":2},{"id":"GO:0032922","count":1},{"id":"GO:0090190","count":1},{"id":"GO:0070294","count":1}]},{"hash":"1348347260153598538","title":"Neural development and cytoskeletal remodeling","description":"The cluster centers on neural development processes (neurogenesis, neural tube closure) and morphogenetic/cytoskeletal dynamics (cell migration regulation, ruffle and stress fiber assembly, GTPase activity, filament assembly), suggesting a cohesive role in neural development linked to cytoskeletal remodeling and cell movement across tissues. ","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0010632","count":2},{"id":"GO:0071689","count":2},{"id":"GO:1900029","count":2}]},{"hash":"1831831219634451594","title":"Ubiquitin-Mediated NF-\u03baB/JNK Signaling in Adaptive Immunity","description":"The cluster prominently features ubiquitination processes (protein ubiquitination, autoubiquitination, K63-linked), regulation of the JNK cascade, and activation of NF-\u03baB, along with adaptive immune functions (adaptive immune response, V(D)J recombination). This suggests a cohesive theme of ubiquitin-dependent signaling control in lymphocyte\u2013mediated immune responses.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0042787","count":4}]},{"hash":"1279966914124226584","title":"Cell Cycle and Wnt Signaling","description":"The top terms are centered on cell division and cell cycle (GO:0051301, GO:0007049) with a notable mention of canonical Wnt signaling (GO:0060070) and ubiquitination (GO:0016567), suggesting a cluster of proteins involved in regulating cell cycle progression and signaling control. Additional terms related to mechanical response and mitochondrial fission hint at broader cellular remodeling contexts, but the core theme appears to be cell cycle regulation with Wnt-assisted signaling and protein turnover.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0060048","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0060070","count":2},{"id":"GO:1900026","count":2}]},{"hash":"396517138712512544","title":"Nucleolar ribosome biogenesis","description":"These proteins show clear signals for rRNA maturation (5.8S and LSU rRNA) and assembly of large subunit preribosomes, which are core steps in ribosome biogenesis in the nucleolus. Additional terms point to broader nuclear activities (chromatin remodeling, transcription regulation, and nuclear pore localization), but the strongest and most specific signal is ribosome production in the nucleus.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032466","count":3},{"id":"GO:0000463","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0043044","count":2}]},{"hash":"1615523175675842305","title":"Nuclear RNA processing and transcription regulation","description":"The top GO terms cluster around nuclear processes that govern gene expression at the RNA level: negative regulation of transcription by RNA polymerase II, mRNA export, tRNA processing, and splicing-factor import. The presence of kinetochore localization and embryonic development terms suggests a broader cell-cycle/developmental context but does not override the core theme of RNA metabolism and transcription control in the nucleus. Some terms like xenobiotic response and phototaxis appear more peripheral/noise relative to the main theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0008283","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0032436","count":2}]},{"hash":"1846157973780477731","title":"Unknown","description":"The GO terms are too diverse to define a single cohesive function: ribosome maturation and translation initiation co-occur with chromatin assembly, apoptosis signaling, and several neural development terms (forebrain, retina, spinal cord). This heterogeneity makes a reliable, specific label unlikely. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0060416","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0051260","count":2},{"id":"GO:2001235","count":1}]},{"hash":"498756290603087856","title":"Splicing Regulation and mRNA Processing","description":"This cluster is driven by GO terms tied to spliceosome-mediated splicing, splice-site recognition, and regulation of alternative splicing, plus mRNA export and poly(A) tail regulation, pointing to a cohesive module of RNA maturation and nuclear export. Peripheral terms like ncRNA-mediated silencing and blastocyst formation are less central to the core theme. ","confidence":"High","size":8,"edges":11,"triangles":7,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006376","count":5},{"id":"GO:0060211","count":4}]},{"hash":"2100842281338983944","title":"Mitochondrial Transport and Energy Metabolism","description":"The top GO terms cluster around mitochondrial function: transmembrane transport of NAD+, ATP, and citrate; malate-aspartate shuttle; mitochondrial manganese transport; and processes linked to apoptosis and reactive oxygen species response. Despite a couple of obsolete terms, the dominant signal is mitochondrial transport and energy metabolism with redox regulation.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":3},{"id":"GO:0000303","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0035352","count":3},{"id":"GO:0007565","count":3}]},{"hash":"1345016402963807167","title":"Neural development and synapse assembly","description":"The top GO terms cluster around nervous system development, neuroligin-mediated postsynaptic assembly, synapse assembly, and cell adhesion, pointing to neural connectivity and synaptic organization; a few terms on ossification and immune signaling appear as outliers, likely reflecting multifunctional proteins or annotation noise.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097118","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0060122","count":3}]},{"hash":"1992657278134843397","title":"Virus replication and host translation machinery","description":"The cluster includes GO terms tied to core protein synthesis and folding (translation, ribosomal subunit assembly, protein folding, peptidyl-prolyl isomerization) alongside several virus-associated processes (uncoating, membrane fusion, proviral latency) and host responses (UV-A). This pattern points to proteins involved in viral lifecycle interactions with host translation and protein-processing systems.","confidence":"Medium","size":8,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0019061","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0010849","count":2}]},{"hash":"1674715090326123396","title":"Unknown","description":"The top GO terms come from a broad mix of plant hormone signaling, animal development, immune and neuronal functions, meiosis, cell division, and metabolism. With only 8 proteins and no edges connecting them, there is no clear, shared functional theme or pathway that ties the set together, so a coherent biological label isn\u2019t supported.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009742","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0014883","count":2},{"id":"GO:0051037","count":2}]},{"hash":"328288150545951713","title":"Angiogenesis with endothelial-immune signaling","description":"The cluster is dominated by terms for sprouting angiogenesis and endothelial cell migration, pointing to vascular development, while also including innate immune responses and cytokine regulation (e.g., positive regulation of inflammatory cytokines and Th17 lineage modulation), suggesting immune signaling at the vascular interface. Some terms like lipoprotein transport and keratinization appear as secondary context but do not dominate, whereas spinal cord development and protein deamination add developmental and post-translational themes. Overall, the strongest coherent theme is angiogenesis coupled with endothelial-immune signaling.","confidence":"Medium","size":8,"edges":16,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0002040","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0018277","count":2}]},{"hash":"581585914262619126","title":"Postsynaptic Assembly and Organization","description":"The prominence of gephyrin clustering in the postsynaptic density, neuroligin clustering, and synapse/postsynaptic membrane assembly terms points to a cohesive role in postsynaptic organization and synapse formation, with supporting neuronal development processes such as dendrite morphogenesis and neural tube development.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042130","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0036151","count":2},{"id":"GO:0097116","count":2},{"id":"GO:0048814","count":2}]},{"hash":"1375180461836280777","title":"Developmental Growth and Organogenesis","description":"Based on the top GO terms, the cluster is enriched for developmental and growth-related processes: multicellular organism growth, post-embryonic development, and heart valve morphogenesis are direct indicators of developmental biology and organogenesis. Cell division and regulation of transcription elongation also support growth and gene-expression control during development. Some terms (gamma radiation response, peroxisome matrix import, obsolete pathways) are broader or technical and do not define a single cohesive function, but the dominant theme is development and growth; hence the label Developmental Growth and Organogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0009791","count":2},{"id":"GO:0071480","count":2},{"id":"GO:0008542","count":2}]},{"hash":"1152988034381149580","title":"Angiogenesis and Endothelial Signaling","description":"The top GO terms point to vascular development, particularly angiogenesis and positive regulation of endothelial cell migration, with supporting pathways like KIT signaling, Wnt signaling, and retinoic acid responses that regulate endothelial behavior. Cell-matrix adhesion and DNA replication align with endothelial proliferation and matrix interactions during neovascularization. A few terms seem tangential (e.g., heterochromatin formation, obsolete MAPKK inactivation) but do not negate the central theme of angiogenic signaling in vascular development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043536","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0030466","count":3},{"id":"GO:0038109","count":3}]},{"hash":"1769201936009184184","title":"Inflammatory Immune Signaling and Hypoxia Response","description":"This cluster centers on immune activation and stress responses: T cell receptor signaling, lipopolysaccharide response, GM-CSF\u2013driven signaling, and xenobiotic response all point to inflammatory signaling, while hypoxia detection and vascular permeability tie into inflammation-related tissue responses. The presence of DNA-templated transcription suggests transcriptional regulation accompanying these signals, indicating a coordinated immune-stress response program.","confidence":"High","size":8,"edges":17,"triangles":18,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0097011","count":6},{"id":"GO:0043117","count":5}]},{"hash":"292604104428350850","title":"Transmembrane transport of nutrients and ions","description":"GO terms show transmembrane transport of diverse substrates (biotin, pantothenate, glucose, amino acids, inositol, ammonium, carnitine), indicating a shared role in moving nutrients/ions across membranes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0015798","count":1}]},{"hash":"2106804226177763923","title":"Developmental signaling and chemotaxis","description":"These proteins show terms spanning developmental processes (myoblast differentiation, midbrain-hindbrain boundary development) and signaling pathways (VEGF receptor signaling, AKT activation) along with cell movement cues (monocyte chemotaxis, positive chemotaxis) and related excitability (regulation of membrane depolarization). The common theme appears to be signaling that couples development with cell migration and proliferative cues, rather than a single dedicated pathway. ","confidence":"Medium","size":8,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045445","count":3},{"id":"GO:0010977","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0002548","count":3},{"id":"GO:0030949","count":2}]},{"hash":"2073255547442470243","title":"Neural Axon Guidance, Migration, and Synapse Assembly","description":"The top GO terms indicate coordinated neural development activities: axon extension and guidance (including corticospinal and retinal ganglion cell guidance), tangential neuronal migration, and regulation of synapse assembly, with accompanying signaling modulation (NF-kappaB) and chemokine pathway regulation. Together these point to a cluster of proteins involved in shaping neural circuits through axon pathfinding, cell migration, and synapse formation, rather than unrelated processes. Confidence: High","confidence":"","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":7},{"id":"GO:0090260","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0061364","count":6},{"id":"GO:0051965","count":6}]},{"hash":"853688985093473829","title":"TGF-\u03b2/BMP Signaling Regulation","description":"This cluster centers on GO terms related to cellular response to TGF-\u03b2 stimulus and negative regulation of TGF-\u03b2 receptor signaling and BMP signaling, along with peptidyl-threonine dephosphorylation, indicating components that modulate and dampen TGF-\u03b2/BMP pathways. The presence of meristem maintenance hints at a developmental signaling context, supporting a theme of growth-signaling regulation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0061191","count":2},{"id":"GO:0042006","count":2},{"id":"GO:0010074","count":2},{"id":"GO:0035970","count":2}]},{"hash":"680447920545731556","title":"Developmental signaling and vesicle trafficking","description":"This cluster shows strong signals for organ- and tissue-level development (heart, brain, nervous system, skeletal) coupled with vesicle fusion and calcium-dependent exocytosis, plus Rho-mediated signaling. Together, these terms point to proteins coordinating developmental processes with vesicle-based signaling and cytoskeletal dynamics, despite a few outlier terms likely due to annotation noise.","confidence":"Medium","size":8,"edges":23,"triangles":32,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0045956","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0007399","count":7}]},{"hash":"2156305196800140492","title":"Cardiac GPCR signaling and contraction regulation","description":"The terms point to GPCR signaling pathways (acetylcholine and tachykinin receptor signaling, GPCR internalization/desensitization) coupled with effects on heart function (cardiac muscle contraction, regulation of contraction, and heart development), suggesting a module of proteins coordinating GPCR-mediated control of heart activity.","confidence":"High","size":8,"edges":10,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0045988","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0002029","count":3}]},{"hash":"1413553255133201373","title":"Chromatin-regulated vertebrate embryonic morphogenesis","description":"The cluster\u2019s top GO terms center on chromatin remodeling and transcriptional regulation (negative regulation of transcription by RNA polymerase II; chromatin remodeling), coupled with multiple embryonic morphogenesis processes (neural crest migration, pancreatic development, heart morphogenesis, ureteric bud branching). This points to a theme of epigenetic control guiding vertebrate development, despite one outlier term likely reflecting annotation noise (chloroplast protein import). Confidence: Medium.","confidence":"","size":8,"edges":22,"triangles":29,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0043044","count":5},{"id":"GO:0048557","count":4},{"id":"GO:0001755","count":4},{"id":"GO:0031018","count":4}]},{"hash":"2153289204645660562","title":"Iron ion transport and detoxification","description":"This cluster is dominated by GO terms related to iron metabolism (iron ion transport, siderophore-iron import, detoxification of iron ion), pointing to a core function in iron homeostasis. The other terms (brain development, chromosome condensation) appear peripheral or reflective of broader cellular roles, but the recurring iron-related terms suggest a cohesive cluster around iron handling.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060528","count":2},{"id":"GO:0033214","count":2},{"id":"GO:1904234","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1305990108945008948","title":"Ubiquitin-dependent degradation and antiviral defense","description":"The cluster centers on ubiquitin-mediated proteolysis (ubiquitin-dependent catabolic process, protein polyubiquitination, ERAD) and includes immune-related terms (innate immune response, defense response to virus), indicating a theme of ubiquitin-driven quality control linked to antiviral signaling. The presence of K63-linked ubiquitination and related processes supports a role in signaling rather than just degradation, aligning with innate immune functions.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:1902564","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1503382844414349079","title":"Unknown","description":"The top GO terms present a heterogeneous mix, including hematopoietic differentiation (erythrocyte and granulocyte differentiation), cellular signaling (response to cAMP), and several unrelated or obsolete processes (histone methylation regulation, histone deacetylation, sperm capacitation, thiamine biosynthesis, and redox homeostasis). There isn\u2019t a single cohesive biological function or pathway that clearly ties these proteins together, making a precise, specific label inappropriate.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":5},{"id":"GO:0071320","count":5},{"id":"GO:0030851","count":5},{"id":"GO:0051573","count":4},{"id":"GO:0051572","count":4}]},{"hash":"948631534222100127","title":"Embryonic organ morphogenesis","description":"Top GO terms point to heart and skeletal development, axis patterning, and broader embryonic organogenesis processes, suggesting a developmental program across tissues. The presence of terms like ventricular morphogenesis, cranial skeletal system development, and maternal axis specification supports a generic developmental/morphogenetic theme, with additional regulatory terms indicating modulation of signaling and replication during development. Overall, the cluster seems to reflect embryonic development and tissue morphogenesis rather than a single specific pathway.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0003222","count":3},{"id":"GO:1904888","count":3},{"id":"GO:1990009","count":3},{"id":"GO:0072200","count":3},{"id":"GO:0007565","count":3}]},{"hash":"1489701431570285719","title":"Vertebrate Neural and Eye Development","description":"The term set centers on neural development (spinal cord-associated neuron differentiation, forebrain and hindbrain/rhombomere development) and eye/retina formation (camera-type eye, retina development, embryonic eye morphogenesis), with an additional craniofacial cue (odontogenesis). This points to a coherent vertebrate neural and ocular morphogenesis program. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":8},{"id":"GO:0044708","count":8},{"id":"GO:1904081","count":8},{"id":"GO:0030900","count":8},{"id":"GO:0043010","count":8}]},{"hash":"1691379310695266490","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":5},{"id":"GO:0006099","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0043200","count":4},{"id":"GO:0009252","count":4}]},{"hash":"1646606055281125974","title":"Neuronal adhesion and synapse formation","description":"Most terms point to neural connectivity: both homophilic and heterophilic cell-cell adhesion, paranodal junction assembly, and Notch receptor processing, along with positive regulation of synapse assembly and glutamatergic synaptic transmission. There is also a migration cue related to interneuron guidance. A few terms relate to non-neural processes (keratinocyte differentiation, ossification, TNF response) that appear as outliers, but the dominant signal supports neuronal adhesion/synapse development.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0034612","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0030913","count":3}]},{"hash":"2245704821802267604","title":"Unknown","description":"These eight proteins carry a mix of GO terms spanning fungal lipid metabolism (ergosterol biosynthesis regulation, MIPC metabolism, unsaturated fatty acid biosynthesis), mitochondrial dynamics (mitochondrion inheritance), neural development (myelin maintenance, spinal cord neuron differentiation) and other metabolic processes (nitrate assimilation, nitric oxide biosynthesis), plus sebaceous gland differentiation. The lack of a single coherent functional theme across all terms suggests no clear common function for the cluster, so an Unknown label is appropriate. ","confidence":"","size":8,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032443","count":5},{"id":"GO:0000001","count":5},{"id":"GO:0032286","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0006809","count":5}]},{"hash":"801050565161629761","title":"Cardiac Morphogenesis and Heart Growth","description":"This cluster is driven by multiple GO terms tied to heart development and morphogenesis, including ventricular and outflow tract morphogenesis, cardiac ventricle morphogenesis, and cardiac muscle tissue growth, indicating a cohesive focus on cardiac structure and growth. Supporting terms on cell-matrix adhesion and vessel formation align with tissue morphogenesis, while a few peripheral terms (glomerular capillary formation, osteoblast differentiation) may reflect broader developmental processes. Overall, the dominant signal points to cardiac development.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0003222","count":7},{"id":"GO:0007160","count":7},{"id":"GO:0061309","count":7},{"id":"GO:0090370","count":7},{"id":"GO:0003208","count":7}]},{"hash":"2201762024783146500","title":"Chromatin Organization and Nucleosome Assembly","description":"Most frequent terms describe nucleosome assembly, heterochromatin organization, and establishment/localization to chromatin, pointing to proteins involved in chromatin structure and regulation. Even the histone modification mentions (obsolete terms) align with chromatin-related activity, supporting a cohesive chromatin-centric cluster.","confidence":"High","size":8,"edges":17,"triangles":20,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":4},{"id":"GO:0016584","count":4},{"id":"GO:0006334","count":4},{"id":"GO:0098532","count":4},{"id":"GO:0070828","count":4}]},{"hash":"1258572680716491171","title":"Ribosome biogenesis and translation with cell cycle","description":"This cluster is dominated by ribosome-related processes: cytoplasmic translation, tRNA modification, ribosomal subunit export, and ribosome biogenesis, indicating a module of ribosome assembly and function. The concurrent presence of cell cycle and division terms suggests coordination between protein synthesis capacity and cell proliferation.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":6},{"id":"GO:0007049","count":6},{"id":"GO:1903833","count":6},{"id":"GO:0006400","count":6},{"id":"GO:0000055","count":6}]},{"hash":"380702647811888096","title":"Ubiquitin-mediated DNA repair and proteasome regulation","description":"This cluster centers on DNA damage response and repair, with strong emphasis on ubiquitin signaling and proteasome-mediated protein turnover. The top GO terms include DNA double-strand break processing and nonhomologous end joining, tied to ubiquitination processes (K63-linked ubiquitination, free ubiquitin chain polymerization) and proteasome-related regulation, plus synaptonemal complex organization, indicating meiotic chromosomal events. Together, these terms point to a coordinated ubiquitin-proteasome\u2013dependent mechanism for DNA repair and nuclear protein quality control.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000729","count":8},{"id":"GO:1990920","count":8},{"id":"GO:0010994","count":8},{"id":"GO:0070534","count":8},{"id":"GO:0090089","count":8}]},{"hash":"1937796514961443253","title":"Vertebrate neural development and stress response","description":"The top terms cluster around neural development (forebrain development, neural tube closure) and skeletal system development, with supporting hints of DNA-templated transcription and cellular stress signaling (cadmium response, ER stress-induced apoptosis). Immune-related terms appear but seem less central to the core theme. Overall, the proteins seem tied to vertebrate neural development with transcriptional regulation and stress response programs.","confidence":"Medium","size":8,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0001843","count":3}]},{"hash":"213771178414949119","title":"RNA Splicing and Processing","description":"This cluster is dominated by GO terms for RNA splicing and mRNA processing (RNA splicing, mRNA processing, regulation of alternative mRNA splicing via spliceosome), suggesting a core theme of RNA maturation; additional terms point to neural and muscle differentiation contexts that may be influenced by splicing regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048813","count":7},{"id":"GO:0006397","count":7},{"id":"GO:0048739","count":6},{"id":"GO:0000381","count":6},{"id":"GO:0050885","count":6}]},{"hash":"1935906540581093463","title":"Unknown","description":"The listed GO terms span disparate biology: immune signaling, development (lateral line in fish), neuron/synaptic processes, protein kinase regulation, ER stress response, and cell adhesion. Only a few terms hint at immune modulation; most others point to unrelated processes. With no clear shared function or pathway unifying all eight proteins, a concise, specific label is not justifiable.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0048387","count":2},{"id":"GO:0030968","count":1},{"id":"GO:2000510","count":1},{"id":"GO:1900026","count":1}]},{"hash":"1257441861992476900","title":"Developmental Signaling Pathways","description":"Based on the GO terms, these proteins cluster around multiple signaling pathways involved in development and morphogenesis, including EGFR signaling, Wnt signaling, retinoic acid response, and interferon signaling, with small GTPase-mediated signal transduction. The inclusion of labyrinthine layer morphogenesis and heart-related signaling supports a developmental theme, while proteasomal ubiquitin-dependent regulation suggests control of signaling turnover. Some terms (lipid storage, sexual reproduction) are peripheral but may reflect broader cellular states in development.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007173","count":3},{"id":"GO:0060670","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0032436","count":3},{"id":"GO:0019915","count":2}]},{"hash":"1049988356877283912","title":"Potassium Transport and Neural Signaling","description":"The cluster\u2019s strongest signals are potassium ion transport and potassium ion transmembrane transport, suggesting ion channels or transporters. Several terms also point to neuronal function and signaling, including sensory perception of pain, dendrite development, and cellular responses to cAMP/cGMP, which together imply a theme of neural excitability and signaling. A few terms (aerotaxis, DNA-templated transcription) are less aligned, which may reflect annotation noise or broader, shared components, but the dominant pattern centers on potassium transport linked to neural processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":8},{"id":"GO:0009454","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0019233","count":7}]},{"hash":"1310672463189622405","title":"Mitochondrial Transporters and Redox Metabolism","description":"The cluster centers on mitochondrial-focused processes: multiple transmembrane transport activities (NAD, citrate, ATP, malate-aspartate shuttle) alongside oxidative stress and apoptotic mitochondrial changes, indicating coordinated energy metabolism and redox regulation. Minor terms like manganese transport fit mitochondrial metal handling, while some obsolete/irrelevant terms appear noise. ","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":5},{"id":"GO:0000303","count":5},{"id":"GO:0097274","count":5},{"id":"GO:0035352","count":5},{"id":"GO:0007565","count":5}]},{"hash":"1571960579191614227","title":"B cell activation and antigen presentation","description":"This cluster is enriched for GO terms related to B cell activation, BCR signaling, innate immune response, complement activation, phagocytosis, and antigen presentation via MHC I, plus dendritic cell differentiation, indicating an immune-activation module centered on B cells and antigen-presenting cells. BMP signaling and axon guidance terms appear less central but may reflect broader signaling roles; overall the dominant theme is adaptive immune activation and antigen processing.","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050871","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0006911","count":6}]},{"hash":"344151649303317889","title":"Nuclear transcription and chromatin maintenance","description":"This cluster centers on nuclear processes related to gene expression and chromatin regulation: DNA-templated transcription, mRNA export from the nucleus, and SAGA complex localization to transcription regulatory regions, with additional links to histone modification and genome stability (DNA repair, trinucleotide repeat maintenance) and proteasome/centrosome components. The shared theme is regulation of transcription in a chromatin context and maintenance of genome integrity, rather than a single cytosolic pathway.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030447","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0040025","count":1},{"id":"GO:0000724","count":1}]},{"hash":"1804381300646724962","title":"Neural development and synaptic signaling","description":"This cluster is enriched with nervous system terms: excitatory postsynaptic potential, visual perception, Schwann cell development, and clustering of voltage-gated potassium channels, plus amphetamine response, indicating neural signaling and sensory processing. Developmental terms for heart and myoblast fusion suggest broader organismal development, but the neural-related terms are the strongest signal. Overall, the dominant theme is neural development and synaptic function.","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0043065","count":3}]},{"hash":"1241352496446169382","title":"Axon guidance and paranodal junction assembly","description":"The cluster is dominated by GO terms tied to axon guidance, localization to paranode/juxtaparanode regions, and both homophilic/heterophilic cell adhesion, with ROBO signaling. This points to a shared role in directing axon pathfinding and organizing paranodal/juxtaparanodal axon\u2013glia junctions, rather than unrelated processes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007411","count":5},{"id":"GO:0002175","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0060445","count":5}]},{"hash":"2282975892550099872","title":"Mitochondrial Transport and Energy Metabolism","description":"The top GO terms point to mitochondrial transport of NAD, citrate, and ATP, along with mitochondrial apoptotic changes and response to superoxide, highlighting a theme of mitochondrial energy metabolism and redox stress. A few terms (mitotic cell cycle, protein methylation, pregnancy) are less directly tied to mitochondria, but the dominant signals support a mitochondria-centric cluster.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006479","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0000303","count":3},{"id":"GO:0097274","count":3}]},{"hash":"1141282691641329099","title":"Autophagy and Ubiquitin-Proteasome Degradation","description":"The terms emphasize autophagy-related processes (autophagosome assembly, piecemeal microautophagy of the nucleus) and proteasome-mediated ubiquitin-dependent protein turnover, with supporting ubiquitin-regulation terms, suggesting a cohesive theme of cellular protein turnover under stress, possibly linked to fungal sporulation. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030437","count":2},{"id":"GO:0000045","count":1},{"id":"GO:0034727","count":1},{"id":"GO:1903094","count":1},{"id":"GO:0008219","count":1}]},{"hash":"541283542992822325","title":"Microtubule dynamics and spindle organization","description":"The top GO terms point to mitotic spindle mechanics (centrosome/pole separation, kinetochore-microtubule interactions, and microtubule polarity) and microtubule turnover and transport (plus-end directed transport, cytoplasmic/axonemal depolymerization). While a couple terms touch neuronal structure, the dominant signal is microtubule organization and dynamics across mitosis and cellular architecture. ","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0099607","count":7},{"id":"GO:0007100","count":7},{"id":"GO:0030951","count":7},{"id":"GO:0000073","count":7},{"id":"GO:0072383","count":7}]},{"hash":"487060506839703509","title":"Adaptive immunity and chromatin regulation","description":"This cluster centers on adaptive immune response signals, with supporting themes of apoptosis recognition, and epigenetic and transcriptional regulation (histone demethylation/methylation, Pol II transcription control) plus ubiquitination, suggesting an immune-regulatory module tied to developmental contexts like placenta/blastocyst formation. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0033169","count":2},{"id":"GO:0045869","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0061087","count":2}]},{"hash":"462396738542193564","title":"RNA Splicing and Processing Machinery","description":"This cluster is enriched for RNA metabolism processes: P-body and mRNA decapping/decay, spliceosome and snRNP assembly, mRNA splicing, tRNA processing, and rRNA maturation. Together these terms point to coordinated RNA processing, splicing, and RNA-protein complex assembly, with supporting signals from related RNA decay pathways. Some peripheral terms (stress response) may reflect broader regulation under stress but do not outweigh the core RNA-centric theme.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":7},{"id":"GO:0030490","count":7},{"id":"GO:0000245","count":7},{"id":"GO:0000387","count":7},{"id":"GO:0070317","count":7}]},{"hash":"1944982378154655297","title":"Epidermal Development and Growth Signaling","description":"The top GO terms cluster around skin/epidermal development (skin development, regulation of epidermal cell division) and organismal growth, with insulin receptor signaling and transcriptional regulation also represented. This points to a developmental growth theme with a particular emphasis on epidermal biology and signaling pathways, while some metabolic or stress-related terms may be broader or ancillary. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1312974259224873422","title":"ER Stress Response and Apoptosis Regulation","description":"The top GO terms cluster around cellular response to unfolded protein and ER stress, including regulatory aspects of intrinsic apoptotic signaling in response to stress, which together point to a theme of protein quality control and cell survival under stress. Some terms like DNA replication and iron-sulfur cluster assembly are less aligned with this theme and may reflect broader cellular maintenance roles of the proteins. Overall, the dominant signal is ER stress and apoptosis regulation, so this label captures the core function of the cluster.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034620","count":7},{"id":"GO:1903751","count":7},{"id":"GO:0006260","count":7},{"id":"GO:1903382","count":7},{"id":"GO:0016226","count":7}]},{"hash":"1173137497696549462","title":"DNA Damage Response and Cell Cycle Regulation","description":"Proteins in this cluster are enriched for GO terms tied to maintaining genome integrity and regulating the cell cycle: DNA replication, UV-damage excision repair, and mitotic intra-S DNA damage checkpoint signaling, along with ubiquitination and regulation of apoptosis. Although there are also terms related to autophagy and general stress responses, the core theme centers on genome stability surveillance and cell cycle control, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0070914","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0006260","count":2}]},{"hash":"429836787681721624","title":"Mast cell signaling and activation","description":"The GO terms are dominated by immune-related processes focused on mast cell activity, including positive regulation of mast cell cytokine production, activation via Fc-epsilon receptor signaling, and the Kit signaling pathway, as well as cell-matrix adhesion and monocyte aggregation. Although a few terms relate to inner ear development, the strongest and most representative theme across the terms is mast cell signaling and activation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0060005","count":1},{"id":"GO:0009444","count":1},{"id":"GO:0032765","count":1},{"id":"GO:1900625","count":1}]},{"hash":"1743098954691851920","title":"Nucleolar RNA processing and ribosome biogenesis","description":"The dominant GO terms point to nuclear RNA processing (mRNA and snoRNA splicing), nucleolus organization, ribosome biogenesis, and translation, indicating a role in ribosome assembly and gene-expression machinery in the nucleolus. A few immune-related terms are present but do not define the core function of the cluster. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":2},{"id":"GO:0098789","count":2},{"id":"GO:0034247","count":2},{"id":"GO:0007000","count":1}]},{"hash":"848340643505220838","title":"RNA Processing and Splicing Regulation","description":"This cluster is dominated by GO terms tied to mRNA maturation and surveillance: splicing regulation via the spliceosome, splice site recognition, mRNA export, poly(A) tail regulation, and ncRNA-mediated gene silencing. These terms together suggest roles in post-transcriptional processing and alternative splicing control. A couple of terms (viral translational termination-reinitiation, blastocyst formation) appear incidental but do not override the main signal.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0016556","count":3}]},{"hash":"1152301282135050859","title":"DNA replication and cell cycle core","description":"Most top GO terms point to DNA replication (initiation and replication) and cell division, with related repair regulation; together they suggest a cluster of proteins involved in DNA synthesis and cell-cycle progression. A few terms (e.g., microvillus assembly, secretory granule localization) appear unrelated and may reflect annotation noise or multifunctional proteins, given the sparse connectivity.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000733","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0071712","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1368988871186165316","title":"Developmental morphogenesis and transcription regulation","description":"The cluster includes palate development, hair follicle morphogenesis, left-right patterning, EMT in endocardial cushion formation, and endocrine system development, indicating roles in organogenesis and tissue patterning. It also features transcription-related terms (RNA polymerase II transcription, transcription elongation, mRNA capping), suggesting these proteins participate in transcriptional control during development. Together, these signals point to a developmental program coordinating gene expression with morphogenesis.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0035270","count":4},{"id":"GO:0006362","count":4},{"id":"GO:0060972","count":4}]},{"hash":"188509472561673814","title":"RNA processing and transcription regulation","description":"This cluster centers on transcriptional control (DNA-templated transcription, termination regulation) and RNA metabolism (mRNA stabilization, pre-miRNA processing, miRNA catabolism), with some translation-related terms, suggesting a module coordinating transcription with post-transcriptional RNA processing and protein synthesis. Confidence in this labeling is Medium.","confidence":"Medium","size":7,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0070934","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0031054","count":2},{"id":"GO:1901724","count":2}]},{"hash":"1176610494179633136","title":"Neuronal development and locomotor behavior","description":"This cluster is dominated by GO terms related to nervous system development and behavior (grooming and locomotory behavior), with supporting signals of neuronal differentiation (cerebral cortex neuron differentiation) and transcription/ubiquitin-related processes. The strongest recurring themes are neural development and behavioral activity, even though there are also general cellular processes present. The absence of edges suggests grouping by shared functional annotations rather than direct interactions, but the neural development/behavior theme remains clear.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007625","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1656544925795019402","title":"Skeletal muscle filament assembly and adaptation","description":"The cluster is dominated by muscle-related terms: skeletal muscle fiber adaptation, skeletal muscle thin filament assembly, and actin filament bundle assembly, pointing to muscle cytoskeleton assembly and remodeling. While there are additional developmental and chromatin-related terms present, the strongest signal relates to muscle structure and adaptation, supporting this label with moderate confidence.","confidence":"Medium","size":7,"edges":16,"triangles":20,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":5},{"id":"GO:0043503","count":4},{"id":"GO:0030240","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0010628","count":4}]},{"hash":"1819700444278787174","title":"Bacterial cell wall and LPS biosynthesis","description":"The cluster is enriched for biosynthetic processes of the bacterial cell envelope, including lipopolysaccharide biosynthesis, lipid A biosynthesis, O antigen biosynthesis, peptidoglycan biosynthesis, and UDP-N-acetylglucosamine biosynthesis, which together define cell wall/envelope assembly typical of Gram-negative bacteria. The presence of a response to antibiotic term also aligns with cell wall\u2013targeting stress responses. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0009245","count":3},{"id":"GO:0045226","count":2},{"id":"GO:0009252","count":2}]},{"hash":"685871650402011971","title":"Unknown","description":"The GO terms cover heart development, apoptosis, neurotrophin signaling, NF-kappaB/JNK regulation, fungal-elicited responses, sensory perception, and B cell homeostasis, showing no clear shared function across the proteins. The terms suggest a mixture of developmental, immune signaling, and cellular stress roles rather than a single cohesive cluster. Therefore, there is no confident, specific label beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0097194","count":4},{"id":"GO:0048011","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0046329","count":4}]},{"hash":"1656206470891196977","title":"Neural development and transcriptional regulation","description":"The enriched terms revolve around DNA-templated transcription and neural development (forebrain development, neural tube closure) as well as cell morphogenesis, suggesting proteins that regulate gene expression during neural development and tissue shaping. Obsolete terms are present but do not override the main signal. Overall, the cluster appears to reflect transcriptional control in neural development contexts.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000902","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0050830","count":2}]},{"hash":"916958898844044766","title":"Ubiquitin-Dependent Protein Degradation and Regulation","description":"The strongest signals are ubiquitin-related, including ubiquitin-dependent protein catabolic process, regulation of ubiquitination, and specific ubiquitin linkage (K33); other terms seem like noise (muscle differentiation, tubule morphogenesis), but the core theme is ubiquitin-mediated protein turnover and regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0006627","count":2},{"id":"GO:0000746","count":2},{"id":"GO:0072156","count":2}]},{"hash":"1750982748601533594","title":"Ubiquitin-Proteasome Regulation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes (including K63-linked ubiquitination and autoubiquitination) and their regulatory controls, pointing to involvement in tagging proteins for degradation and modulating proteasome turnover, with additional hints of signaling regulation (JNK, GTPase activity). This coherently groups the cluster around the ubiquitin-proteasome system.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0060669","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0051865","count":3}]},{"hash":"444996293109867816","title":"Metabolic Catabolism and Cell Wall Dynamics","description":"Most of the GO terms cluster around catabolic processes for various substrates (e.g., D-galactonate, mandelate, glucarate, amino acids) and cell wall\u2013related activities (cell wall organization, cell wall macromolecule catabolic). While a few terms are more context-specific (phylloquinone biosynthesis, vacuole fusion regulation, skeletal muscle regeneration), the shared theme is general metabolic turnover with an emphasis on breakdown and cell wall remodeling, suggesting these proteins participate in broad metabolism and structural turnover rather than a single specific pathway.","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":3},{"id":"GO:0019394","count":3},{"id":"GO:0034194","count":3},{"id":"GO:0009405","count":3},{"id":"GO:0032889","count":3}]},{"hash":"1915320333020940778","title":"Unknown","description":"The top GO terms span plant hormonal signaling, organ development, immune and neural functions, muscle fiber transitions, meiotic regulation and DNA repair, cytokinesis localization, and isoprenoid biosynthesis. This broad, cross-kingdom mix shows no single, coherent function tying all proteins together, so a concise, representative label can't be assigned.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009742","count":7},{"id":"GO:0030324","count":7},{"id":"GO:0043029","count":7},{"id":"GO:0014883","count":7},{"id":"GO:0051037","count":7}]},{"hash":"1095685694086582362","title":"Starvation and metabolic stress response","description":"This cluster centers on cellular adaptations to nutrient limitation and metabolic signaling, with GO terms about starvation (biotin and general starvation responses), caloric restriction, adipose tissue development, and regulation of PKA activity, alongside transcription and DNA repair components that can be mobilized during stress. Together, these terms suggest a cohesive theme around metabolic stress and nutrient-responsive regulation, rather than a single enzymatic activity.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904179","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1905549","count":2},{"id":"GO:2000480","count":2}]},{"hash":"1391114984919574146","title":"Embryonic Development and Morphogenesis","description":"This cluster combines several GO terms tied to embryonic development and tissue morphogenesis: roof of mouth development, left/right pattern formation, hair follicle morphogenesis, epithelial-to-mesenchymal transition in heart cushion formation, and trophoblast giant cell differentiation. While some entries describe general processes like transcription and RNA splicing, the prevailing theme is development and organogenesis during embryogenesis. The proteins together likely contribute to patterning and morphogenetic events rather than a single biochemical pathway.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0006366","count":6}]},{"hash":"1817618704810488835","title":"Cardiac signaling and telomere regulation","description":"The set includes GO terms pointing to heart-related signaling (SA node action potential regulation and SA node to atrial communication) and endothelial proliferation in angiogenesis, alongside telomere maintenance and capping regulation. While there are also broader terms like cell migration and mechanosensation, the strongest and most coherent pattern centers on cardiac signaling/modulation and telomere-related processes, suggesting a cluster of cardiovascular signaling with telomere dynamics.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904908","count":6},{"id":"GO:0098907","count":6},{"id":"GO:1904355","count":6},{"id":"GO:0050966","count":6},{"id":"GO:0016477","count":6}]},{"hash":"1522414248248255171","title":"Amino acid and related metabolite biosynthesis","description":"Nodes in this cluster are enriched for biosynthetic and catabolic processes of amino acids (tyrosine, kynurenine/tryptophan, lysine) and related metabolites, plus a sphinganine precursor and heme biosynthesis. This suggests a metabolic module focused on the production and turnover of small molecules rather than a single dedicated pathway. Some terms are listed as obsolete, which may reflect annotation updates rather than a different function.","confidence":"Medium","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046511","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006570","count":2},{"id":"GO:0006571","count":2},{"id":"GO:0006783","count":2}]},{"hash":"1829315184160089275","title":"Developmental transcriptional regulation and morphogenesis","description":"The cluster centers on regulatory control of gene expression (negative regulation of transcription by RNA Pol II and chromatin remodeling) and is enriched for diverse morphogenesis-related terms (neural crest migration, trachea gland development, endocrine pancreas development, ureteric bud branching, and embryonic digestive tract morphogenesis), suggesting a shared theme of transcriptional regulation guiding developmental processes and organ formation. Some terms (e.g., vernalization, gamma radiation response) are broader/outliers, but the core signal aligns with developmental transcriptional control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:2001229","count":2},{"id":"GO:0010048","count":2},{"id":"GO:0045662","count":2},{"id":"GO:0043044","count":2}]},{"hash":"1210113750397772283","title":"Unknown","description":"The GO terms are highly heterogeneous (nervous system development, B cell signaling, muscle development, sperm-egg recognition, hormone responses, defense, retina homeostasis, lactose biosynthesis) and there are no network connections (Edges 0, Triangles 0), suggesting no single cohesive function for this protein set.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0035036","count":2},{"id":"GO:1903494","count":2}]},{"hash":"550209663890478916","title":"Pancreatic endocrine development and insulin regulation","description":"This cluster is driven by terms about endocrine pancreas development, pancreatic cell differentiation (epsilon, D, and B types), and regulation of insulin secretion, with supporting transcriptional regulation terms. Despite some unrelated terms like cilium assembly, the dominant theme is pancreatic endocrine differentiation and insulin control.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0090104","count":4},{"id":"GO:0060982","count":4},{"id":"GO:0006357","count":4},{"id":"GO:0031018","count":4}]},{"hash":"1137090429191370025","title":"Pol II Transcription Repression and Chromatin Remodeling","description":"The cluster\u2019s top GO terms are dominated by negative regulation of transcription by RNA polymerase II, with supporting signals of chromatin dynamics (nucleosome mobilization, histone modification, heterochromatin formation) and related transcriptional regulation processes, suggesting a functional group centered on transcription control linked to chromatin state. Some terms related to metabolism and photomorphogenesis may reflect broader regulatory pathways but do not override the core theme of Pol II\u2013mediated transcription regulation and chromatin remodeling.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0061408","count":2},{"id":"GO:0043457","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0000183","count":2}]},{"hash":"1595379930374815221","title":"Craniofacial development and ECM remodeling","description":"The dominant terms\u2014collagen fibril organization, somite development, and palate development\u2014point to extracellular matrix remodeling during craniofacial morphogenesis; the proteolysis term supports ECM processing, while xenobiotic and inflammatory responses may reflect broader cellular contexts.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0016540","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0061053","count":2}]},{"hash":"1584142654727937130","title":"DNA Damage Repair and Ubiquitin-Proteasome Regulation","description":"These proteins are centered on the DNA damage response and ubiquitin-proteasome system. The presence of DSB processing and NHEJ repair terms indicates a role in repairing double-strand breaks, while ubiquitination-related terms (K63-linked ubiquitination, free ubiquitin chain polymerization) and proteasome- and quality-control terms point to ubiquitin-mediated regulation of repair processes and protein turnover, including chromosomal organization contexts such as synaptonemal complex organization.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000729","count":7},{"id":"GO:1990920","count":7},{"id":"GO:0010994","count":7},{"id":"GO:0070534","count":7},{"id":"GO:0090089","count":7}]},{"hash":"62123596726076463","title":"Ubiquitin-Mediated NF-kappaB and TNF Signaling","description":"The cluster shows strong signals for various ubiquitination processes (K6, K63, K48 linked), ubiquitin-dependent protein catabolic processes, and autoubiquitination, along with positive regulation of canonical NF-kappaB signaling and TNF-mediated signaling, and negative regulation of necroptosis. This points to a cohesive module centered on ubiquitin-driven regulation of signaling pathways, especially NF-kappaB and TNF, and associated protein turnover.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0036205","count":4},{"id":"GO:0085020","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0043123","count":4},{"id":"GO:1903265","count":4}]},{"hash":"1934273779069474029","title":"GPCR-CAMP Signaling in Vascular Regulation","description":"The top GO terms cluster around GPCR signaling that activates adenylate cyclase and raises cAMP, with downstream effects on Rho signaling and vascular control (blood pressure, renin-angiotensin pathway). Additional terms hint at broader regulatory roles (circadian rhythm, cytokine production, and some tissue-specific processes like retina development), but the core pattern is GPCR-mediated cAMP signaling linked to vascular regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":5},{"id":"GO:0022900","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0007190","count":4},{"id":"GO:0035025","count":4}]},{"hash":"1573812760828314293","title":"Nuclear mRNA Processing and Splicing Regulators","description":"The GO terms cluster around mRNA processing, splicing via the spliceosome, mRNA export, poly(A) tail regulation, and alternative splicing control, indicating proteins involved in nuclear RNA maturation and surveillance. Some terms like blastocyst formation or viral translation are less central and likely incidental.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0060211","count":4},{"id":"GO:0075525","count":4}]},{"hash":"581128909319540785","title":"Diverse Transmembrane Transporters","description":"The proteins are annotated with multiple transmembrane transport GO terms for xenobiotics, neurotransmitter loading into synaptic vesicles, phosphate, vitamins, nitrate/nitrite, arabinose, and related substrates, indicating a family of membrane transporters with broad substrate specificity. This common function, rather than a single substrate, best explains the cluster, even though no interaction edges are shown. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3}]},{"hash":"676564388656022879","title":"RNA processing and ribosome biogenesis","description":"Most of the high-frequency GO terms cluster around RNA processing and ribosome biogenesis: splicing (mRNA via spliceosome), regulation of splicing, and pseudouridine synthesis (RNA modification) alongside ribosome biogenesis. This combination points to a core function in RNA maturation and ribosome assembly, with other terms likely reflecting more specific or context-dependent roles.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:1903955","count":1},{"id":"GO:0001522","count":1},{"id":"GO:1903146","count":1},{"id":"GO:0042254","count":1}]},{"hash":"462815922194464097","title":"Phagocytosis and leukocyte adhesion signaling","description":"This cluster is dominated by GO terms tied to innate immune recognition and phagocytic signaling, including phagocytosis recognition, stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, leukocyte tethering/rolling, and regulation of platelet activation. A few development-related terms appear but appear incidental to the main immune theme, suggesting the proteins function in phagocytic and leukocyte adhesion pathways.","confidence":"High","size":7,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":5},{"id":"GO:0002223","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0072287","count":4},{"id":"GO:0072177","count":4}]},{"hash":"610194632987139309","title":"Nuclear RNA Processing and Cardiac Development","description":"The cluster's top GO terms center on nuclear RNA metabolism and protein modification (mRNA export, deadenylation regulation, sumoylation, DNA break attachment to the nuclear envelope), with a few heart-development signals (positive regulation of cardiac muscle cell differentiation; ductus arteriosus closure). This points to proteins involved in regulating gene expression and RNA processing, with some links to cardiovascular development pathways. The mixture of nuclear processes and cardiac-related terms yields a plausible but not tightly cohesive theme, hence a medium confidence.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000727","count":3},{"id":"GO:0097010","count":2},{"id":"GO:0032208","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1990683","count":2}]},{"hash":"1244674151143350479","title":"RNA Processing and Translation Initiation","description":"This cluster is dominated by mRNA splicing and translation initiation terms, including spliceosome-mediated splicing and formation of the translation preinitiation complex as well as IRES-dependent translational initiation, indicating a core theme of RNA metabolism and ribosome recruitment. Additional terms related to mRNA binding and regulation of translation support a gene-expression\u2013level connection, while mitochondrial fission and germ-line encapsulation appear as less central outliers.","confidence":"Medium","size":7,"edges":16,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0000266","count":3},{"id":"GO:0048140","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0075522","count":3}]},{"hash":"207556632803638248","title":"Innate Immune Signaling and Cytokine Production","description":"The GO terms center on defense against bacteria, TLR7 signaling, NLRP3 inflammasome regulation, chemokine and interferon production, and IL-18 production, which together reflect coordinated innate immune and inflammatory signaling; one outlier term about tooth mineralization is likely incidental.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0034154","count":4},{"id":"GO:1900227","count":4},{"id":"GO:0071727","count":4},{"id":"GO:0050929","count":4}]},{"hash":"492960273064478373","title":"Detoxification and Xenobiotic Metabolism","description":"The top GO terms cluster around detoxification and broad catabolic processes for xenobiotics and various substrates (response to toxic substances, cellular oxidant detoxification, stilbene and other substrate catabolic processes, antibiotic biosynthesis). Some terms are plant- or other-domain specific (secondary shoot formation, prostaglandin catabolic), which are less cohesive with the main theme. Overall, the shared pattern is metabolic breakdown and detoxification, so this label reflects the dominant function though not perfectly.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":4},{"id":"GO:0046272","count":3},{"id":"GO:0010223","count":3},{"id":"GO:1905344","count":3},{"id":"GO:0042619","count":3}]},{"hash":"1761787759864125961","title":"Diverse membrane solute transporters","description":"The proteins cluster around transmembrane transport activities across a variety of substrates, including neurotransmitter loading into synaptic vesicles, potassium, galactose, phosphate, nitrate, fucose, sialic acid, and xenobiotics, suggesting a group of membrane transport proteins with broad substrate range. While a couple of terms pertain to metabolism, the dominant signal is transporter function, justifying a label focused on diverse solute transporters.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0035435","count":2}]},{"hash":"810782635330311381","title":"Glycolysis and carbohydrate metabolism","description":"Dominant GO terms in this cluster are glycolysis- and carbohydrate-related (canonical glycolysis, fructose-6-phosphate metabolic process, glycogen catabolic process, carbohydrate phosphorylation), indicating an energy production/metabolism theme. A few synaptic organization terms appear but are much less represented, suggesting they are secondary associations rather than the main function. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0006002","count":2},{"id":"GO:0093001","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0061621","count":2}]},{"hash":"1019022727384691359","title":"Rab GTPase\u2013driven vesicle trafficking","description":"The cluster is dominated by GO terms linked to Rab protein signal transduction, protein transport, activation of GTPase activity, and geranylgeranylation (a lipid modification essential for Rab membrane anchoring and function). Together these indicate a focus on Rab GTPase\u2013mediated vesicle trafficking and membrane targeting, with some fish-specific differentiation terms appearing as context rather than core function. ","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0032482","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0048798","count":1},{"id":"GO:0090315","count":1}]},{"hash":"2271529480756217811","title":"ER protein folding and redox stress response","description":"The top GO terms point to endoplasmic reticulum\u2013associated processes: protein folding in the ER, ER stress response, and protein repair, with redox-related activities like deglutathionylation and oxidant detoxification. The presence of prolyl hydroxylation also aligns with ER-based maturation of secreted proteins. These together suggest a coherent theme of ER-based protein quality control under oxidative stress.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0018401","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0034976","count":6},{"id":"GO:0030091","count":6},{"id":"GO:0006662","count":6}]},{"hash":"214084789894895859","title":"Unknown","description":"The GO terms span metabolism, immune signaling, host\u2013symbiont interactions, intracellular transport, and development, with no single dominant theme linking the proteins. Therefore there isn\u2019t a cohesive function to name the cluster reliably.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042413","count":1},{"id":"GO:0043427","count":1},{"id":"GO:0033611","count":1},{"id":"GO:0035455","count":1},{"id":"GO:0046597","count":1}]},{"hash":"1152593014431067387","title":"Vascular, circadian, and immune signaling","description":"The GO terms center on cardiovascular regulation (renin-angiotensin\u2013mediated blood pressure, vascular smooth muscle contraction, heart development) and immune modulation (IL-10 production, chronic inflammatory response, neutrophil killing), with additional circadian rhythm regulation and broader signaling roles (EGFR transactivation, retina development). This points to a cohesive theme of signaling networks coordinating vascular function with immune and circadian processes, justifying the label. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0072608","count":7},{"id":"GO:0035625","count":7},{"id":"GO:0060041","count":7}]},{"hash":"393024116378340017","title":"TLR7-Driven Antiviral Interferon and DC Activation","description":"These terms cluster around innate immune signaling and antigen presentation, dominated by TLR7 signaling and positive regulation of interferon production, with dendritic cell antigen processing/presentation and chemokine production. Although DNA-templated transcription is broad, the recurring immune-related terms suggest a cluster of proteins involved in antiviral innate responses and dendritic cell activation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0034154","count":1},{"id":"GO:0002606","count":1},{"id":"GO:0006409","count":1},{"id":"GO:0050711","count":1}]},{"hash":"837550025861573374","title":"T cell signaling, ER retention, and lipid biosynthesis","description":"The top GO terms show T cell\u2013related immune signaling (innate immune response-activating signaling, T cell cytokine production) and extrinsic apoptotic regulation, combined with protein retention in the ER lumen and lipid biosynthetic processes (sphingomyelin, phosphatidylcholine) plus vitamin/retinol transport. This suggests a cohesive theme where immune signaling is linked to intracellular transport and membrane lipid metabolism, pointing to a set of proteins involved in coordinating T cell responses with ER trafficking and lipid synthesis.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0010204","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0006621","count":2}]},{"hash":"2164144802372530605","title":"Multi-tissue Development and Signaling","description":"Top GO terms point to regulation of signaling pathways (STAT phosphorylation, BMP signaling), tissue development (heart development, ovulation cycle), muscle assembly, neural localization, and immune signaling. This suggests a cluster of proteins with broad, cross-tissue roles in developmental signaling rather than a single, cohesive pathway, hence a label that reflects multi-tissue developmental signaling. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":5},{"id":"GO:0044708","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0071206","count":4},{"id":"GO:0034164","count":4}]},{"hash":"1402210095624382039","title":"Developmental lipid metabolism and hormone signaling","description":"Top GO terms indicate lipid metabolism (fatty acid oxidation, cholesterol efflux, bile acid metabolism) alongside developmental (neuron maturation; in utero development) and hormone/circadian responses (circadian regulation of gene expression, estrogen stimulus). This suggests proteins are involved in coordinating metabolic regulation with developmental and hormonal signaling, rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042551","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0046321","count":4},{"id":"GO:0010875","count":4},{"id":"GO:0010745","count":4}]},{"hash":"203372631818174187","title":"Heart development and pacemaker differentiation","description":"The cluster is driven by cardiac-specific developmental and rhythm-related terms, including sinoatrial node cell differentiation, cardiac neural crest\u2013driven outflow tract morphogenesis, and regulation of heart rate, with supporting terms like circadian regulation of gene expression and skeletal muscle adaptation; an outlier plant biosynthesis term is present but does not override the cardiac theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0032922","count":4},{"id":"GO:0043503","count":4},{"id":"GO:0003062","count":4},{"id":"GO:0031542","count":4}]},{"hash":"758009924801266755","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":3},{"id":"GO:0018023","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0018013","count":3}]},{"hash":"747609005940461936","title":"Immune Signaling and Apoptosis Regulation","description":"This cluster is driven by GO terms related to immune signaling and T cell regulation (T cell homeostasis, negative regulation of activated T cell proliferation, NF-kappaB transcription factor activity) and apoptosis (execution phase, nurse cell apoptotic process), indicating a core theme of controlling immune responses and programmed cell death. While there are also terms touching development and neuronal signaling (hippo pathway, neurotrophin signaling, hippocampus/heart development), the strongest recurrent signals pertain to immune regulation and cell fate decisions.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0035329","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0045476","count":2},{"id":"GO:0046007","count":2}]},{"hash":"850352415365642783","title":"Neuronal adhesion and synapse formation","description":"The cluster shows strong signals for neural development and connectivity, including positive regulation of synapse assembly, neuron cell\u2013cell adhesion, and both homophilic/heterophilic adhesion, plus nervous system development and tangential neural migration. BMP signaling regulation also ties into developmental processes, reinforcing a neuronal connectivity theme. An ossification term appears less central to this cluster\u2019s dominant neural functions.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0007157","count":4}]},{"hash":"1773525776781277820","title":"RNA Processing and Post-Transcriptional Regulation","description":"Most of the top GO terms are centered on RNA biology: regulation of poly(A) tail shortening, mRNA export from the nucleus, mRNA modification, and regulation of alternative splicing via the spliceosome, as well as regulatory ncRNA-mediated gene silencing. Ubiquitin-dependent protein catabolic process indicates coupling to protein turnover in gene expression. A few terms (integrin-mediated signaling, positive regulation of GTPase activity) point to broader signaling processes, but the dominant signal across the terms is post-transcriptional RNA processing and gene expression regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0060211","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1485214588353292661","title":"Spliceosome Regulation and Immune Signaling","description":"The cluster\u2019s top GO terms are dominated by spliceosome-related processes (mRNA splice site recognition; spliceosome conformational changes) along with immune-related regulation (TLR signaling regulation; T cell differentiation and proliferation). Other terms point to chromatin/ubiquitination roles that can intersect transcription and immune pathways, suggesting proteins involved in RNA processing coupled to immune signaling regulation. ","confidence":"Medium","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0000388","count":2},{"id":"GO:0010226","count":2},{"id":"GO:0034121","count":1}]},{"hash":"727057247561214478","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms tied to ribosome production and function: ribosome biogenesis (large and small subunits), cytoplasmic translation, tRNA modification, and ribosomal subunit export from the nucleus. These collectively indicate proteins involved in ribosome assembly and protein synthesis, with cell division terms likely reflecting growth-linked processes that accompany ribosome activity.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006400","count":6},{"id":"GO:0000055","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0090529","count":6}]},{"hash":"1544514867752955724","title":"B Cell Activation and Cytokine Production","description":"The top GO terms cluster around B cell\u2013specific functions: isotype switching to IgG, B cell cytokine production, and interleukin-6 production, indicating humoral immune activation. Additional terms reflect stress and regulatory processes (response to ischemia, response to ATP, ROS regulation, and apoptotic control), but the dominant theme is B cell\u2013driven antibody production and cytokine signaling.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904851","count":5},{"id":"GO:0048291","count":5},{"id":"GO:1904871","count":5},{"id":"GO:0002931","count":5},{"id":"GO:0002368","count":5}]},{"hash":"678723281484180817","title":"Proteostasis and organelle stress response","description":"The dominant GO terms cluster around protein quality control and stress responses (ER unfolded protein response, autophagosome maturation, heat acclimation, chaperone-related refolding, and mitochondrial protein insertion), indicating a theme of proteostasis across organelles. While there are also terms for DNA replication and transcription initiation, the strongest signal is proteostasis and organelle quality control under stress.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0070389","count":6},{"id":"GO:0045899","count":5},{"id":"GO:0030968","count":5},{"id":"GO:0070414","count":5}]},{"hash":"2082447216832549479","title":"tRNA modification and translation fidelity","description":"The top GO terms are dominated by tRNA threonylcarbamoyladenosine modification (GO:0002949) and regulation of translational fidelity (GO:0006450), with protein carbamoylation (GO:0046944) also appearing. This points to a shared theme around translation accuracy and tRNA modification. Other terms like microtubule anchoring and preprophase band assembly may reflect broader cellular processes or multifunctional proteins rather than a primary cytoskeletal function. Overall, the cluster appears best characterized by translation-related processes, especially tRNA modification and translational quality control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0002949","count":2},{"id":"GO:0000913","count":2},{"id":"GO:0060287","count":2}]},{"hash":"1493821700400432096","title":"Ubiquitination-Linked NF-\u03baB/JNK Signaling","description":"The cluster is enriched for ubiquitin-dependent protein catabolic processes, various forms of ubiquitination (including K6-linked), autoubiquitination, and regulators of NF-\u03baB and JNK signaling, indicating a cohesive theme of ubiquitin-mediated control of inflammatory signaling pathways.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0036205","count":4},{"id":"GO:0085020","count":4},{"id":"GO:1903721","count":4},{"id":"GO:1903762","count":4}]},{"hash":"1659850645671057532","title":"mRNA processing and splicing regulation","description":"The terms cluster around post-transcriptional control: regulation of mRNA poly(A) tail shortening, mRNA export from the nucleus, regulation of alternative splicing via the spliceosome, mRNA modification, splice site recognition, and regulatory ncRNA-mediated gene silencing. This points to a cohesive theme of mRNA maturation and splicing control, with a developmental note (blastocyst formation). A viral translation term is present but appears peripheral to the main RNA-processing signal.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0000381","count":4},{"id":"GO:0016556","count":4}]},{"hash":"694481849917630145","title":"ER-Golgi vesicle transport in neural/eye development","description":"This cluster is driven by vesicle trafficking terms (ER-to-Golgi and retrograde Golgi-ER transport) and endocytosis, indicating a set of proteins involved in intracellular transport. The inclusion of pigmentation and retina/forebrain development terms suggests these trafficking proteins participate in neural/eye tissue development, possibly within pigmented cells, with accompanying regulation of cell adhesion and migration during development. The label captures the core vesicular transport function and its relevance to neural/eye development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0043473","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0006897","count":3},{"id":"GO:2001235","count":2}]},{"hash":"1085176497206458747","title":"Ubiquitin-Proteasome Mediated Protein Degradation","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent proteolysis, including SCF- and K48-linked ubiquitination, and proteasomal degradation, with supporting links to ERAD and autoubiquitination; these indicate a cohesive set of proteins governing proteostasis and substrate turnover, with some connection to stress signaling and apoptosis regulation.","confidence":"High","size":6,"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:0033209","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1050743034300676381","title":"Innate Immune Activation and Antigen Presentation","description":"The top GO terms point to innate immune sensing and inflammatory responses, including defense against Gram-positive bacteria, TLR7 signaling, pyroptosis, and enhanced dendritic cell antigen processing and presentation. While there are also terms related to transcription and cell cycle that may reflect background processes, the immune-related terms dominate, supporting a label centered on innate immunity and antigen presentation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0070208","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1586808663428292018","title":"DNA replication and repair","description":"GO terms are dominated by DNA metabolism: replication, recombination, repair, primer synthesis, and plasmid maintenance, suggesting a DNA maintenance module. Some terms (TLR7 signaling, NLRP3 inflammasome) appear unrelated and may reflect annotation noise rather than a coherent functional cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0030420","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006281","count":1}]},{"hash":"608244414871559431","title":"Ribosome biogenesis and translation regulation","description":"Several top GO terms center on ribosome production and translation (translation, ribosome biogenesis, rRNA processing, maturation of SSU-rRNA). Other terms reflect translational control and RNA silencing, which can be linked to gene expression regulation at the level of translation. A few outliers relate to stress or signaling, but the core signal is ribosome assembly and translation. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0009636","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1871779390267556356","title":"tRNA threonylcarbamoyladenosine modification and translational fidelity","description":"The top GO terms are centered on tRNA modification (specifically threonylcarbamoyladenosine, t6A) and regulation of translational fidelity, pointing to proteins involved in preparing and maintaining accurate translation. A few DNA repair-related terms appear, but they are much less represented, making the tRNA modification/translational-fidelity theme the strongest link for this cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":3},{"id":"GO:0006450","count":3},{"id":"GO:0002949","count":3},{"id":"GO:0006297","count":1},{"id":"GO:0042276","count":1}]},{"hash":"2006890672065126888","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0045451","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0000472","count":1},{"id":"GO:0000973","count":1}]},{"hash":"798084388091861317","title":"Cardiolipin and phospholipid remodeling","description":"The top GO terms cluster around remodeling and biosynthesis of cardiolipin, phosphatidylcholine, and other lipids, alongside mitochondrial ATP synthesis coupled to electron transport, pointing to a common function in mitochondrial lipid metabolism and membrane lipid remodeling. Some non-lipid terms appear but do not define the core theme. ","confidence":"High","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035965","count":3},{"id":"GO:0021587","count":3},{"id":"GO:0008611","count":3},{"id":"GO:0042775","count":3},{"id":"GO:0036151","count":3}]},{"hash":"1003131926919757972","title":"Immune signaling and transcriptional response","description":"This cluster is enriched for GO terms related to cellular responses to immune stimuli (lipopolysaccharide, GM-CSF, prostaglandin) and T cell signaling, plus DNA-templated transcription, implying coordinated signaling and transcriptional regulation in immune contexts. Other terms like forebrain development and mitotic cell cycle are broader regulatory processes that can accompany such responses. The common theme is immune-related signaling leading to transcriptional changes.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1073432720748841428","title":"Neural development and growth signaling","description":"These proteins are enriched for neural development terms (forebrain, retina, spinal cord) and multicellular organism growth, with supporting pathways such as glucose-mediated signaling and TORC1 signaling. The convergence on nervous system development suggests a neurodevelopmental growth theme, though some terms (Okazaki fragment processing, mitotic DNA replication) may be incidental or reflect shared cell-cycle components.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:2001235","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0060041","count":4}]},{"hash":"2188574896561407281","title":"Actin Cytoskeleton Dynamics","description":"The strongest signals are Arp2/3 complex\u2013mediated actin nucleation and actin cortical patch assembly, plus positive regulation of GTPase activity, pointing to coordinated actin polymerization and cytoskeleton remodeling. Other terms like splicing, translation, and development-related GO terms appear peripheral and may reflect additional roles or annotation noise, but the central theme is actin dynamics.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034314","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000147","count":1},{"id":"GO:0000001","count":1}]},{"hash":"1364595712225959720","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0034063","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0001308","count":1},{"id":"GO:0000480","count":1}]},{"hash":"21118713440451980","title":"Developmental Regulators","description":"The GO terms span transcriptional control, chromatin assembly, signaling regulation, and differentiation across multiple tissues (nervous system, immune cells, bone, fat, spermatids) without a single dominant pathway. This pattern suggests a set of proteins broadly involved in regulating development and lineage differentiation rather than a specific process.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:2001200","count":2},{"id":"GO:0007422","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0002040","count":2}]},{"hash":"594310158817942427","title":"Metabolic stress response and signaling regulation","description":"These terms converge on a theme of chemical/stress-related metabolism and extracellular signaling modulation. The cluster includes stress responses to copper and nitrosative stress, multiple small-molecule metabolic pathways (retinoid, sorbitol, furaldehyde, pyruvate fermentation) and extracellular regulation of signal transduction, suggesting proteins act in adapting metabolism under stress while influencing signaling in the extracellular space.","confidence":"Medium","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046688","count":6},{"id":"GO:0051409","count":6},{"id":"GO:0042573","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0019518","count":6}]},{"hash":"1706721841399314998","title":"Circadian Regulation and Metabolic Signaling","description":"This cluster is dominated by GO terms tied to circadian processes (circadian regulation of gene expression; positive regulation of circadian rhythm) and metabolic/hormone-responsive pathways (bile acid metabolism, triglyceride homeostasis, cellular response to estrogen and retinoic acid). Developmental and sensory terms (embryonic eye morphogenesis, vestibular reflex) may reflect tissue-specific roles linked to diurnal regulation. Taken together, the proteins cluster around circadian control of metabolism and hormone signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032922","count":6},{"id":"GO:0008206","count":6},{"id":"GO:0060005","count":6},{"id":"GO:0071391","count":6},{"id":"GO:0071638","count":6}]},{"hash":"51085377726203261","title":"Ubiquitin-like Modifications and Cvt Autophagy","description":"The top GO terms cluster around ubiquitin-dependent protein degradation and ubiquitin-like modifiers (sumoylation, ufmylation, urmylation) along with the cytoplasm-to-vacuole targeting (Cvt) autophagy pathway. This points to a proteostasis-focused group of proteins involved in marking and delivering damaged or unnecessary proteins for degradation via autophagy. Some other terms (tRNA modification and biosynthesis) appear but seem less central to the main theme here. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1990592","count":2},{"id":"GO:0044805","count":2}]},{"hash":"956521607643373884","title":"Vertebrate neural and eye development","description":"This cluster is dominated by terms for neural differentiation (spinal cord association neuron differentiation, forebrain development) and eye development (camera-type eye development, embryonic eye morphogenesis), with supporting roles in transcriptional regulation and cell adhesion, suggesting a coherent theme of vertebrate neural and ocular organogenesis, despite a peripheral heart development term.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0021527","count":4},{"id":"GO:0044708","count":4},{"id":"GO:0007160","count":4}]},{"hash":"272522576028395139","title":"Hematopoietic lineage differentiation","description":"Based on GO terms such as megakaryocyte differentiation, erythrocyte differentiation, and granulocyte differentiation, along with somatic stem cell maintenance and immune signaling terms (T cell receptor signaling, TGF-beta, and cAMP responses), the proteins appear linked to hematopoietic development and immune cell lineage specification\u2014i.e., regulators of blood cell differentiation rather than a single metabolic pathway.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0045654","count":2},{"id":"GO:0035019","count":2}]},{"hash":"443702472149317447","title":"Skin and cartilage development with secretion","description":"The cluster shows clear signals of tissue development, with GO terms for skin morphogenesis and chondrocyte development (growth plate). A secretory component is indicated by protein secretion, alongside regulatory signaling and metabolic responses (glucose import, linoleic acid, TNF signaling). The strongest, coherent theme is developmental processes in skin and cartilage, with secreted mediators involved.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000534","count":2},{"id":"GO:0043589","count":2},{"id":"GO:0046326","count":2},{"id":"GO:0009306","count":2},{"id":"GO:0002149","count":2}]},{"hash":"1497046082018154022","title":"Neural Development and Retinoic Acid Signaling","description":"The cluster is dominated by neural-development terms (neural tube, forebrain, hindbrain, olfactory pit development) and RA-related biology (cellular response to retinoic acid, retinol metabolic process), suggesting a cohesive theme of neural patterning governed by retinoic acid signaling. Some metabolic terms (glucosylceramide metabolism, proline biosynthesis, nutrient response, ureter maturation) may reflect broader developmental metabolism or tissue-specific needs, but the core signal centers on neural development and retinoic acid responsiveness. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006678","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0021915","count":6},{"id":"GO:0030900","count":6},{"id":"GO:0007584","count":6}]},{"hash":"920127001613154317","title":"Ubiquitin-Proteasome Control of Mitosis and DNA Repair","description":"The cluster centers on ubiquitin-proteasome\u2013mediated protein degradation with SCF and various ubiquitination signals, and on crucial mitotic transitions (G2/M, chromosome segregation, exit from mitosis). It also includes DNA damage response elements (nucleotide-excision repair, DSB processing) and notes on proteasome localization, suggesting a coordinated module linking proteostasis to cell-cycle progression and genome maintenance.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0007059","count":6},{"id":"GO:0000086","count":6},{"id":"GO:0070911","count":6},{"id":"GO:0016032","count":6}]},{"hash":"407727840940341287","title":"Nucleotide Biosynthesis","description":"The cluster is enriched for nucleotide production terms (UTP biosynthetic process, GTP biosynthetic process, and dGTP biosynthetic process from dGDP), pointing to involvement in nucleotide biosynthesis. The other terms are more diverse (endocytosis, oxidative stress response, differentiation regulation) and do not strongly redefine the main theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006228","count":6},{"id":"GO:0045618","count":6},{"id":"GO:0070301","count":6},{"id":"GO:0002762","count":6},{"id":"GO:0048550","count":6}]},{"hash":"1095437151238847171","title":"Unknown","description":"The top GO terms span lipopolysaccharide biosynthesis, several central carbon metabolism pathways (malate/pyruvate/NADP), protein tetramerization, transport, and even hormone response. There is no clear single biological function or pathway uniting these proteins, and the lack of edges (0) supports a heterogeneous set rather than a cohesive module.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:1902031","count":2},{"id":"GO:0043464","count":2},{"id":"GO:0006108","count":2},{"id":"GO:0051262","count":2}]},{"hash":"464640830962572902","title":"Chromatin organization and nucleosome assembly","description":"This cluster centers on chromatin biology: nucleosome assembly, positioning, and heterochromatin organization, with hints of histone modifications (H3K27me3/H3K4me3) and chromatin localization. The recurrent GO terms indicate proteins involved in regulating chromatin structure and epigenetic marks, supporting a label focused on chromatin organization and nucleosome assembly.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":6},{"id":"GO:0016584","count":6},{"id":"GO:0006334","count":6},{"id":"GO:0098532","count":6},{"id":"GO:0070828","count":6}]},{"hash":"1764655527677064197","title":"Unknown","description":"The top GO terms span diverse functions (circadian regulation, ubiquitin-dependent proteolysis, development, signaling, spindle localization, and viral latency release) with no single cohesive theme, so a precise, representative label isn\u2019t evident.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0008285","count":2},{"id":"GO:0009742","count":2},{"id":"GO:0035853","count":2}]},{"hash":"1470532005621759924","title":"Membrane Ion Transporters","description":"This cluster is dominated by GO terms tied to movement of ions across membranes and membrane potential regulation, including transmembrane transport of monoatomic and potassium ions and membrane repolarization. Although a few terms are peripheral (e.g., pheromone response, stilbene catabolism), the strongest signal centers on membrane transport and ion homeostasis, suggesting a set of proteins functioning as ion channels or transporters.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0086009","count":3},{"id":"GO:0061092","count":3},{"id":"GO:0046272","count":3},{"id":"GO:0070574","count":3},{"id":"GO:0033574","count":3}]},{"hash":"245233143957958334","title":"NK cell differentiation and KIT signaling","description":"This cluster is best described by the prominence of NK cell differentiation (GO:0001779) and KIT signaling pathway (GO:0038109), indicating a focus on natural killer cell development and receptor-driven signaling. The presence of related terms such as cell-matrix adhesion, Wnt signaling regulation, retinoic acid response, and apoptotic regulation supports a broader context of signaling and differentiation relevant to immune cell development, though NK-specific terms are most representative.","confidence":"Medium","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051389","count":6},{"id":"GO:0071300","count":6}]},{"hash":"1116070817901407365","title":"KIT signaling and growth-factor pathways","description":"This cluster is enriched for KIT signaling (GO:0038109) and other signaling-related terms such as cell-matrix adhesion and Wnt pathway regulation, plus retinoic acid response and apoptosis. The KIT pathway appears to be the central motif, suggesting these proteins participate in growth-factor\u2013driven signaling with interconnected adhesion and transcriptional regulation pathways. However, the broader variety of terms means the label is a best-fit, focused on KIT-centered signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051389","count":6},{"id":"GO:0071300","count":6}]},{"hash":"671535027954922711","title":"Osteoblast and chondrocyte differentiation (BMP signaling)","description":"The cluster is strongly enriched for terms tied to bone and cartilage development: positive regulation of osteoblast proliferation/differentiation, chondroblast and chondrocyte differentiation, and BMP signaling. Although other embryonic-development terms appear (e.g., chorio-allantoic fusion, valve morphogenesis), the dominant signal centers on skeletogenesis and BMP-driven differentiation of bone and cartilage cells.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042347","count":3},{"id":"GO:0033690","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0060710","count":3},{"id":"GO:0003181","count":3}]},{"hash":"814409930894585668","title":"Membrane Ion and Lipid Transport","description":"The top GO terms are dominated by transmembrane transport activities for ions (cadmium, potassium), along with membrane repolarization and phospholipid translocation, indicating a core theme of membrane-associated transport and lipid movement. Some peripheral terms (stilbene catabolism, LPS biosynthesis, hormone responses) may reflect broader or species-specific annotations, but the shared signal is transport across membranes. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0086009","count":6},{"id":"GO:0061092","count":6},{"id":"GO:0046272","count":6},{"id":"GO:0070574","count":6},{"id":"GO:0099132","count":6}]},{"hash":"1468746080245554862","title":"Leukocyte chemotaxis and inflammatory signaling","description":"The GO terms cluster around immune cell movement and signaling (dendritic and B cell chemotaxis, cell-cell signaling, TNF production regulation), with supporting evidence from endothelial proliferation and pseudopodium assembly related to migration and tissue repair. This suggests the proteins participate in leukocyte recruitment and inflammatory communication.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032760","count":2},{"id":"GO:1901740","count":1},{"id":"GO:0090303","count":1},{"id":"GO:0007267","count":1},{"id":"GO:0002408","count":1}]},{"hash":"372830408358822183","title":"B cell signaling and lymphoid development","description":"This cluster shows recurrent immune-related GO terms, notably B cell receptor signaling and positive regulation of B cell proliferation, along with endocytosis and thymus development. These points together suggest a theme of B cell\u2013driven immune signaling and broader lymphoid development, despite a few outlier terms. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":2},{"id":"GO:0014911","count":2},{"id":"GO:0007155","count":2},{"id":"GO:1902237","count":2},{"id":"GO:0051902","count":2}]},{"hash":"2071463748685013741","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":2},{"id":"GO:0051083","count":1},{"id":"GO:0006620","count":1},{"id":"GO:1904908","count":1},{"id":"GO:0098907","count":1}]},{"hash":"1769924419081032357","title":"Transcription and Protein Complex Formation","description":"It combines the DNA-templated transcription term with multiple protein oligomerization terms (homodimerization, heterooligomerization, tetramerization). While some terms are peripheral or obsolete, the recurring themes point to transcription-related activity supported by protein complex assembly.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014898","count":2},{"id":"GO:0043496","count":1},{"id":"GO:0006558","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0051289","count":1}]},{"hash":"1834716509735428978","title":"Innate fungal recognition and phagocytosis","description":"This cluster is enriched for innate immune signals: fungal-origin response, C-type lectin receptor signaling, phagocytosis recognition, and leukocyte tethering/rolling, pointing to immune sensing and uptake of pathogens. A few developmental terms appear but do not define the overall function; the dominant theme is innate immune recognition and phagocytic activation.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":5},{"id":"GO:0071226","count":5},{"id":"GO:0002223","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0001502","count":4}]},{"hash":"906255435404837835","title":"Diverse Signaling and Immune Response Modulation","description":"This cluster centers on multiple signaling pathways (Wnt, TGF-beta, integrin) and immune/inflammatory responses (complement, prostaglandin signaling, fungal-origin response), suggesting proteins that broadly modulate cell signaling and innate immunity rather than one specific function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0045671","count":3},{"id":"GO:0046676","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0002092","count":3}]},{"hash":"173832917664782980","title":"Cardiovascular-immune regulation","description":"The top GO terms point to vascular and heart development and function (regulation of blood pressure by renin-angiotensin, vascular smooth muscle contraction, heart development) along with immune/inflammatory signaling (IL-10 production, neutrophil killing, chronic inflammatory response). While terms on circadian regulation and retina development appear, the central theme across most terms is vascular homeostasis coupled with immune modulation, suggesting a cluster of proteins coordinating cardiovascular function with inflammatory signaling. Unknown terms likely reflect broader developmental roles rather than a single pathway, but the predominant pattern supports cardiovascular-immune regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0072608","count":6},{"id":"GO:0035625","count":6},{"id":"GO:0060041","count":6}]},{"hash":"560029246267644269","title":"Neuronal cell adhesion and synapse assembly","description":"Top terms are dominated by heterophilic and cadherin-mediated adhesion and by nervous system development and synapse assembly, pointing to roles in neural connectivity and synaptogenesis. While some terms like ossification and melanin biosynthesis appear, the strongest signal is neural cell adhesion and synapse formation, making this label representative of the cluster's function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0043931","count":3}]},{"hash":"191700345352916539","title":"Hair Keratinization and Hair Cycle","description":"The GO terms point to keratinization and the hair cycle, indicating a set of proteins involved in hair shaft formation and the cornified envelope. The cluster likely contains keratin-related structural components and regulators active during hair follicle cycling, supporting a cohesive hair/keratinization function.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":5},{"id":"GO:0042633","count":5}]},{"hash":"332092727841801422","title":"Glycosylation-linked epithelial development","description":"The top GO terms include several glycosylation-related biosynthetic processes (e.g., O-linked glycosylation via hydroxyproline, poly-N-acetyllactosamine, Lewis a epitope biosynthesis, mucilage biosynthesis) together with epithelial-related development and polarity (follicular epithelium polarity, intestinal epithelial development, compartment pattern specification). This suggests a theme where glycan biosynthesis/modification intersects with epithelial tissue development and patterning. Some terms (infection structure formation, seed mucilage) are less related, so the connection is present but not uniformly strong.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":1},{"id":"GO:0036011","count":1},{"id":"GO:0042248","count":1},{"id":"GO:0010493","count":1},{"id":"GO:0018258","count":1}]},{"hash":"190704058710601153","title":"Multisystem Development and Differentiation","description":"The top terms point to developmental signaling (BMP pathway regulation) and tissue-specific development (heart, muscle, neurons, immune cells, reproductive processes) as well as differentiation and regulatory processes. This suggests a broad, multisystem role in development and cell fate rather than a single specific function. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0071206","count":4},{"id":"GO:0034164","count":4},{"id":"GO:0001779","count":4}]},{"hash":"1814461876474459561","title":"Broad developmental signals","description":"The GO terms span neural, muscular, cardiac, reproductive, and immune development, along with signaling pathways like BMP. While diverse, they cluster around developmental processes and differentiation across tissues, rather than a single specific function, suggesting a broad developmental theme for this cluster.","confidence":"Low","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":4},{"id":"GO:0071206","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0034164","count":4},{"id":"GO:0001779","count":4}]},{"hash":"1876144523696962522","title":"Unknown","description":"The terms span immune defense, signaling, intracellular trafficking, development, neuromuscular processes, and RNA modification, with no dominant shared pathway. This heterogeneity makes it unlikely to assign a cohesive function to the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042832","count":3},{"id":"GO:0071389","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0090263","count":2},{"id":"GO:1900026","count":2}]},{"hash":"1066894635128149949","title":"Developmental Gene Regulation and Stress Response","description":"The top GO terms show a core around transcriptional control and development (DNA-templated transcription; forebrain development; neural tube closure; multicellular organism development; skeletal system development) which supports a developmental program. At the same time, several terms indicate cellular stress responses (ER-stress\u2013induced apoptotic signaling; cellular response to cadmium ion) and general immunity (defense response to Gram-positive bacteria). This mix suggests a cluster of proteins involved in developmental gene regulation with broad stress signaling rather than a single pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0032933","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1689920176779599884","title":"Unknown","description":"The GO terms are extremely diverse, spanning microsporogenesis, neurotransmitter receptor internalization, zinc ion sequestration regulation (obsolete), tRNA gene clustering, melanosome organization, endosome-to-melanosome transport, intracellular protein transport, negative gravitropism, meiotic DNA double-strand break regulation, and NK T cell differentiation. Only a loose connection appears around vesicle trafficking and melanosome-related transport, which is not enough to define a cohesive function for the cluster. Therefore, there is no clear, single representative function to name the cluster; Unknown is most appropriate.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0009556","count":3},{"id":"GO:0099590","count":3},{"id":"GO:0061088","count":3},{"id":"GO:0070058","count":3},{"id":"GO:0032438","count":3}]},{"hash":"1472982922228139772","title":"Unknown","description":"The top GO terms span immune-related activities (complement activation, LPS response, response to bacterium) and a wide range of developmental and tissue-specific processes (neurogenesis, forelimb morphogenesis, vagina development, GI epithelium maintenance), plus xenobiotic response and apoptosis, with no single cohesive biological theme tying them together. This lack of a clear shared function suggests the cluster does not represent a specific, unified process. ","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0022008","count":4}]},{"hash":"861719295624219105","title":"Mitotic spindle assembly and microtubule dynamics","description":"Top GO terms cluster around regulation of microtubules, gamma-tubulin complex localization to the mitotic spindle, and mitotic contractile ring assembly, all central to spindle formation and chromosome segregation. Additional terms about bipolar polarity and neural progenitor division reinforce the link to spindle orientation and microtubule dynamics. Some terms on recycling and adhesion are broader but do not override the core theme of mitotic spindle organization. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031115","count":2},{"id":"GO:0061171","count":2},{"id":"GO:0009652","count":2},{"id":"GO:2000009","count":2},{"id":"GO:0016203","count":2}]},{"hash":"794243857584855723","title":"RNA Pol II Transcription Initiation","description":"The top GO terms are all about transcription initiation and promoter engagement by RNA polymerase II, including promoter initiation, preinitiation complex assembly, open complex formation, and transcription start site selection. The presence of regulation terms for DNA-templated transcription and core promoter binding reinforces the theme that these proteins coordinate initiation and initiation-level regulation of RNAP II transcription. Despite a couple of obsolescent terms, the cohesive signal points to a transcription initiation/regulation module centered on RNA Pol II.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0090074","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0001174","count":1}]},{"hash":"864468702595849623","title":"Dendritic cell activation and innate immune response","description":"This cluster centers on immune-related functions typical of dendritic cells and antibacterial defense: myeloid dendritic cell differentiation, phagocytosis, cellular response to lipopolysaccharide, immunoglobulin-mediated immune response, and positive regulation of IL-12 production. These shared GO terms point to dendritic cell\u2013driven activation of innate immunity and initiation of adaptive responses, with a few unrelated terms appearing as minor noise. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016064","count":2},{"id":"GO:0043011","count":2},{"id":"GO:0045084","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0071222","count":2}]},{"hash":"1846012038995800512","title":"COPII vesicle trafficking and secretion","description":"Most of the top GO terms describe ER-to-Golgi transport, COPII vesicle coating and cargo loading, and secretion of extracellular matrix components, indicating a coherent module centered on the secretory pathway. While a few cytoskeletal or apoptotic-related terms appear, the dominant signal is COPII-mediated trafficking and secretion.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0003400","count":2},{"id":"GO:0045773","count":2},{"id":"GO:0043652","count":2}]},{"hash":"1531501321712114966","title":"Ubiquitin-Mediated Immune Signaling","description":"The top GO terms cluster around ubiquitin-related processes (ERAD, K63-linked and linear polyubiquitination) and immune functions (NF-kappaB activation, T cell homeostasis, V(D)J recombination), suggesting a cohesive role in ubiquitin-dependent regulation of immune signaling. The inclusion of vitamin D response may reflect immune modulation as well, reinforcing this theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0070512","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0007250","count":3}]},{"hash":"2072941574117214534","title":"Male germline development and meiosis","description":"This cluster shows strong signals for male germline processes: spermatid differentiation, male germ-line cyst formation, and male meiosis cytokinesis, suggesting a shared role in male germline development and meiosis. Other terms (transport, translation initiation, stress responses) are present but do not override the germline theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050826","count":2},{"id":"GO:0030242","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0002191","count":1},{"id":"GO:0048515","count":1}]},{"hash":"1770857212022566574","title":"Translation Initiation and Reinitiation","description":"The cluster is dominated by GO terms about translation initiation and reinitiation, including formation of the translation preinitiation complex and translation reinitiation (plus viral termination-reinitiation), indicating a shared function in initiating or resuming protein synthesis. Some other terms (DNA repair and heterochromatin regulation) appear-related but are less central to the main theme, possibly reflecting multifunctional annotations or noise. High","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0000715","count":2}]},{"hash":"606629111319774624","title":"Developmental patterning and cell differentiation","description":"The GO terms cluster around developmental biology\u2014brain segmentation, left/right pattern formation, inner ear development, erythrocyte differentiation, and epithelial cell differentiation\u2014indicating roles in tissue patterning and cell fate specification. While there are transcriptional and metabolic terms present, the dominant signal is embryonic development and differentiation across multiple tissues.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0046326","count":2},{"id":"GO:0035284","count":2},{"id":"GO:0061418","count":2},{"id":"GO:0030218","count":2}]},{"hash":"1445964631955631980","title":"Nuclear transport and protein oligomerization","description":"The top GO terms cluster around nucleocytoplasmic transport and nuclear dynamics: tRNA export from the nucleus, NLS-bearing protein import, regulation of protein import into the nucleus, and protein localization to the nuclear inner membrane, along with mitotic nuclear membrane disassembly. There are also oligomerization terms (homooligomerization, heterotrimer/heterotetramer formation) suggesting assembly of protein complexes associated with the nucleus. A few terms (glucose transport regulation, intracellular virus transport) are peripheral. Overall, the theme is nucleocytoplasmic transport and nuclear protein assembly.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006409","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0007077","count":5},{"id":"GO:0075733","count":5},{"id":"GO:0042306","count":5}]},{"hash":"470249275090436659","title":"Ribosome biogenesis and translation","description":"The dominant GO terms are ribosome biogenesis, translation, and ribosomal large subunit assembly, indicating proteins primarily involved in ribosome construction and protein synthesis. A few terms related to DNA replication initiation and MAPK signaling appear but are less represented, so the core theme remains ribosome-related.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0010197","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0000027","count":1}]},{"hash":"2066837521405266592","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043162","count":5},{"id":"GO:1902104","count":4},{"id":"GO:0000715","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0031146","count":4}]},{"hash":"1547484166779212398","title":"Splicing and cell cycle regulation","description":"This cluster\u2019s top GO terms consistently point to RNA processing and spliceosome-mediated splicing (RNA splicing; regulation of alternative mRNA splicing) together with cell-cycle control (regulation of cell cycle; G0 to G1 transition) and apoptosis/DNA damage responses (negative regulation of apoptotic process; DNA damage response signaling). The presence of deubiquitination terms (K63- and K33-linked) further suggests regulation of protein stability in these pathways, tying RNA processing to cell-cycle and stress-response control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0070536","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0036292","count":2},{"id":"GO:1990168","count":2}]},{"hash":"1648622130396942162","title":"RNA processing and post-transcriptional regulation","description":"The proteins in this cluster are enriched for post-transcriptional RNA processes: regulation of mRNA splicing (both canonical and alternative via spliceosome), mRNA export from the nucleus, mRNA tail shortening and modification, and translation control, with additional hints from ncRNA-mediated silencing. This cohesive set of GO terms points to a theme around RNA processing and regulation of gene expression after transcription, despite a couple of outliers likely due to annotation noise.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0046944","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0075525","count":1}]},{"hash":"408489394087857687","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042853","count":4},{"id":"GO:0006189","count":4},{"id":"GO:0007584","count":3},{"id":"GO:0006730","count":3},{"id":"GO:0001666","count":3}]},{"hash":"165773459068201289","title":"ER-Golgi vesicle transport and cell proliferation","description":"The terms point to ER-to-Golgi and Golgi-to-ER (COPII) vesicle trafficking, plus cell cycle, division, and growth, suggesting a core link between secretory pathway activity and cell proliferation; brain development and RNA methylation appear as broader or ancillary connections.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0035264","count":2}]},{"hash":"263367793517705474","title":"DNA Repair and Protein Quality Control","description":"Top terms converge on DNA repair and protein quality control (DNA repair, UV-damage repair; ubiquitin-dependent ERAD, aggresome assembly, nonfunctional rRNA decay). While some terms (peroxisomal import, transcription, mitochondrial complex III assembly) are less tightly connected, the strongest signal relates to maintaining genome and proteome integrity. Thus this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0090073","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034551","count":2}]},{"hash":"123837187304064937","title":"Unknown","description":"The top GO terms show a mix of translation, rRNA processing, histone acetylation and heterochromatin organization, plus phosphorylation regulation, xenobiotic response, focal adhesion, and morphogenesis signaling. This spread spans nuclear gene expression and chromatin features as well as cytoplasmic signaling and development, with no clear unifying function or pathway connecting all proteins. Therefore, there isn\u2019t a coherent theme to name the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0000448","count":1},{"id":"GO:0044154","count":1},{"id":"GO:0043971","count":1},{"id":"GO:0043970","count":1}]},{"hash":"298464941705205973","title":"Reproductive signaling and zygote formation","description":"This cluster centers on reproductive and early developmental processes, with GO terms for egg activation, male pronucleus assembly, and ascospore/prospore membrane formation across species. Additional terms on hormonal responses and regulation (estrogen signaling, GTPase activity, dephosphorylation) suggest broader regulatory signaling during reproduction, making this a coherent theme around reproduction and initial zygotic events.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":2},{"id":"GO:0071391","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0035335","count":2},{"id":"GO:0030259","count":2}]},{"hash":"1701223060158979328","title":"Nucleotide metabolism and cell cycle","description":"Top GO terms cluster around nucleotide metabolism (pyrimidine nucleotide biosynthetic process; purine nucleotide catabolic process; adenosine metabolic process) and cell cycle, with phosphorylation/dephosphorylation indicating regulatory control. A few development-related terms are present but less representative. Overall, the dominant theme points to nucleotide metabolism linked to cell proliferation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006221","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0045747","count":1},{"id":"GO:0046085","count":1}]},{"hash":"1272755999733412610","title":"Central nervous system development","description":"The top GO terms cluster around CNS formation, including forebrain development, retina development, and spinal cord development, suggesting the proteins share a neurodevelopmental function. Some terms (e.g., Okazaki fragment processing, metabolic signaling, TORC1 regulation) are less directly related and may reflect broader cellular roles or noise, but the CNS development signals are the strongest. Confidence reflects moderate support for a neurodevelopment-focused cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001235","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0021510","count":2}]},{"hash":"906131805726255129","title":"Phosphorylation-Linked Signaling and Development","description":"This cluster contains GO terms pointing to signaling control via phosphorylation and dephosphorylation, along with broader developmental processes such as cell differentiation, oogenesis, translation, and cell division. While some entries (e.g., arsenic response) are less coherent, the recurring focus on phosphorylation-based regulation and growth/differentiation suggests participation in signaling networks that govern cell fate and development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046685","count":2},{"id":"GO:0052046","count":2},{"id":"GO:0035335","count":2},{"id":"GO:0006468","count":1},{"id":"GO:0043066","count":1}]},{"hash":"1191031084199877485","title":"RNA Processing Machinery","description":"Driven by the top GO terms, the cluster appears enriched for rRNA processing and exonucleolytic RNA hydrolysis, indicating involvement in ribosome biogenesis or RNA maturation. The other terms (sex-chromosome dosage compensation, histone phosphorylation regulation, keratinocyte differentiation, biofilm formation, and host autophagy/ISG15 interactions) are diverse or obsolete annotations, likely noise or context-specific annotations, and do not reflect a common functional theme. Therefore, the main shared function is RNA processing machinery.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0007549","count":1},{"id":"GO:0060701","count":1},{"id":"GO:0051725","count":1}]},{"hash":"1153169511084494763","title":"Unknown","description":"The top GO terms span diverse areas: membrane transport (ion import/export), membrane remodeling and lipid translocation, a membrane-associated biosynthetic process, and signaling responses (hormone and pheromone responses), plus an outlier catabolic process. This broad mix does not reveal a single cohesive function or common biological theme for the cluster, suggesting the proteins are not functionally coherent. ","confidence":"","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0086009","count":5},{"id":"GO:0061092","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0070574","count":5},{"id":"GO:0099132","count":5}]},{"hash":"755656526392942519","title":"Mitotic DNA Replication Machinery","description":"The GO terms center on DNA replication initiation and progression in mitosis, including preinitiation complex assembly (GINS), DNA strand elongation, and related replication processes, indicating a cluster of replication machinery proteins active during mitosis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902975","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0001833","count":1},{"id":"GO:1902969","count":1}]},{"hash":"1949375519927832892","title":"Chromatin Modification and Spindle Checkpoint","description":"The cluster\u2019s GO terms cluster around histone modifications (K20 methylation, K63 ubiquitination, K16 acetylation) and ubiquitination processes, plus a mitotic spindle assembly checkpoint signal. This suggests a shared theme of chromatin regulation coupled with cell-cycle surveillance, despite several obsolete terms and small protein set. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085020","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0070535","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0044810","count":2}]},{"hash":"1261132343058988525","title":"Hydrogen sulfide and sulfur amino acid metabolism","description":"The top GO terms emphasize transsulfuration, cysteine biosynthesis, and hydrogen sulfide production, with supporting signals from serine/threonine and other amino acid biosynthesis. This suggests a cohesive module of sulfur-containing amino acid metabolism and H2S biosynthesis. Some terms are obsolete, but the core function remains consistent.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019346","count":3},{"id":"GO:0006565","count":3},{"id":"GO:0070814","count":3},{"id":"GO:0019343","count":3},{"id":"GO:0009088","count":2}]},{"hash":"885979984556755041","title":"Renal organogenesis and cytoskeletal regulation","description":"The GO terms focus on kidney development (renal inner medulla development, metanephros morphogenesis) and actin cytoskeleton remodeling (cell-cell adhesion\u2013regulated actin organization, pseudopodium assembly), with additional embryonic development cues (cranial skeletal system development, endodermal fate commitment) and related cellular processes (nuclear import, cell-cycle regulation). This suggests a developmental module centered on renal organogenesis coupled with cytoskeletal dynamics. ","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090138","count":5},{"id":"GO:0072053","count":4},{"id":"GO:1904888","count":4},{"id":"GO:0045976","count":4},{"id":"GO:0006607","count":4}]},{"hash":"1293197848977852831","title":"Oogenesis and TORC1 signaling","description":"These proteins center on Drosophila oogenesis and nutrient-responsive growth signaling: oocyte differentiation and fate determination, germarium-derived egg chamber formation, and positive regulation of TORC1 signaling with a cellular response to amino acid starvation. Structural terms like cytoskeleton and nuclear membrane organization may reflect egg chamber development. A few outliers (neuron projection development, defense response) exist, but the dominant theme links oogenesis with nutrient-growth signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904263","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0007293","count":1}]},{"hash":"656868534171057256","title":"Developmental Signaling and Cell Adhesion","description":"The top GO terms point to KIT signaling, canonical Wnt signaling, cell-matrix adhesion, retinoic acid response, and broader signaling regulation (including TORC1 and apoptotic processes). This pattern suggests a cluster of proteins involved in interconnected signaling and adhesion pathways that govern development, growth, and differentiation, rather than a single isolated function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0051389","count":5},{"id":"GO:0071300","count":5}]},{"hash":"1692686900646778712","title":"Unknown","description":"The top GO terms span development (forebrain development, neural tube closure, multicellular organism development) and broad stress/response processes (ER stress\u2013related apoptosis, cadmium response, transcription, cell cycle, immune defense), with no connecting edge among proteins. There is no single coherent function tying these terms together, so a reliable specific label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030900","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1959139140180031402","title":"Unknown","description":"The top GO terms cover a broad and disparate set of functions (post-translational modifications like deubiquitination and sumoylation, DNA repair, ribosome assembly, ER membrane protein insertion, GPCR signaling regulation, neurotransmitter release, erythrocyte differentiation, mitochondrial fusion, and ER stress\u2013related apoptosis). There isn't a single coherent biological theme that ties these processes together, so a concise, representative label isn\u2019t reliable here.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:0006289","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0071816","count":3}]},{"hash":"1952775133384463222","title":"Unknown","description":"This cluster includes brain and spleen development terms along with NF-kappaB signaling regulation, calcium homeostasis, metal ion transport, and hormone response terms. The terms are diverse and cover development, signaling, ion transport, and metabolism without a single unifying function, making a coherent, specific label unreliable.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0006874","count":1}]},{"hash":"258328512892486181","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006939","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0042098","count":3},{"id":"GO:0061077","count":3},{"id":"GO:0007049","count":3}]},{"hash":"2121849605099079966","title":"Vertebrate heart and sensory development","description":"The top GO terms cluster around cardiac and neural-sensory development, including sinoatrial node cell differentiation, cardiac neural crest\u2013driven outflow tract morphogenesis, regulation of heart rate, and inner ear/sensory differentiation (auditory receptor and vestibular sites). There are also neural tube patterning terms (floor plate), supporting a broader vertebrate developmental theme. A few terms (plant anthocyanin biosynthesis, hepatocyte differentiation, circadian regulation, muscle adaptation) are outliers, but the dominant signal points to heart and sensory-neural development.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032922","count":5},{"id":"GO:0043503","count":5},{"id":"GO:0003062","count":5},{"id":"GO:0031542","count":5},{"id":"GO:0070368","count":5}]},{"hash":"1222159938855503087","title":"Embryonic Development and Morphogenesis","description":"The GO terms are dominated by embryonic development and morphogenesis categories, including primitive streak formation, neural crest cell migration, skeletal muscle differentiation and tissue development, as well as organogenesis terms like endocrine pancreas development and ureteric bud branching morphogenesis. Although there is a general transcriptional regulation term, the overall theme centers on embryogenesis and tissue morphogenesis, suggesting the cluster represents factors involved in developmental processes. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0048557","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0035019","count":2}]},{"hash":"2268160057786263805","title":"Inflammation and vascular remodeling","description":"These GO terms cluster around inflammatory responses (lipopolysaccharide response, IL-1\u03b2 production), coagulation and fibrinolysis, and tissue remodeling including smooth muscle migration. Taken together, they suggest processes involved in inflammation-associated vascular injury repair and remodeling, with Wnt signaling possibly reflecting broader regulatory interactions rather than a single pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0042730","count":4}]},{"hash":"214028218188655883","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0006238","count":2},{"id":"GO:0006206","count":2},{"id":"GO:0044211","count":2},{"id":"GO:0044206","count":2}]},{"hash":"574457215404379608","title":"Complement Activation and Cell Adhesion","description":"The cluster is dominated by terms tied to the complement system (lectin and alternative pathways, MAC activation, receptor signaling) and coagulation, along with adhesion processes (cell-matrix and cell-cell adhesion). These together point to immune defense with intercellular interactions as the core theme, despite a few less-connected terms like single fertilization and thyroid hormone generation. Confidence reflects a clear, but not exclusive, core function. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0006590","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0001970","count":4}]},{"hash":"804308236334493948","title":"Metal Ion Transport and Calcium Homeostasis","description":"The cluster shows GO terms copper ion transport, zinc ion transmembrane transport, and intracellular calcium ion homeostasis, pointing to a common theme of metal ion transport and calcium regulation. Other terms like lipopolysaccharide biosynthetic process, stilbene catabolic process, epoxygenase P450 pathway, and response to testosterone appear as less direct associations, so the main theme is metal ion handling with some outliers.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":4},{"id":"GO:0006874","count":3},{"id":"GO:0006825","count":3},{"id":"GO:0071577","count":3},{"id":"GO:0046272","count":3}]},{"hash":"1295137421759953114","title":"Infection structure formation and isoprenoid biosynthesis","description":"Top terms cluster into two linked themes: invasion structure formation and lipid/isoprenoid biosynthesis (farnesyl/geranyl diphosphate pathways, cholesterol, monoterpenes). This points to proteins contributing to host invasion via membrane-associated processes and lipid modifications.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007341","count":2},{"id":"GO:0075015","count":2},{"id":"GO:1901663","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0045337","count":1}]},{"hash":"675666350496065261","title":"Nucleotide metabolism and cofactor biosynthesis","description":"The top GO terms cluster around nucleotide biosynthesis and interconversion (AMP salvage, purine ribonucleotide interconversion, nucleoside monophosphate phosphorylation, CDP biosynthesis) and cofactor biosynthesis (NAD+ and coenzyme A). While there are some developmental terms (brain/liver development), the dominant signal is nucleotide and cofactor biosynthesis, suggesting proteins functioning in these metabolic pathways.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0046041","count":5},{"id":"GO:0046940","count":5},{"id":"GO:0046939","count":5},{"id":"GO:0001889","count":5}]},{"hash":"666863239337265805","title":"MHC I Antigen Presentation and NK Cell Regulation","description":"This cluster centers on antigen processing and presentation via MHC class I (endogenous and exogenous peptide presentation, TAP-dependent/independent), and on interactions with NK cells (cytotoxicity, protection from NK cell killing, and related regulatory processes), with IL-17 production as a supporting immune signal. The combination of these GO terms suggests a cohesive module governing how antigens are presented to T cells and how NK cells modulate this process.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042267","count":4},{"id":"GO:0032620","count":3},{"id":"GO:0042270","count":3},{"id":"GO:1904283","count":3},{"id":"GO:0002479","count":3}]},{"hash":"389887473671015569","title":"NK cell differentiation and KIT signaling","description":"The terms are anchored by KIT signaling and natural killer cell differentiation, supported by cell-matrix adhesion. Additional terms point to developmental signaling (Wnt, retinoic acid) and growth control (TORC1, apoptotic regulation). Together these suggest a protein cluster involved in NK-cell lineage signaling and adhesion, with broader developmental signaling context.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0051389","count":4},{"id":"GO:0071300","count":4}]},{"hash":"677044745864203035","title":"Systemic Stress and Cardiovascular Homeostasis","description":"The top GO terms cluster around responses to stress (pain, temperature), energy/thermogenesis, circadian rhythm regulation, and cardiovascular control (renin-angiotensin\u2013mediated blood pressure, vascular smooth muscle contraction). Together they suggest a general theme of physiological homeostasis and stress response influencing cardiovascular and circadian systems, with some terms (IL-10 production, retina development) likely reflecting broader tissue contexts or secondary roles. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0001991","count":3},{"id":"GO:0042752","count":3}]},{"hash":"1673456684793797564","title":"Diverse membrane transporters","description":"The top GO terms point to transport across membranes for a variety of substrates (neurotransmitter loading into synaptic vesicles; potassium, galactose, phosphate, sialic acid, fucose, nitrate, 4-hydroxyphenylacetate, xenobiotics), with no unified metabolic pathway. This pattern best fits a cluster of membrane transporter proteins with diverse substrate specificities, rather than a single enzymatic process.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0015757","count":5},{"id":"GO:0035435","count":5}]},{"hash":"333686107267162148","title":"Unknown","description":"The top terms span neural development and sensory perception, gene expression regulation (transcription and splicing), ER stress response, cell cycle control, and even plant and immune processes. There is no single cohesive function linking these terms, and the cluster has no edges, making it hard to assign a precise, representative label. Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0030968","count":1},{"id":"GO:0000082","count":1}]},{"hash":"788447543582418267","title":"Rac-regulated actin dynamics and protrusion formation","description":"The cluster\u2019s shared terms center on actin cytoskeleton remodeling and membrane protrusions: positive regulation of lamellipodium, filopodium, and actin filament bundle assembly, plus Rac-mediated signal transduction and ruffle formation. While a couple of terms reference broader developmental processes (megakaryocyte and floor plate development), the dominant theme is Rac-driven actin dynamics driving protrusive structures and cell motility.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051388","count":1},{"id":"GO:0051694","count":1},{"id":"GO:0035855","count":1},{"id":"GO:1900029","count":1},{"id":"GO:0051491","count":1}]},{"hash":"848066363744654106","title":"Estrogen-responsive developmental morphogenesis","description":"The top GO terms point to steroid hormone response and multiple tissue-specific developmental processes (mammary gland development, embryonic genitalia morphogenesis, endocardium formation, Harderian gland development), suggesting a common theme of estrogen-regulated development across tissues. Some terms (like endothelial proliferation and mismatch repair) are less central but may reflect ancillary roles. Overall, the cluster appears to group proteins involved in estrogen-linked developmental pathways.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071899","count":1},{"id":"GO:0001195","count":1},{"id":"GO:0048545","count":1},{"id":"GO:0030538","count":1},{"id":"GO:0060214","count":1}]},{"hash":"1664617871894153792","title":"Autocrine cytokine signaling and secretion","description":"The GO terms point to a core theme of autocrine signaling and cytokine production, supported by ER-to-Golgi vesicle transport essential for secretion, and regulation of tubulin deacetylation which can influence vesicle trafficking. Although some terms relate to metabolism (heme A biosynthesis, lipid storage) or proliferation, the strongest shared function is secreted cytokine signaling via vesicles. Confidence: Medium","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006784","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0090043","count":1},{"id":"GO:0035425","count":1}]},{"hash":"2153614390151927713","title":"Immunoregulatory Adhesion and T Cell Regulation","description":"The top GO terms cluster around dampening NK and T cell activity (negative regulation of cytotoxic T cell degranulation and T cell activation), negative regulation of macrophage activation, TCR\u2013MHC\u2013mediated signaling, and cell\u2013cell adhesion, suggesting a cohesive immune suppression/communication role; some terms like myelination and AV node adhesion are less directly connected.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002859","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0043031","count":5},{"id":"GO:0086072","count":5},{"id":"GO:0043318","count":5}]},{"hash":"381594406706698199","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071051","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0034475","count":1},{"id":"GO:0034473","count":1},{"id":"GO:0008033","count":1}]},{"hash":"1059429312899547241","title":"Sensory organ development and signaling regulation","description":"The terms point to development of sensory structures (antennae, retinal cells, labyrinthine layer) and regulation of signaling pathways (Wnt, TLR), with supporting roles in transcription and ubiquitination. This suggests a cohesive cluster of proteins involved in developmental processes and gene expression control within sensory tissues, rather than a single, narrow function.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0034121","count":1},{"id":"GO:0048800","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0046673","count":1}]},{"hash":"570441500467525888","title":"Somite formation and axial patterning","description":"The top GO terms center on vertebrate embryonic segmentation and axis development, including somite specification and rostral/caudal axis specification, left/right symmetry, tail morphogenesis, and Notch signaling. Bone morphogenesis and ossification appear as related skeletogenic outcomes. Together they point to somite/axial development with Notch involvement as the core theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060037","count":2},{"id":"GO:0007368","count":2},{"id":"GO:0001503","count":1},{"id":"GO:0044324","count":1},{"id":"GO:0060349","count":1}]},{"hash":"1363969144768199954","title":"Unknown","description":"The GO terms cover a wide and disparate set of processes\u2014from ribosome biogenesis and cell cycle regulation to vesicle fusion, wound healing, and immune cell migration\u2014without a single coherent theme. Several terms even appear obsolete, and there are no edges linking the proteins, making it unclear how these proteins function together. Therefore, a specific cluster label cannot be justified.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":1},{"id":"GO:1900087","count":1},{"id":"GO:0031340","count":1},{"id":"GO:0044147","count":1},{"id":"GO:0090303","count":1}]},{"hash":"1851328293659005555","title":"Developmental signaling and NK cell differentiation","description":"The terms point to signaling networks governing development and immune cell differentiation: KIT signaling, Wnt pathway activity, retinoic acid response, NK cell differentiation, and related adhesion and growth-regulation processes. Together they define a developmental-immune signaling module rather than a housekeeping function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0051389","count":4},{"id":"GO:0071300","count":4}]},{"hash":"1906498550350965244","title":"TOR-driven growth signaling and translation control","description":"The cluster centers on nutrient and hormonal signaling that regulate cell growth, metabolism, and translation. Key terms include TOR signaling, insulin receptor signaling, and amino-acid starvation response, all tying to growth and metabolic regulation; plus terms related to cell-cycle transitions and translational initiation, indicating control of protein synthesis in response to nutrient and hormonal cues. Some terms (e.g., social behavior, dexamethasone response) are less directly connected but can reflect broader signaling contexts. Overall, a cohesive theme of growth, nutrient sensing, and translational control emerges.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031929","count":1},{"id":"GO:0045931","count":1},{"id":"GO:0019933","count":1},{"id":"GO:0000082","count":1},{"id":"GO:0045947","count":1}]},{"hash":"2041922445174135535","title":"Mitochondrial calcium handling and complex IV assembly","description":"The strongest signals are mitochondrial-focused: calcium import into the mitochondrion, positive regulation of mitochondrial Ca2+ concentration, and assembly of the mitochondrial respiratory chain complex IV, which together point to mitochondrial calcium homeostasis and respiration as the core theme. Other terms like membrane fission and ESCRT-related trafficking appear less central but fit within broader cellular dynamics; overall, the cluster seems to represent mitochondrial calcium management linked to respiratory chain assembly.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072112","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0036444","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0051561","count":1}]},{"hash":"34430661156761213","title":"Unknown","description":"The top GO terms span a wide range of unrelated processes (telomere maintenance, proteolysis, tRNA modification, ribosomal assembly, DNA replication, cilium movement, gas vesicle organization, ER-associated degradation, and vesicle transport), with no clear, cohesive theme tying them together. The lack of a common function or interaction pattern suggests no single interpretable label can be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":2},{"id":"GO:0046944","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0072670","count":2},{"id":"GO:0031412","count":2}]},{"hash":"864635966904430652","title":"Telomere maintenance regulation","description":"This cluster is dominated by GO terms tied to telomere biology\u2014negative regulation of telomere maintenance, telomere capping, and telomere maintenance via lengthening\u2014pointing to a core theme of telomere maintenance regulation. While there are also cardiovascular-related terms (SA node regulation/communication) and angiogenesis signals, the telomere-focused terms provide the strongest unifying thread.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904908","count":3},{"id":"GO:0098907","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0050966","count":3},{"id":"GO:0016477","count":3}]},{"hash":"977665261532932585","title":"Angiogenesis and Endothelial Migration","description":"The top GO terms focus on blood vessel biology: blood coagulation, endothelial cell migration/chemotaxis, and responses to growth factors with ERK signaling and focal adhesion dynamics, all pointing to endothelial-driven angiogenesis and vascular remodeling. Some terms are ancillary (amino acid response, salivary gland morphogenesis), but the dominant pattern is endothelial activation and vessel formation.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0043536","count":2},{"id":"GO:0035767","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0070374","count":2}]},{"hash":"566752890328726894","title":"Bacterial metal transport and nitrogen metabolism","description":"The listed GO terms cluster around metal ion transport (copper, iron, arsenate) and nitrogen metabolism (denitrification, nitrate assimilation, reductive iron assimilation), with additional bacterial cell-cycle processes (FtsZ-dependent cytokinesis, sporulation). An outlier term like platelet activation is present but does not dominate; overall this points to bacterial proteins involved in metal homeostasis and nitrogen metabolism, with related cell division aspects. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019333","count":1},{"id":"GO:0030168","count":1},{"id":"GO:1901684","count":1},{"id":"GO:0006825","count":1},{"id":"GO:0043093","count":1}]},{"hash":"2130307363758277832","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0043602","count":3},{"id":"GO:1904042","count":3},{"id":"GO:0032770","count":3},{"id":"GO:0007584","count":3}]},{"hash":"863557471834832438","title":"Endocytic trafficking and signaling","description":"The four proteins are linked to membrane trafficking processes (plasma membrane to endosome transport; phagosome-lysosome fusion) and to signaling regulation (positive regulation of canonical Wnt signaling; mineralocorticoid and angiotensin-related responses), with an additional development aspect (hair follicle placode formation). This suggests a theme where endocytic trafficking interfaces with signaling pathways during development and physiological regulation, though some terms represent broader housekeeping roles; overall, the connection is moderate.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071389","count":4},{"id":"GO:0048227","count":4},{"id":"GO:0090263","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0060789","count":4}]},{"hash":"385155694496127251","title":"Germline meiosis and early embryogenesis","description":"These proteins cluster around germline and early developmental processes involving cell division, meiosis, and embryo formation. Key GO terms include mitotic cell cycle, mitotic spindle assembly checkpoint signaling, oogenesis, microsporogenesis, and blastocyst development, indicating roles in germline meiosis and subsequent embryogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0042276","count":1},{"id":"GO:0009556","count":1},{"id":"GO:0051312","count":1},{"id":"GO:0048477","count":1}]},{"hash":"570836375186926803","title":"Developmental signaling and endocytic trafficking","description":"This cluster shows multiple GO terms tied to signaling pathways (e.g., positive regulation of canonical Wnt signaling, TORC2 signaling) and to vesicle trafficking processes (plasma membrane to endosome transport, phagosome-lysosome fusion), plus development-related events such as hair follicle placode formation. The combination suggests proteins that coordinate signal transduction with endocytic trafficking during development and tissue organization, rather than a single enzyme or structural function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071389","count":4},{"id":"GO:0048227","count":4},{"id":"GO:0090263","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0060789","count":4}]},{"hash":"2147211953109045745","title":"Vertebrate neural and skeletal development","description":"This cluster\u2019s prominent GO terms cluster around vertebrate development, including skeletal system development, forebrain development, neural tube closure, lens fiber differentiation, and multicellular organism development, with additional transcriptional regulation (DNA-templated transcription). While a few stress-related terms appear, the dominant theme is embryonic/neural development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3}]},{"hash":"751180488262211456","title":"Neuronal adhesion and synaptic organization","description":"The top GO terms cluster around neural connectivity and development, including neuron cell-cell adhesion, calcium-dependent adhesion, and regulation of synaptic vesicle clustering, along with neuronal stem cell population maintenance. These indicate a cohesive theme of neuronal adhesion and synaptic organization, even though a few terms touch on non-neural development. Overall, the cluster appears to represent neural adhesion and synaptic organization functions.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0060488","count":1},{"id":"GO:0007156","count":1},{"id":"GO:2000807","count":1},{"id":"GO:0060711","count":1}]},{"hash":"2165762691822266328","title":"Unknown","description":"The top GO terms span lipid homeostasis, transcription regulation, vesicle transport, Wnt signaling, development, phagosome-lysosome fusion, neuromuscular balance, and ribosome export, with no single dominant function linking the four proteins. The absence of a unifying theme and no network connectivity makes a cohesive label unreliable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055091","count":3},{"id":"GO:0010628","count":3},{"id":"GO:0071389","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0090263","count":2}]},{"hash":"1101910241682706940","title":"Nervous system development and sensory perception","description":"The Top Terms are dominated by nervous system and sensory-related functions: sensory perception of sound, nervous system development, cellular response to mechanical stimulus, and neuron apoptotic processes. These collectively point to neural development and mechanosensory signaling (e.g., hearing). A few terms (heart development, B cell homeostasis, interferon production, NOD signaling) appear as broader or peripheral signals, but they do not override the central neural theme. Therefore, this label best captures the cluster\u2019s core function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0001782","count":3}]},{"hash":"2084928076915084552","title":"Neuronal Axon Guidance and Growth Signaling","description":"The cluster centers on axon guidance (commissural neuron axon guidance and paranode localization) and multiple growth-factor signaling pathways (VEGF, PDGF receptor, Wnt, ERK), suggesting a theme of neuronal pathfinding linked to signaling cascades, despite some unrelated terms that may reflect broader developmental processes.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071679","count":2},{"id":"GO:0002175","count":2},{"id":"GO:0048010","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0010641","count":2}]},{"hash":"1092180663945042040","title":"Developmental signaling and differentiation","description":"The proteins show enrichment across broad developmental and differentiation processes (PI3K/AKT signaling, BMP signaling, myoblast and heart/skIN development, NK cell differentiation), plus related cellular localization and immune signaling, suggesting a general theme of development and lineage specification rather than a single specific function.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":3},{"id":"GO:0045663","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0044708","count":2}]},{"hash":"784878041795978147","title":"Unknown","description":"GO terms are diverse and largely unrelated (sumoylation, lipid regulation, neuron development, immune signaling, xenobiotic response, viral entry, glycosylation, adhesion). No clear shared pathway or function emerges across the proteins; thus a meaningful cluster label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0050994","count":1},{"id":"GO:0010977","count":1},{"id":"GO:2001190","count":1},{"id":"GO:0090305","count":1}]},{"hash":"1660628079175584720","title":"Ubiquitin-regulated immune signaling","description":"The terms cluster around ubiquitin-dependent protein catabolic processes and multiple ubiquitination types (K63-linked, linear polyubiquitination), which are known to regulate NF-kappaB signaling. Immune-specific terms like T cell homeostasis and V(D)J recombination support a theme of ubiquitin-mediated control of immune signaling, with some peripheral links to vitamin D response and synaptic vesicle transport. Overall, a cohesive label is the regulation of immune signaling by ubiquitination.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0070534","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0007250","count":2}]},{"hash":"102352965898443245","title":"Neural development and TORC1 signaling","description":"The top GO terms cluster around nervous system development\u2014forebrain, retina, and spinal cord development\u2014suggesting a neural development theme. Additional links to TORC1 signaling and glucose-mediated signaling point to metabolic regulation of neural growth and development. Some terms appear noisy or indirect (e.g., Okazaki fragment processing), but the dominant signal is neural development with TORC1 pathway involvement.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001235","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0021510","count":4}]},{"hash":"196636615806942491","title":"Ubiquitin-dependent endosomal sorting and exosome release","description":"Based on GO terms such as ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway, endosome to lysosome transport, positive regulation of exosomal secretion, and regulation of ubiquitin-dependent endocytosis, the proteins appear to function in endocytic trafficking and exosome biogenesis/release. Additional terms related to protein transport and growth signaling regulation (e.g., EGFR) suggest a cohesive module linking ubiquitin-driven sorting with vesicle-mediated communication and growth control. Thus, the cluster represents a ubiquitin-dependent endosomal sorting and exosome release module.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043162","count":1},{"id":"GO:0015031","count":1},{"id":"GO:1903543","count":1},{"id":"GO:0045571","count":1},{"id":"GO:1903551","count":1}]},{"hash":"614908038635939733","title":"Embryonic morphogenesis and Wnt signaling","description":"The cluster repeatedly features terms tied to embryonic pattern specification and morphogenesis across multiple tissues (cartilage, teeth, lung, cranial structures, genitalia, neurohypophysis), with a notable emphasis on positive regulation of canonical Wnt signaling. This pattern suggests a shared role in embryonic development and tissue morphogenesis governed by Wnt pathways, rather than a single-site function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009880","count":3},{"id":"GO:0002063","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0046326","count":3},{"id":"GO:0030324","count":3}]},{"hash":"2091028853292510210","title":"Platelet\u2013complement\u2013coagulation regulation","description":"The proteins cluster around thromboinflammatory processes: positive regulation of platelet activation, complement activation and signaling, and coagulation, with accompanying endothelial migration/angiogenesis and cell-matrix interactions, suggesting roles in immune-coagulation-vascular regulation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":3},{"id":"GO:0032613","count":3},{"id":"GO:0010596","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0001970","count":2}]},{"hash":"698995255493382891","title":"Germline development and chromatin regulation","description":"This cluster centers on germ cell development (seminiferous tubule development and male germ-line stem cell asymmetric division) and histone acetylation\u2013mediated chromatin regulation, indicating epigenetic control of germline gene expression and proliferation, with some links to modulation of signaling pathways involved in gonadal development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072520","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0043981","count":2}]},{"hash":"288710052392740354","title":"Nucleotide Salvage and Kinase Signaling","description":"The top terms include nucleotide salvage processes (uracil salvage, CTP salvage, UMP salvage) alongside kinase signaling activities (activation of protein kinase activity and EGFR signaling), suggesting a cluster centered on signaling-associated functions with a nucleotide metabolism angle. Some developmental terms may reflect broader annotations, but the combined pattern points to signaling with nucleotide salvage as a core theme.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":2},{"id":"GO:0006351","count":1},{"id":"GO:0006223","count":1},{"id":"GO:0044211","count":1},{"id":"GO:0044206","count":1}]},{"hash":"1465139504394124018","title":"p53-driven transcriptional stress and cell cycle control","description":"This cluster centers on stress-responsive regulation of transcription and translation, with a strong emphasis on the p53 signaling axis, cell cycle control, and protein stability. GO terms for p53-mediated signal transduction, cellular response to transcription inhibitors (actinomycin D), and regulation of the cell cycle, combined with ubiquitin-dependent protein turnover and stabilization, point to a coordinated module that links transcriptional stress to cell cycle regulation through ubiquitin pathways.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:2000059","count":3},{"id":"GO:0032986","count":3},{"id":"GO:1901798","count":3},{"id":"GO:0050821","count":3}]},{"hash":"608433222394890933","title":"Embryonic Organogenesis","description":"This cluster shows enrichment for GO terms tied to organ development and morphogenesis across tissues (cranial skeletal system, metanephros/kidney, lung) and embryonic cell-cycle regulation, suggesting a theme of embryonic organ formation. While there are some general cellular-process terms (nuclear import, GTPase activity regulation), the prominent developmental morphogenesis signals support labeling as embryonic organogenesis.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035293","count":1},{"id":"GO:0072053","count":1},{"id":"GO:1904888","count":1},{"id":"GO:0045976","count":1},{"id":"GO:1904501","count":1}]},{"hash":"184640819300701962","title":"Ribosome Small Subunit Biogenesis and Translation","description":"This cluster centers on ribosome production and function, with GO terms for maturation of SSU-rRNA, ribosome biogenesis and small subunit assembly, and translation, indicating proteins involved in assembling the ribosome and supporting protein synthesis; the presence of SSU-specific biogenesis terms and translation strongly ties the proteins to the ribosome lifecycle.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030490","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006407","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":3}]},{"hash":"28826071563208437","title":"Heat stress response and proteostasis","description":"This cluster is driven by multiple GO terms tied to stress adaptation and protein quality control, including ER unfolded protein response, heat acclimation, autophagosome maturation, and mitochondrial protein handling, alongside transcriptional regulation and respiration adjustments. Together they point to a coordinated heat-stress\u2013induced proteostasis program.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045899","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0070414","count":2},{"id":"GO:0070370","count":2},{"id":"GO:0097352","count":2}]},{"hash":"130093005195949699","title":"Ribosome biogenesis and translation initiation","description":"The prominent GO terms center on formation of translation initiation complexes and translation itself, plus maturation of SSU rRNA, which together point to ribosome assembly and protein synthesis. A few transcription-related terms appear but do not override the central ribosome/translation theme. Overall, the cluster seems to reflect ribosome biogenesis coupled with translation initiation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001732","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0000462","count":1}]},{"hash":"1047171880465092564","title":"Retina Development and Visual Processing","description":"Top GO terms are dominated by vision-related processes (retina development in camera-type eye and visual learning), pointing to a theme centered on the visual system. The presence of vascular and immune-related terms appears more ancillary, and the lack of network edges suggests these proteins are not tightly co-functioning but share general vision-associated roles. Therefore, the label reflects a best-effort grouping around retina development and visual processing, with some noise from other enriched terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0008283","count":2}]},{"hash":"1578332329061314259","title":"Centrosome and oocyte meiosis regulation","description":"The cluster repeatedly shows terms about the centrosome cycle and regulation of centrosome duplication, along with oocyte differentiation and fertilization, suggesting a common role in centrosome dynamics during meiosis and egg development. Some terms (DNA damage response, rRNA processing) appear peripheral and do not define the core function.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":1},{"id":"GO:0043516","count":1},{"id":"GO:0000448","count":1},{"id":"GO:0006884","count":1},{"id":"GO:0007338","count":1}]},{"hash":"197304828297010579","title":"Craniofacial and eye development","description":"The top GO terms predominantly describe embryonic development of craniofacial skeletal structures and ocular tissues (cranial skeletal system development, soft palate development, eye development, embryonic eye morphogenesis), with additional signals about epithelial polarity and neural tissue patterning (floor plate development, apical/basal polarity). These converging themes point to a cohesive role in early development of facial/eye structures and associated tissues, making a concise label like \"Craniofacial and eye development\" appropriate. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904888","count":4},{"id":"GO:0060023","count":4},{"id":"GO:0043010","count":4},{"id":"GO:0048048","count":4},{"id":"GO:0035878","count":4}]},{"hash":"288636209525314009","title":"Neural development and embryogenesis","description":"The top GO terms center on neural formation (forebrain development, neural tube closure) and broad embryonic development (multicellular organism development, skeletal system development) with a common thread of transcriptional regulation (DNA-templated transcription). While some terms pertain to stress and immune responses, these likely reflect pleiotropy or background noise rather than the cluster\u2019s core function. Overall, the cluster seems to comprise developmental regulators and transcriptional control players involved in neural and embryonic development.","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0001501","count":3}]},{"hash":"914384368033397965","title":"Cardiac development and protein homeostasis","description":"This cluster is anchored by heart development terms (atrial septum development; ventricular trabecula myocardium morphogenesis) and proteostasis-related terms (protein polyubiquitination; chaperone-mediated protein complex assembly; SMAD catabolic), with additional metabolic and stress-response terms that may reflect concurrent signaling in developing or stressed cardiac tissue.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0090526","count":2},{"id":"GO:0003283","count":2},{"id":"GO:0003222","count":1},{"id":"GO:0090035","count":1}]},{"hash":"54751615049004119","title":"Viral entry and uncoating proteins","description":"This cluster is driven by GO terms linked to viral life-cycle steps, including uncoating, membrane fusion between virus and host, and proviral latency. Additional terms on protein folding and host entry support a pattern of virus\u2013host interaction and exploitation of host machinery, suggesting these proteins participate in early infection stages. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019061","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0010849","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006457","count":2}]},{"hash":"1817872171859133189","title":"Membrane receptor signaling and trafficking","description":"The top terms cluster around membrane and surface-associated signaling: protein localization to the plasma membrane and cell cortex, receptor internalization, and the sphingosine-1-phosphate receptor signaling pathway, all pointing to GPCR-related signaling at the cell surface with trafficking processes. Positive regulation of focal adhesion assembly also aligns with signaling at the membrane-cytoskeleton interface. While a couple terms (like tRNA processing) are less connected, the dominant theme is cell-surface signaling and trafficking.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0008033","count":2},{"id":"GO:0051894","count":2},{"id":"GO:0072697","count":2}]},{"hash":"1573979781306932855","title":"Cholesterol and Steroid Metabolism","description":"The proteins are mainly tied to lipid and steroid pathways: cholesterol transport/import, cholesterol esterification, bile acid biosynthesis, and steroid hormone biosynthesis (progesterone) plus related glucocorticoid metabolism and growth hormone/luteinizing hormone responses. A plant-specific term about floral organ identity appears discordant and may reflect annotation noise, but the dominant theme is cholesterol/steroid metabolism and lipid transport.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048497","count":1},{"id":"GO:0032367","count":1},{"id":"GO:0070859","count":1},{"id":"GO:0071373","count":1},{"id":"GO:0035621","count":1}]},{"hash":"1848160981085713721","title":"Heat stress response and proteostasis","description":"The cluster centers on heat-related and protein-folding stress responses, with GO terms for ER unfolded protein response, cellular heat acclimation, and autophagosome maturation, suggesting a coordinated proteostasis program under thermal stress. Additional terms touch on mitochondrial protein import and RNA processing, implying broader organelle quality control and transcriptional adjustments during stress. Overall, these proteins likely participate in heat-induced proteostasis and organelle quality control rather than a single linear pathway.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045899","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0070414","count":2},{"id":"GO:0070370","count":2},{"id":"GO:0097352","count":2}]},{"hash":"1909805154202641911","title":"Unknown","description":"The terms span membrane and ion-handling processes (phospholipid translocation, calcium signaling, membrane repolarization) but also include unrelated areas (nerve formation, stilbene metabolism), giving no clear unified function for the cluster. With no edges and no cohesive GO theme, a confident label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061092","count":3},{"id":"GO:0000749","count":3},{"id":"GO:0021650","count":3},{"id":"GO:0030026","count":2},{"id":"GO:0086009","count":2}]},{"hash":"1361863821605073498","title":"Unknown","description":"The top GO terms are spread across distinct processes, including protein secretion regulation, receptor recycling, endosome dynamics, cilium assembly, mitotic chromosome passenger complex localization, tRNA wobble modification, and obsolete metabolic terms. The lack of a cohesive unifying function makes it hard to assign a single, representative label, so Unknown with no confidence is appropriate here.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050709","count":4},{"id":"GO:0001881","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006547","count":4},{"id":"GO:0002098","count":4}]},{"hash":"1384425658561704884","title":"Muscle excitation-contraction signaling","description":"The cluster\u2019s GO terms strongly converge on muscle physiology: cardiac and skeletal muscle action potentials, regulation of muscle contraction via action potential, and potassium ion transport across the plasma membrane, all pointing to excitation-contraction coupling and muscle excitability. While there are notes on hormone and stimulus responses (nicotine, estradiol, testosterone), the central theme appears to be how electric signaling governs muscle contraction.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0071316","count":4},{"id":"GO:0002931","count":4},{"id":"GO:0086002","count":4},{"id":"GO:0033574","count":4},{"id":"GO:0032355","count":4}]},{"hash":"1256660936939651480","title":"Integrin-Mediated Adhesion Signaling","description":"This cluster's top GO terms center on calcium-independent cell-matrix adhesion, integrin-mediated signaling, epithelial/endothelial adhesion, receptor clustering, and cellular extravasation, indicating a core role for integrin-based adhesion machinery driving adhesion and signaling. The mentions of endodermal differentiation and germ-band extension suggest developmental contexts, while NK cell activation hints at immune cell interaction with adhesion pathways. Overall, the cluster seems to reflect integrin-dependent adhesion signaling in development, endothelial biology, and immune cell trafficking.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007377","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0045123","count":3}]},{"hash":"236636354683316832","title":"Neural and Eye Development","description":"The top GO terms cluster around neural differentiation and central nervous system patterning (spinal cord neuron differentiation, forebrain development, rhombomere development, globus pallidus development) as well as eye/retina morphogenesis (camera-type eye development, retina development, embryonic eye morphogenesis), indicating a coherent theme of neurodevelopment and ocular morphogenesis. A single term on tooth dentin odontogenesis is an outlier but does not disrupt the overall developmental theme. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":4},{"id":"GO:0044708","count":4},{"id":"GO:1904081","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0043010","count":4}]},{"hash":"432903582103201547","title":"TGF-\u03b2/BMP developmental signaling","description":"This cluster is enriched for GO terms related to TGF-\u03b2 receptor signaling, BMP and Nodal pathways, SMAD regulation, and developmental processes such as gastrulation, left-right asymmetry, and osteoblast fate, indicating a cohesive role in vertebrate developmental signaling driven by TGF-\u03b2/BMP/Nodal axes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":3},{"id":"GO:0007183","count":3},{"id":"GO:0007179","count":3},{"id":"GO:0001702","count":3},{"id":"GO:0030513","count":2}]},{"hash":"1127700290324525476","title":"Plant hormone biosynthesis and defense responses","description":"The top GO terms point to biosynthesis of plant hormones (gibberellin biosynthetic process) and defense-related metabolites (salicylic acid catabolic process, hydrogen peroxide-mediated programmed cell death). There are also secondary metabolite biosynthesis terms (antibiotic and penicillin biosynthetic processes). A few terms (stress granule assembly, sporulation) are less cohesive with the main theme, but overall the cluster centers on biosynthesis of signaling molecules and defense responses in plants, with some cross-annotation to microbial secondary metabolism. Confidence: Medium","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0034063","count":1},{"id":"GO:0018401","count":1}]},{"hash":"656227914994287387","title":"Developmental processes and cell proliferation","description":"This cluster's top GO terms are dominated by mitotic cell cycle and cell division, together with several developmental terms such as forebrain development, neuron projection development, skeletal system development, and multicellular organism development. This suggests proteins tend to function in growth and development, including neuronal differentiation and morphogenesis, with some peripheral signals contributing noise. Overall, it points to a developmental biology and proliferation theme rather than a single precise pathway. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0006349","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1556798302594804134","title":"Forebrain and Eye Development","description":"The cluster\u2019s GO terms cluster around neural development and eye morphogenesis: forebrain development, spinal cord-associated neuron differentiation, embryonic eye morphogenesis, camera-type eye development, and globus pallidus development, indicating involvement in brain and eye formation. Additional terms related to cell-matrix adhesion and actin dynamics support tissue remodeling during development. Overall, the proteins likely participate in neural and ocular development pathways.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0021527","count":2},{"id":"GO:0044708","count":2},{"id":"GO:0007160","count":2},{"id":"GO:1904081","count":2}]},{"hash":"1691560265459589410","title":"Neurodevelopment and Eye Morphogenesis","description":"These proteins are linked by GO terms dominated by neural development and sensory organ formation, including forebrain and spinal cord neuron differentiation, retina and camera-type eye development, and embryonic eye morphogenesis. This pattern points to roles in building nervous tissue and visual system structures, with a minor note that odontogenesis appears as a separate, less central term. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":4},{"id":"GO:0044708","count":4},{"id":"GO:1904081","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0043010","count":4}]},{"hash":"2305618768319296275","title":"Unknown","description":"The GO terms span erythrocyte differentiation, pituitary development, dopamine biosynthesis, corticosterone and xenobiotic responses, pregnancy, stress, and even miscellaneous metabolic processes. With zero reported edges among the four proteins, there is no clear shared function or pathway linking them. Because no coherent theme emerges, 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:0045648","count":3},{"id":"GO:0021983","count":2},{"id":"GO:0042416","count":2},{"id":"GO:0051412","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1480560325502727194","title":"Unknown","description":"The Top Terms are highly diverse, spanning transcription (DNA-templated), neural development (synaptic assembly, axon collateral sprouting), plant-specific gravitropism, lactation, and erythrocyte differentiation, with several obsolete terms as well. This lack of a coherent, shared function or pathway across the proteins suggests no single interpretable theme for a concise label, so Unknown is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0048674","count":1},{"id":"GO:1903694","count":1},{"id":"GO:0044324","count":1},{"id":"GO:0009958","count":1}]},{"hash":"2224807938621454342","title":"Cilium assembly and photoreceptor trafficking","description":"The top GO terms cluster around non-motile cilium assembly and its regulation, along with microtubule anchoring at the centrosome and localization of proteins to the photoreceptor outer segment. This combination points to a cohesive set of proteins involved in ciliogenesis and ciliary trafficking, especially in photoreceptor cells. Some development-related terms appear but are less central to the core ciliary theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030850","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0034454","count":2},{"id":"GO:1903546","count":2}]},{"hash":"1798038851449178744","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":2},{"id":"GO:0006740","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0019404","count":2}]},{"hash":"913590799700791634","title":"Neural Development and Eye Morphogenesis","description":"This cluster's top GO terms center on neuronal differentiation and brain/eye formation, including forebrain development, rhombomere development, globus pallidus development, and embryonic/camera-type eye morphogenesis, with supporting terms on actin cytoskeleton regulation and cell-matrix adhesion, suggesting involvement in neural patterning and morphogenesis.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":2},{"id":"GO:0044708","count":2},{"id":"GO:0007160","count":2},{"id":"GO:1904081","count":2},{"id":"GO:0030900","count":2}]},{"hash":"89087393104814297","title":"Diverse Biosynthesis Processes","description":"GO terms point to several different biosynthetic pathways (lipid, amino acid, heme) and one transcription term, with no clear single function binding the proteins. The common thread is biosynthesis/metabolism across diverse pathways, so \"Diverse Biosynthesis Processes\" is appropriate.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046511","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006571","count":2},{"id":"GO:0019518","count":2},{"id":"GO:0006783","count":2}]},{"hash":"188213350522490644","title":"Central carbon metabolism and energy production","description":"The proteins show enrichment across glycolysis, gluconeogenesis, the TCA cycle, and conversion of pyruvate to acetyl-CoA, along with fatty acid biosynthesis steps (malonyl-CoA, long-chain FA) and amino-acid catabolism feeding acetyl-CoA, suggesting a cluster centered on core energy metabolism and lipid biosynthesis.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001295","count":3},{"id":"GO:0042759","count":3},{"id":"GO:0006552","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0006096","count":2}]},{"hash":"1487206256286163188","title":"Glutamate-centered amino acid metabolism","description":"This cluster\u2019s top GO terms converge on glutamate and related amino acid metabolism (glutamine metabolic process, glutamate biosynthesis/catabolism, histidine catabolic routes feeding into glutamate), with connections to central carbon metabolism (TCA). Some terms are obsolete or peripheral (phylloquinone, carnitine catabolism), but the dominant pattern points to glutamate-centered amino acid processing.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019557","count":1},{"id":"GO:0019556","count":1},{"id":"GO:0006541","count":1},{"id":"GO:0006537","count":1},{"id":"GO:0009094","count":1}]},{"hash":"423250035098810537","title":"Cytokinesis and Microtubule Organization","description":"This cluster centers on terms involved in cell division and cytoskeletal dynamics, notably microtubule nucleation, mitotic spindle midzone assembly, and cytokinesis, including FtsZ-dependent division and division-site positioning. Though a few terms like neuron differentiation and interleukin-4 response appear, the dominant signal is cytoskeletal reorganization during division, spanning both bacterial and eukaryotic contexts. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0043093","count":3},{"id":"GO:0007020","count":3},{"id":"GO:0051256","count":3}]},{"hash":"264352364012790972","title":"Neuronal adhesion and development","description":"The proteins predominantly show neural-specific cell\u2013cell adhesion (calcium-dependent and neuron-specific), plus regulation of synaptic vesicle clustering and neuronal stem cell maintenance, pointing to roles in neural development and synaptic organization. A few terms refer to related morphogenesis (labyrinthine layer) and axon guidance pathways, but the core signal is neural adhesion and development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060488","count":4},{"id":"GO:0007156","count":4},{"id":"GO:2000807","count":4},{"id":"GO:0060711","count":4},{"id":"GO:0016339","count":4}]},{"hash":"1928450592010025638","title":"Neuronal adhesion and synapse assembly","description":"Mostly enriched terms center on neuronal cell-cell adhesion and synapse assembly (neuron adhesion, calcium-dependent adhesion, homophilic adhesion, synapse assembly), with supporting notes on neuronal stem cell maintenance and axon guidance. A few terms are more general, but the dominant neural adhesion/synaptic terms justify a label focusing on neuronal connectivity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060488","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0016339","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0060243","count":2}]},{"hash":"574072229641974787","title":"Broad Signaling and PTM Regulation","description":"The top GO terms point to multiple signaling pathways (cytokinin, GPCR, interferon/glucocorticoid signaling) and processes involving post-translational modification (tyrosine sulfation, histone modification, protein modification regulation). With no connected edges and diverse terms, these proteins appear to function as regulators of signaling and modification rather than a single pathway, justifying a broad, integrative label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009736","count":3},{"id":"GO:0035457","count":3},{"id":"GO:0090526","count":2},{"id":"GO:0031400","count":2},{"id":"GO:0008277","count":2}]},{"hash":"2024564701569445397","title":"Cardiovascular and inflammatory regulation","description":"The top GO terms point to heart development, blood pressure regulation, and vascular contraction, along with immune/inflammatory processes (IL-10 production, chronic inflammatory response, neutrophil killing). While there are a few outliers like circadian rhythm and retina development terms, the strongest signals cluster around cardiovascular regulation combined with inflammation, supporting a cardiovascular-immune module.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001991","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0072608","count":2},{"id":"GO:0035625","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1478676182943820832","title":"Potassium Ion Transport and Membrane Potential Regulation","description":"The top GO terms center on potassium ion transport and the regulation/stabilization of membrane potential, including membrane repolarization, which together point to a set of proteins (likely potassium channels/pumps) that maintain cellular excitability and ionic balance. Peripheral terms like saliva secretion and response to dsRNA may reflect tissue-specific roles or broader signaling contexts, but the dominant theme is potassium-driven membrane potential control.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046541","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0030322","count":2},{"id":"GO:0006813","count":2},{"id":"GO:0050976","count":2}]},{"hash":"49800989836146960","title":"Post-transcriptional mRNA regulation","description":"The Top Terms include several aspects of RNA life-cycle control\u2014mRNA processing, localization, decay, and cytoplasmic translation\u2014pointing to a shared function in post-transcriptional regulation of gene expression. Although a few terms relate to signaling or development, the strongest recurring theme is RNA metabolism and protein synthesis control. This suggests the cluster represents proteins involved in mRNA fate and translation rather than a single signaling pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":1},{"id":"GO:1904582","count":1},{"id":"GO:0002181","count":1},{"id":"GO:1904628","count":1},{"id":"GO:0060710","count":1}]},{"hash":"1097430133673900029","title":"Embryogenesis and organ morphogenesis","description":"This cluster\u2019s GO terms are dominated by embryonic development, pattern formation, and tissue morphogenesis (left/right patterning, cartilage morphogenesis, EMT in endocardial cushion formation, placental and pancreatic development). A couple of tRNA and wobble modification terms appear as general cellular processes but do not contradict the developmental theme. Overall, the proteins likely participate in embryogenesis and organ formation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0017183","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0003323","count":1}]},{"hash":"1948566068299710182","title":"Meiosis and germline development","description":"The top GO terms are dominated by meiotic and germline processes: meiotic joint molecule formation, male meiosis I, heteroduplex formation, and germarium-derived oocyte fate determination, with supporting telomere maintenance via recombination and DNA damage\u2013response terms (X-ray, xenobiotic). This suggests proteins in this cluster function in meiotic genome maintenance and germ cell development, with some stress-response context.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":2},{"id":"GO:0006268","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0030491","count":2},{"id":"GO:0007294","count":2}]},{"hash":"1550322886003196900","title":"Unknown","description":"The GO terms span diverse processes (lipid metabolism like ergosterol/sphingolipid and unsaturated fatty acid biosynthesis, mitochondrial inheritance, neural maintenance, nitrate/nitrogen metabolism, and plant development), with no clear single function tying all four proteins together.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032443","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0006809","count":4}]},{"hash":"613284984343550112","title":"Innate Immune Receptor Signaling and Phagocytosis","description":"The top GO terms cluster around innate immune signaling and phagocytic processes (stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, phagocytosis recognition, leukocyte tethering/rolling), pointing to immune cell activation and phagocytic function. A couple terms related to cartilage or kidney development are likely peripheral annotations, but the dominant theme is innate immune response.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":1},{"id":"GO:0006910","count":1},{"id":"GO:0001502","count":1},{"id":"GO:0072287","count":1},{"id":"GO:0072177","count":1}]},{"hash":"1429939579211112972","title":"Cardiac electrophysiology and ion transport","description":"The top GO terms include regulation of AV node and SA node action potentials, potassium ion transport, and left ventricular cardiac muscle tissue morphogenesis, which together point to cardiac electrical signaling and ion flux. Several other terms (aerotaxis, T cell homeostasis, vestibular nucleus development) seem unrelated and may reflect incidental annotations, so this label is a best-fit rather than a perfect consensus.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":1},{"id":"GO:0086045","count":1},{"id":"GO:0098907","count":1},{"id":"GO:0003220","count":1},{"id":"GO:0009454","count":1}]},{"hash":"88926422325070062","title":"Ubiquitin-dependent transcription and proteostasis","description":"The top terms cluster around ubiquitin-related processes (deubiquitination of histone H2B and K48-linked deubiquitination, ubiquitin recycling, ubiquitin-dependent protein catabolic process) and protein quality control (ERAD maintenance, spliceosome assembly, DNA-templated transcription), indicating a theme of ubiquitin-regulated gene expression and proteostasis. A few behavioral GO terms exist but do not define the core function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035616","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071108","count":2},{"id":"GO:1901026","count":2}]},{"hash":"313317861837014449","title":"Signaling and adhesion proteins","description":"The GO terms point to receptor-mediated signaling pathways (EGFR, Kit, angiotensin) and cell\u2013cell adhesion processes (adherens junctions, cell adhesion), with ubiquitination regulation also represented. This suggests a cohesive class of proteins involved in signaling and cell\u2013adhesion functions, though a few terms are outdated or less connected to the core theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060444","count":2},{"id":"GO:0051092","count":2},{"id":"GO:1903762","count":2},{"id":"GO:0051865","count":2},{"id":"GO:1901253","count":2}]},{"hash":"1279145781749068893","title":"Hair Keratinization and Hair Cycle","description":"The top GO terms are keratinization and hair cycle, both linked to hair follicle differentiation and epidermal keratinocytes, suggesting these proteins participate in keratin fiber formation and hair follicle cycling.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":4},{"id":"GO:0042633","count":4}]},{"hash":"1191779059259476695","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0032225","count":1},{"id":"GO:0019243","count":1},{"id":"GO:0031126","count":1}]},{"hash":"373935702782023786","title":"Unknown","description":"The top GO terms cover vascular regulation (membrane potential, blood pressure, smooth muscle contraction), circadian rhythm, immune/inflammatory activity (IL-10, neutrophil killing), retina development, and stress-induced apoptosis, which do not point to a single coherent function for this cluster. With no edges or strong connectivity, there isn\u2019t a clear shared function to label, so Unknown with None confidence is most appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0001991","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0072608","count":2},{"id":"GO:0035625","count":2}]},{"hash":"2154758701561380813","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0045600","count":2},{"id":"GO:0050427","count":2},{"id":"GO:0030573","count":2}]},{"hash":"1830451289502417522","title":"NF-kB Activation via TNF Signaling and K63-Linked Ubiquitination","description":"These terms center on innate immune response and TNF signaling, dominated by NF-kB activation and K63-linked ubiquitination, including autoubiquitination. This supports labeling the cluster as NF-kB\u2013driven innate immune signaling via K63 ubiquitination.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":2},{"id":"GO:0045087","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0051865","count":2}]},{"hash":"2235780118975390932","title":"Drosophila eye and wing cell fate specification","description":"GO terms point to developmental signaling and tissue differentiation in Drosophila (cone and wing cell fate, EGFR ligand maturation, spermatid differentiation), but metabolic terms dilute a unique function.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009435","count":1},{"id":"GO:0046686","count":1},{"id":"GO:0006596","count":1},{"id":"GO:0042158","count":1},{"id":"GO:0006107","count":1}]},{"hash":"1391556063569860016","title":"Mitochondrial lipid remodeling and ATP synthesis","description":"This cluster is dominated by GO terms related to lipid remodeling and biosynthesis in a mitochondrial context, including cardiolipin and phosphatidylcholine remodeling, ether lipid and triglyceride biosynthesis, and the process of mitochondrial ATP synthesis coupled to electron transport. These point to a cohesive theme of mitochondrial lipid metabolism supporting energy production, even though a couple terms (e.g., cerebellum morphogenesis, IL-2 production) may be ancillary. Overall, the lipids-energy axis best explains the cluster\u2019s function.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035965","count":4},{"id":"GO:0021587","count":4},{"id":"GO:0008611","count":4},{"id":"GO:0042775","count":4},{"id":"GO:0036151","count":4}]},{"hash":"1392772563315579343","title":"Unknown","description":"The proteins show a highly diverse set of GO terms spanning neural axon localization, nervous system development, muscle/heart development, BMP signaling, immune signaling, and reproductive processes. This broad, tissue-spanning mix provides no clear, single function that cohesively represents the cluster, so a specific label cannot be confidently assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044708","count":3},{"id":"GO:0071206","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0034164","count":3},{"id":"GO:0001779","count":3}]},{"hash":"606283620154406368","title":"Neurodevelopmental Signaling","description":"The top GO terms cluster around nervous system development and key developmental signaling pathways (ROBO/roundabout, SHH/smoothened, BMP signaling), with kidney development as another developmental theme. Immune-related terms appear but seem less central, suggesting the cluster reflects neurodevelopmental signaling networks rather than immune pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0035385","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0050852","count":3}]},{"hash":"530848702213668601","title":"Immune signaling and endothelial proliferation","description":"These proteins cluster around immune system activity (T cell activation, IL-2 regulation, interferon production) and vascular growth signals (PDGF receptor signaling, PI3K-AKT pathway, endothelial cell proliferation). The shared GO terms suggest a module coordinating immune responses with vascular/tissue remodeling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0001808","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0001938","count":1}]},{"hash":"2186356840269598075","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around embryonic development and organ formation across multiple tissues (eye, heart, hindlimb, placenta, prostate, habenula, spinal cord). This suggests proteins broadly involved in morphogenesis during embryogenesis rather than a single tissue-specific function.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0003148","count":3}]},{"hash":"194337885140076915","title":"Immune Response Regulation","description":"The top GO terms indicate immune signaling and regulation: positive regulation of immunoglobulin production, immunoglobulin-mediated immune response, chemokine production, macrophage activation, and mast cell degranulation, as well as modulation of T-helper 1 differentiation. Together these suggest a cluster centered on immune activation and inflammatory responses rather than a single specific pathway, with a couple outliers like ovulation or myoblast fusion.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045626","count":1},{"id":"GO:0090197","count":1},{"id":"GO:0043032","count":1},{"id":"GO:1901741","count":1},{"id":"GO:0030728","count":1}]},{"hash":"1539612840862278726","title":"Unknown","description":"The top GO terms describe a mix of processes including membrane trafficking (plasma membrane to endosome transport; phagosome-lysosome fusion), signaling (Wnt regulation; mineralocorticoid and angiotensin pathways), development (hair follicle placode formation), and even translation-related processes (tRNA modification; ribosomal subunit export). There is no single cohesive function that clearly unifies the three proteins, so a definite label cannot be assigned with confidence.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071389","count":3},{"id":"GO:0048227","count":3},{"id":"GO:0090263","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0060789","count":3}]},{"hash":"713823825396174791","title":"Unknown","description":"The top GO terms span developmental and neural processes (head involution, learning or memory, glial apoptotic process, hippo signaling) along with broad stress and cellular-transport terms (response to UV, xenobiotic, antibiotic, Golgi to plasma membrane transport). The proteins have no connecting edges, and there isn\u2019t a single coherent function that ties these terms together, so a safe label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008258","count":2},{"id":"GO:0006893","count":1},{"id":"GO:0009411","count":1},{"id":"GO:0043200","count":1},{"id":"GO:0007611","count":1}]},{"hash":"1865250086061918529","title":"Cytoskeletal dynamics and migration signaling","description":"The top GO terms show a strong emphasis on cell migration and actin filament bundle assembly, pointing to cytoskeletal remodeling as a central theme. The presence of various signaling pathways (B cell receptor, EGFR, Wnt, retinoic acid) suggests these proteins coordinate signaling inputs with motility-related processes, rather than belonging to a single canonical pathway. Some terms (like autophagosome assembly) are more peripheral, but overall the cluster appears to center on movement and its regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007173","count":1},{"id":"GO:0086098","count":1}]},{"hash":"276087622826950333","title":"Kidney tubule morphogenesis","description":"The top GO terms include kidney development and metanephric proximal/distal tubule morphogenesis, pointing to nephron/tubule formation as the cluster\u2019s core function. While some terms touch on cell adhesion and other development processes, the kidney-related morphogenesis signals dominate.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0072237","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0072287","count":2}]},{"hash":"862961497418693267","title":"Neural development and axonogenesis","description":"The strongest signals are forebrain development and axonogenesis, indicating a neural development theme; additional terms point to related developmental signaling (TGF-beta response, growth) and signaling regulation (GTPase activity, autophosphorylation). Immune-related terms exist but are less represented, so the primary interpretation is neural development with associated signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0002322","count":2}]},{"hash":"400921362222251198","title":"Unknown","description":"The top GO terms cover disparate developmental, sensory, reproductive, immune, and apoptotic processes with no common pathway or strongly linked function, and the cluster has no edges, so there is no coherent shared function to label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":2},{"id":"GO:0021846","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0009617","count":1}]},{"hash":"1084939463142448713","title":"Immune Signaling Regulation","description":"The top GO terms point to modulation of immune pathways, including TLR7/9 signaling, interferon-beta production, and T cell receptor signaling, alongside related ubiquitination processes; a few terms touch on insulin signaling and developmental functions, but the majority indicate regulated immune signaling rather than a single metabolic or developmental role. This makes \u201cimmune signaling regulation\u201d a concise and representative label for the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010633","count":1},{"id":"GO:0034164","count":1},{"id":"GO:0034157","count":1},{"id":"GO:0046627","count":1},{"id":"GO:1902227","count":1}]},{"hash":"958481069166325668","title":"T Cell Activation and Immune Regulation","description":"This cluster centers on T cell signaling and immune modulation, with GO terms for T cell costimulation, TCR-MHC\u2013mediated activation, and negative/positive regulation of T cell responses, plus gamma-delta T cell activation and susceptibility to T cell\u2013mediated cytotoxicity. Additional terms indicate broader inflammatory cell trafficking (monocyte extravasation, neutrophil homeostasis). A few terms (spermatid development) are less clearly connected, likely annotation noise, but the predominant theme is T cell\u2013driven immune regulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":3},{"id":"GO:2001189","count":2},{"id":"GO:0045590","count":2},{"id":"GO:1904469","count":2},{"id":"GO:0046629","count":2}]},{"hash":"1787638725021764302","title":"Multi-pathway signaling modulators","description":"This cluster shows enrichment across multiple signaling-related terms (KIT signaling, Wnt signaling, retinoic acid response) plus related processes like cell-matrix adhesion, regulation of TORC1 signaling, and apoptosis. The proteins appear to act as regulators across several pathways rather than a single pathway, suggesting a role in coordinating signaling networks and cell fate decisions. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0038109","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0051389","count":2},{"id":"GO:0071300","count":2}]},{"hash":"303433957876463413","title":"Unknown","description":"The GO terms are highly diverse, spanning pigment granule transport, actin filament regulation, Golgi ribbon formation, cardiac muscle development, membrane trafficking, immune opsonization, sensory perception, and plant leaf development. There's no single cohesive function or pathway tying these terms together, so a specific label can't be confidently assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051904","count":2},{"id":"GO:1903919","count":2},{"id":"GO:0090164","count":2},{"id":"GO:0055003","count":2},{"id":"GO:0007107","count":2}]},{"hash":"1813647679988691171","title":"RNA Splicing and mRNA Processing","description":"Proteins in this cluster are enriched for RNA metabolism activities, notably spliceosome assembly and RNA processing (spliceosomal components and snRNPs; mRNA splicing via spliceosome; P-body related mRNA turnover; tRNA and rRNA processing). This common thread points to roles in RNA maturation, splicing, and mRNA turnover with some stress- or cell-cycle-related terms as potential secondary associations.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":2},{"id":"GO:0030490","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0070317","count":2}]},{"hash":"1442863129528242193","title":"RNA processing and splicing machinery","description":"The top GO terms cluster around RNA maturation and processing, including spliceosome and snRNP assembly, mRNA splicing, tRNA processing, and pathways related to mRNA turnover (P-body assembly and deadenylation-dependent decapping), indicating a shared role in RNA processing and turnover.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0000245","count":3},{"id":"GO:0000387","count":3},{"id":"GO:0070317","count":3}]},{"hash":"872812551609150206","title":"Chromatin Regulation and Developmental Signaling","description":"The proteins share chromatin-associated functions (histone acetylation, histone exchange, nucleosome mobilization, heterochromatin formation, transcription initiation) and developmental regulatory roles (timing of vegetative to reproductive phase, segment specification, Wnt/PCP signaling), suggesting a cluster of chromatin-based transcriptional regulation connected to developmental pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0048510","count":1},{"id":"GO:0007379","count":1}]},{"hash":"1689425698216249306","title":"B cell cytokine production and IgG class switching","description":"The top GO terms point to B cell\u2013specific immune functions, including B cell cytokine production and positive regulation of IL-6, as well as isotype switching to IgG. While a few terms relate to nuclear localization processes (telomeres/Cajal bodies), the strongest signals are immune-activation and antibody-related functions in B cells, suggesting this cluster reflects B cell\u2013driven cytokine signaling and class switching.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904851","count":3},{"id":"GO:0048291","count":3},{"id":"GO:1904871","count":3},{"id":"GO:0002931","count":3},{"id":"GO:0002368","count":3}]},{"hash":"38775576702691868","title":"Unknown","description":"The GO terms for this cluster cover a broad and disparate set of cellular processes (nucleotide-excision repair, protein sumoylation, ribosomal small subunit assembly, tail-anchored ER membrane insertion, GPCR regulation, neurotransmitter secretion, tubulin folding, erythrocyte differentiation, mitochondrial fusion, and ER stress\u2013related apoptosis). There is no single cohesive function or pathway that clearly ties these terms together, suggesting the proteins do not share a common, interpretable biological role. ","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0071816","count":3},{"id":"GO:1904021","count":3}]},{"hash":"510802932972061382","title":"Eye and Antennal Development with Ubiquitination","description":"These proteins cluster around developmental processes affecting sensory organs (antennae, retina, labyrinthine layer), with signals like Wnt and Toll/TLR pathways and transcription activity. The presence of transcription regulation and ubiquitination terms suggests control of protein turnover during development, supporting a theme of developmental signaling and morphogenesis regulated by ubiquitin pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034121","count":1},{"id":"GO:0048800","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0046673","count":1},{"id":"GO:0090263","count":1}]},{"hash":"496124904240379023","title":"RNA methylation and rRNA processing","description":"The top terms cluster around RNA maturation and methylation, including rRNA processing, rRNA modification, and rRNA methylation, along with broader protein methylation (peptidyl-lysine dimethylation, N-terminal peptidyl-serine dimethylation). Some terms like nodulation and chlorophyll biosynthesis appear, but the strongest signal centers on RNA methylation and processing, suggesting a ribosome-related modification cluster. Confidence: Medium","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901052","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0009877","count":2},{"id":"GO:0006596","count":2},{"id":"GO:0006479","count":2}]},{"hash":"63618834976942122","title":"Neural development with CNS cell proliferation","description":"The top GO terms indicate strong involvement in neural development across CNS regions (neural tube closure, forebrain, retina, spinal cord) with supporting cellular growth processes such as mitotic cell cycle and ribosome biogenesis, plus signaling regulation. This suggests a cluster of proteins coordinating CNS development alongside general cell growth and signaling activities. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2},{"id":"GO:2001235","count":1}]},{"hash":"2225627995474916353","title":"DNA Damage Response and Proteostasis","description":"The GO terms point to p53-mediated signaling, cell cycle regulation, and ubiquitin-related control of protein stability, with additional hints from translation and RNA folding, suggesting a stress-responsive program linking DNA damage response to proteostasis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:2000059","count":1},{"id":"GO:0032986","count":1},{"id":"GO:1901798","count":1},{"id":"GO:0050821","count":1}]},{"hash":"663187014850995338","title":"Cell cycle progression and proliferation regulators","description":"The cluster centers on GO terms tied to cell cycle control and proliferation (G1/S transition, exit from mitosis, ribosome biogenesis, and positive regulation of proliferation), suggesting these proteins collectively promote cell growth and division. Some developmental terms appear but do not outweigh the proliferative theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0000082","count":1},{"id":"GO:0055123","count":1},{"id":"GO:1902746","count":1}]},{"hash":"29963720683436495","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010606","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0000738","count":1},{"id":"GO:0006261","count":1},{"id":"GO:0008033","count":1}]},{"hash":"861886553451706837","title":"Endosomal Sorting and Exosomal Secretion","description":"Based on the prominent GO terms, the proteins map to endocytic trafficking with a focus on multivesicular body sorting, endosome transport (early to late), ubiquitin-dependent degradation via MVBs, and exosomal secretion. While a couple terms are less related (e.g., bicoid mRNA localization), the core signal is endosomal sorting and vesicle release.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000433","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0071985","count":1},{"id":"GO:0061635","count":1},{"id":"GO:0045022","count":1}]},{"hash":"1210358146273539446","title":"Vascular Angiogenesis and Coagulation Regulation","description":"The terms show a clear cluster around endothelial cell survival and angiogenesis (both positive and negative regulation), alongside extracellular matrix remodeling (collagen fibril organization) and coagulation/platelet regulation (blood coagulation, negative regulation of platelet aggregation, fibrinolysis). This points to a group of proteins involved in vascular remodeling and the balance between angiogenic and hemostatic processes, with ECM context. A few terms like innervation and MAPK cascade are peripheral within this set but do not override the central vascular/coagulation theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000352","count":3},{"id":"GO:0001525","count":3},{"id":"GO:1902042","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0030199","count":3}]},{"hash":"938101125371261882","title":"Cardiac Development and Function","description":"Based on the top GO terms, the cluster centers on heart-related processes and activity, including heart rudiment formation and cardiac muscle contraction, with related terms about vascular smooth muscle relaxation and regulation of signaling. While there are a few skeletal development terms (bone/cartilage) in the mix, the strongest and most coherent theme is heart development and function, which supports this label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007051","count":1},{"id":"GO:0018107","count":1},{"id":"GO:0061181","count":1},{"id":"GO:0060087","count":1},{"id":"GO:0043547","count":1}]},{"hash":"570231205866462742","title":"Autophagy and ubiquitination regulation","description":"Proteins in this cluster are strongly tied to autophagy-related processes (ribophagy; engulfment by autophagosome) and to ubiquitination (K63-linked), with ancillary signals toward protein trafficking and signaling regulation. This combination points to a core theme of autophagy regulation and associated trafficking mechanisms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0032443","count":2},{"id":"GO:0034517","count":2},{"id":"GO:0090263","count":2},{"id":"GO:2000009","count":2}]},{"hash":"949948482579990012","title":"Unknown","description":"The top GO terms are highly diverse, including pain perception, cell migration, development and differentiation (multicellular organism development, fat cell differentiation), telomere maintenance, mRNA processing, and kinase regulation. There isn\u2019t a single coherent function or pathway tying these three proteins together, so a concise, informative label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:0045736","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0016477","count":2}]},{"hash":"543503327033210961","title":"Unknown","description":"The GO terms are highly diverse, spanning ER stress response, protein repair and redox detoxification, post-translational hydroxylation, transcription, and even plant- or development-specific processes. There is no clear, cohesive function tying all three proteins together, so a generic Unknown label with None confidence is most appropriate.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010196","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0072358","count":1},{"id":"GO:0034976","count":1}]},{"hash":"1756625790556807061","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0070843","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0035719","count":2}]},{"hash":"2085015776844687752","title":"Unknown","description":"The top GO terms span cardiac electrical activity, cortex development, telomere regulation, cell migration, hormone signaling, and immune differentiation, with no single dominant function tying them together. There isn\u2019t a coherent theme to label the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":2},{"id":"GO:0021819","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0086070","count":2}]},{"hash":"1973708238125085675","title":"Embryonic organogenesis","description":"The proteins map to broad embryonic development and organ morphogenesis across multiple tissues (craniofacial skeleton, eye, palate, nervous system) and include epithelial polarity/differentiation, indicating a general theme of organ formation rather than a single specific pathway.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904888","count":2},{"id":"GO:0060023","count":2},{"id":"GO:0043010","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0035878","count":2}]},{"hash":"1226601741847683936","title":"Neural and Eye Development","description":"The GO terms are dominated by neural and ocular development processes (forebrain development, retina/camera-type eye development, embryonic eye morphogenesis, spinal cord neuron differentiation, rhombomere development), with one outlier term on tooth development. This suggests the proteins cluster around neurodevelopment and eye formation more than anything else.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":3},{"id":"GO:0044708","count":3},{"id":"GO:1904081","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0043010","count":3}]},{"hash":"1289608335292070494","title":"Metabolism and Stress Response","description":"This cluster includes GO terms for copper ion and nitrosative stress responses, plus several metabolic processes (retinol/retinoic acid metabolism, sorbitol catabolism, pyruvate fermentation), implying proteins involved in metabolism linked to environmental stress rather than a single specific pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046688","count":2},{"id":"GO:0051409","count":2},{"id":"GO:0042573","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0019518","count":2}]},{"hash":"1025334934896461564","title":"Synaptic organization and signaling","description":"The top GO terms emphasize synaptic components and processes (protein localization to synapse, receptor clustering, dendritic spine morphogenesis) and Rho-driven signaling, indicating a neuronal synapse\u2013related cluster. While a few terms touch on angiogenesis, immunity, and cartilage differentiation, they are less central to the dominant synaptic theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0002062","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0035418","count":3}]},{"hash":"2109448045417213611","title":"Ubiquitin-Dependent Proteolysis and Chromatin Regulation","description":"The top terms cluster around ubiquitin-dependent protein degradation (ERAD and ubiquitin-mediated catabolism), with several histone modification and X-chromosome inactivation/dosage compensation terms, suggesting a theme where protein turnover and chromatin-state regulation intersect in gene expression control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070512","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0033151","count":2}]},{"hash":"401743848382696411","title":"Neurodevelopment and Eye Morphogenesis","description":"This cluster\u2019s GO terms cluster around neural and ocular development\u2014spinal cord-associated neuron differentiation, forebrain and retina/camera-type eye development, rhombomere regional development, and embryonic eye morphogenesis\u2014indicating a common theme of neurodevelopment and eye formation. A tooth dentin development term appears peripheral, likely reflecting craniofacial development context rather than a core theme. Overall, the set points to neural and ocular morphogenesis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":3},{"id":"GO:0044708","count":3},{"id":"GO:1904081","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0043010","count":3}]},{"hash":"1472419213615486945","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0006353","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0021895","count":2},{"id":"GO:0044205","count":2}]},{"hash":"1476491108741948931","title":"Unknown","description":"These GO terms span plants (brassinosteroid signaling, gravitropism), circadian regulation, development, immune signaling, neuronal endocytosis, and cell-cycle processes, across different species. With zero edges and no clear shared function, there isn\u2019t a cohesive theme to name this cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009742","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0045496","count":2},{"id":"GO:0009958","count":2},{"id":"GO:1900242","count":2}]},{"hash":"678097125896278566","title":"Androgen receptor signaling and prostate development","description":"The top GO terms center on steroid hormone receptor assembly and male reproductive development\u2014specifically prostate gland development and male sex differentiation\u2014suggesting an androgen receptor\u2013driven regulatory theme. Other terms reference transcriptional regulation and methylation, which may reflect broader regulatory roles, but the strongest, more specific theme points to androgen signaling and prostate development.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071357","count":2},{"id":"GO:0006463","count":2},{"id":"GO:0030850","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1965687492502041716","title":"Fungal autophagy and sterol metabolism","description":"The top GO terms cluster around autophagy and lysosome-related processes (ribophagy; engulfment of target by autophagosome; calcium-regulated lysosome exocytosis), alongside membrane trafficking and sterol-related regulation (ergosterol biosynthetic regulation). This points to a shared theme of autophagy-lysosome dynamics in a fungal context, with ergosterol metabolism supporting membrane processes involved in autophagy. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0032443","count":3},{"id":"GO:0034517","count":3},{"id":"GO:1990927","count":3},{"id":"GO:0040019","count":3},{"id":"GO:0045945","count":3}]},{"hash":"1993239956467605859","title":"DNA Damage Repair and Ubiquitin-Proteasome Quality Control","description":"This cluster centers on DNA repair pathways (base-excision repair, DSB processing, NHEJ) and proteins involved in ubiquitin-mediated proteostasis (ubiquitin chain formation, K63-linked ubiquitination, proteasome-related quality control), with an additional link to meiotic chromosome organization, suggesting a cohesive DNA damage response module coupled to protein turnover in the nucleus.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097510","count":1},{"id":"GO:0006284","count":1},{"id":"GO:0000729","count":1},{"id":"GO:1990920","count":1},{"id":"GO:0010994","count":1}]},{"hash":"1994590393783438014","title":"Developmental proliferation and differentiation regulators","description":"The GO terms point to regulation of cell proliferation and differentiation across multiple developmental contexts (vascular, mesenchymal, osteoblast/kidney development, CNS, monocyte lineage) and include inflammatory permeability modulation. The common thread is modulation of developmental processes and lineage differentiation rather than a single specific pathway, justifying a general label for a cluster with diverse but developmentally oriented functions.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048662","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0072201","count":1},{"id":"GO:0002528","count":1},{"id":"GO:0045657","count":1}]},{"hash":"2169358697955394952","title":"Unknown","description":"The proteins show a scattered set of GO terms including gluconeogenesis regulation, atrial septum development, GPCR signaling regulation, glucocorticoid signaling, and various post-translational modification/process terms, plus a stress response term. There is no clear, cohesive theme or network connecting them, and the edge/structure data shows no interactions, so a single informative label isn\u2019t evident.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0003283","count":2},{"id":"GO:0031400","count":1},{"id":"GO:0008277","count":1},{"id":"GO:2000324","count":1}]},{"hash":"1046467519429574090","title":"Cell cycle regulation and transcriptional control","description":"This cluster centers on cell cycle processes (G1/S transition, regulation of the cell cycle) and transcriptional activity (DNA-templated transcription), with additional links to stress/ proteostasis responses (ER unfolded protein response, response to X-ray). The shared theme is coordination between cell-cycle progression and transcriptional regulation, with some term outliers likely due to broader functional annotations.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":1},{"id":"GO:0000082","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1990069","count":1},{"id":"GO:0032026","count":1}]},{"hash":"1750251834066689492","title":"Innate and adaptive immune signaling","description":"This cluster centers on immune-related functions, with terms spanning innate responses (lipopolysaccharide signaling, Toll-like receptor regulation, type I interferon production) and adaptive processes (CD8+ T cell differentiation, myeloid dendritic cell differentiation, immunoglobulin-mediated responses, IL-2 production). The common thread is signaling and differentiation within the immune system, covering both arms of immunity. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006351","count":1},{"id":"GO:0043374","count":1},{"id":"GO:0031663","count":1},{"id":"GO:0034122","count":1}]},{"hash":"1396642371907850860","title":"KIT/WNT signaling and cell adhesion regulators","description":"The proteins cluster around KIT signaling, canonical Wnt pathway regulation, and cell-matrix adhesion, with supporting terms in apoptosis and differentiation regulation, suggesting a shared role in coordinating signaling, adhesion, and cell fate. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038109","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0051389","count":3},{"id":"GO:0071300","count":3}]},{"hash":"1256280923894413039","title":"Heart morphogenesis and mesoderm patterning","description":"This cluster centers on cardiac development (ventricular morphogenesis, endocardial cushion formation) and broader mesodermal patterning, including paraxial mesoderm organization and signaling (Wnt/BMP) regulation, with supplementary notes on chondrocyte development and related mesoderm-derived lineages.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048352","count":1},{"id":"GO:1902731","count":1},{"id":"GO:0003222","count":1},{"id":"GO:0003197","count":1},{"id":"GO:0002063","count":1}]},{"hash":"2237905677628836704","title":"Signaling and transcription regulators","description":"The top GO terms indicate involvement in multiple signaling pathways (Wnt, Kit, TORC1, MAPKK) and processes like cell-matrix adhesion, neutrophil clearance, and retinoic acid response, with a concurrent association to DNA-templated transcription. This pattern suggests proteins that broadly regulate signaling cascades and transcriptional responses rather than a single pathway; hence a general \"signaling and transcription regulators\" label is appropriate given the small cluster size.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090090","count":3},{"id":"GO:0045819","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0097350","count":3},{"id":"GO:0038109","count":2}]},{"hash":"1138121321757521092","title":"Membrane solute transporters","description":"The terms cluster around transport across membranes for a variety of small solutes and ions (glucose/fructose import, urate transport, phosphate ion transport, potassium ion transport, organic anions) and even vesicular neurotransmitter loading, pointing to a coherent theme of membrane transporter proteins handling diverse substrates.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0043252","count":3},{"id":"GO:0019852","count":3},{"id":"GO:0006817","count":3}]},{"hash":"2197126292334855386","title":"Neuroimmune inflammation and NMJ synapse assembly","description":"Most terms point to immune/inflammatory regulation (NLRP3 inflammasome, cytokines/cytokine production, defense against protozoa, IL-2 regulation). Some terms relate to nervous system development and NMJ synapse assembly, implying a neuroimmune role at the neuromuscular junction. Therefore the label reflects a cluster linking inflammation with synaptic/gliogenic processes.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900227","count":1},{"id":"GO:0002181","count":1},{"id":"GO:1903077","count":1},{"id":"GO:0008582","count":1},{"id":"GO:1900041","count":1}]},{"hash":"598693464285461689","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006147","count":2},{"id":"GO:0019262","count":2},{"id":"GO:0051491","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0051017","count":2}]},{"hash":"1304548541672967279","title":"Unknown","description":"The GO terms are too heterogeneous to define a single function for this cluster: odontogenesis, kidney-related development, corticotropin secretion, endosomal acidification, various ion and small-molecule transports, excretion, and multiple stress responses. With zero edges between the proteins, there is no cohesive pathway or process tying them together, so a precise label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042476","count":1},{"id":"GO:0071288","count":1},{"id":"GO:0071472","count":1},{"id":"GO:0051458","count":1},{"id":"GO:0048388","count":1}]},{"hash":"1065891682929827516","title":"RNA processing and splice regulation","description":"The terms point to mRNA maturation and processing: poly(A) tail regulation, splicing control via the spliceosome, mRNA export, and RNA modification, with additional signals for ncRNA-mediated gene silencing.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0016556","count":3}]},{"hash":"676573349852651223","title":"Diverse developmental processes","description":"The top GO terms include oocyte development, regulation of meiosis, neural development and signaling, dopaminergic neuron differentiation, neuroblast proliferation, odontogenesis, and nodal pathway regulation, indicating a broad assortment of developmental roles across tissues rather than a single cohesive function. This suggests the cluster represents Diverse developmental processes rather than a specific molecular function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048599","count":1},{"id":"GO:0045835","count":1},{"id":"GO:0019226","count":1},{"id":"GO:1900111","count":1},{"id":"GO:0071542","count":1}]},{"hash":"1756678267482846256","title":"Synaptic signaling and receptor endocytosis","description":"The cluster\u2019s top GO terms point to neuronal communication and trafficking around synapses, notably neurotransmitter receptor internalization, transmission of nerve impulses, excitatory postsynaptic potentials, and endosome transport. While there are a few terms less related (e.g., some cell-wall or junction terms), the dominant signal suggests proteins involved in synaptic signaling and receptor trafficking. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045022","count":1},{"id":"GO:0099590","count":1},{"id":"GO:0032060","count":1},{"id":"GO:0019226","count":1},{"id":"GO:0070830","count":1}]},{"hash":"817105651401481076","title":"Membrane Ion Transport and Metal Homeostasis","description":"The terms cluster around ion movement across membranes (potassium, copper, cadmium), membrane repolarization, and calcium homeostasis, suggesting a core function in ion transport and metal ion regulation; a few outliers exist (lipopolysaccharide biosynthesis, stilbene catabolic process, testosterone response), but the dominant theme is membrane ion transport and homeostasis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086009","count":3},{"id":"GO:0046272","count":3},{"id":"GO:0099132","count":3},{"id":"GO:0033574","count":3},{"id":"GO:0070574","count":3}]},{"hash":"2140957931266182846","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0000472","count":1}]},{"hash":"1436003516746699706","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":1},{"id":"GO:0097310","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0039654","count":1},{"id":"GO:0000453","count":1}]},{"hash":"1402781981351823392","title":"DNA Repair and RNA Processing","description":"The cluster shows enrichment for nucleic acid repair and RNA quality control functions, including nucleotide-excision repair and nonsense-mediated decay, plus transcription initiation and UV protection terms. This mix suggests proteins involved in maintaining genome integrity and RNA integrity rather than a single signaling pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":3},{"id":"GO:0000184","count":3},{"id":"GO:0032508","count":3},{"id":"GO:0006289","count":2},{"id":"GO:0035315","count":2}]},{"hash":"1510834251783516246","title":"Clathrin-Mediated Vesicle Trafficking","description":"The dominant GO terms point to vesicle transport between the Golgi, endosomes, and vacuoles (Golgi to endosome transport, clathrin coat assembly, endocytosis, protein targeting to vacuole). Arp2/3\u2013mediated actin regulation supports endocytic vesicle formation. Some terms appear incidental (digestive system development, pregnancy) and do not define the core function. This makes Clathrin-Mediated Vesicle Trafficking an intuitive label.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":2},{"id":"GO:0048268","count":2},{"id":"GO:0055123","count":1},{"id":"GO:0006623","count":1},{"id":"GO:0007565","count":1}]},{"hash":"988590699994901281","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006353","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0021895","count":1},{"id":"GO:0006167","count":1},{"id":"GO:0009116","count":1}]},{"hash":"1147155508341118173","title":"Neural and Eye Development","description":"The terms cluster around neuron differentiation and brain region development (spinal cord, forebrain, rhombomere), along with multiple eye-related processes (camera-type eye development, retina morphogenesis, eye embryogenesis), suggesting a shared focus on neural and ocular development. Neurofilament organization additionally supports neural tissue structure.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":1},{"id":"GO:0044708","count":1},{"id":"GO:1904081","count":1},{"id":"GO:0030900","count":1},{"id":"GO:0043010","count":1}]},{"hash":"913494556899785140","title":"TLR7-NLRP3 Innate Immune Signaling","description":"The top GO terms cluster around Toll-like receptor 7 signaling, NLRP3 inflammasome assembly, and downstream cytokine production (interferons, chemokines, IL-18) in dendritic/innate immune contexts, including responses to triacyl lipoproteins. This suggests a cohesive module of innate immune sensing and inflammatory signaling, despite a few outliers. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034154","count":3},{"id":"GO:1900227","count":3},{"id":"GO:0071727","count":3},{"id":"GO:0050929","count":3},{"id":"GO:0045356","count":3}]},{"hash":"2030267771848759632","title":"Unknown","description":"There are no GO terms or functional annotations to tie the three proteins together, and the network has no edges or terms to base a label on, so no specific function can be inferred from the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"24703941513989586","title":"Leukocyte Activation and Migration","description":"The top GO terms cluster around immune cell trafficking and activation\u2014leukocyte migration, monocyte activation, TNF response, and integrin/fibronectin-mediated adhesion\u2014suggesting these proteins function in immune cell movement and inflammatory signaling. Some terms touch on growth factor responses and neural processes, but the dominant theme is immune cell activation and migration.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0033630","count":2},{"id":"GO:0035625","count":2},{"id":"GO:2000415","count":2},{"id":"GO:0042117","count":2}]},{"hash":"1638476454567309241","title":"ER protein quality control and stress response","description":"The top GO terms point to ER-associated processes: tail-anchored membrane protein insertion into the ER, ER stress/unfolded protein response, and ERAD/proteostasis. Sumoylation can modulate these pathways, while other terms (transcription regulation, mitochondrial fusion) may be ancillary. Overall, the cluster centers on ER quality control and stress response mechanisms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0006289","count":2},{"id":"GO:0071816","count":2},{"id":"GO:1904049","count":2},{"id":"GO:1904021","count":2}]},{"hash":"499285361841613712","title":"Muscle Activity and Mitochondrial Dynamics","description":"This cluster centers on neuromuscular function and mitochondrial regulation, with terms for adult locomotory behavior, muscle adaptation, and positive regulation of mitochondrial fusion and localization, plus calcium channel activity. While a few terms are more general, the mitochondrial dynamics and muscle-related signals provide a coherent functional theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0014873","count":1},{"id":"GO:0010636","count":1}]},{"hash":"609472279021508427","title":"Unknown","description":"The GO terms are highly diverse, including metal ion responses (copper, cobalt, mercury), nucleotide-excision repair, antibiotic response, and developmental processes (bone growth, osteoblast differentiation, dendrite extension). There is no clear shared function or pathway that ties these terms together for a small cluster, so a concise Unknown label with no confidence in a specific common function is appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046688","count":1},{"id":"GO:0045668","count":1},{"id":"GO:0003416","count":1},{"id":"GO:0046325","count":1},{"id":"GO:0030828","count":1}]},{"hash":"1766420806884187716","title":"Nucleotide metabolism and RNA editing","description":"The GO terms are dominated by nucleotide metabolism (guanine, cytidine, uridine biosynthesis and salvage) and RNA modification (tRNA wobble adenosine to inosine editing), suggesting the proteins contribute to nucleotide turnover and RNA editing processes. A couple of terms like riboflavin biosynthesis and antibiotic response appear peripheral or noisy. Overall, this cluster seems best described as nucleotide metabolism with RNA editing components, though a single precise pathway is hard to pin down given the small size and term mix.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006147","count":1},{"id":"GO:0002100","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0009231","count":1},{"id":"GO:0046109","count":1}]},{"hash":"1545523453972639947","title":"Immune Activation and Antigen Presentation Regulation","description":"GO terms cluster around immune defense, including antibacterial humoral response, IL-17 production, B cell activation, NK cell protection, and phagocytosis, along with regulation of antigen processing and presentation via MHC class I and II, indicating a cohesive theme of immune response and antigen presentation control.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032620","count":2},{"id":"GO:0019731","count":2},{"id":"GO:0010977","count":2},{"id":"GO:0050871","count":2},{"id":"GO:0042270","count":2}]},{"hash":"1986772207433690040","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009443","count":1},{"id":"GO:0009230","count":1},{"id":"GO:1902777","count":1},{"id":"GO:0006169","count":1},{"id":"GO:0044209","count":1}]},{"hash":"311322035497949617","title":"Unknown","description":"The GO terms span plant-specific processes (chlorophyll biosynthesis, stamen formation) and broad cellular/regulatory functions (mitotic cell cycle, proteasome assembly, ubiquitin-dependent protein catabolic process) as well as animal development (forebrain development, axis specification). The set lacks a single coherent theme or direct functional link among the proteins, and there are no network connections, so there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0043248","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0048455","count":1}]},{"hash":"292341044830055625","title":"Cardiovascular and inflammatory signaling","description":"The enriched terms center on cardiovascular regulation (regulation of systemic arterial blood pressure via renin-angiotensin, vascular smooth muscle contraction, heart development) and inflammatory/immune modulation (IL-10 production, chronic inflammatory response, neutrophil-mediated killing). Although some terms are broader (circadian rhythm, retina development, GPCR-EGF signaling), the dominant theme links blood pressure/vascular function with inflammatory control, suggesting a cluster of cardiovascular-immune signaling. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001991","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0072608","count":3},{"id":"GO:0035625","count":3},{"id":"GO:0060041","count":3}]},{"hash":"276107977330909114","title":"Innate Immune Signaling and Secretory Transport","description":"The top GO terms point to innate immune functions (antibacterial humoral response, LPS-mediated signaling, phagocytosis, macrophage regulation) alongside vesicular transport and membrane homeostasis (ER-to-Golgi transport, phospholipid and surfactant homeostasis). While one term relates to transcription initiation, the dominant signals reflect defense-oriented signaling and secretion pathways in immune-related cells, supporting a label that combines innate immunity with secretory/trafficking processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":1},{"id":"GO:0007406","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0050766","count":1},{"id":"GO:0043031","count":1}]},{"hash":"2119203494165418237","title":"Complement activation and immune signaling","description":"Proteins in this cluster are dominated by GO terms tied to the complement system: activation of the membrane attack complex, complement receptor\u2013mediated signaling, and the alternative pathway of complement activation. Additional terms hint at related innate immune and inflammatory signaling, with a few peripheral terms (e.g., cell-matrix adhesion, PKC regulation) that may reflect broader signaling in immune contexts. Taken together, the cluster appears to reflect components of complement-driven immune responses and downstream signaling.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001970","count":1},{"id":"GO:0007160","count":1},{"id":"GO:0002430","count":1},{"id":"GO:0006957","count":1},{"id":"GO:0039573","count":1}]}]