[{"hash":"169266114848691742","title":"Rho GTPase Signaling and Epithelial Polarity","description":"This cluster is dominated by GO terms for GTPase activity regulation, small GTPase\u2013mediated signaling, epithelial cell polarity establishment, tight junction assembly, and actin filament organization, pointing to a cohesive role in Rho-mediated cytoskeletal dynamics and epithelial polarity. Some terms (heart development, neutrophil chemotaxis, synaptic potentiation) appear peripheral but do not disrupt the core theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0090162","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0070830","count":4},{"id":"GO:0051044","count":4}]},{"hash":"187628806053168327","title":"Plant cell wall biosynthesis and glycosylation","description":"This cluster is driven by GO terms for plant cell wall biogenesis and polysaccharide glycosylation, including homogalacturonan biosynthesis, mucilage biosynthesis, and galactose metabolism, pointing to a cohesive role in constructing and modifying the plant cell wall. Some unrelated terms (e.g., skeletal muscle regeneration) appear, but the dominant signals support a cell wall\u2013related function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":6},{"id":"GO:0071555","count":6},{"id":"GO:0075015","count":5},{"id":"GO:0006486","count":5},{"id":"GO:0010289","count":4}]},{"hash":"1897900209900920824","title":"Chromatin Remodeling and Transcription Regulation","description":"The cluster is dominated by chromatin-related processes\u2014transcription initiation-coupled remodeling, heterochromatin formation, chromatin assembly, and protein localization to chromatin\u2014suggesting a nuclear chromatin-regulation module; a couple outlier terms (immune differentiation, defense) are less representative.","confidence":"High","size":29,"edges":369,"triangles":2785,"max_degree":28,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051290","count":19},{"id":"GO:0000122","count":19},{"id":"GO:0045815","count":13},{"id":"GO:0000183","count":13},{"id":"GO:0006335","count":13}]},{"hash":"1752508065440649742","title":"GABAergic Taste and Olfactory Learning","description":"These proteins show enrichment for GABA signaling, taste-related behaviors (conditioned taste aversion, umami taste perception, suckling), and olfactory learning, plus intracellular signaling and calcium transport, pointing to a neural module that integrates taste/odor information with GABAergic modulation and learning. While some terms hint at broader metabolism or respiration, the dominant theme is neural signaling tied to taste and olfactory learning.","confidence":"High","size":29,"edges":23,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":6},{"id":"GO:0001967","count":6},{"id":"GO:0007214","count":5},{"id":"GO:0018964","count":5},{"id":"GO:0043576","count":5}]},{"hash":"417184617049150992","title":"Organelle Translation and Energy Metabolism","description":"The cluster is enriched for translation (cytosolic or organellar), mitochondrial translation, photosynthesis and light reactions, and ATP synthesis powered by proton motive force, plus protein import into organelles. This points to a cohesive module of organellar gene expression coupled to energy-generation pathways in chloroplasts/mitochondria, rather than a single cytosolic process.","confidence":"High","size":29,"edges":404,"triangles":3600,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0099132","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0015986","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0015979","count":2}]},{"hash":"2230265833449080679","title":"Neuronal development and synaptic signaling","description":"Most top GO terms point to neural development and synaptic function (sound perception, locomotory behavior, axon guidance of dopaminergic neurons, and PSD-95 clustering regulation), supporting a theme of neuronal connectivity and synaptic signaling. A few terms about lipid signaling or pigment biosynthesis appear less central to this cluster.","confidence":"High","size":29,"edges":252,"triangles":887,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":17},{"id":"GO:0007626","count":16},{"id":"GO:0055096","count":12},{"id":"GO:0072307","count":12},{"id":"GO:0048023","count":12}]},{"hash":"459033281712689852","title":"Mitochondrial signaling and metabolism","description":"The terms cluster around mitochondrial-related processes (mitochondrial translation, ubiquinone biosynthesis) and signaling/regulation (phosphatidylinositol signaling, regulation of ATP-dependent activity, GTPase activity), with a dash of developmental and xenobiotic-related terms. This suggests a general theme of mitochondria-linked metabolism and signaling rather than a single specific function, so a concise label focusing on mitochondria-associated signaling and metabolism best fits. ","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001569","count":2},{"id":"GO:0021762","count":2}]},{"hash":"2075262440586345643","title":"Developmental transcriptional regulation and differentiation","description":"Top terms point to transcription by RNA polymerase II as a core function, with several development- and differentiation-related terms (arterial endothelial cell differentiation, astrocyte differentiation, Notch signaling-related heart induction) and even sex determination context, suggesting a developmental regulatory module. While some terms touch on stress and drug responses, the dominant theme remains transcriptional control guiding developmental differentiation. Overall, the cluster likely represents proteins involved in developmental transcriptional regulation and lineage differentiation, especially vascular and neural contexts.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":24},{"id":"GO:2000820","count":19},{"id":"GO:0048712","count":19},{"id":"GO:2001038","count":19},{"id":"GO:0090403","count":18}]},{"hash":"202924015871535556","title":"Intracellular transport and cell-cycle regulation","description":"This cluster mixes plus-end-directed vesicle transport along microtubules, DNA replication, transcription regulation, chromatin-related processes, cyclic nucleotide biosynthesis, and signaling-related regulation of channels and adhesion. The recurring theme is intracellular coordination of transport, replication/cell cycle progression, and gene expression, pointing to a broad regulatory module rather than a single concrete pathway. The presence of tissue-specific terms alongside general regulatory processes suggests broad applicability across contexts.","confidence":"Medium","size":29,"edges":355,"triangles":2542,"max_degree":28,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009190","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0006260","count":8},{"id":"GO:0072383","count":8},{"id":"GO:1905150","count":7}]},{"hash":"81901420055789272","title":"mRNA Splicing, Processing, and Export","description":"The top GO terms center on splicing via the spliceosome, splice-site recognition, regulatory ncRNA-mediated silencing, polyadenylation, and mRNA export, indicating a cluster focused on mRNA maturation and nuclear export; translation-related terms may reflect coupling to translation, but splicing/processing is the main theme.","confidence":"High","size":29,"edges":92,"triangles":74,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":22},{"id":"GO:0048026","count":21},{"id":"GO:0031047","count":21},{"id":"GO:0045292","count":21},{"id":"GO:0075525","count":20}]},{"hash":"2004965075444959103","title":"Embryonic development and tissue patterning","description":"Proteins in this cluster are heavily linked to embryogenesis and organ patterning, including heart EMT in endocardial cushion formation, left/right patterning, placenta development, endocrine organ formation, and cartilage/pancreas morphogenesis. The predominant theme is embryonic organogenesis and tissue specification, despite some general cellular-process terms present.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":18},{"id":"GO:0060972","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0035270","count":18},{"id":"GO:0003323","count":18}]},{"hash":"1610606295925485166","title":"Actin Cytoskeleton and Muscle Fiber Organization","description":"The top GO terms point to actin dynamics and muscle structure (Arp2/3-mediated actin nucleation; sarcomere organization; skeletal muscle fiber development/adaptation; actin cortical patch assembly). These indicate a cohesive cluster of proteins involved in organizing the cytoskeleton and assembling/maintaining muscle fibers. Some histone acetylation terms are obsolete and likely noise, and platelet aggregation or meiotic chromosome movement reflect broader cytoskeletal functions rather than muscle-specific roles. Overall, the dominant theme is actin-driven cytoskeletal remodeling tied to muscle fiber formation.","confidence":"High","size":29,"edges":88,"triangles":206,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":9},{"id":"GO:0043982","count":9},{"id":"GO:0034314","count":9},{"id":"GO:0045214","count":8},{"id":"GO:0043983","count":7}]},{"hash":"912487863860712275","title":"Glucose Metabolism and Insulin Signaling","description":"This cluster is dominated by GO terms for insulin receptor signaling, glucose homeostasis, and D-glucose transmembrane transport, pointing to a core role in glucose regulation and metabolic signaling. Some terms (T cell proliferation, hypusine biosynthesis, spermidine catabolism, tetramerization) are more peripheral, but the main theme remains metabolic control via insulin-related pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0042102","count":3},{"id":"GO:0042593","count":3},{"id":"GO:0008612","count":3},{"id":"GO:0046203","count":3}]},{"hash":"1122692715934743565","title":"Spliceosome-driven mRNA processing and export","description":"The cluster is dominated by splicing-related terms (positive/negative regulation of mRNA splicing via the spliceosome, splice-site recognition) and mRNA export from the nucleus, indicating a cohesive group of proteins involved in RNA processing and export. Some viral translation-related terms (IRES-dependent initiation and eIF4F complex assembly) are present, suggesting possible connections between RNA processing and translation machinery, but the core theme remains spliceosome-mediated mRNA regulation and export.","confidence":"High","size":29,"edges":30,"triangles":50,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":11},{"id":"GO:0000381","count":11},{"id":"GO:0048025","count":10},{"id":"GO:0048026","count":9},{"id":"GO:0075525","count":9}]},{"hash":"1407583097052735092","title":"Neuronal signaling and sensory perception","description":"The proteins cluster around neurotransmission and sensory processing, with strong representation of GABA signaling, excitatory postsynaptic potentials, locomotory and startle-related behaviors, and ion transport (Na+, K+, Ca2+) driving synaptic activity. The acrosome reaction hints at exocytosis machinery but does not override the dominant neuronal/sensory theme.","confidence":"High","size":29,"edges":85,"triangles":99,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":25},{"id":"GO:0007626","count":25},{"id":"GO:0001661","count":25},{"id":"GO:0071805","count":25},{"id":"GO:0060079","count":25}]},{"hash":"2292440828985661767","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":5},{"id":"GO:0000289","count":4},{"id":"GO:0006261","count":4},{"id":"GO:0000738","count":4},{"id":"GO:0006260","count":3}]},{"hash":"172257638679143110","title":"GPCR-driven vascular regulation and inflammation","description":"This cluster is dominated by GO terms linking adenylate cyclase-activating GPCR signaling to vascular control and immune responses: regulation of blood pressure and vasoconstriction, smooth muscle contraction, coagulation, inflammatory response, and lipopolysaccharide response, with associated pain perception. These terms point to a coherent theme of GPCR-mediated signaling governing vascular tone and inflammatory processes, despite an outlier term (electron transport chain) that does not fit as neatly. Confidence: High","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":24},{"id":"GO:0045777","count":23},{"id":"GO:0035025","count":23},{"id":"GO:0022900","count":23},{"id":"GO:0045986","count":15}]},{"hash":"358802189494559594","title":"Neural signaling and drug-related behaviors","description":"This cluster is enriched for neural processes such as sensory perception of pain, dopaminergic synaptic transmission, and behavioral responses to cocaine and morphine, as well as learning-related terms like visual learning. The combination points to a nervous-system\u2013dominant theme with addiction- and reward-related signaling, and includes temperature-regulation/thermogenesis cues that can be linked to neural control of metabolism. A few terms (heart development, macrophage chemotaxis) may reflect broader expression patterns rather than core functions of the cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0008542","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0048148","count":9}]},{"hash":"91592995123125523","title":"Kidney and lymphatic morphogenesis","description":"This cluster is enriched for organ development and morphogenesis, notably kidney-related processes (metanephric proximal/distal tubule morphogenesis, mesonephric duct development) and lymph vessel morphogenesis. Other terms (cartilage condensation, immune/stress responses) may reflect broader developmental programs, but the strongest signals center on renal and lymphatic morphogenesis.","confidence":"Medium","size":29,"edges":62,"triangles":51,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071226","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0072237","count":8},{"id":"GO:0036303","count":8}]},{"hash":"2095924542981175525","title":"Neural migration and cell polarity","description":"The top GO terms converge on neural development and cell polarity: tangential neuronal migration to the olfactory bulb, planar cell polarity pathways, polarity establishment in epithelia, and cytoskeletal/microtubule organization, with collagen fibril organization indicating ECM involvement in migration. While some terms touch on immune or apoptotic processes, the dominant pattern points to neural development and cell polarity as the defining cluster theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:2000352","count":4},{"id":"GO:0022028","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0090179","count":4}]},{"hash":"1824013774590330394","title":"mRNA Splicing and Processing Regulation","description":"The top GO terms are centered on spliceosome-mediated mRNA processing (splicing, splice site recognition, regulation and positive regulation of splicing) and polyadenylation, with additional links to mRNA stability under stress and translation initiation components. This suggests a cluster of proteins involved in RNA maturation (splicing and polyadenylation) with regulatory connections to translation readiness, supporting a cohesive theme of mRNA processing and its regulation preceding translation.","confidence":"High","size":29,"edges":366,"triangles":2713,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":19},{"id":"GO:0010610","count":18},{"id":"GO:0045292","count":17},{"id":"GO:0000381","count":15},{"id":"GO:0048026","count":14}]},{"hash":"690732624834112759","title":"Collagen\u2013Integrin ECM Organization and Adhesion","description":"This cluster centers on collagen fibril organization and biosynthesis and includes integrin-mediated signaling and adhesion terms, indicating a module of extracellular matrix (ECM) assembly and cell-ECM adhesion. The additional terms like leukocyte migration and myelination reflect ECM interactions in inflammatory and peripheral nervous system contexts, but the core shared function is ECM organization and integrin-dependent adhesion.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":10},{"id":"GO:0007229","count":10},{"id":"GO:0033631","count":9},{"id":"GO:0002523","count":9},{"id":"GO:0022011","count":9}]},{"hash":"1643194033441302145","title":"Neuronal signaling and steroid regulation","description":"The cluster\u2019s top terms point to neural signaling (excitatory postsynaptic potential, morphine response, PKC signaling, habituation) combined with lipid and steroid metabolism (phosphatidic acid biosynthesis, regulation of cholesterol, cortisol, and progesterone biosynthesis). This suggests proteins involved in neuronal signaling pathways that are modulated by lipid signaling and steroid hormone regulation, hence a combined neural-lipid\u2013steroid theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060079","count":8},{"id":"GO:0043278","count":7},{"id":"GO:0006654","count":7},{"id":"GO:0090181","count":7},{"id":"GO:2000064","count":7}]},{"hash":"417264687697602012","title":"Nucleocytoplasmic transport and nuclear pore assembly","description":"The top GO terms center on import into the nucleus, nuclear pore complex assembly, and mRNA/nuclear transport, with supporting signals from ribosomal protein import and NLS-bearing protein import, plus regulatory links to GTPase activity and TORC1 signaling, pointing to a cohesive role in nucleocytoplasmic trafficking and pore function.","confidence":"High","size":29,"edges":12,"triangles":3,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0070262","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0038202","count":7},{"id":"GO:0051292","count":7}]},{"hash":"1860651589679365174","title":"P450-Mediated Lipid and Xenobiotic Metabolism","description":"The cluster is dominated by GO terms tied to cytochrome P450\u2013driven metabolic pathways: prostaglandin biosynthesis, epoxygenase activity, retinoic acid catabolism, dioxin/xenobiotic catabolic processes, and responses to vitamin D and metals. Oxidative demethylation also aligns with P450 chemistry. A couple of development-related terms appear but are less central to the core theme. Overall, the shared function points to P450-mediated metabolism and detoxification.","confidence":"High","size":29,"edges":294,"triangles":1570,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":25},{"id":"GO:0070989","count":24},{"id":"GO:0019373","count":24},{"id":"GO:0034653","count":24},{"id":"GO:0010164","count":24}]},{"hash":"1206249088759058378","title":"P450 Xenobiotic and Retinoic Acid Metabolism","description":"The prominent GO terms point to cytochrome P450\u2013driven metabolism of xenobiotics and retinoids: oxidative demethylation, epoxygenase pathways, retinoic acid catabolism, and related xenobiotic/dioxin processes. While a few terms touch on broader responses (vitamin D, cesium ion), the common thread is enzymatic modification and breakdown of organic compounds by P450 enzymes, justifying the label.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070989","count":28},{"id":"GO:0019373","count":28},{"id":"GO:0034653","count":28},{"id":"GO:0010164","count":28},{"id":"GO:0033280","count":28}]},{"hash":"1324288005963128775","title":"Development and Innate Immunity","description":"As shown by the top GO terms, there is a clear emphasis on developmental processes (midbrain development, post-embryonic development, multicellular organism growth) alongside innate immune responses (neutrophil-mediated killing of fungus, defense against Gram-positive bacteria, response to yeast), with supporting signals from digestion and transcriptional regulation. This suggests a cluster of proteins that participate in development but also engage in innate immunity and related metabolic processes, rather than a single, narrow function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":6},{"id":"GO:0071333","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0009791","count":6}]},{"hash":"1240099355166850097","title":"Gonadal steroidogenesis and reproductive development","description":"The top GO terms cluster around uterine and female gonad development and steroid hormone biosynthesis (testosterone biosynthesis, androgen metabolism, prostaglandin biosynthesis), pointing to a theme of gonadal development and hormone production. Additional terms related to lipid signaling and metabolism (epoxygenase P450 pathway, retinoic acid catabolic process) and endocrine responses (vitamin D, cesium ion) support a broader reproductive/endoctrine functional context. Overall, the proteins appear to be involved in sex hormone synthesis and gonadal maturation.","confidence":"High","size":29,"edges":22,"triangles":6,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060065","count":13},{"id":"GO:0001516","count":13},{"id":"GO:0061370","count":13},{"id":"GO:0008209","count":13},{"id":"GO:0008585","count":13}]},{"hash":"422443632259851428","title":"Keratinocyte Differentiation and Inflammatory Signaling","description":"This cluster is dominated by terms related to epidermal biology, notably keratinocyte differentiation and Notch receptor processing, along with collagen fibril organization and integrin-mediated signaling, which together reflect epidermal-ECM interactions. The presence of immune-related terms such as cellular responses to TNF and IL-1 and monocyte activation suggests inflammatory signaling within skin. A minor association with metal ion response (manganese) appears, but the core theme points to epidermal differentiation coupled with inflammatory and adhesion/signaling pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0010042","count":13},{"id":"GO:0030199","count":13},{"id":"GO:0007229","count":13},{"id":"GO:0030216","count":13},{"id":"GO:0071356","count":13}]},{"hash":"450179706246114296","title":"Developmental Regulation and Chromatin Targeting","description":"The top GO terms cluster around developmental processes (brain and nervous system development, primitive streak formation, gonad development, vitellogenesis) and transcriptional/chromatin functions (negative regulation of transcription by RNA Pol II, establishment of protein localization to chromatin). This suggests proteins involved in development with roles in gene regulation and chromatin targeting, making this a coherent label. The immune term is less central but does not overturn the overarching developmental/chromatin theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0007420","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0007338","count":5}]},{"hash":"1313428586485035121","title":"Bacterial fatty acid and lipoteichoic acid biosynthesis","description":"The top GO terms cluster around fatty acid metabolism (long-, medium-, and very long-chain fatty acids; fatty acid biosynthesis; fatty-acyl-CoA metabolism) and lipoteichoic acid biosynthesis, a key cell wall component in Gram-positive bacteria. Additional terms touch on acetyl-CoA/pyruvate\u2013related energy metabolism and menaquinone biosynthesis, all pointing to bacterial lipid production and cell wall assembly as a cohesive functional theme. This supports a clear bacterial lipid metabolism and cell-wall biosynthesis cluster.","confidence":"High","size":29,"edges":96,"triangles":157,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070395","count":8},{"id":"GO:0000038","count":7},{"id":"GO:0043041","count":7},{"id":"GO:0009698","count":7},{"id":"GO:0036112","count":7}]},{"hash":"787162783523690495","title":"Integrin signaling and ECM remodeling in skin","description":"GO terms point to integrin-mediated signaling, extracellular matrix remodeling (hyaluronan metabolism, metallopeptidase activity), and skin development, together with receptor clustering and cell migration processes. This suggests a cohesive theme of adhesion-dependent signaling coordinating ECM remodeling and cell movement in skin tissue.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007229","count":9},{"id":"GO:1905050","count":9},{"id":"GO:0030212","count":9},{"id":"GO:0070208","count":9},{"id":"GO:0043588","count":9}]},{"hash":"128262743690243352","title":"Neural development and synapse formation","description":"The top terms cluster around nervous system development, axonal fasciculation, and synapse assembly, with related cell-adhesion and developmental processes, suggesting these proteins function in neural connectivity during development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0046718","count":16},{"id":"GO:0014068","count":16},{"id":"GO:0048701","count":15},{"id":"GO:0007275","count":15}]},{"hash":"1928171177309179154","title":"Growth and division with ribosome biogenesis","description":"The terms cluster around cell growth and division (cell cycle, mitosis, multicellular organism growth, skeletal morphogenesis) along with ribosome biogenesis, rRNA maturation, transcription, and related signaling (GTPase regulation, autophosphorylation). This points to a general proliferative/developmental program in multicellular organisms, tying together growth, protein synthesis capacity, and gene expression rather than a narrow, single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0051260","count":6}]},{"hash":"409512363793007339","title":"Rho GTPase signaling in neural development","description":"Top GO terms point to regulation of GTPase activity and Rac signaling, suggesting involvement of Rho family GTPase pathways. The neural-development related terms (myelination in peripheral nervous system, lens fiber cell differentiation, astrocyte differentiation) indicate a focus on signaling regulation within neural tissues. Together, these imply a cluster of proteins that modulate GTPase signaling in neural development contexts, with some involvement in apoptotic signaling regulation as part of broader cell fate control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:1902043","count":4},{"id":"GO:0048147","count":4},{"id":"GO:0035021","count":4},{"id":"GO:2001241","count":3}]},{"hash":"2225847124140309372","title":"Embryonic organogenesis and tissue morphogenesis","description":"This cluster shows a cohesive theme of development across multiple tissues, including retina, inner ear, cranial skeleton, pancreas, pituitary, neural crest, and osteoblasts, along with transcriptional regulation during development. The shared function appears to be broad embryonic organogenesis and tissue morphogenesis rather than a single pathway, supporting a label focused on developmental morphogenesis.","confidence":"High","size":29,"edges":402,"triangles":3552,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":15},{"id":"GO:0006366","count":15},{"id":"GO:0002087","count":12},{"id":"GO:0002076","count":12},{"id":"GO:0021983","count":10}]},{"hash":"233076069875438290","title":"Chromatin modification and transcription regulation","description":"The top GO terms cluster around DNA-templated transcription and its regulation, along with multiple histone modifications (methylation and acetylation) and chromatin localization. This suggests a shared role in chromatin state control that modulates transcription, with some peripheral signaling associations (e.g., GTPase regulation, Wnt signalosome). ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0006355","count":3}]},{"hash":"1051944422018790174","title":"Metabolic Biosynthesis and Energy Processes","description":"The cluster's top GO terms point to biosynthetic activities (ubiquinone, steroid, and glycogen biosynthesis) and energy-related functions (proton transmembrane transport), with translation also present, suggesting general cellular activity. Some terms (cardiac development/conduction) and obsolete annotations likely reflect annotation noise rather than a cohesive heart-specific function. Overall, the label captures a metabolism- and energy-centered cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006412","count":3},{"id":"GO:0001300","count":2},{"id":"GO:0046677","count":2},{"id":"GO:1902600","count":2}]},{"hash":"517702056384350522","title":"Rho GTPase signaling and actin remodeling","description":"The top GO terms cluster around activation of GTPase activity and regulation of Rho signaling, plus actin cytoskeleton organization, pointing to proteins that control cytoskeletal dynamics via Rho-family GTPases. While some terms touch development and transcription, the strongest shared function is Rho-mediated actin remodeling, consistent with signaling and structural changes in cells.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0008344","count":3},{"id":"GO:0007605","count":3}]},{"hash":"1041988925434056821","title":"Neuroendocrine Regulation of Visceral Physiology","description":"The Top Terms cluster around autonomic and neuroendocrine control of visceral functions: urine volume, circadian rhythm, GI secretion and motility, vascular tone, and dopamine/adrenergic signaling. This points to a cohesive theme of signaling pathways that modulate visceral physiology via neuroendocrine and autonomic mechanisms, even though a couple terms (bone remodeling, reproductive processes) are broader and less central.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":28},{"id":"GO:0022410","count":28},{"id":"GO:0001697","count":28},{"id":"GO:0030432","count":28},{"id":"GO:0007211","count":28}]},{"hash":"1028314170104400106","title":"Rho/small GTPase Signaling","description":"Most GO terms center on cellular signaling; the strongest links are regulation of Rho protein signal transduction and small GTPase-mediated signaling, supported by IGF receptor signaling and immune-related terms. The cluster appears to collect proteins involved in various signaling cascades rather than a single pathway, with a core emphasis on Rho/GTPase signaling.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":20},{"id":"GO:0061000","count":18},{"id":"GO:0007507","count":18},{"id":"GO:0048009","count":17},{"id":"GO:2001275","count":17}]},{"hash":"2296140413213042425","title":"Immune activation and complement pathways","description":"This cluster is dominated by immune-related processes: phagocytosis recognition, classical and lectin complement activation, T cell costimulation, B cell receptor signaling, and B cell affinity maturation, along with innate immune response. The combination suggests a cohesive theme of immune activation involving both innate and adaptive arms, with strong emphasis on complement cascades.","confidence":"High","size":28,"edges":9,"triangles":0,"max_degree":2,"top_function":"wound healing","top_go_terms":[{"id":"GO:0006910","count":13},{"id":"GO:0006958","count":12},{"id":"GO:0001867","count":10},{"id":"GO:0031295","count":9},{"id":"GO:0050853","count":9}]},{"hash":"259799083203058229","title":"Neural development and neuron fate specification","description":"Most terms point to neural tissue development and neuron/glial fate specification (cortex interneuron differentiation, motor neuron and oligodendrocyte fate), with transcription by RNA polymerase II providing the regulatory context, suggesting a neural development module.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060435","count":28},{"id":"GO:0021892","count":28},{"id":"GO:0021530","count":28},{"id":"GO:0060163","count":28},{"id":"GO:0021520","count":28}]},{"hash":"1282724927388280231","title":"Neuronal maturation and synaptic plasticity with immune signaling","description":"This cluster shows GO terms centered on neuron development and communication, including regulation of neuron maturation, positive regulation of synapse structural plasticity, and GPCR signaling, plus immune activity such as defense response to protozoan, positive regulation of type II interferon production, and regulation of interleukin-23 production. The combination suggests proteins involved in neuronal maturation and synaptic remodeling that also modulate immune signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032729","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0042832","count":5},{"id":"GO:0051489","count":5},{"id":"GO:0006351","count":4}]},{"hash":"897922517094263908","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097202","count":3},{"id":"GO:0090158","count":2},{"id":"GO:0035108","count":2},{"id":"GO:1902132","count":2},{"id":"GO:0006012","count":2}]},{"hash":"1805908789732848757","title":"Developmental signaling and morphogenesis","description":"The top GO terms cluster around developmental processes and signaling pathways, including BMP signaling, brain development, lens morphogenesis, and intestinal stem cell homeostasis, plus cytoskeletal signaling (Rho/Rap). This suggests a common theme of developmental regulation and tissue morphogenesis across the proteins, despite some peripheral immune-related terms.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030948","count":3},{"id":"GO:0036335","count":3},{"id":"GO:0048642","count":3},{"id":"GO:0008101","count":3}]},{"hash":"1439153486150995174","title":"Cofactor and Vitamin Biosynthesis","description":"The top GO terms point to biosynthetic processes for essential cofactors and vitamins\u2014menaquinone, biotin, molybdopterin cofactor, and thiamine\u2014along with related metabolic activities like antibiotic biosynthesis and tRNA methylation. The concentration of cofactor/vitamin biosynthesis terms across multiple entries suggests a cohesive metabolic module dedicated to producing these cofactors, rather than disparate functions. This makes \"Cofactor and Vitamin Biosynthesis\" a representative and specific label for the cluster.","confidence":"High","size":28,"edges":361,"triangles":2864,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009234","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0006777","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1303230157164777429","title":"Cardiac GPCR Signaling and Energy Metabolism","description":"This cluster is dominated by GPCR-related signaling terms, including adenylate cyclase-activating pathways (adrenergic and dopaminergic), PLC activation, and cAMP signaling, plus heart-related terms like positive regulation of blood pressure and heart development, pointing to cardiovascular signaling. The presence of electron transport chain activity and phosphatidylinositol biosynthetic regulation suggests accompanying metabolic/energy aspects typical of cardiac tissue. Some terms (phototransduction, general GTPase regulation) reflect broader GPCR signaling mechanisms, but the core theme appears to be heart-associated GPCR signaling with supporting metabolism.","confidence":"High","size":28,"edges":20,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":23},{"id":"GO:0010579","count":23},{"id":"GO:0045777","count":23},{"id":"GO:0007507","count":22},{"id":"GO:0060158","count":21}]},{"hash":"852301081763315795","title":"Cytoskeletal Dynamics and Adhesion in Bone and Epithelium","description":"The cluster centers on actin cytoskeleton organization (actin filament bundle assembly, lamellipodium assembly) and adhesion-related processes (cell spreading, epithelial polarity, barrier formation), with concurrent signals for bone differentiation (osteoblast fate, bone development) and EGFR pathway involvement. This suggests a cohesive theme of cytoskeletal remodeling and adhesion coordinating bone and epithelial differentiation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0090162","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0002051","count":3}]},{"hash":"143987574541931042","title":"RNA-regulated neuronal development","description":"This cluster combines neuronal development features (dendritic spine morphogenesis, myelination, neurotrophin signaling) with RNA-centric regulatory terms (mRNA stability, splicing, ncRNA-mediated silencing). The convergence suggests proteins that coordinate RNA processing and regulation with neural differentiation and synaptic maturation, possibly governing actin dynamics and responses to neurotrophic signals.","confidence":"Medium","size":28,"edges":326,"triangles":2511,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0031047","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0006378","count":5},{"id":"GO:1903526","count":4}]},{"hash":"419714723621887754","title":"Unknown","description":"The top GO terms span very diverse biological contexts (intracellular signaling, neuronal differentiation and synaptic regulation, GPCR signaling, cardiac contraction, lipid transport, chloroplast protein import, epithelial polarity, and hepatocyte apoptosis) with no single cohesive function tying the cluster together. The mix suggests a heterogeneous or cross-species set of proteins rather than a single pathway or process, so a unified, representative label isn\u2019t supported.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":4},{"id":"GO:1900383","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0021707","count":3},{"id":"GO:1901187","count":3}]},{"hash":"1828673943583517747","title":"PI3K/AKT signaling and actin remodeling","description":"This cluster is dominated by GO terms related to positive regulation of PI3K/AKT signaling and extensive modulation of the actin cytoskeleton, especially in postsynaptic/dendritic spine contexts and in various cytoskeletal remodeling processes (cell migration, ring canal formation). The recurrent connection between PI3K signaling and actin dynamics across neuronal and developmental contexts supports a cohesive theme of signaling-driven cytoskeletal remodeling, even though some terms reflect broader or less direct roles. ","confidence":"Medium","size":28,"edges":95,"triangles":56,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":8},{"id":"GO:0098885","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0097062","count":8},{"id":"GO:0045987","count":8}]},{"hash":"656942181339192889","title":"Unknown","description":"The GO terms are highly diverse, spanning cell division, blood coagulation, iodide transport, cilium assembly, immune defense, oocyte differentiation, bone development, angiogenesis regulation, and muscle contraction, with no obvious unifying function. The cluster has no edges, so there is no shared network to define a specific mechanism. Hence, a confident, representative label cannot be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0015705","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0050830","count":2}]},{"hash":"900763872951177334","title":"Embryonic organogenesis and neural crest development","description":"These proteins show enrichment across multiple developmental processes, including enteric nervous system development, digestive tract development, forebrain and neural tube formation, neural crest cell migration, and cardiac muscle differentiation. Together they point to a set of genes coordinating organogenesis and neural crest\u2013driven patterning during embryonic development rather than a single tissue-specific function.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048484","count":8},{"id":"GO:0048565","count":7},{"id":"GO:0008283","count":6},{"id":"GO:0055012","count":6},{"id":"GO:0060065","count":6}]},{"hash":"1701712196494094330","title":"Redox Homeostasis and Oxidative Stress Response","description":"These proteins cluster around redox biology: oxidation\u2013reduction processes, cellular redox homeostasis, and detoxification of oxidants, with additional signals of metal ion responses (aluminum and selenium). While a mitotic cell cycle term appears, the dominant theme is redox balance and oxidative stress response, suggesting roles in detoxification and redox signaling.","confidence":"High","size":28,"edges":40,"triangles":19,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055114","count":13},{"id":"GO:0010044","count":11},{"id":"GO:0045454","count":11},{"id":"GO:0098869","count":11},{"id":"GO:0010269","count":9}]},{"hash":"2018566097127990519","title":"Oxidative Detoxification and Toxin Response","description":"Top GO terms cluster around detoxification and oxidative stress responses (cellular oxidant detoxification, glutathione metabolic process, response to toxic substance, toxin catabolic process). Nucleotide-excision repair and growth/starvation signaling suggest broader stress adaptation, with a secondary hint of calcium signaling related to muscle activity. Overall, the cluster represents antioxidant defense and toxin handling.","confidence":"High","size":28,"edges":370,"triangles":3096,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":27},{"id":"GO:0014810","count":25},{"id":"GO:0009636","count":25},{"id":"GO:0009407","count":25},{"id":"GO:0060316","count":25}]},{"hash":"790531368114187010","title":"Nucleotide salvage and translation","description":"The top GO terms highlight nucleotide salvage (UMP, CTP, uracil) along with translation and phosphorylation, pointing to a core role in nucleotide metabolism coupled to protein synthesis. Some terms like viral process and embryonic development may be noise or broad annotations, but the prominent theme is nucleotide salvage feeding translation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0016032","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0006412","count":3}]},{"hash":"896874020236922592","title":"Cell signaling and stress responses","description":"Top GO terms indicate involvement in transcription (DNA-templated transcription), insulin receptor signaling, T cell receptor signaling, ER stress and UPR regulation (PERK-related pathways, intrinsic apoptotic signaling), and barrier-related development (endothelial intestinal barrier, uterus development). This mix suggests a cluster of proteins acting in general signal transduction with emphasis on stress responses and immune signaling, rather than a single cohesive pathway; the presence of broader metabolic and stress-related terms (proline transport, copper ion response) supports a general signaling/stress-response theme.","confidence":"Medium","size":28,"edges":26,"triangles":2,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0090557","count":2},{"id":"GO:1903898","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1643214891158467059","title":"Cardiac GPCR-cAMP signaling and thermogenesis","description":"These GO terms center on GPCR signaling that activates adenylate cyclase and cAMP pathways, with inputs from adrenergic stimuli (amphetamine response) and metabolism/thermogenesis (diet-induced thermogenesis). The presence of heart development and regulation of cardiac muscle contraction suggests a cardiac-focused GPCR-cAMP module, while opsin signaling reinforces the broad GPCR link. Overall, the cluster seems to reflect adrenergic/cAMP signaling in heart and metabolic regulation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":21},{"id":"GO:0001975","count":21},{"id":"GO:0002024","count":21},{"id":"GO:0022400","count":21},{"id":"GO:0007507","count":21}]},{"hash":"1066365854235551619","title":"Translation initiation and ribosome assembly","description":"This cluster centers on translation initiation, preinitiation complex formation, and ribosome-associated mRNA processing (cap methylation and reinitiation), as indicated by GO:0001731, GO:0002188, and GO:0036265. Additional links to TORC1 signaling, cell-cycle regulation, and ER-Golgi\u2013related trafficking suggest coordinated growth, stress responses, and protein handling that accompany active translation. Overall, the dominant theme is translation initiation and ribosome dynamics.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0006890","count":8},{"id":"GO:0038202","count":8},{"id":"GO:0070317","count":8}]},{"hash":"1281642124577236175","title":"Neuronal synaptic plasticity and memory regulation","description":"The top GO terms cluster around regulation of neuronal synaptic plasticity, axonogenesis, memory, calcium signaling, and transcriptional regulation, which together point to neuronal development and synaptic remodeling and long-term changes in function. The presence of terms related to cytoskeletal remodeling and transcriptional control supports a theme of activity-dependent plasticity, while a single kidney development term seems incidental. Overall, the cluster appears to reflect proteins involved in synaptic strengthening and memory formation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048168","count":13},{"id":"GO:0072205","count":12},{"id":"GO:0042994","count":12},{"id":"GO:0051281","count":12},{"id":"GO:0006469","count":11}]},{"hash":"412561795190141498","title":"Nociception and Temperature Response","description":"The top GO terms cluster around pain perception and responses to sensory stimuli (chemical and mechanical detection) as well as cellular responses to temperature, pointing to a nociception/temperature-sensing theme. Some terms like glycosylation and lactose biosynthesis appear less directly connected and may reflect annotation noise or multifunctionality, but the dominant signals support a pain- and temperature-related function. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0005989","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0055072","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1417163378542317408","title":"DNA Repair and Oxidative Stress Response","description":"Dominant GO terms center on base-excision repair, DNA recombination, and DNA catabolic processes, pointing to DNA damage repair and DNA metabolism. Additional enrichment for response to hydrogen peroxide and xenobiotic stimulus suggests cellular stress and detoxification responses; together they indicate a cluster of proteins involved in maintaining genome integrity under oxidative and chemical stress.","confidence":"High","size":28,"edges":62,"triangles":29,"max_degree":18,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":14},{"id":"GO:0007568","count":12},{"id":"GO:0006310","count":12},{"id":"GO:0042493","count":10},{"id":"GO:0070301","count":9}]},{"hash":"2098928446085537382","title":"Neural development and stress signaling","description":"Based on the top GO terms, the cluster seems to combine neural development processes (forebrain development, fasciculation of sensory neuron axons, integrin-mediated adhesion) with cellular stress responses (ER stress\u2013induced apoptosis, response to ionizing radiation, sphingolipid biosynthesis). There are also hints of broader regulatory processes (epigenetic regulation via CpG methylation, nuclear export). While one term points to immune defense, the dominant themes point to neural development coupled with stress signaling pathways, making a neural-development-with-stress-signaling label appropriate.","confidence":"Medium","size":28,"edges":339,"triangles":2415,"max_degree":27,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":28},{"id":"GO:0006611","count":28},{"id":"GO:0070059","count":28},{"id":"GO:0090153","count":28},{"id":"GO:0071479","count":28}]},{"hash":"1113363517053325099","title":"ERK-PI3K Calcium Signaling and Cell Migration","description":"The cluster centers on growth-factor\u2013driven signaling through ERK cascades and PI3K pathways, coupled with calcium signaling, and involvement in differentiation and migration across cell types (neuron migration, neutrophil chemotaxis, myoblast differentiation). The concurrent GO terms for ERK cascade, PI3K signaling, calcium-mediated signaling, and responses to retinoic acid or M-CSF suggest an integrated signaling module that promotes movement and cell fate changes rather than a single process.","confidence":"High","size":28,"edges":184,"triangles":711,"max_degree":23,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043552","count":24},{"id":"GO:0070374","count":22},{"id":"GO:0014068","count":21},{"id":"GO:0035584","count":20},{"id":"GO:0045663","count":20}]},{"hash":"2106702301831511338","title":"Rho-driven cytoskeleton signaling in immunity and development","description":"The cluster is enriched for Rho signaling regulation, podosome assembly, PDGF receptor signaling, and immune responses (innate and adaptive), plus development terms (bone/heart). This points to a core theme of cytoskeletal remodeling and signaling that governs immune cell motility/adhesion and broader developmental processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":22},{"id":"GO:0060348","count":20},{"id":"GO:0010863","count":20},{"id":"GO:0045087","count":20},{"id":"GO:0007507","count":20}]},{"hash":"2197165796041795149","title":"Spliceosome-Mediated mRNA Processing and Export","description":"The top GO terms cluster around spliceosome-regulated mRNA splicing, mRNA export from the nucleus, and regulatory RNA\u2013mediated gene silencing, indicating a core group of proteins involved in post-transcriptional RNA processing. Some translation initiation terms appear, but the dominant theme is RNA splicing and export.","confidence":"High","size":28,"edges":377,"triangles":3250,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":19},{"id":"GO:0031047","count":19},{"id":"GO:0006406","count":18},{"id":"GO:1901407","count":18},{"id":"GO:0000381","count":18}]},{"hash":"2170919211067271889","title":"Developmental signaling and protein turnover","description":"Top terms emphasize multicellular development (skin, male gonad, growth) and up-regulation of signaling kinases and GTPase activity, together with ubiquitin-dependent protein degradation. This points to a cluster of proteins involved in coordinating developmental signaling pathways with controlled protein turnover. A few terms (e.g., defense response) are less central, but the dominant theme is developmental signaling linked to regulated proteostasis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043588","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0007568","count":8},{"id":"GO:0008584","count":7},{"id":"GO:0007275","count":7}]},{"hash":"1139535885319240176","title":"CNS neuron development and visual memory proteins","description":"The cluster shows enrichment for neuronal development terms (dendrite morphogenesis, CNS neuron development, positive regulation of axon extension) and sensory-related functions (memory, visual perception), supported by cytoskeletal dynamics (microtubule sliding) and transcription regulation. This pattern suggests proteins involved in CNS neuron differentiation and sensory processing rather than a general, non-specific set.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0048813","count":4},{"id":"GO:0021954","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0007613","count":4}]},{"hash":"71062052008123385","title":"Nuclear import and mitotic regulation","description":"The cluster is enriched for nuclear transport and cell-cycle related terms, especially NLS-bearing protein import into the nucleus and nuclear pore complex assembly, along with mitotic processes such as sister chromatid separation and meiotic cell cycle regulation. Additional terms on TORC1 signaling and amino-acid response suggest integration of nutrient-sensing with growth and division. Taken together, these proteins likely function at the intersection of nuclear transport and cell-cycle control.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051306","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0033674","count":6},{"id":"GO:0006607","count":6},{"id":"GO:0038202","count":5}]},{"hash":"1872221564178971247","title":"Ubiquitin-mediated protein degradation","description":"Dominant GO terms center on ubiquitination and subsequent proteasomal degradation, including ubiquitin-dependent protein catabolic processes and SCF-dependent pathways, suggesting the cluster comprises components of the ubiquitin-proteasome system. Some terms also touch on JNK regulation and histone turnover, reflecting broader roles in signaling and chromatin dynamics tied to ubiquitination. Overall, the common theme is tagging substrates for degradation via ubiquitination.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0051865","count":11},{"id":"GO:0085020","count":10},{"id":"GO:0031146","count":9},{"id":"GO:0046328","count":9}]},{"hash":"1684770873296709763","title":"Neuroinflammation and Neural Development","description":"The top GO terms show strong enrichment for immune and inflammatory responses to bacterial components (lipopolysaccharide, Gram-positive bacteria), dsRNA sensing, interferon production, and general defense, alongside neural development processes (axonogenesis, corpus callosum development) and pain signaling. This pattern suggests a cluster of proteins involved in neuroimmune signaling that influences both inflammation and neural development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071222","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0006954","count":7},{"id":"GO:0050830","count":6},{"id":"GO:0014068","count":6}]},{"hash":"2093886499736600673","title":"Diverse Biosynthetic Pathways","description":"The cluster\u2019s top GO terms are dominated by various biosynthetic processes (estrogen biosynthesis, tetrahydrobiopterin biosynthesis, very long-chain fatty acid biosynthesis, melanin biosynthesis, poly-hydroxybutyrate biosynthesis, tropane alkaloid biosynthesis) and include related contexts like lung development, retinal metabolism, and drug responses. This points to a broad set of metabolic and biosynthetic capabilities rather than a single, specific pathway, justifying a general label for diverse biosynthetic activities.","confidence":"Medium","size":28,"edges":15,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031427","count":4},{"id":"GO:0006703","count":4},{"id":"GO:0006729","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0042574","count":4}]},{"hash":"587429213991279614","title":"Embryonic organ development","description":"The cluster is enriched for diverse organogenesis terms (midbrain, palate, odontogenesis, pituitary, inner ear, hindlimb, outflow tract) indicating a shared role in embryonic development across tissues; a few complement activation terms appear but are less representative of the overall theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":11},{"id":"GO:0060021","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0001867","count":8}]},{"hash":"510835678613377159","title":"Rho/Rac GTPase signaling and transcription regulation","description":"The top GO terms cluster around regulation of small GTPases (Rho, Rac), including positive regulation of GTPase activity and regulation of Rho/Rac signaling, plus related signaling and transcription-related terms (insulin signaling regulation, DNA-templated transcription). There is also mention of apoptosis signaling, suggesting a broader theme of regulated signaling impacting transcription and cell fate. Despite edges being absent (no interactions), the common thread appears to be modulation of signaling cascades with transcriptional regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008272","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0045671","count":3}]},{"hash":"819347216897775067","title":"TGF-\u03b2 and Rho signaling in development","description":"This set centers on developmental signaling\u2014especially TGF-\u03b2\u2013mediated responses and Rho GTPase\u2013regulated pathways\u2014and on establishing epithelial polarity, tying heart/bone development to these signaling processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0010923","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0035023","count":4}]},{"hash":"1242892993036736379","title":"Innate immune signaling and inflammation","description":"Based on GO terms like defense response to Gram-positive bacterium, lipopolysaccharide-mediated signaling, Toll-like receptor 2 signaling, I-kappaB phosphorylation, dsRNA response, and IL-8 production, this cluster centers on innate immune recognition and downstream inflammatory signaling. The proteins likely function in TLR/NF-\u03baB\u2013mediated responses to microbial components and inflammatory cytokine production, with a few terms related to general receptor signaling that support this theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0034134","count":3},{"id":"GO:0007169","count":3},{"id":"GO:1900747","count":3}]},{"hash":"1262714769473753802","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"Top terms cluster around ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis and protein ubiquitination) and innate immune signaling (innate immune response, intracellular signal transduction, cell migration). A vitamin D response term hints at immune modulation context. Although there are no edges, the shared themes point to ubiquitin-dependent regulation of immune signaling as the core function of this cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0033280","count":9},{"id":"GO:0016567","count":9},{"id":"GO:0032088","count":8},{"id":"GO:0045087","count":8}]},{"hash":"889575533470747337","title":"Membrane signaling and remodeling","description":"The cluster shows a pattern of signaling and membrane-related processes: regulation of Rho-mediated cytoskeletal signaling, STAT tyrosine phosphorylation, and IL-27\u2013driven signaling point to diverse signal transduction; myoblast fusion and plasma membrane repair indicate membrane remodeling and fusion events; sphingolipid biosynthesis relates to membrane composition and integrity. Although some terms like ribophagy and LTP are broader, the shared theme ties to membrane dynamics and signaling across cell types. ","confidence":"Medium","size":27,"edges":252,"triangles":1215,"max_degree":26,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":13},{"id":"GO:0035023","count":13},{"id":"GO:0043065","count":10},{"id":"GO:0042517","count":10},{"id":"GO:0070106","count":10}]},{"hash":"891884186054589872","title":"Neuronal development and vesicle trafficking","description":"The cluster is dominated by GO terms related to brain development, ERK signaling, synaptic vesicle exocytosis, and membrane trafficking (plasma membrane to endosome transport, protein transmembrane transport), pointing to proteins involved in neuronal differentiation and synaptic signaling with active vesicle dynamics. An outlier term on mitochondrial outer membrane permeabilization suggests some involvement in mitochondrial signaling or apoptosis, but the central theme remains neuronal development and membrane trafficking.","confidence":"Medium","size":27,"edges":39,"triangles":1,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0097345","count":8},{"id":"GO:0031384","count":7},{"id":"GO:0010796","count":7}]},{"hash":"1239639378228532977","title":"Neural Development and Axon Guidance","description":"The top GO terms converge on nervous system development, hippocampus development, dendrite morphogenesis, axon extension, and ephrin receptor signaling, indicating enrichment for neuronal development and axon/dendrite morphogenesis. While cell cycle/DNA replication terms are also present, the neural terms are most representative of the cluster\u2019s function. High","confidence":"","size":27,"edges":35,"triangles":7,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":23},{"id":"GO:0000278","count":23},{"id":"GO:0006260","count":23},{"id":"GO:0021766","count":22},{"id":"GO:0046330","count":22}]},{"hash":"990582737561166575","title":"Synaptic plasticity and vesicle trafficking","description":"The top GO terms point to neuronal plasticity (long-term potentiation and EPSP) and regulation of synaptic strength, while the trafficking terms (ER-Golgi, endosome to Golgi/late endosome) imply vesicle transport supporting synaptic function; combined, they suggest a cluster of proteins coordinating synaptic signaling with vesicular trafficking. ","confidence":"High","size":27,"edges":61,"triangles":67,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":8},{"id":"GO:0006888","count":6},{"id":"GO:0034498","count":5},{"id":"GO:0043524","count":5},{"id":"GO:0060079","count":5}]},{"hash":"2043275148827940801","title":"Neuronal synapse formation and plasticity","description":"The top GO terms are dominated by dendritic spine morphogenesis, synapse organization, and long-term synaptic potentiation, complemented by Rho-mediated cytoskeletal signaling, which points to proteins involved in neural synapse development and activity-dependent plasticity. While a few terms relate to broader development or other tissues, the convergence on synaptic structure and function supports this labeling.","confidence":"Medium","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060997","count":12},{"id":"GO:0050808","count":12},{"id":"GO:0060291","count":11},{"id":"GO:0035023","count":11},{"id":"GO:0007520","count":11}]},{"hash":"1821023173240697020","title":"Translation initiation and ribosome biogenesis","description":"This cluster centers on translation initiation and ribosome assembly, with multiple terms for regulation of translational initiation, preinitiation complex formation, and ribosome biogenesis. While other processes appear (splicing, ubiquitination, mitochondrial fission, cell division), the dominant theme is protein synthesis machinery.","confidence":"Medium","size":27,"edges":71,"triangles":45,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0006446","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0000398","count":5}]},{"hash":"1069433083310409326","title":"Developmental and Immune Signaling","description":"The top GO terms span developmental processes (heart development, branching in mammary gland morphogenesis) and immune-related activities (innate immune response, B cell affinity maturation, NK T cell differentiation, cellular response to IL-7), along with signaling exercises (G2/M cell cycle transition, insulin receptor signaling). This combination suggests the proteins participate in broad developmental regulation with significant immune signaling involvement, rather than a single specific pathway, so the label should reflect both development and immune signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0000086","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0098761","count":3}]},{"hash":"1746533966207970421","title":"Neuromuscular signaling and bone remodeling","description":"This cluster\u2019s top terms center on neuromuscular control of posture and synaptic vesicle clustering, pointing to neuronal-muscular interactions. Two terms point to bone biology (bone mineralization and bone morphogenesis), suggesting a skeletal remodeling aspect. Other terms touch on metabolism and NO signaling, which are commonly linked to muscle activity, while immune-related responses appear less cohesively connected. Overall, the most coherent theme combines neuromuscular signaling with bone development/remodeling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":3},{"id":"GO:0045429","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0030282","count":2}]},{"hash":"1626212600670808379","title":"Rho GTPase signaling and innate immunity","description":"The top GO terms center on regulation of Rho-family GTPases and related signal transduction (GTPase activity, Rho signaling, tyrosine phosphorylation), indicating a core function in cytoskeletal signaling. Immune-related terms (innate immune response, defense against Gram-positive bacteria and virus) suggest additional roles in immune signaling. Developmental and cell cycle terms appear but are likely secondary to the dominant signaling/immune theme. Overall, a cohesive cluster of Rho- and signaling-driven proteins with innate immune involvement.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0050731","count":4}]},{"hash":"2277260985182072920","title":"Vertebrate neural and craniofacial development","description":"The top terms cluster around transcriptional regulation by RNA polymerase II and developmental processes in the vertebrate head and brain, including brain segmentation (rhombomere 5), habenula development, embryonic eye morphogenesis, inner ear morphogenesis, and regulation of chondrocyte differentiation and myoblast proliferation. This suggests a coherent theme of transcription-controlled neural and craniofacial/sensory organ development in vertebrates.","confidence":"High","size":27,"edges":215,"triangles":682,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0035284","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0021571","count":9},{"id":"GO:0048048","count":9}]},{"hash":"2098630836998555170","title":"Immune signaling and cell migration","description":"The GO terms point to immune-related processes (IL-4 production, response to IL-7, NK T differentiation, B cell affinity maturation) and cytoskeletal/adhesion signaling (Rho regulation, small GTPases, cell migration, substrate adhesion-dependent spreading). While insulin signaling and heart development appear, the dominant theme seems to be immune cell signaling combined with migration/adhesion dynamics, suggesting proteins coordinating lymphocyte activation and movement. ","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":24},{"id":"GO:0032633","count":24},{"id":"GO:0098761","count":24},{"id":"GO:0007507","count":24},{"id":"GO:0001865","count":24}]},{"hash":"1920761906881829997","title":"Actin Cytoskeleton Remodeling and Adhesion","description":"The cluster is dominated by GO terms tied to actin cytoskeleton dynamics (podosome, lamellipodium, microvillus, stress fiber regulation) and cell-adhesion processes (focal adhesion assembly, epithelial polarity), with Rac signaling linking these processes. This convergence suggests a cohesive module of actin-driven remodeling, protrusion, adhesion, and polarity across contexts, including neuronal synaptic plasticity.","confidence":"High","size":27,"edges":52,"triangles":22,"max_degree":17,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071800","count":16},{"id":"GO:2000249","count":15},{"id":"GO:0016601","count":15},{"id":"GO:0051894","count":15},{"id":"GO:0010592","count":15}]},{"hash":"1934127353404310804","title":"Vacuolar amino acid and potassium transport","description":"The top GO terms cluster around transmembrane transport of amino acids (lysine, histidine, serine, glutamate, asparagine) into or out of the vacuole, plus potassium ion transport, with several vacuole-associated terms. This points to a group of vacuolar membrane transport proteins mediating amino acid and potassium flux, justifying the label.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0089707","count":4},{"id":"GO:0090513","count":4},{"id":"GO:0051365","count":4},{"id":"GO:1901481","count":4}]},{"hash":"952732302106383347","title":"Vascular-immune signaling with deubiquitination","description":"The GO terms cluster around cardiovascular development (heart, angiogenesis, platelet activation) and immune processes (phagocytosis recognition) and include deubiquitination, suggesting a shared role in vascular-immune signaling regulated by ubiquitin modification; memory-related terms may be annotations noise.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007614","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0035523","count":5},{"id":"GO:0044313","count":5}]},{"hash":"1832445028449347075","title":"Organ and tissue development","description":"This cluster is enriched for broad developmental terms across several tissues (multicellular organism development; neuron projection and retina development; skin and skeletal system development; male gonad development). The recurring theme is organ/tissue development rather than a single pathway, suggesting the proteins collectively contribute to multiple aspects of organismal development. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0001501","count":4}]},{"hash":"1126555294676844081","title":"ER-Golgi Vesicle Trafficking","description":"Based on the prominent GO terms, the cluster is dominated by intracellular protein transport, especially ER-to-Golgi vesicle-mediated transport and COPII vesicle loading, along with positive regulation of GTPase activity \u2014 a coherent vesicle trafficking theme. Some immune signaling and DNA replication terms appear as secondary associations but do not define the core function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1272522534653807084","title":"Mammary gland development and cell cycle regulation","description":"This cluster is enriched for core cell cycle processes (G1/S and G2/M transitions, mitotic re-entry) and for mammary gland\u2013specific developmental terms (mammary gland epithelial cell proliferation and alveolus development). The combination suggests proteins involved in both cell proliferation and mammary tissue morphogenesis, with signaling pathways like insulin receptor signaling linking growth to these processes. The presence of differentiation-related terms such as Leydig cell differentiation also points to broader developmental regulation.","confidence":"High","size":27,"edges":10,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0051301","count":13},{"id":"GO:0033598","count":11},{"id":"GO:0000082","count":11},{"id":"GO:0046626","count":11}]},{"hash":"956187260970546373","title":"Ubiquitin-Dependent Protein Turnover","description":"Top terms are dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis; K48-linked deubiquitination; deneddylation) and other PTMs, suggesting a proteostasis-centric cluster; the remaining terms link to proliferation and neuronal development, which can be regulated by ubiquitin pathways.","confidence":"High","size":27,"edges":16,"triangles":3,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0006517","count":3},{"id":"GO:0071108","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006281","count":3}]},{"hash":"1511945811766888119","title":"Immune activation and cell\u2013cell signaling","description":"The cluster is dominated by GO terms related to complement activation, T cell costimulation, innate immune response, and regulation of T cell function, with additional cell adhesion and synapse-assembly terms, suggesting a group of proteins involved in immune activation and intercellular communication.","confidence":"High","size":27,"edges":18,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":18},{"id":"GO:0031295","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0045087","count":17},{"id":"GO:0086072","count":16}]},{"hash":"1111086381529702516","title":"Wnt and Ephrin signaling in brain development","description":"The top GO terms center on Wnt signaling, ephrin receptor signaling, and neuronal development, including brain development and synapse plasticity, with supporting processes like endocytosis, cell polarity, and small GTPase signaling that mediate trafficking and signaling in neurons. This suggests a cohesive set of proteins coordinating developmental signaling pathways and synaptic remodeling in the brain.","confidence":"High","size":27,"edges":60,"triangles":97,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":8},{"id":"GO:0006897","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0048013","count":7},{"id":"GO:1900026","count":6}]},{"hash":"293236463778879105","title":"Dopamine/Adrenergic GPCR Signaling","description":"The dominant terms are dopamine and adrenergic receptor signaling pathways that activate AC and PLC, hallmarks of GPCR signaling; supported by related GO terms like prostaglandin response, GTPase regulation, and even phototransduction, indicating a GPCR-centric cluster with downstream effects on proliferation and heart development.","confidence":"Medium","size":27,"edges":32,"triangles":25,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":27},{"id":"GO:0060158","count":26},{"id":"GO:0071880","count":26},{"id":"GO:0007507","count":26},{"id":"GO:0007603","count":26}]},{"hash":"2079135525034289232","title":"Innate immune signaling and actin remodeling","description":"This cluster shows strong representation of innate immune processes (defense response to virus, Toll-like receptor 2 signaling, chemokine and IL-1\u03b2 production, MHC class I biosynthesis) together with cytoskeletal dynamics (actin filament network formation, lamellipodium organization), suggesting a module of immune activation coupled to cell migration and antigen presentation. The presence of both immune signaling and cytoskeletal terms supports a cohesive theme around immune cell activation and movement.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":12},{"id":"GO:0051639","count":12},{"id":"GO:1902745","count":10},{"id":"GO:0051607","count":10},{"id":"GO:0032722","count":10}]},{"hash":"2165010196648919426","title":"Immune activation and regulation with adhesion","description":"The top GO terms cluster around immune system processes: negative regulation of cytotoxic T cell degranulation and NK cell cytotoxicity, negative regulation of macrophage activation, positive regulation of B cell activation, and B cell receptor signaling, plus classical complement activation. There are also terms for heterophilic cell-cell adhesion and synapse assembly, suggesting immune signaling at cell interfaces and adhesion-mediated interactions. A cytokine- or host-pathogen interaction context is also implied by symbiont entry into host cell. Overall, the cluster reflects coordinated immune activation/regulation and cell adhesion mechanisms.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":17},{"id":"GO:0051963","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0043031","count":17},{"id":"GO:0046718","count":17}]},{"hash":"830552016739149897","title":"Dopaminergic Synaptic Signaling and Cocaine Response","description":"The cluster centers on neural signaling and plasticity, with dopaminergic synaptic transmission, ERK cascade regulation, and perception/learning terms, plus cocaine-related responses. Together these terms point to proteins involved in nervous system signaling and cocaine-induced neural plasticity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0001963","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0007275","count":7}]},{"hash":"225384445487559571","title":"Autonomic and Circadian Regulation of Physiology","description":"The top GO terms point to broad autonomic/neuroendocrine control of body functions: circadian rhythm, urine volume, gastric secretion, peristalsis, vascular regulation, and signaling pathways like dopamine receptor signaling. While a few terms are more general (bone remodeling, reproductive process, immune differentiation), the common thread is systemic regulation of organ function by signaling processes rather than a single specific pathway. This supports a label centered on autonomic and circadian regulation of physiology.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":27},{"id":"GO:0022410","count":27},{"id":"GO:0001697","count":27},{"id":"GO:0030432","count":27},{"id":"GO:0007211","count":27}]},{"hash":"1541111915657105127","title":"Stress-induced signaling and fate decisions","description":"The terms point to a broad suite of stress-related and regulatory processes rather than a single, cohesive pathway: innate immune defense, ER-stress\u2013induced apoptosis, radiation and nitric oxide responses, sphingolipid biosynthesis regulation, epigenetic regulation of gene expression, and cell cycle/developmental processes. This suggests the cluster is centered on general stress signaling that influences cell fate and regulatory networks, rather than a specific, unified function. ","confidence":"Medium","size":27,"edges":187,"triangles":487,"max_degree":20,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":27},{"id":"GO:0006611","count":27},{"id":"GO:0070059","count":27},{"id":"GO:0090153","count":27},{"id":"GO:0071479","count":27}]},{"hash":"1376780263264351941","title":"Autonomic GPCR Signaling and Homeostasis","description":"This cluster is dominated by GO terms for GPCR signaling and adenylate cyclase activation, including dopamine and octopamine/tyramine pathways, and regulatory processes affecting blood pressure, urine volume, circadian rhythms, gastric acid secretion, and peristalsis. While a term for the electron transport chain appears, the prevalent theme is GPCR-mediated control of autonomic and physiological homeostasis. High","confidence":"","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":27},{"id":"GO:0045777","count":27},{"id":"GO:0010579","count":27},{"id":"GO:0022900","count":27},{"id":"GO:0035810","count":26}]},{"hash":"1120215708497124849","title":"Adrenergic GPCR-cAMP signaling in thermoregulation and vasculature","description":"These proteins likely function in adrenergic GPCR-cAMP signaling coordinating thermogenesis and vascular regulation. The top GO terms cluster around activation of adenylate cyclase, GPCR signaling pathways, thermogenesis (diet-induced), temperature response, vasoconstriction and blood pressure, with supporting terms for energy metabolism (electron transport chain) and coagulation. Although pain perception is included, the overall pattern points to a sympathetic signaling module linking energy expenditure with vascular tone.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14}]},{"hash":"1901973042470935188","title":"Broad Substrate Membrane Transporters","description":"The GO terms are dominated by transmembrane transport activities for diverse substrates\u2014vitamins, xenobiotics, ions, sugars, and neurotransmitter loading\u2014pointing to a set of membrane transport proteins with broad substrate specificity rather than a single substrate. ","confidence":"High","size":27,"edges":58,"triangles":22,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035461","count":27},{"id":"GO:0006855","count":27},{"id":"GO:0071805","count":24},{"id":"GO:0042908","count":23},{"id":"GO:0042891","count":20}]},{"hash":"1296583425063531877","title":"Nociception and Thermoregulation","description":"The cluster centers on nociception and temperature-driven responses: pain perception and its regulation, and cellular responses to temperature (thermogenesis). Additional terms point to neural signaling (membrane potential) and vasomotor changes (vasoconstriction) and broad defense/xenobiotic responses, suggesting proteins involved in pain signaling linked to temperature regulation and vascular responses.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0051930","count":13},{"id":"GO:0042391","count":13}]},{"hash":"929526610280985415","title":"Mitochondrial Translation and Electron Transport","description":"This cluster centers on mitochondrial function: translation within mitochondria, regulation of mitochondrial translation, and multiple steps of the electron transport chain (NADH to ubiquinone and cytochrome c to oxygen), along with related inner-membrane processes (cristae formation and protein insertion into the mitochondrial membrane). These terms together describe a coherent mitochondrial machinery module, justifying a label focused on mitochondrial gene expression and respiration. CNS development is present but not central to the dominant mitochondrial theme.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:1902600","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0051204","count":2}]},{"hash":"1918417418188175882","title":"Systemic Homeostasis Regulation","description":"Based on the top GO terms, the cluster touches multiple physiological systems (blood coagulation, circadian rhythm, digestion, urine regulation, signaling pathways, bone remodeling, and immune differentiation), suggesting proteins involved in broad, organism-wide homeostasis rather than a single specific function. The absence of direct edge connections further supports a loose, multi-system regulatory theme.","confidence":"Low","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":21},{"id":"GO:0033861","count":21},{"id":"GO:0035810","count":20},{"id":"GO:0022410","count":20},{"id":"GO:0001697","count":20}]},{"hash":"1605365157348554656","title":"Translation initiation and RNA processing","description":"The cluster is dominated by GO terms tied to translation initiation (preinitiation complex formation, eIF4F complex assembly, IRES-dependent initiation, translation reinitiation) and RNA processing/regulation (mRNA splicing, stability, ncRNA-mediated silencing), suggesting a cohesive group of proteins involved in initiating translation and post-transcriptional RNA regulation, including stress contexts and viral mechanisms.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":15},{"id":"GO:0002188","count":15},{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":12},{"id":"GO:0010610","count":12}]},{"hash":"1360608180262546494","title":"Embryonic development and organ morphogenesis","description":"The proteins are enriched in GO terms for embryonic development across multiple tissues (palate, heart EMT, endocrine organs, hair follicles, placenta, mesoderm, left-right patterning, etc.), indicating a general role in developmental processes and tissue morphogenesis rather than a single pathway.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0003198","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0031069","count":8},{"id":"GO:0060972","count":8}]},{"hash":"1598048475129953162","title":"Inflammation and Monocyte Activation","description":"This cluster shows strong representation of inflammatory signaling and immune cell activation terms: cellular response to TNF and IL-1, inflammatory response, monocyte activation, and hematopoietic progenitor differentiation, along with angiogenesis regulation and growth factor responses. Together these terms point to a coordinated innate immune/inflammatory program with myeloid lineage involvement, rather than a single metabolic process, suggesting the cluster captures inflammation-related immune responses.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071356","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0071347","count":5},{"id":"GO:0042117","count":5},{"id":"GO:0006954","count":4}]},{"hash":"908741832802465158","title":"Ubiquitin-Proteasome Regulation and NF-kappaB Signaling","description":"This cluster centers on ubiquitin-dependent protein catabolic processes, including SCF\u2013mediated proteasomal degradation, protein autoubiquitination, and K63-linked ubiquitination, with links to ERAD. It also features regulatory terms for NF-kappaB signaling, TNF signaling, oxidative stress-related neuronal apoptosis, and virus defense, plus circadian rhythm regulation. Together these terms point to a theme of ubiquitin-driven protein turnover shaping inflammatory and stress-response signaling pathways, making a label focused on ubiquitin-proteasome regulation and its downstream signaling most representative.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0031146","count":10},{"id":"GO:0051865","count":10},{"id":"GO:1903265","count":10},{"id":"GO:1903378","count":9}]},{"hash":"290714866482686248","title":"Developmental Morphogenesis and Transcription Regulation","description":"This cluster is enriched for both transcriptional regulation by RNA polymerase II (negative regulation and general transcription) and a broad set of morphogenesis-related developmental terms, including eye development, lung morphogenesis, peripheral nervous system and motor neuron guidance, pituitary and skeletal muscle development, and primitive streak formation. The combination suggests genes involved in embryonic development and organogenesis rather than a single tissue-specific process, so a label combining development and transcription control best describes the cluster.","confidence":"High","size":27,"edges":95,"triangles":65,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0043010","count":10},{"id":"GO:0060441","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0048048","count":10}]},{"hash":"1917919017076689165","title":"Cell signaling and transcription regulation","description":"This cluster is enriched for signaling-related GO terms, including positive regulation of GTPase activity and peptidyl-tyrosine phosphorylation, along with B cell receptor signaling and cellular responses to TGF-beta, plus DNA-templated transcription. Developmental terms (spinal cord, skeletal system) suggest broader roles in signaling during development, but the common thread is regulation of signaling pathways that influence transcription.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0050853","count":8},{"id":"GO:0050731","count":8},{"id":"GO:0071560","count":8},{"id":"GO:0006351","count":8}]},{"hash":"2304418626832948020","title":"Actin-Driven Migration and Polarity","description":"The GO terms point strongly to actin filament bundle assembly, cell migration, epithelial polarity, and small GTPase signaling, indicating cytoskeleton remodeling governs movement and organization. Phagocytosis also relies on the same machinery, linking to actin dynamics. Although other terms touch on insulin signaling and immune/neural development, the core theme across these terms is cytoskeleton-mediated motility and polarity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090162","count":9},{"id":"GO:0008286","count":8},{"id":"GO:0035176","count":8},{"id":"GO:0051017","count":8},{"id":"GO:0016477","count":8}]},{"hash":"2227490717541262401","title":"Developmental Signaling and Immune Regulation","description":"The top GO terms point to broad developmental signaling (Wnt, Hippo), heart and skin differentiation, and apoptosis, along with immune signaling (IL-4/IL-7 responses and NK T cell differentiation) \u2013 a mix that fits a cluster coordinating development with immune and tissue-specific differentiation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006915","count":22},{"id":"GO:0090263","count":22},{"id":"GO:0060044","count":21},{"id":"GO:0035329","count":21},{"id":"GO:0030216","count":21}]},{"hash":"654935305293702345","title":"Immune cell adhesion and activation","description":"Top GO terms cluster around cell-cell adhesion via CAMs, adaptive immune signaling (B/T cell pathways), innate immune responses, phagocytosis, and complement activation, indicating a cohesive immune communication/activation module.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0007156","count":16},{"id":"GO:0042102","count":16},{"id":"GO:0043931","count":15},{"id":"GO:0006958","count":15}]},{"hash":"516607386488236493","title":"Angiogenesis and neural development signals","description":"This cluster appears to group proteins involved in blood vessel formation and remodeling (angiogenesis, fibrinolysis, coagulation, acute-phase response) and neural development/plasticity (long-term synaptic potentiation, excitatory postsynaptic potential, Schwann cell development, dendrite morphogenesis). The shared theme is cross-talk between vascular remodeling and neural development/signaling, though the mix suggests multiple related processes. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045766","count":8},{"id":"GO:0014068","count":7},{"id":"GO:0042730","count":7},{"id":"GO:0001525","count":6},{"id":"GO:0060291","count":6}]},{"hash":"1042491143410244763","title":"Complement and Coagulation Immune Response","description":"The cluster is dominated by GO terms for complement activation (classical and lectin pathways) and blood coagulation, with related processes in tissue remodeling (collagen catabolic process) and angiogenesis, suggesting an inflammatory/wound-healing program. Some terms like midbrain development and response to yeast are less directly connected, but the core theme centers on immune/coagulation pathways and associated remodeling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":13},{"id":"GO:0007596","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0001878","count":10}]},{"hash":"1303701248985058242","title":"Innate immunity with complement activation and angiogenesis","description":"The top GO terms cluster around innate immune functions, especially complement activation (classical and lectin pathways) and antifungal/neutrophil-related responses, indicating an innate immune defense theme. Additional signals for coagulation and angiogenesis suggest linked inflammatory and vascular remodeling processes, though some terms are more general (transcriptional regulation, midbrain development). Overall, a coherent immune-angiogenesis related cluster best fits the data.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0030901","count":13},{"id":"GO:0001878","count":12},{"id":"GO:0007596","count":12},{"id":"GO:0045766","count":12}]},{"hash":"537055838521312172","title":"Protein Synthesis & Ribosome Biogenesis","description":"The top GO terms center on translation, ribosome biogenesis, and valyl-tRNA aminoacylation, indicating a core connection to protein synthesis; other metabolic terms appear less prominently, suggesting a secondary layer of related metabolism rather than a separate function.","confidence":"High","size":27,"edges":18,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042254","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0006783","count":2},{"id":"GO:0002138","count":2}]},{"hash":"988715247644683606","title":"Adaptive immune activation and cytotoxic regulation","description":"This cluster shows strong enrichment for adaptive immune functions, including T cell co-stimulation, CD8+ T cell activation and apoptotic regulation, B cell activation, NK cell\u2013mediated cytotoxicity, and complement activation. The common theme is immune activation and modulation of cytotoxic responses, with cell adhesion terms likely reflecting immune cell interactions; thus the label captures the core function of the cluster.","confidence":"High","size":27,"edges":171,"triangles":354,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":12},{"id":"GO:0007157","count":12},{"id":"GO:0086072","count":11},{"id":"GO:0043318","count":11},{"id":"GO:0050871","count":11}]},{"hash":"1286134555420949679","title":"Cell signaling and chromatin regulation","description":"This cluster centers on terms tied to signaling pathways (positive regulation of GTPase activity, insulin receptor signaling, apoptotic signaling, vitamin D receptor signaling) and chromatin-related processes (histone modifications) and cell-cycle aspects (spindle assembly). Although many terms are marked obsolete and there are no observed edges linking proteins, these GO terms collectively point to a mix of signaling and chromatin/cell-cycle regulation functions, justifying a combined label.","confidence":"Low","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0097190","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0070562","count":3}]},{"hash":"920044501813064276","title":"Immune Cell Adhesion and Activation","description":"Based on the top GO terms, the cluster is enriched for innate immune response, T cell costimulation, B cell activation, and complement activation, along with several cell adhesion processes. This suggests proteins that mediate immune cell communication via adhesion molecules and activation signals. Some developmental terms (ossification, lens morphogenesis) may reflect multifunctional proteins or annotation noise, but the core signal centers on immune signaling and cell\u2013cell interactions.","confidence":"Medium","size":27,"edges":53,"triangles":10,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":17},{"id":"GO:0007157","count":16},{"id":"GO:0007156","count":16},{"id":"GO:0043931","count":15},{"id":"GO:0086072","count":14}]},{"hash":"770533092498024868","title":"Neural development and signaling pathways","description":"The top GO terms emphasize neural development and connectivity (synapse assembly, neuronal stem cell maintenance, R8 cell development, axon region localization) and key signaling regulators (Notch, BMP, Wnt). While a couple of terms touch on other morphogenetic processes (hair orientation, endocardial cushion development), the common thread across the cluster is development guided by signaling pathways that shape neural differentiation and neural circuit formation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048105","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0097150","count":10},{"id":"GO:0045747","count":10},{"id":"GO:0044332","count":10}]},{"hash":"144929238334888026","title":"Cardiac Ion Homeostasis and Membrane Potential","description":"The top GO terms center on maintaining ion gradients (K+, Ca2+), membrane potential regulation (repolarization, gradient maintenance), and cardiac muscle physiology (relaxation) along with heart morphogenesis. While there is a developmental/structural aspect (heart morphogenesis) and a sensory hair-cell differentiation term, the dominant theme ties to ion transport and cardiac function, making this a coherent cardiac ion homeostasis cluster.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0050821","count":4},{"id":"GO:0061343","count":4},{"id":"GO:0010248","count":4},{"id":"GO:0006874","count":4},{"id":"GO:0086009","count":4}]},{"hash":"521863130413953929","title":"Cardiac ion channels and action potentials","description":"This cluster is dominated by GO terms related to atrial/ventricular action potentials, regulation of voltage-gated calcium and potassium channels, and heart-rate control via conduction, indicating a coherent group of proteins involved in cardiac electrophysiology and ion transport; a tongue development term appears as a potential annotation quirk but does not alter the core theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086014","count":4},{"id":"GO:0010107","count":4},{"id":"GO:0086091","count":4},{"id":"GO:1901387","count":3},{"id":"GO:1901381","count":3}]},{"hash":"1242195522287650297","title":"Cell Adhesion and Innate Immunity","description":"The terms are largely driven by cell\u2013cell adhesion (heterophilic/homophilic) and innate immune processes (complement activation, innate immune response, macrophage activation regulation), with supporting themes in neural development (synapse assembly, axonal fasciculation) and bone development (ossification). This suggests a cluster of adhesion-related proteins involved in both tissue organization and immune signaling, rather than a single highly specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0006958","count":13},{"id":"GO:0046718","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0007413","count":12}]},{"hash":"1532388003927358773","title":"Membrane trafficking and actin cytoskeleton assembly","description":"These proteins share GO terms pointing to membrane-related processes and cytoskeletal/adhesion remodeling: protein localization to the plasma membrane, endomembrane system organization, ruffle assembly, focal adhesion assembly, and positive regulation of autophagosome assembly, along with PI3K signaling regulation. This suggests a common theme of membrane trafficking and actin-driven remodeling, despite a few lineage-specific terms (e.g., megakaryocyte and myelin assembly) that reflect broader roles in specialized cell types. Overall, the cluster seems centered on membrane dynamics and cytoskeleton organization rather than a single narrow function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0031321","count":4},{"id":"GO:0072661","count":4},{"id":"GO:2000786","count":4},{"id":"GO:0014066","count":4}]},{"hash":"693758253046430104","title":"Dopaminergic GPCR Signaling and Sensory Perception","description":"Top GO terms point to adenylate cyclase-activating GPCR signaling, dopamine receptor signaling, prostaglandin response, and Rho signaling, with associations to fear behavior and blood pressure regulation, suggesting neural/autonomic signaling. The presence of visual perception and electron transport chain terms further indicates sensory processing and neural energetics, supporting a theme centered on GPCR-mediated neural signaling and sensory functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001662","count":16},{"id":"GO:0008284","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0035025","count":16},{"id":"GO:0071380","count":16}]},{"hash":"1099269954976429922","title":"Developmental signaling and differentiation","description":"The cluster shows enrichment for multiple development-related processes (embryonic hematopoiesis, multicellular organism development, neuron projection development, lens fiber cell differentiation, skeletal system development) along with regulation of signaling pathways (Rho and ERK cascades). The presence of RNA and histone methylation terms suggests epigenetic regulation accompanying differentiation. Taken together, these proteins likely function in developmental signaling and cell differentiation programs.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043303","count":2},{"id":"GO:0018026","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0035162","count":2}]},{"hash":"656826127448468337","title":"Organ Development and Patterning","description":"This cluster centers on developmental processes and body plan formation, including left-right patterning, heart/endochondral cushion-type development, skeletal muscle development, and endocrine system development. While some terms reflect general cellular regulation (e.g., ubiquitination, splicing), the core signal points to organogenesis and patterning rather than a single specific pathway. Confidence: Medium.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070294","count":6},{"id":"GO:0031397","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0014065","count":3},{"id":"GO:0003198","count":3}]},{"hash":"830279418655099726","title":"Wnt signaling and telomere maintenance regulators","description":"The top GO terms point to two dominant themes: activation of the Wnt signaling pathway and regulation of telomere maintenance and localization to telomeric regions. Additional terms involve protein ADP-ribosylation, spindle assembly, calcium signaling, and synaptic plasticity regulation, suggesting a broader role in signaling and genome stability. Overall, the cluster seems best described by a combination of Wnt signaling involvement and telomere/chromatin-associated regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:0070198","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0070213","count":4}]},{"hash":"1186904001669823466","title":"Cardiac development and actin cytoskeleton dynamics","description":"This cluster shows strong signals for heart development, cell migration, and actin filament bundle assembly, suggesting a cardiac morphogenesis role tied to cytoskeletal remodeling; epithelial polarity and kinase regulation terms imply broader tissue organization and signaling during development.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0051017","count":6},{"id":"GO:0090162","count":5},{"id":"GO:0007205","count":5}]},{"hash":"978696763314876943","title":"Integrin signaling and cell adhesion in development","description":"This cluster is dominated by GO terms related to cell\u2013cell and cell\u2013matrix adhesion (leukocyte adhesion, focal adhesion assembly) and integrin-mediated signaling, paired with broader signal transduction and developmental growth terms (glomerulus and cerebral cortex development, organismal growth). A necrosis-related term appears less central. Thus, the core theme is adhesion-mediated signaling tied to developmental processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902445","count":3},{"id":"GO:0007159","count":2},{"id":"GO:0051000","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007165","count":2}]},{"hash":"1623905597424765226","title":"Ubiquitin-Dependent Proteolysis & Transcription Regulation","description":"The top GO terms point to deubiquitination activities (K48-, K11-linked, and monoubiquitinated substrates) and ubiquitin-dependent protein catabolic processes, indicating a cluster enriched for deubiquitinases and proteolysis regulation. The presence of DNA-templated transcription and its regulation suggests these proteins may also influence transcription, possibly through ubiquitin-mediated control of transcription factors. Overall, the cluster seems centered on ubiquitin signaling governing protein turnover, with a secondary link to transcriptional regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071108","count":7},{"id":"GO:0006511","count":7},{"id":"GO:0006351","count":5},{"id":"GO:0010951","count":5},{"id":"GO:0045087","count":4}]},{"hash":"620122240039682997","title":"Mitogenic signaling and cell-cycle control","description":"The cluster heavily features terms related to the mitotic cell cycle and positive regulation of proliferation, along with regulation of serine/threonine kinase and GTPase activities, nfAT signaling, and stress responses (hypoxia, glucocorticoids), suggesting a cohesive module of proliferative signaling and cell-cycle control rather than a single process.","confidence":"High","size":26,"edges":177,"triangles":444,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0051028","count":10},{"id":"GO:0031954","count":10},{"id":"GO:0008284","count":10},{"id":"GO:0071902","count":10}]},{"hash":"775320083407945349","title":"Neural development and histone acetylation","description":"The cluster is enriched for brain/forebrain development and sensory organ precursor fate terms, alongside several histone acetylation terms, suggesting proteins involved in chromatin modification that regulate neural development; additional developmental and cell cycle-related terms may reflect broader roles in neurogenesis and morphogenesis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043982","count":4},{"id":"GO:0043981","count":4},{"id":"GO:0043966","count":4},{"id":"GO:0007275","count":3},{"id":"GO:2000601","count":3}]},{"hash":"2076105443042336733","title":"Rac-driven actin remodeling and cell migration","description":"The top GO terms cluster around actin cytoskeleton dynamics and protrusive structures (lamellipodium and filopodium assembly, actin crosslinking and filament bundling) along with cell movement processes (fibroblast migration, ruffle formation) and Rac signaling. This points to a cohesive theme of Rac-mediated actin remodeling driving migratory protrusions, with insulin signaling and SMAD notes being ancillary. A concise label reflecting actin dynamics and migration fits best.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051764","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0016601","count":4},{"id":"GO:0007182","count":4},{"id":"GO:0007026","count":4}]},{"hash":"2203982775962503007","title":"Angiogenic and immune signaling","description":"The cluster is enriched with VEGF and PDGF receptor signaling and ERK cascade terms, indicating angiogenic signaling, along with immune-related terms like neutrophil chemotaxis and adaptive immune response. Calcium release regulation and responsiveness to glucose stimulus suggest broader signaling integration that ties metabolic cues to vascular and immune functions. Together, these terms point to a cohesive theme of angiogenesis linked with inflammatory/immune signaling.","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071333","count":9},{"id":"GO:0045766","count":9},{"id":"GO:0051281","count":9},{"id":"GO:0030593","count":8},{"id":"GO:0048010","count":8}]},{"hash":"865621345894933495","title":"Wnt/Hippo Signaling and Differentiation","description":"These terms point to signaling pathways that govern cell fate and differentiation, especially Wnt signaling and Hippo pathway activity, with keratinocyte differentiation and apoptosis as representative processes. While other terms reflect broader signaling roles (neuronal morphogenesis, immune signaling), the core theme is developmentally relevant signal transduction driving differentiation.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":21},{"id":"GO:0060044","count":20},{"id":"GO:0035329","count":20},{"id":"GO:0030216","count":20},{"id":"GO:0006915","count":20}]},{"hash":"1756902302590693068","title":"Rho GTPase signaling cluster","description":"Top GO terms indicate a cohesive link to Rho GTPase activity and signaling (activation and regulation of Rho; Rho-mediated signal transduction), suggesting the proteins largely participate in cytoskeletal regulation and related signaling. While some terms touch on transcription and vesicle formation, the strongest common thread centers on Rho GTPase pathways.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0070676","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1129375089624273830","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000447","count":13},{"id":"GO:0000472","count":13},{"id":"GO:0000480","count":13},{"id":"GO:0034316","count":10},{"id":"GO:0000278","count":9}]},{"hash":"1033045341272977278","title":"TGF-\u03b2/SMAD Developmental Signaling","description":"The dominant signals are TGF-\u03b2 receptor signaling and SMAD complex assembly, indicating a core TGF-\u03b2/SMAD pathway role in embryonic development. This aligns with downstream processes like neural crest differentiation, gastrulation, and ventral identity, as well as osteoblast development and transcriptional regulation. Other terms (miRNA transcription regulation, IL-6 signaling) suggest auxiliary interactions rather than core function, so the primary theme is TGF-\u03b2/SMAD\u2013driven developmental signaling.","confidence":"High","size":26,"edges":194,"triangles":662,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":16},{"id":"GO:0007179","count":16},{"id":"GO:0006351","count":14},{"id":"GO:2000791","count":11},{"id":"GO:0002076","count":11}]},{"hash":"1862698207361601973","title":"Craniofacial morphogenesis and neural crest development","description":"GO terms cluster around head and facial structure formation (roof of mouth, cranial skeleton, tooth odontogenesis, pharyngeal system) and neural crest migration, with additional head/brain-related terms (midbrain, inner ear) indicating a broader craniofacial-neural development program.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0060021","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0048839","count":8},{"id":"GO:0048701","count":7}]},{"hash":"1626265618366223284","title":"Neural regulation of pain and cardio-renal function","description":"Top GO terms emphasize neural signaling (sensory pain, dopaminergic synaptic transmission, behavioral responses to cocaine, temperature response) and autonomic/cardio-renal processes (blood pressure regulation, renal sodium excretion, heart development, thermogenesis). This pattern suggests a cohesive theme of neural control linking sensory and reward pathways with cardiovascular and renal regulation, justifying a name focused on neural regulation of pain, metabolism, and cardio-renal function.","confidence":"High","size":26,"edges":27,"triangles":6,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":20},{"id":"GO:0002024","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0071502","count":19},{"id":"GO:0008542","count":18}]},{"hash":"167762235126913294","title":"GPCR-cAMP Thermogenic Signaling","description":"Top GO terms indicate strong emphasis on diet-induced thermogenesis and cellular responses to temperature, supported by multiple entries for GPCR-mediated activation of adenylate cyclase (including dopamine and prostaglandin E pathways). The presence of electron transport chain terms links this to energy metabolism, while proliferation and blood pressure terms reflect broader physiological regulation. Together, these terms point to a cluster of proteins involved in energy expenditure and thermogenic signaling via GPCR-cAMP pathways.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0071502","count":22},{"id":"GO:0007190","count":20},{"id":"GO:0045777","count":20}]},{"hash":"901780465399137274","title":"Vertebrate organogenesis and tissue morphogenesis","description":"A set of GO terms is dominated by multicellular organism development, with specific references to inner ear development, outflow tract morphogenesis (heart development), ossification for bone maturation, and skin development, plus regulation of atrial cardiac muscle cell action potential. This pattern points to proteins involved in organ and tissue formation across vertebrates, rather than a single pathway, justifying a label focused on organogenesis and morphogenesis. Some terms (e.g., sensory perception of pain) may reflect broader roles but do not override the overall developmental theme.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":15},{"id":"GO:0019233","count":13},{"id":"GO:0006349","count":11},{"id":"GO:0048839","count":11},{"id":"GO:0014850","count":10}]},{"hash":"1844762842481651804","title":"Adaptive Immune Activation and Complement Pathway","description":"The top GO terms cluster around adaptive immune signaling and the complement system, including positive regulation of T and B cell activation, IL-17 and IL-1\u03b2 production, and classical complement activation, indicating a defense and inflammation-focused function. There is also a broader xenobiotic response and Gram-positive defense component, reinforcing an immune context. An apparent outlier term on neuron projection development likely reflects noisy annotations rather than a true cluster theme, so the dominant signal remains immune activation and complement activity.","confidence":"High","size":26,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010977","count":23},{"id":"GO:0042493","count":23},{"id":"GO:0050830","count":22},{"id":"GO:0032620","count":22},{"id":"GO:0050690","count":22}]},{"hash":"332458843446348542","title":"Immune Activation and Antigen Presentation","description":"The GO terms cluster around immune cell functions: NK cell activation, mast cell and CTL degranulation regulation, antigen processing and presentation via MHC I, neutrophil clearance, and cytokine production. These indicate a cluster centered on initiation and modulation of immune responses and intercellular signaling. The accompanying axon extension/guidance terms may reflect shared signaling pathways, but the dominant theme is immune activation and antigen processing. ","confidence":"High","size":26,"edges":310,"triangles":2287,"max_degree":25,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043318","count":24},{"id":"GO:0043303","count":24},{"id":"GO:0042590","count":24},{"id":"GO:0030101","count":24},{"id":"GO:0097350","count":24}]},{"hash":"2022931937202423465","title":"Adhesion and signaling in development and immunity","description":"The GO terms show strong signals for cell-cell adhesion (heterophilic adhesion; AV node adhesion), tissue remodeling and development (ossification, angiogenesis, synapse organization, axon regeneration), and immune modulation (innate immune response; regulation of T cell degranulation; host-symbiont interactions). This points to a theme of adhesion-driven signaling coordinating development, tissue remodeling, and immune interactions, rather than a single precise function. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0050808","count":9},{"id":"GO:0046718","count":9}]},{"hash":"47889055561658038","title":"Neuronal synapse formation and axon guidance","description":"The top GO terms cluster around neural connectivity: dendritic spine morphogenesis, positive regulation of glutamatergic synaptic transmission, synapse assembly, CNS projection neuron axonogenesis, and retinal ganglion cell axon guidance. Collectively, these indicate processes governing synapse formation and axon pathfinding in neurons, despite some broader developmental terms like angiogenesis and fibrinolysis that may reflect general ECM remodeling. Overall, the label captures the primary function suggested by the cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060997","count":5},{"id":"GO:0051968","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0033628","count":4}]},{"hash":"325755219846194988","title":"RNA splicing regulation and translation initiation","description":"This cluster is rich in GO terms for mRNA splicing (spliceosome, splice site recognition, positive/negative regulation of splicing) and regulation of mRNA stability, plus translation initiation components (eIF4F complex assembly, IRES-dependent initiation) and regulatory ncRNA-mediated silencing, indicating a cohesive theme around RNA processing with linked control of translation initiation. ","confidence":"High","size":26,"edges":222,"triangles":862,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":18},{"id":"GO:0010610","count":17},{"id":"GO:0045292","count":17},{"id":"GO:0048025","count":16},{"id":"GO:0031047","count":16}]},{"hash":"510171048227866872","title":"Cerebellar neuron and Bergmann glia development","description":"The cluster shows strong enrichment for cerebellum-related terms, including cerebellar cortex formation, Bergmann glial cell differentiation, neuron development, and regulation of axon regeneration, indicating a focus on cerebellar neuron\u2013glia maturation and signaling. Additional terms related to insulin signaling and protein dephosphorylation suggest broader modulation of signaling pathways that may operate in cerebellar cells. Overall, the core theme points to cerebellar development and neuron\u2013glia interactions.","confidence":"High","size":26,"edges":196,"triangles":691,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035335","count":11},{"id":"GO:0008286","count":10},{"id":"GO:0021697","count":10},{"id":"GO:0050852","count":10},{"id":"GO:0060020","count":10}]},{"hash":"1201245818536647318","title":"Unknown","description":"These proteins show a highly diverse set of GO terms, spanning brain development, lipid and vitamin biosynthesis, antibiotic biosynthesis, B cell homeostasis, immune signaling, and general signal transduction (GTPase activity and ERK cascade). There isn\u2019t a single cohesive biological theme uniting these terms for this cluster, suggesting either multifunctional annotations or noise, so a concise, representative label cannot be confidently assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0019433","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0017000","count":4}]},{"hash":"915899049359627700","title":"Diverse lipid, pigment, and hormone biosynthesis","description":"The proteins map to multiple biosynthetic processes: lipid (very long-chain fatty acids), pigment (melanin), hormone (estrogen), and cofactor (tetrahydrobiopterin) biosynthesis, plus retinal metabolism and development-related terms, indicating a broad metabolism-focused cluster rather than a single pathway.","confidence":"Medium","size":26,"edges":124,"triangles":229,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":20},{"id":"GO:0055114","count":18},{"id":"GO:0031427","count":17},{"id":"GO:0006703","count":17},{"id":"GO:0006729","count":17}]},{"hash":"1317860332214972234","title":"Unknown","description":"This set shows a mix of lipid metabolism (triglyceride catabolic process, endocannabinoid signaling), immune and cell interaction terms (T cell costimulation, cell adhesion, symbiont entry into host cell), detoxification/response to toxins, and even plant-specific processes (strigolactone biosynthesis). There isn\u2019t a single coherent biological theme uniting most terms, so a concise, representative label isn\u2019t apparent.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0019433","count":11},{"id":"GO:0031295","count":11},{"id":"GO:2000124","count":10},{"id":"GO:0007155","count":10},{"id":"GO:0098869","count":10}]},{"hash":"1908761190624768413","title":"Glutamatergic Synapse Signaling and MAPK Cascades","description":"The cluster is dominated by GO terms for excitatory synaptic function (glutamatergic transmission, excitatory postsynaptic potential, receptor clustering, visual learning), pointing to glutamatergic synapses and plasticity. It also includes MAPK-related terms (ERK1/ERK2 cascade, p38MAPK cascade) and PMA response, suggesting signaling at synapses via MAPK pathways; the GM-CSF stimulus term appears peripheral noise rather than core function.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":5},{"id":"GO:1900153","count":3},{"id":"GO:0035249","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0060079","count":3}]},{"hash":"508393680255458428","title":"DNA replication and cell cycle cluster","description":"The dominant GO terms point to DNA-level processes (DNA-templated transcription, DNA replication) and mitotic cell cycle events (mitotic cycle, cytokinesis), with SOS response indicating DNA damage repair. Together they suggest a cluster enriched for DNA replication and cell-cycle regulation proteins, with some incidental stress-response annotations (antibiotic/xenobiotic transport).","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0006855","count":3}]},{"hash":"1936572035666623477","title":"Fatty acid oxidation and carbohydrate metabolism","description":"This cluster is dominated by terms related to lipid catabolism and fatty acid oxidation (fatty acid beta-oxidation, acyl-CoA and fatty-acyl-CoA biosynthesis, carnitine biosynthesis) along with glycogen biosynthesis, indicating a coherent energy metabolism program that intertwines lipid and carbohydrate pathways; additional terms for leucine catabolism and development (liver/post-embryonic development) suggest metabolic maturation and tissue-specific energy handling. There is one outlier term (dibenzothiophene catabolic process) that appears unrelated and may reflect annotation noise.","confidence":"Medium","size":26,"edges":119,"triangles":226,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006552","count":6},{"id":"GO:0005978","count":5},{"id":"GO:0033539","count":5},{"id":"GO:0051793","count":5},{"id":"GO:0009409","count":5}]},{"hash":"856953703789647024","title":"Glial and neuronal migration in CNS development","description":"The dominant GO terms point to central nervous system development, glial cell migration, neuronal migration, adherens junction organization, and neuronal\u2013glial adhesion, with related processes like cell-cell adhesion and glutamate secretion, suggesting a cohesive role in glia\u2013neuron interactions during CNS formation. Some terms are labeled obsolete, but the core signal supports a CNS development/migration/adherence theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060487","count":4},{"id":"GO:0006461","count":4},{"id":"GO:0030259","count":4},{"id":"GO:0097477","count":3},{"id":"GO:0021813","count":3}]},{"hash":"1388324897763672164","title":"Multisystem developmental morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple tissues (heart, bone/ossification, photoreceptor morphogenesis, substantia nigra development) with supporting signaling and regulatory processes (Rho signaling, dephosphorylation, NF-kappaB). This points to a broad theme of developmental morphogenesis rather than a single specific pathway, hence a multisystem developmental morphogenesis label. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0006470","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":3}]},{"hash":"742272650369097276","title":"Developmental Transcription and Morphogenesis","description":"The top terms point to neural development and various organ morphogenesis, plus DNA-templated transcription, suggesting the proteins participate in broad developmental regulation across multiple tissues rather than a single pathway. This justifies a label centered on developmental processes and transcriptional control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031175","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0045773","count":4},{"id":"GO:0021772","count":3},{"id":"GO:0003203","count":3}]},{"hash":"2028024866747086293","title":"Telomere maintenance and chromosome localization regulators","description":"The cluster is enriched for telomere- and chromosome-related processes (telomere maintenance via telomerase, telomere capping, and localization to telomere regions, plus spindle assembly), with additional hints of chromatin modification from auto- and poly-ADP-ribosylation terms. Some terms (Wnt signaling, heat response, synaptic receptor localization) appear peripheral and may reflect broader annotations rather than core cluster function. Overall, it points to roles in telomere/chromosome regulation and chromatin dynamics.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":5},{"id":"GO:0070198","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0070213","count":4},{"id":"GO:1900383","count":4}]},{"hash":"819895709513087678","title":"Neural development and signaling","description":"The top GO terms are dominated by neural-related processes (striatum development, neuron death regulation, morphine response) and neural signaling aspects, with additional but weaker ties to general development and cell cycle processes. This suggests a cluster enriched for neural development and signaling roles, though some terms reflect broader development or unrelated processes, hence a moderate level of confidence.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0021756","count":7},{"id":"GO:0070301","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0043278","count":7}]},{"hash":"1070512075029357595","title":"Inner ear development and auditory response","description":"The cluster is most strongly tied to hearing-related biology: GO terms for inner ear receptor cell development and response to auditory stimulus appear among the top terms. While other terms indicate metabolism and general transport, the two auditory terms suggest a core function in the auditory system. The miscellaneous terms may reflect broader cellular processes present in many proteins.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0009103","count":7},{"id":"GO:0006564","count":7},{"id":"GO:0055114","count":7},{"id":"GO:1903515","count":5},{"id":"GO:0010996","count":5}]},{"hash":"1662033836734783575","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0000480","count":5},{"id":"GO:2000601","count":4},{"id":"GO:0060041","count":4}]},{"hash":"600401704937583202","title":"Neuronal development and microtubule regulation","description":"The top GO terms cluster around neuronal development (neuron development, dentate gyrus development, thigmotaxis) and microtubule cytoskeleton regulation (alpha-tubulin acetylation, regulation of microtubule cytoskeleton organization), suggesting a shared role in neural differentiation and cytoskeletal dynamics. Some terms about organelle organization (nuclear pore complex assembly, ER tubular network formation, ER-dependent peroxisome organization) may reflect broader cellular context but do not overwhelm the neural/cytoskeletal theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051292","count":3},{"id":"GO:0071929","count":2},{"id":"GO:0070507","count":2},{"id":"GO:0045598","count":2},{"id":"GO:0001966","count":2}]},{"hash":"1758356907922986563","title":"Chromatin Regulation and ER-Golgi Vesicle Transport","description":"The cluster shows enrichment for transcription regulation and cell-cycle-related chromatin processes (DNA-templated transcription, histone modification, mitotic cell cycle), suggesting a core theme in chromatin regulation. In addition, vesicle trafficking between the ER and Golgi is represented, along with ion transport terms, indicating accompanying membrane trafficking and homeostasis roles. This combination points to chromatin-level regulation as the primary theme with a secondary association to ER-Golgi trafficking.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043981","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4}]},{"hash":"679164320948581085","title":"Embryonic neural development and morphogenesis","description":"The top GO terms point to embryonic development and nervous system morphogenesis (in utero embryonic development, ventral spinal cord development, branching morphogenesis of a nerve), with supporting signals from transcription regulation and cell cycle control. Additional terms like smooth muscle development and calcium signaling align with broader developmental processes and tissue differentiation, but the neural/morphogenetic theme is most prominent. ","confidence":"Medium","size":26,"edges":27,"triangles":2,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006970","count":4},{"id":"GO:0001701","count":3},{"id":"GO:0007050","count":3},{"id":"GO:0021517","count":3},{"id":"GO:0048745","count":3}]},{"hash":"1321769605078518125","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms tied to embryogenesis and organ formation across multiple tissues, including heart development (epithelial-to-mesenchymal transition in the endocardial cushion), left-right patterning, palate (roof of the mouth) development, placenta/t trophoblast differentiation, and endocrine/ pancreatic lineage development. There is also mention of transcriptional regulation and nuclear export processes that support developmental gene expression, suggesting a shared role in coordinating tissue morphogenesis during embryonic development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":21},{"id":"GO:0035270","count":21},{"id":"GO:0060972","count":21},{"id":"GO:0060707","count":21},{"id":"GO:1903026","count":21}]},{"hash":"228931326570654783","title":"Vertebrate development and innate immunity","description":"The proteins show enrichment for developmental processes (lens fiber differentiation, midbrain and inner ear development) alongside innate immune activities (complement pathway, defense against Gram-positive bacteria, phagolysosome assembly) and signaling (TGF-beta). This suggests a cluster where developmental programs intertwine with immune functions.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0070306","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0030901","count":6}]},{"hash":"1804979400015582525","title":"Sensory neuron and hair cell development","description":"The Top Terms show clear emphasis on sensory-related development (positive regulation of synapse assembly, neuromast hair cell development) and neural differentiation, suggesting a cluster of proteins involved in sensory neuron/hair cell formation and synapse establishment. Additional terms touching membrane transport and energy metabolism may underlie supporting cellular processes but do not override the sensory development signal.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0042777","count":3},{"id":"GO:0035675","count":3},{"id":"GO:0007034","count":3},{"id":"GO:0015991","count":3}]},{"hash":"1806987116791170924","title":"Embryogenesis and Tissue Morphogenesis","description":"The top GO terms predominantly point to developmental processes\u2014embryonic development, left-right patterning, organ and tissue formation (heart, placenta, cartilage, pancreas), and epithelial differentiation/polarity. This suggests the cluster centers on embryonic development and tissue morphogenesis rather than a single biochemical function. A few outliers (e.g., chloroplast protein import) are likely noise or cross-species artifacts, not altering the overall theme. Therefore, a concise label that captures the core function is Embryogenesis and Tissue Morphogenesis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003323","count":8}]},{"hash":"806636488928323746","title":"Rho GTPase\u2013Mediated Synaptic Signaling","description":"The cluster\u2019s top GO terms cluster around regulation of Rho family GTPase activity and related signaling pathways (Rho GPCR/PKC signaling, thrombin receptor signaling), combined with terms tied to synaptic function and plasticity (excitatory postsynaptic potential, receptor localization to synapse, synaptic plasticity). This suggests a cohesive theme of Rho GTPase\u2013driven signaling at synapses affecting plasticity and receptor dynamics.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0031047","count":2},{"id":"GO:0008272","count":2}]},{"hash":"1193132662540664094","title":"Ubiquitin-Proteasome System","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes (ERAD, SCF-proteasome pathways) and various ubiquitination linkages (K48, K63), plus actin ubiquitination and links to immune signaling, pointing to a group centered on ubiquitin-mediated protein degradation and regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0030433","count":10},{"id":"GO:0031146","count":10},{"id":"GO:0000209","count":10},{"id":"GO:0070936","count":10}]},{"hash":"1634517047662763521","title":"Autonomic Neuroendocrine Regulation","description":"The top GO terms point to visceral regulation through neuroendocrine and autonomic signaling, including urine volume, circadian rhythm, gut motility, gastric secretion, and catecholamine signaling affecting vascular tone and blood pressure. The presence of bone remodeling and reproductive processes suggests broad endocrine control of organ function, not a single pathway, supporting a systemic autonomic/neuroendocrine label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":26},{"id":"GO:0022410","count":26},{"id":"GO:0001697","count":26},{"id":"GO:0030432","count":26},{"id":"GO:0007211","count":26}]},{"hash":"1406240635607590347","title":"Ubiquitin-Dependent Protein Turnover and Regulation","description":"Most frequent GO terms center on ubiquitination and proteasomal turnover (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K48- and K33-linked ubiquitination, and negative regulation of protein ubiquitination). A secondary signal is circadian rhythm regulation, which often involves ubiquitin-mediated turnover of clock proteins; the remaining terms may reflect tissue-specific regulatory contexts but do not override the central theme. Confidence in this theme is high.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0042752","count":10},{"id":"GO:0000209","count":8},{"id":"GO:0070936","count":8},{"id":"GO:0072156","count":7}]},{"hash":"1003182657201753033","title":"Neural Development and Axon Guidance","description":"This cluster is driven by nervous system development and axon guidance terms, including axonal fasciculation, semaphorin-plexin signaling, and synapse assembly, with supporting signals related to nerve organization and branchiomotor neuron guidance. Some terms like innate immune response and ossification appear less central but may reflect broader developmental roles of the proteins.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":13},{"id":"GO:0007413","count":11},{"id":"GO:0051965","count":10},{"id":"GO:0014068","count":10},{"id":"GO:0045087","count":9}]},{"hash":"952648811864799351","title":"Unknown","description":"The GO terms span liver apoptosis, pinocytosis, GPCR signaling, chloroplast import, epithelial polarity, vitamin D response, cardiac communication, immune differentiation, and telomeric localization, showing no single cohesive function for the cluster.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":7},{"id":"GO:0048549","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0045038","count":5},{"id":"GO:0090162","count":5}]},{"hash":"1572251570899833161","title":"Cardiac development and embryonic morphogenesis","description":"Based on the top GO terms, the cluster centers on embryonic development with emphasis on heart-related morphogenesis (endocardial cushion EMT, left-right patterning, BMP signaling regulation) and associated processes like endothelial/fibroblast proliferation and apoptosis in morphogenesis; the Fc-epsilon receptor signaling term may reflect broader signaling context but does not override the main theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0038095","count":2},{"id":"GO:0001938","count":2},{"id":"GO:0060561","count":2},{"id":"GO:1902043","count":2}]},{"hash":"1440871949393998999","title":"Innate immune signaling and cell migration","description":"The cluster\u2019s top GO terms cluster around innate immune response, cytokine production (e.g., interleukin-4), and type II interferon signaling, together with small GTPase\u2013mediated signal transduction and regulation of cell migration/spreading. This suggests a cohesive theme where immune signaling pathways coordinate cell movement and adhesion, despite a few outlier terms. Confidence: Medium","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006930","count":3},{"id":"GO:0010288","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060022","count":3},{"id":"GO:0014911","count":3}]},{"hash":"2171828141118410000","title":"Synaptic vesicle exocytosis and neurotransmitter release","description":"The top GO terms are dominated by presynaptic vesicle processes: presynaptic dense core vesicle exocytosis, synaptic vesicle maturation, regulation of synaptic vesicle exocytosis, and neurotransmitter secretion. Additional terms touch on membrane remodeling and cytoskeletal signaling (Rho regulation), which can support vesicle trafficking, as well as membrane repair and other cellular maintenance roles. Overall, the cluster appears to reflect proteins involved in neuronal vesicle trafficking and regulated neurotransmitter release.","confidence":"High","size":25,"edges":172,"triangles":449,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0099525","count":8},{"id":"GO:0031384","count":8},{"id":"GO:0016188","count":8}]},{"hash":"1265337786552083797","title":"Ribosome Biogenesis and Basic Cellular Growth","description":"The top GO terms point to core cellular machinery: ribosome biogenesis, rRNA maturation, DNA replication, and transcription by RNA polymerase II, which together reflect fundamental growth and protein-synthesis capacity. Additional terms for ER\u2013Golgi transport and Golgi ribbon formation suggest involvement of the secretory pathway, while embryonic development terms (placenta, cranial skeleton morphogenesis) and a single immune signaling term (B cell receptor signaling) indicate broad housekeeping and developmental roles rather than a single specialized pathway. Overall, the cluster seems to group proteins tied to essential cellular growth and biosynthetic processes, with some outliers. ","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0045944","count":3}]},{"hash":"2245884031520709154","title":"Collagen biosynthesis and vascular remodeling","description":"Based on the GO terms, the strongest signals are collagen fibril organization and collagen biosynthetic process, pointing to extracellular matrix production. Coupled with renin-angiotensin regulation affecting aldosterone, plus coagulation and smooth muscle migration terms, the cluster seems focused on cardiovascular tissue remodeling and ECM dynamics, with some broader stress/xenobiotic response signals.","confidence":"Medium","size":25,"edges":26,"triangles":11,"max_degree":8,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0002018","count":8},{"id":"GO:0030199","count":6},{"id":"GO:0032964","count":6},{"id":"GO:0042756","count":6},{"id":"GO:0035690","count":6}]},{"hash":"1829720814566546198","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development, hippocampus development, dendrite morphogenesis, excitatory postsynaptic potential, and axon extension, pointing to neural development and synaptic function. Additional terms like cellular response to dopamine and regulation of JNK cascade/peptidyl-serine phosphorylation suggest signaling pathways that modulate neuronal differentiation and synaptic plasticity. The mitotic cell cycle term may reflect progenitor proliferation but does not override the neural-centric theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":23},{"id":"GO:0048813","count":22},{"id":"GO:0031647","count":22},{"id":"GO:1903351","count":22},{"id":"GO:0046330","count":22}]},{"hash":"425261868248810521","title":"Planar polarity signaling and axon guidance","description":"The top GO terms cluster around planar cell polarity features (planar orientation, PCP pathway) and cell\u2013cell adhesion, with multiple neuron axon guidance terms (serotonergic and dopaminergic) and organ morphogenesis, suggesting proteins coordinating planar polarity with directed neurite growth and adhesion.","confidence":"High","size":25,"edges":149,"triangles":406,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":24},{"id":"GO:0036515","count":23},{"id":"GO:0048105","count":23},{"id":"GO:1904938","count":23},{"id":"GO:0007156","count":23}]},{"hash":"1455324824516488718","title":"Unknown","description":"The top GO terms span chromatin organization, various metabolic pathways, and distinct developmental processes (plants and potentially other organisms), with no clear, single functional theme tying them together. This makes it hard to assign a precise, representative label with confidence.","confidence":"","size":25,"edges":22,"triangles":6,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006348","count":10},{"id":"GO:0001525","count":9},{"id":"GO:0018003","count":9},{"id":"GO:2000025","count":7},{"id":"GO:0019491","count":7}]},{"hash":"731110784137873021","title":"Innate Immune and Epithelial Stress Responses","description":"This cluster centers on innate immune sensing (innate immune response; NOD1/2 signaling; IL-1 response), apoptotic and oxidative stress pathways (extrinsic apoptosis, cellular response to hydrogen peroxide), and gastrointestinal epithelium maintenance (Wnt signaling), suggesting a gut epithelial defense/stress module.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0030277","count":3},{"id":"GO:0070301","count":3}]},{"hash":"1597613082937279765","title":"Developmental signaling and morphogenesis","description":"The most represented terms are related to morphogenesis (dendrite morphogenesis; embryonic cranial skeleton morphogenesis) and signaling pathways (positive regulation of canonical Wnt signaling; ephrin receptor signaling). Although some terms touch on cell cycle and DNA replication, the dominant theme is developmental signaling and morphogenetic processes, suggesting these proteins function together in development rather than a single, narrow pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":18},{"id":"GO:0048813","count":17},{"id":"GO:0090263","count":17},{"id":"GO:0043552","count":17},{"id":"GO:0048701","count":17}]},{"hash":"1032994921327348234","title":"RNA Splicing and Translation Regulation","description":"This cluster centers on post-transcriptional control of gene expression, with strong signals for mRNA splicing by the spliceosome and for steps in translation initiation and reinitiation. The presence of regulatory ncRNA-mediated silencing and stress-related mRNA stability regulation suggests coordinated RNA processing and translation regulation, potentially including viral translation mechanisms such as IRES-dependent initiation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":11},{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9}]},{"hash":"612819255489566533","title":"Regulatory Signaling and Trafficking","description":"This cluster is dominated by terms related to signaling and membrane trafficking, such as receptor recycling, regulation of Hippo signaling, positive regulation of GTPase activity, and presynapse assembly, suggesting a core theme of regulatory signaling and vesicle trafficking. The presence of other terms like visual perception and mitotic cell cycle appears as broader or contextual annotations, but the strongest, recurring feature is regulation of signaling pathways and trafficking processes. Confidence: Medium","confidence":"","size":25,"edges":264,"triangles":1690,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":25},{"id":"GO:0000278","count":25},{"id":"GO:0072356","count":23},{"id":"GO:0042068","count":23},{"id":"GO:0001881","count":23}]},{"hash":"2023963086747576880","title":"Innate Immunity and Neural Development","description":"The top GO terms show strong enrichment for innate immune processes (complement activation, innate immune response, phagocytosis recognition) and cell\u2013cell adhesion, with additional signals for nervous system development and synapse formation. This suggests proteins involved in immune recognition and adhesion that can also participate in neural development or neuron\u2013glia interactions, with some bone-related development signals as a secondary note.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0006910","count":7}]},{"hash":"2075688214850171419","title":"Calcium-Dependent Autophagy and NFAT Signaling","description":"Top terms cluster around autophagy (aggrephagy; negative regulation of autophagosome maturation) and calcium-dependent signaling (cellular response to calcium ion; calcineurin-NFAT pathway), with a few development-related terms that may reflect broader Ca2+-regulated processes. This suggests a functional theme centered on calcium-regulated autophagy and NFAT signaling, justifying the label.","confidence":"Medium","size":25,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035973","count":7},{"id":"GO:1901097","count":6},{"id":"GO:0010216","count":6},{"id":"GO:0070886","count":6},{"id":"GO:1902896","count":5}]},{"hash":"934765535744687531","title":"Neuronal differentiation and ER-Golgi transport","description":"This cluster\u2019s top GO terms include neuron differentiation and responses linked to nervous system signaling (neuron differentiation; response to morphine; response to lead ion) along with a strong signal for intracellular trafficking (endoplasmic reticulum to Golgi vesicle-mediated transport). These together suggest a theme centered on neuronal development and the secretory pathway required for neuron function. Some terms relate to cell cycle or nuclear processes, which are less dominant in the set, but the dominant pattern appears to be neural differentiation paired with vesicle transport in the secretory pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030182","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0010288","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0055114","count":4}]},{"hash":"2041123595781264927","title":"Autonomic neuroendocrine regulation of visceral physiology","description":"This cluster centers on GO terms related to neuroendocrine and autonomic signaling affecting visceral functions: regulation of urine volume, circadian sleep/wake cycles, gut motility (peristalsis), gastric acid secretion, and vascular tone via catecholamine pathways (dopamine receptor signaling, norepinephrine/epinephrine-mediated vasodilation, octopamine/tyramine signaling). The mix of digestion, circulation, and rhythmic processes suggests a common theme of systemic autonomic/neuroendocrine control of organ physiology, though one term about immune cell differentiation is less directly aligned, lowering the certainty slightly.","confidence":"Medium","size":25,"edges":296,"triangles":2211,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":23},{"id":"GO:0022410","count":23},{"id":"GO:0001697","count":23},{"id":"GO:0030432","count":23},{"id":"GO:0007211","count":23}]},{"hash":"1186055827611670577","title":"Digestive secretion and gut motility with circadian regulation","description":"The top GO terms cluster around digestive system functions: saliva secretion, gastric acid secretion, and peristalsis, with circadian regulation highlighted by the sleep/wake cycle term. These indicate a theme of digestive secretory/motility processes coordinated with circadian timing. A few terms represent broader systemic regulation (urine volume, immune and skeletal remodeling, reproduction), but the dominant signal is GI secretion and motility linked to circadian control.","confidence":"Medium","size":25,"edges":283,"triangles":1948,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":23},{"id":"GO:0035810","count":22},{"id":"GO:0022410","count":22},{"id":"GO:0001697","count":22},{"id":"GO:0030432","count":22}]},{"hash":"1983429865588026334","title":"GPCR Signaling and Inflammatory Response","description":"The GO terms are dominated by adenylate cyclase-activating GPCR signaling and downstream GTPase/Rho regulation, along with inflammatory and immune response terms (LPS, morphine). This pattern points to a cluster of proteins involved in GPCR-driven vascular and immune signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0035025","count":15},{"id":"GO:0007190","count":14}]},{"hash":"1459310465705197740","title":"Dopaminergic neural signaling with temperature and pain responses","description":"Proteins in this cluster are enriched for dopaminergic synaptic transmission, behavioral responses to cocaine, pain perception, and temperature-related responses, along with autonomic processes such as saliva secretion and blood pressure regulation. This points to a brain-centered dopaminergic signaling module linking reward/behavior with thermoregulatory and nociceptive cues.","confidence":"High","size":25,"edges":10,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0008542","count":12},{"id":"GO:0048148","count":12}]},{"hash":"2039693691023985148","title":"GPCR Signaling in Neural and Immune Regulation","description":"The cluster's terms highlight GPCR-mediated signaling (adenylate cyclase-activating) and Rho signaling, along with immune/inflammatory responses (TNF regulation, neutrophil chemotaxis, inflammatory response) and neural processes (visual learning, fear). Together they suggest a theme of signaling pathways that coordinate neural activity and immune responses; the electron transport chain term may reflect general cellular metabolism but is not central to the main theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0035025","count":16},{"id":"GO:0008542","count":12}]},{"hash":"2119959030441201738","title":"Autonomic GPCR Signaling and Metabolic Regulation","description":"The proteins cluster around GPCR-mediated signaling that activates adenylate cyclase, modulates membrane potential, and impacts cardiovascular (blood pressure) and autonomic outputs, with parallel ties to energy metabolism and thermogenic processes (electron transport, thermogenesis, saliva secretion), suggesting a coherent theme of autonomic signaling linked to metabolic regulation.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0007190","count":13},{"id":"GO:0042391","count":13}]},{"hash":"635556802784182560","title":"Neuroendocrine Regulation of Physiology","description":"This cluster appears to group proteins involved in broad neural/hormonal signaling that regulate multiple physiological systems, including kidney urine volume, circadian rhythms, gastric acid secretion, GI motility, vascular tone, bone remodeling, reproduction, and even immune differentiation. The common theme is systemic regulation by neurotransmitters and hormonal signaling rather than a single pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":17},{"id":"GO:0022410","count":17},{"id":"GO:0001697","count":17},{"id":"GO:0030432","count":17},{"id":"GO:0007211","count":17}]},{"hash":"2213567104613754993","title":"Brain-gut neuroendocrine signaling","description":"Most terms point to neural signaling and regulation of gut and circadian physiology (dopamine/PLC signaling, octopamine signaling, circadian rhythm, peristalsis, gastric acid secretion, urine volume) with a touch of brain-function (visual learning). Some items (bone remodeling, T cell differentiation) are less connected, but do not override the central theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":23},{"id":"GO:0040015","count":23},{"id":"GO:0035810","count":22},{"id":"GO:0022410","count":22},{"id":"GO:0001697","count":22}]},{"hash":"1993778999106637640","title":"Inflammation-driven vascular regulation and coagulation","description":"The top GO terms cluster around inflammatory and innate immune responses (inflammatory response, response to lipopolysaccharide), vascular/ smooth muscle regulation (vasoconstriction, negative regulation of smooth muscle contraction, blood coagulation), and temperature-related processes (cellular response to temperature stimulus, diet-induced thermogenesis). Together these suggest a group of proteins linking immune activation to vascular tone and coagulation. Some terms (e.g., sensory perception of pain, visual learning) may reflect annotation noise, but the core theme centers on inflammation and vascular/coagulation regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0008542","count":20},{"id":"GO:0002024","count":20},{"id":"GO:0045986","count":20},{"id":"GO:0007596","count":20}]},{"hash":"1875557453230606465","title":"GPCR Signaling and Physiological Regulation","description":"The terms are dominated by GPCR-related pathways (octopamine/tyramine signaling, dopamine receptor signaling, PLC activation, EGFR transactivation by GPCR signaling) and extend to broad physiological processes commonly modulated by GPCRs across tissues, such as circadian rhythm, digestion (gastric acid secretion, peristalsis), urine volume, bone remodeling, immunity, and reproduction. This pattern suggests a cluster centered on GPCR-mediated signaling that regulates diverse physiological functions, even though some entries are broad or obsolete.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":22},{"id":"GO:0035810","count":20},{"id":"GO:0022410","count":20},{"id":"GO:0001697","count":20},{"id":"GO:0030432","count":20}]},{"hash":"2255607472297955750","title":"GPCR-ERK-Rho Signaling","description":"The top GO terms cluster around intracellular signaling pathways: positive regulation of ERK/MAPK cascade, positive regulation of Rho GTPase signaling, and GPCR-related signaling. Additional terms involve membrane potential regulation, blood pressure, retina development, GTPase activity, and cell proliferation, all of which are commonly downstream or related to signal transduction. An electron transport chain term appears, but the dominant pattern favors signaling, suggesting these proteins are linked to signal transduction and its physiological outputs rather than a single metabolic process.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0070374","count":9},{"id":"GO:0035025","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0010579","count":8}]},{"hash":"2171000091210731771","title":"Inflammatory GPCR signaling and vascular responses","description":"The cluster centers on GPCR-mediated signal transduction (dopamine/prostaglandin signaling) with downstream ERK/Rho pathways, and is enriched for vascular/inflammatory functions (blood coagulation, blood pressure, prostaglandin response, LPS response). This pattern suggests a module of signaling networks linking inflammation to vascular regulation, with the electron transport chain term likely representing ancillary metabolism.  ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035025","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0022900","count":4},{"id":"GO:0010579","count":4}]},{"hash":"913456050548207111","title":"Multi-linkage Deubiquitinases and ERAD","description":"The cluster centers on several GO terms for deubiquitination across multiple ubiquitin linkages (K48, K11, K63, K29, K6) and ubiquitin-dependent protein catabolic processes, plus ERAD-related maintenance of unfolded proteins. This suggests the proteins function as deubiquitinases involved in proteostasis and ubiquitin signaling, with some auxiliary ties to transcription regulation; an outlier term like behavioral fear response may reflect annotation noise. Overall, the set is best described by a common theme of multi-linkage deubiquitination and ERAD-related proteostasis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001662","count":8},{"id":"GO:0071108","count":8},{"id":"GO:0006355","count":8},{"id":"GO:0035871","count":8},{"id":"GO:0070536","count":8}]},{"hash":"1602457595319860449","title":"Epigenetic Regulation of Development","description":"These proteins cluster around transcriptional control and chromatin modification: histone methylation marks (H3K79, H3K4) and DNA-templated transcription, plus development-related processes (forebrain and multicellular development). This suggests a coherent theme of epigenetic regulation of gene expression during development, with some ancillary stress/immune signals. ","confidence":"Medium","size":25,"edges":55,"triangles":142,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0034729","count":10},{"id":"GO:0051568","count":10},{"id":"GO:0050830","count":8},{"id":"GO:0070059","count":8}]},{"hash":"1040709584980138279","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"Most top GO terms center on actin-driven protrusions (lamellipodium and filopodium assembly), adhesion-dependent spreading, and Rho/ARF GTPase signaling, all pointing to cytoskeleton remodeling that drives cell movement and adhesion regulation. The cluster therefore appears to represent actin dynamics and motility rather than a single signaling pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":22},{"id":"GO:0030032","count":22},{"id":"GO:0090630","count":22},{"id":"GO:0032012","count":22},{"id":"GO:1904693","count":22}]},{"hash":"406246944355685791","title":"Spliceosome-driven mRNA processing","description":"GO terms center on mRNA maturation: splicing via the spliceosome, regulation of splicing, splice-site recognition, polyadenylation, and stress-related mRNA stability, with additional notes on viral translation initiation. Together they indicate a protein cluster involved in RNA processing and post-transcriptional regulation.","confidence":"High","size":25,"edges":49,"triangles":87,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:0006378","count":10},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0010610","count":7}]},{"hash":"822341481834856477","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0000447","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0000480","count":5},{"id":"GO:0001649","count":4}]},{"hash":"682472666071065730","title":"Skeletal development and osteoblast differentiation","description":"The cluster shows a cohesive emphasis on bone and skeletal formation: bone development, cranial skeletal system development, osteoblast fate commitment, and podosome assembly (relating to cytoskeletal dynamics in bone remodeling). Growth hormone secretion regulation further ties to bone growth processes. While heart development and brood size regulation appear in the list, the dominant theme is osteogenesis and skeletal maturation, with related cellular remodeling activities.","confidence":"High","size":25,"edges":12,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0071800","count":4},{"id":"GO:0002051","count":4},{"id":"GO:1904179","count":4}]},{"hash":"176525585062345535","title":"Midbrain neural development and dopaminergic differentiation","description":"The top GO terms point strongly to midbrain patterning and neural development (superior colliculus development, zona limitans intrathalamica formation, midbrain dopaminergic neuron differentiation) with supporting cellular processes (GTPase regulation, nuclear import, calcium signaling, cytoskeleton localization). This suggests the cluster represents proteins involved in midbrain neural development and dopaminergic neuron differentiation rather than a general housekeeping set.","confidence":"High","size":25,"edges":260,"triangles":1547,"max_degree":24,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":14},{"id":"GO:0006607","count":14},{"id":"GO:0061380","count":13},{"id":"GO:0022006","count":13},{"id":"GO:1904948","count":13}]},{"hash":"2131240955701383532","title":"Light-Driven GPCR Signaling via cAMP/cGMP","description":"This cluster centers on GPCR-mediated signaling (adenosine receptor pathway) and the production of second messengers cAMP and cGMP, with links to light-responsive (blue light signaling) and forskolin-related transcriptional regulation, suggesting a cohesive GPCR-cAMP/cGMP signaling module activated by light-like cues.","confidence":"High","size":25,"edges":14,"triangles":8,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":19},{"id":"GO:1904322","count":19},{"id":"GO:0001973","count":19},{"id":"GO:0006171","count":19},{"id":"GO:0006355","count":19}]},{"hash":"37416127344047873","title":"Cilium assembly and photoreceptor outer segment localization","description":"Strong representation of non-motile cilium assembly and protein localization to the photoreceptor outer segment, suggesting a theme around ciliary biology and trafficking in photoreceptors. While some terms (cell division, mitotic cell cycle) appear less connected, they may reflect indirect links to cilia dynamics. Overall, the cluster is best described by cilium-related processes and photoreceptor OS targeting.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:1903546","count":5},{"id":"GO:0016570","count":5},{"id":"GO:1905515","count":5},{"id":"GO:0070301","count":5}]},{"hash":"1266903184637940105","title":"Developmental morphogenesis and differentiation","description":"This cluster is enriched for GO terms across multiple developmental and tissue differentiation processes (skeletal system development and morphogenesis, lens fiber cell differentiation, neuron projection development, multicellular organism development) as well as signaling and transcriptional activities linked to development (DNA-templated transcription, TGF-beta response, cell division, and protein interactions). The shared theme is broad developmental programs guiding cell fate and tissue formation, making this a coherent developmental/morphogenesis cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0031175","count":5}]},{"hash":"2248293570831954337","title":"Spermatogenesis and Transcription Regulation","description":"Dominant GO terms point to germ cell development, with spermatogenesis and spermatid development strongly suggesting a focus on male germ cell formation. The accompanying translation and transcription regulation terms (cytoplasmic translation; regulation of transcription initiation; chromatin localization) imply coordinated gene expression control during this development. While there are outliers (defense response, axonogenesis), the core pattern aligns with germ cell maturation requiring tight transcriptional/ translational regulation and chromatin dynamics.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0071169","count":2}]},{"hash":"1964038237181981342","title":"Innate immune response and IFN-\u03b3 signaling","description":"This cluster is dominated by GO terms tied to innate immunity and defense against pathogens, including innate immune response, defense against virus and Gram-positive bacteria, and positive regulation of type II interferon (IFN-\u03b3) signaling, along with cytokine regulation. While there are a few development-related terms (bone development, otolith morphogenesis) and migration-related terms, the strongest signal is immune defense and interferon-driven signaling. Overall, the cluster seems best captured by innate immune response and IFN-\u03b3 signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0060335","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1902745","count":2},{"id":"GO:0050830","count":2}]},{"hash":"2087953814537786133","title":"Translation machinery and translational control","description":"Based on GO terms, the strongest signals are translation (GO:0006412), methionyl-tRNA aminoacylation (GO:0006431), and regulation of translational fidelity (GO:0006450), pointing to components of the protein synthesis apparatus or translation regulation. The other terms (myelination, angiogenesis, ABA signaling, mammary gland involution) are diverse and may reflect multifunctional proteins or annotation noise, but the core suggests a translation-focused cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0006431","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":2}]},{"hash":"1206581142826505083","title":"Dopaminergic Visual Learning and Cocaine Response","description":"Most top terms point to neural and sensory processes, including visual learning, visual perception, dopaminergic synaptic transmission, and cocaine-related behavioral responses. ERK signaling in neurons reinforces a neuronal signaling theme, suggesting proteins involved in dopamine-driven neural processing and drug-associated behavior; a few terms are peripheral (heart development, urine volume, macrophage chemotaxis) but do not dominate the cluster. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":20},{"id":"GO:0048148","count":20},{"id":"GO:0071380","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0001963","count":20}]},{"hash":"468288066657894596","title":"Membrane Transporters and Osmotic Stress Response","description":"This cluster features several GO terms tied to membrane transport (sodium and potassium transmembrane transport, galactose and other substrate transports) and osmotic stress response, suggesting a group of proteins mainly involved in ion balance and nutrient uptake under osmotic challenges. Some terms (like B cell receptor signaling and neurotransmitter loading) are less central and may reflect broader annotations or outliers, but the core theme is transporter activity and osmoregulation. Overall, the label captures the dominant function suggested by the top terms.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0010765","count":3},{"id":"GO:2000251","count":3},{"id":"GO:0034446","count":3}]},{"hash":"1311931742608282659","title":"Developmental patterning and morphogenesis","description":"The top GO terms center on embryonic development, pattern formation, and tissue morphogenesis (left/right patterning, cartilage morphogenesis, organ system development, roof of mouth development, placenta-related differentiation, EMT in heart development), with additional notes on transcription regulation, suggesting a cluster of proteins involved in developmental patterning and morphogenesis across tissues.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":11},{"id":"GO:0003198","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0060806","count":10}]},{"hash":"2009209175311895184","title":"Neural development and cell division","description":"This cluster includes GO terms centered on nervous system development (neuron projection development, neural tube closure, nervous system development) alongside key cell cycle processes (mitotic spindle assembly, homologous chromosome segregation, sister chromatid cohesion). While there are some additional terms related to proteolysis and stress responses, the dominant themes point to roles in neural development and core mitotic mechanisms, suggesting the proteins collectively participate in development and cell division with associated stress signaling. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0045143","count":3}]},{"hash":"666692725209480612","title":"Synapse Formation and Neuromuscular Development","description":"The cluster centers on neural connectivity and muscle development, given strong terms for synapse assembly, brain development, and myoblast fusion, plus glutamatergic transmission. Supporting terms like plasma membrane repair, receptor-mediated endocytosis, and Rho signaling reflect membrane dynamics and cytoskeletal changes common to synapse formation and myogenesis. An outlier plant hormone pathway term likely reflects annotation noise rather than a core function.","confidence":"Medium","size":24,"edges":220,"triangles":1089,"max_degree":23,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007416","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007520","count":6},{"id":"GO:0001778","count":6},{"id":"GO:0048260","count":6}]},{"hash":"2108187240980943770","title":"Adaptive Immune Signaling and Phagocytosis","description":"The terms point to adaptive immune activation (B cell signaling, BCR signaling, T cell proliferation) alongside innate immune processes (complement activation, phagocytosis), as well as cell-cell adhesion and immunological synapse components, indicating a cohesive cluster of proteins involved in immune cell communication and activation.","confidence":"High","size":24,"edges":198,"triangles":813,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":16},{"id":"GO:0050871","count":15},{"id":"GO:0050853","count":15},{"id":"GO:0045087","count":15},{"id":"GO:0006910","count":15}]},{"hash":"1871803861261043448","title":"Neuronal axon domain trafficking and antiviral signaling","description":"The cluster features GO terms tied to axon domain organization and protein localization in paranode/juxtaparanode regions, as well as dense core granule maturation and endosome-to-lysosome transport, pointing to neuronal trafficking and secretory pathways. There are also immune-related terms (virus defense, interferon production, dsRNA response, LPS response, immunoglobulin-mediated response), suggesting an associated antiviral signaling role or shared trafficking mechanisms that connect neuronal function with immune responses.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071205","count":3},{"id":"GO:1990502","count":3},{"id":"GO:0002175","count":3},{"id":"GO:0008333","count":3}]},{"hash":"2028699111229492407","title":"Developmental signaling and morphogenesis","description":"The proteins are enriched in developmental processes (heart, nervous system, skeletal development) and in signaling pathways (Rho-mediated, GPCR acetylcholine signaling) and regulation of calcium-dependent exocytosis, suggesting a role in coordinating morphogenesis through signaling cascades and vesicle trafficking. Some peripheral terms (amino acid starvation response, pseudohyphal growth) are present but do not overturn the central developmental-signaling theme.","confidence":"Medium","size":24,"edges":218,"triangles":1101,"max_degree":23,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007507","count":22},{"id":"GO:0007399","count":22},{"id":"GO:0007124","count":22},{"id":"GO:0045956","count":22},{"id":"GO:0007266","count":22}]},{"hash":"2147203793356140185","title":"Growth factor signaling and cell migration","description":"The top GO terms cluster around signaling pathways triggered by growth factor\u2013related stimuli (insulin, PDGF, retinoic acid), including ERK/MAPK cascade regulation, PI3K activity, calcium release, and STAT tyrosine phosphorylation, plus cell-cell signaling and neutrophil chemotaxis, all pointing to signaling-driven migration responses.","confidence":"High","size":24,"edges":70,"triangles":74,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043552","count":20},{"id":"GO:0032869","count":19},{"id":"GO:0042531","count":19},{"id":"GO:0030593","count":19},{"id":"GO:0007267","count":19}]},{"hash":"2122849102831113365","title":"Meiosis and Nuclear Transport","description":"The cluster centers on meiotic processes (spindle elongation, centromeric cohesion, meiotic cell cycle regulation in oocytes) and nuclear transport (NLS-bearing protein import, nuclear pore assembly), with related signaling and regulatory terms (GTPase activity regulation, TORC1 signaling, mRNA transport). This suggests a cohesive module coordinating meiotic progression with nuclear-cytoplasmic transport and signaling, despite a few outliers like proton transmembrane transport. Confidence: Medium","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0070262","count":8},{"id":"GO:0051754","count":8},{"id":"GO:0051028","count":8},{"id":"GO:0038202","count":8}]},{"hash":"758364416221597221","title":"Cell signaling and cytoskeletal regulation","description":"The cluster shows enrichment for signaling-related GO terms (NF-kappaB transcription factor activity, PI3K-related signaling), regulation of receptor-mediated endocytosis, and cytoskeletal control (Rho signaling, cell spreading). While bone mineralization and host interaction terms appear, the common theme across proteins is intracellular signaling coupled with cytoskeletal dynamics and membrane trafficking, rather than a single specialized function. Confidence reflects a plausible, but not exclusive, grouping around signaling and cytoskeletal regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0048260","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0043552","count":5},{"id":"GO:1900159","count":4}]},{"hash":"1586079847681301174","title":"Neuronal vesicle transport and actin remodeling","description":"The cluster\u2019s top GO terms emphasize intracellular transport, anterograde synaptic vesicle transport, neuron projection development, and Arp2/3-mediated actin nucleation, pointing to coordinated vesicle trafficking and cytoskeletal remodeling in neurons. Some older or broader terms (meiotic synaptonemal complex assembly, histone acetylation, imprinting regulation) seem less central and may reflect annotation noise. Overall, the dominant theme is neuronal transport coupled with actin dynamics.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":5},{"id":"GO:0031954","count":3},{"id":"GO:0031175","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0007130","count":2}]},{"hash":"1429156999747543923","title":"Antiviral innate immune signaling and inflammation","description":"The top GO terms point to antiviral defenses and innate immune activation (defense response to virus, cellular response to dsRNA, innate immune response, NF-kappaB signaling, inflammatory response) along with a response to LPS, all suggesting a core theme of antiviral/inflammatory signaling. The presence of a neuronal-related term (glutamatergic synaptic transmission) may reflect cross-talk between immune and nervous systems or shared regulators, but the dominant signal is innate antiviral and inflammatory pathways. Confidence: High","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016525","count":8},{"id":"GO:0051607","count":7},{"id":"GO:0043330","count":7},{"id":"GO:0071222","count":7},{"id":"GO:0043123","count":7}]},{"hash":"1096793560142271596","title":"Ubiquitin-dependent ERAD and ER stress regulators","description":"This cluster\u2019s top GO terms cluster around ubiquitin-related processes\u2014ubiquitin-dependent ERAD, deubiquitination, and autoubiquitination\u2014plus regulation of ER stress-induced apoptotic signaling, pointing to proteins involved in ubiquitin-mediated protein quality control and ER-associated degradation. Additional terms hint at connections to mitochondrial dynamics and transcription regulation, suggesting broader roles in protein homeostasis and stress response. Overall, the common theme is maintenance of protein quality and stress response via ubiquitin signaling, justifying a label centered on ERAD/ubiquitination with stress regulatory functions.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016579","count":7},{"id":"GO:0010636","count":6},{"id":"GO:0051865","count":6},{"id":"GO:1905366","count":6}]},{"hash":"1999396806611779287","title":"Cytoskeletal remodeling and cell migration","description":"This cluster is dominated by GO terms for actin-driven structures and motility: lamellipodium and filopodium assembly, substrate adhesion-dependent cell spreading, and activation of GTPase activity, all pointing to dynamic cytoskeletal remodeling and cell movement. Additional terms related to morphogenesis and signaling pathways (IGF receptor and GPCR signaling) fit into development and motility contexts that rely on cytoskeletal changes. Overall, the common theme is proteins coordinating the cytoskeleton to drive cell spreading, protrusion formation, and migratory behavior. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":16},{"id":"GO:1900026","count":15},{"id":"GO:0090630","count":15},{"id":"GO:1904693","count":15},{"id":"GO:0060313","count":15}]},{"hash":"926808209368019534","title":"DNA replication and transcription regulation","description":"The top GO terms are centered on nuclear genome processes (DNA damage response, DNA replication, transcription termination, RNA processing, and transposable element silencing), suggesting a cluster of proteins involved in genome maintenance and control of gene expression. Some terms relate to calcium/NFAT signaling, but these are less represented, so the main theme remains nuclear genome regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042769","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0006378","count":3}]},{"hash":"1371654031150452765","title":"Immune and vascular development with transcriptional regulation","description":"This cluster is enriched for immune differentiation (macrophage differentiation, myeloid dendritic cell differentiation) and cardiovascular/developmental terms (outflow tract morphogenesis, positive regulation of vascular wound healing), along with transcriptional control (RNA polymerase II transcription, miRNA transcription). The combination points to developmental programs that couple immune lineage specification with vascular/cardiac development, underpinned by transcriptional regulation and signaling responses (calcium, IL-4). ","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:0035470","count":11},{"id":"GO:0003151","count":10},{"id":"GO:0030225","count":10},{"id":"GO:0007296","count":10}]},{"hash":"537659547754165264","title":"Rho GTPase\u2013driven actin remodeling","description":"This cluster is enriched for GO terms involving regulation of Rho protein signal transduction, lamellipodium and filopodium assembly, and small GTPase\u2013mediated signaling, all pointing to actin cytoskeleton remodeling and cell motility. Integrin activation and Ras pathway regulation further support adhesion and signaling linked to cytoskeletal dynamics, while immune signaling terms are present but secondary. Overall, the common theme is Rho-family GTPase\u2013driven actin dynamics.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":17},{"id":"GO:0030032","count":14},{"id":"GO:0046847","count":14},{"id":"GO:0007264","count":13},{"id":"GO:0048009","count":13}]},{"hash":"1906241311694547374","title":"Immune signaling and organogenesis","description":"The top GO terms show strong representation of immune-related activities (complement activation via lectin pathway, basophil activation, regulation of NK cell chemotaxis, cellular response to fungal molecules) alongside developmental processes (mesonephric duct development, metanephric proximal tubule development, cartilage condensation) and related cell adhesion and platelet activation. This mix suggests a cluster of proteins involved in immune signaling as well as organogenesis/remodeling, particularly kidney-related development. The label aims to capture both themes without forcing a single pathway. ","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":22},{"id":"GO:0001867","count":20},{"id":"GO:2000502","count":20},{"id":"GO:0090403","count":19},{"id":"GO:0010572","count":19}]},{"hash":"374730980096144048","title":"Post-transcriptional gene expression regulation","description":"The terms cluster around RNA maturation and processing (mRNA splicing via spliceosome, polyadenylation) and the initiation/termination control of translation (translation initiation regulation, preinitiation complex formation, IRES-dependent translation, translation reinitiation), plus RNA quality control (tRNA surveillance) and regulatory ncRNA-mediated silencing. This points to a cohesive theme of post-transcriptional regulation of gene expression through RNA processing and translation control.","confidence":"High","size":24,"edges":195,"triangles":826,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":11},{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0006378","count":9},{"id":"GO:0006446","count":7}]},{"hash":"2191367358751325933","title":"Plasma membrane transporters for vitamins, xenobiotics, and ions","description":"The top terms are dominated by transmembrane transport across diverse substrates: vitamins, xenobiotics, various ions (potassium, phosphate, selenite), and sugars, plus sodium-dependent organic cation transport. This points to a cluster of plasma membrane transporter proteins with broad substrate specificity, rather than a single substrate class.","confidence":"High","size":24,"edges":223,"triangles":1194,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":23},{"id":"GO:0006855","count":23},{"id":"GO:0042908","count":22},{"id":"GO:0071805","count":21},{"id":"GO:1904728","count":19}]},{"hash":"1000957970766427958","title":"Unknown","description":"The top terms span plant hormone signaling, heart and neural function, development across organisms, and regulation of phosphorylation with no single cohesive biological process linking them, so a specific, representative name cannot be supported. ","confidence":"","size":24,"edges":44,"triangles":24,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":12},{"id":"GO:1903244","count":10},{"id":"GO:0007275","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0009738","count":9}]},{"hash":"1326914074690746654","title":"Innate Immune Response and Neural Development Signals","description":"The Top Terms show strong representation of innate immune defense (innate immune response, defense to virus, defense to Gram-positive bacterium, LPS signaling) and nitric oxide/platelet-related signaling, with additional neural development cues (corpus callosum development, positive regulation of synapse assembly). This suggests a cluster of proteins involved in immune signaling alongside neural development processes, hence the combined label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071372","count":6},{"id":"GO:0045429","count":5},{"id":"GO:0022038","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0051607","count":4}]},{"hash":"754662544310609442","title":"Unknown","description":"The top GO terms span multiple distinct themes (immune activation, vascular/lymphatic development, cartilage and organ development, and stress responses) with no single unifying function, so there isn\u2019t a coherent label that captures the cluster\u2019s overall role.","confidence":"","size":24,"edges":143,"triangles":421,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":12},{"id":"GO:0010572","count":12},{"id":"GO:0071226","count":12},{"id":"GO:0001502","count":12},{"id":"GO:0072177","count":12}]},{"hash":"989687548952534209","title":"Neural crest migration and axon guidance","description":"GO terms cluster around neural crest\u2013derived neuron development and axon pathfinding, including trigeminal nerve organization, branchiomotor neuron axon guidance, sympathetic neuron projection extension and guidance, neural crest cell migration, and semaphorin-plexin signaling in axon guidance. This co-occurrence suggests proteins in this cluster regulate neural crest migration and axon guidance during development. A few immune-related terms (granzyme B production, CD8+ T cell proliferation) appear but are not central to the primary neuronal theme.","confidence":"High","size":24,"edges":57,"triangles":68,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021637","count":15},{"id":"GO:0021785","count":15},{"id":"GO:0097490","count":15},{"id":"GO:0036486","count":15},{"id":"GO:0097491","count":15}]},{"hash":"2091087345143888789","title":"Antigen recognition and lymphocyte activation with phagocytosis","description":"This cluster centers on immune system activation, including innate recognition via phagocytosis, peptidoglycan detection, and complement activation, together with adaptive responses such as T and B cell activation and TNF signaling. The convergence of innate recognition and adaptive immune regulation supports a cohesive theme of antigen-driven immune activation.","confidence":"High","size":24,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0042102","count":12},{"id":"GO:0086072","count":11},{"id":"GO:0043318","count":11}]},{"hash":"84413742210389165","title":"Mitochondrial fission, transport, and metabolism","description":"This cluster centers on mitochondrial dynamics and transport, with terms for mitochondrial membrane fission and permeability, multiple transmembrane transport processes (alpha-ketoglutarate, NAD), and metabolic stress responses (amino acid starvation, insulin/IGF signaling, glucose-stimulated insulin regulation). The combination suggests a coherent mitochondrial-focused program of fission, metabolite transport, and energy/metabolic signaling.","confidence":"High","size":24,"edges":34,"triangles":0,"max_degree":13,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0008637","count":11},{"id":"GO:0090152","count":11},{"id":"GO:0034198","count":11},{"id":"GO:1990314","count":11},{"id":"GO:0015742","count":11}]},{"hash":"1296946885870525262","title":"Lipid metabolism and membrane trafficking","description":"The top terms cluster around lipid-related processes (fatty acid metabolism, diacylglycerol catabolism, cholesterol biosynthesis) and lipid modification (depalmitoylation), alongside regulation of Golgi-to-plasma membrane transport. While there are some diverse terms (xenobiotic response, learning, acetylcholine catabolism), the common thread appears to be lipid remodeling and membrane trafficking, with some signaling/detox connections.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0042997","count":4},{"id":"GO:0002084","count":4},{"id":"GO:0006631","count":4},{"id":"GO:0008285","count":4}]},{"hash":"303384409521576244","title":"Mitochondrial protein import in dopaminergic neurons","description":"The cluster centers on mitochondrial protein handling (import into the matrix and inner membrane) but also shows neural signaling and plasticity terms (dopaminergic synaptic transmission, long-term potentiation) and drug response (cocaine). This suggests a set of mitochondrial functions within neurons that influence dopaminergic signaling and cocaine-related behavioral responses.","confidence":"Medium","size":24,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0000002","count":7},{"id":"GO:0034198","count":6},{"id":"GO:0030150","count":6},{"id":"GO:0045039","count":5},{"id":"GO:0048148","count":4}]},{"hash":"1490617974018183177","title":"Translation Machinery and Translational Regulation","description":"Most GO terms center on translation and how it is regulated (initiation, elongation, termination, cytoplasmic translation, and selenocysteine incorporation). Additional terms relate to how translation is modulated by mRNA decay and cellular stress (response to toxic substances/antibiotics). A peripheral term about glial cell proliferation might reflect context rather than core function. Overall, the cluster coalesces around the machinery of protein synthesis and its regulation. ","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0009636","count":4},{"id":"GO:0001514","count":4},{"id":"GO:0006413","count":4},{"id":"GO:0046677","count":4}]},{"hash":"1627206034959556971","title":"Embryonic development and patterning","description":"Proteins are enriched for GO terms tied to embryogenesis and organogenesis: left-right pattern formation, endocardial cushion EMT, placenta development, pancreatic development, and cartilage morphogenesis, plus trophoblast differentiation. The presence of both positive and negative regulation of transcription by RNA polymerase II suggests core transcriptional control during differentiation. Together these terms point to a cluster of factors involved in early development and tissue patterning, rather than a single mature function. ","confidence":"High","size":24,"edges":15,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0003198","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0035270","count":6}]},{"hash":"1021901613238550632","title":"Ubiquitin-Dependent Proteolysis and Circadian Regulation","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, and specific ubiquitin linkages K48 and K6) along with regulation of circadian rhythm and histone catabolic processes, indicating a core function in targeted protein turnover and chromatin remodeling. Other terms hint at proteostasis-linked roles in stress/immune signaling and neuronal regulation, but the central theme remains ubiquitin-mediated degradation and circadian control.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0036205","count":7},{"id":"GO:0070936","count":7}]},{"hash":"1249408877053682211","title":"Developmental and Pigment Biosynthesis","description":"These proteins cluster around biosynthetic and metabolic processes across diverse tissues, including lipid biosynthesis (fatty acids, methyl-branched, very long-chain), pigment production (melanin), retinal metabolism, and steroid biosynthesis (estrogen), with an additional link to development (lung) and drug responses (methotrexate, antibiotic). The common theme is broad biosynthesis and metabolism tied to development and pigment-related pathways.","confidence":"Medium","size":24,"edges":15,"triangles":5,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031427","count":7},{"id":"GO:0006703","count":7},{"id":"GO:0006729","count":7},{"id":"GO:0030324","count":7},{"id":"GO:0042574","count":7}]},{"hash":"687161768453555486","title":"GPCR-Driven Autonomic Regulation","description":"This cluster is dominated by GO terms pointing to G protein-coupled receptor signaling and regulation of autonomic physiological processes: adenylate cyclase-activating GPCR signaling, blood pressure, urine volume, circadian rhythm, peristalsis, histamine-induced gastric secretion, and octopamine signaling. These suggest a cohesive theme of GPCR-mediated control of cardiovascular, GI, and neural regulation. Some terms like electron transport chain and IL-8 production are less directly aligned and may reflect broader annotations, but the core pattern supports GPCR-driven autonomic regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000484","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0033861","count":15}]},{"hash":"2133967010998460913","title":"Organ development and signaling","description":"The top GO terms point to development of multiple organs (heart, parathyroid, mammary glands) and signaling pathways (ephrin, PDGF, Ras, and tyrosine phosphorylation), along with pattern specification and synapse assembly. This suggests a coherent theme of proteins involved in organ morphogenesis guided by signaling cues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060017","count":3},{"id":"GO:0060444","count":3},{"id":"GO:0032959","count":3},{"id":"GO:0009952","count":3},{"id":"GO:0048013","count":3}]},{"hash":"204420179748060802","title":"Ubiquitin-dependent innate antiviral immune response","description":"The cluster shows a strong enrichment for ubiquitin-mediated processes (ubiquitin-dependent proteolysis, autoubiquitination) together with innate immune and antiviral defense terms (defense response to virus, innate immune response). Additional immune-regulatory terms and spleen development support a cohesive immune- and ubiquitin-centric theme, while a few outliers (vitamin D response, X-chromosome dosage compensation) seem ancillary.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051607","count":14},{"id":"GO:0045087","count":14},{"id":"GO:0033280","count":11},{"id":"GO:0009048","count":10}]},{"hash":"610227988324388361","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms point to broad developmental and morphogenetic processes across various tissues (heart cushion EMT, left-right patterning, palate/rank of roof of mouth development, cartilage morphogenesis, placental and endocrine pancreas development). This suggests the cluster reflects general embryonic development and tissue morphogenesis rather than a single specialized pathway.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0003198","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060707","count":4}]},{"hash":"285260970436747395","title":"Axon guidance and neural development","description":"Top GO terms cluster around nervous system development, corpus callosum development, myelination, Roundabout signaling, synapse assembly, and RTK signaling, indicating a cohesive theme of neural development, axon pathfinding, and myelination. Kidney development is present but appears incidental to the dominant neural-focused functions.","confidence":"High","size":23,"edges":105,"triangles":100,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0001822","count":5},{"id":"GO:0007169","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0022038","count":5}]},{"hash":"73565015157706492","title":"Developmental morphogenesis and intracellular trafficking","description":"Based on the top GO terms, the cluster centers on intracellular transport and nuclear import, cytoskeletal regulation, and developmental processes such as visceral muscle development and lumen/tracheal morphogenesis, with links to cell cycle and synaptic plasticity. This suggests a coherent theme of coordinating cell growth, division, and morphogenesis via transport and cytoskeletal dynamics during development.","confidence":"Medium","size":23,"edges":60,"triangles":23,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0060291","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0035774","count":2},{"id":"GO:0032781","count":2}]},{"hash":"912524141290614040","title":"Embryonic Development & Tissue Morphogenesis","description":"Based on the enriched GO terms, the cluster centers on developmental and morphogenetic processes across tissues (uterus, female genitalia, retina) and includes extracellular matrix remodeling (collagen biosynthesis, cell-matrix adhesion), with growth signaling (insulin pathway) and remodeling-related apoptosis. Together, these items suggest a theme of embryonic development and tissue morphogenesis rather than a single, specific pathway.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0032967","count":5},{"id":"GO:0045721","count":4}]},{"hash":"310366137330121132","title":"Hepatic stress, detoxification, and apoptosis","description":"These proteins appear linked to liver-specific stress response and detoxification: stress response and differentiation signals in hepatocytes, xenobiotic catabolism, and p53-mediated apoptosis, along with transcriptional regulation and aging. Together they define a liver-focused adaptive program that balances growth, detox, and cell death.","confidence":"High","size":23,"edges":24,"triangles":2,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":7},{"id":"GO:0006351","count":5},{"id":"GO:0070365","count":5},{"id":"GO:0001300","count":5},{"id":"GO:0018026","count":4}]},{"hash":"2126725740407402815","title":"Developmental signaling and cytoskeletal remodeling","description":"These terms point to roles in organismal development (multicellular and nervous system) and in signaling through PI3K/AKT, as well as cytoskeletal changes (actin remodeling, stress fibers, cell spreading) that accompany cell differentiation and movement. The cluster thus reflects coupling of developmental signaling with cytoskeletal dynamics.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051897","count":3},{"id":"GO:0014068","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0051496","count":3}]},{"hash":"1894543700243562774","title":"Spliceosome-Mediated RNA Processing and Translation Initiation","description":"The top terms cluster around spliceosome-mediated mRNA splicing and export, regulation of alternative splicing, and translation initiation/reinitiation (including viral IRES mechanisms), indicating a cohesive theme linking RNA processing with the initiation of translation.","confidence":"High","size":23,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":11},{"id":"GO:0002188","count":11},{"id":"GO:0000398","count":11},{"id":"GO:0045292","count":8},{"id":"GO:0006378","count":8}]},{"hash":"2122048084896255387","title":"TGF-beta/BMP Signaling Regulation","description":"The top GO terms cluster around negative and positive regulation of TGF-beta receptor signaling, BMP signaling, and cellular responses to TGF-beta stimulus, along with a related peptide dephosphorylation process. This suggests a coherent theme of modulating TGF-beta/BMP pathways, potentially via phosphatase activity affecting signaling components, even though a couple of outlier terms appear. Overall, these proteins seem to function in regulating TGF-beta/BMP signaling networks.","confidence":"High","size":23,"edges":76,"triangles":100,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030512","count":8},{"id":"GO:0046827","count":7},{"id":"GO:0042347","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0080005","count":6}]},{"hash":"520622648518253940","title":"Cardiac electrical conduction and action potentials","description":"Top GO terms indicate regulation of atrial and ventricular membrane depolarization, AV node action potential, and regulation of heart rate by cardiac conduction, along with outflow tract morphogenesis and atrial AP depolarization. Together, these point to proteins involved in cardiac electrophysiology and heart rhythm development; a few unrelated terms (gravitaxis, response to carbon monoxide) are likely incidental.","confidence":"High","size":23,"edges":30,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060371","count":19},{"id":"GO:0060307","count":19},{"id":"GO:0086016","count":19},{"id":"GO:0086091","count":19},{"id":"GO:0003151","count":17}]},{"hash":"2137847712661207871","title":"Actin cytoskeleton remodeling via Rho signaling","description":"Actin-based protrusion formation and cytoskeletal dynamics are highlighted by filopodium and microspike assembly, along with regulation of Rho GTPase signaling and actin filament capping. The co-occurrence with PI3K/AKT and related signaling suggests a broader context of signal-controlled cytoskeletal remodeling, with the core theme being Rho-driven actin dynamics that drive protrusions.","confidence":"High","size":23,"edges":35,"triangles":0,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046847","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043491","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0030035","count":3}]},{"hash":"845043456289887787","title":"Epidermal Differentiation and Oxidative Stress Response","description":"Based on the GO terms, the cluster centers on skin-related processes (corneocyte development) and cellular responses to oxidative stress (response to hydrogen peroxide). Additional terms suggest involvement in signaling pathways (peptide hormone stimulus, phosphatidylinositol dephosphorylation) and cell cycle regulation, which can relate to epidermal turnover and stress signaling. This combination supports a label around epidermal differentiation with stress-signaling roles.","confidence":"Medium","size":23,"edges":47,"triangles":40,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0071375","count":4},{"id":"GO:0046856","count":4},{"id":"GO:0090502","count":4},{"id":"GO:2000327","count":4}]},{"hash":"1043186017091919321","title":"Signaling Regulators Across Immune and Cardiac Contexts","description":"The proteins in this cluster appear to be involved in diverse signaling pathways (Rap and Ral signaling, cGMP/cAMP-related signaling) and apoptosis regulation across different cell types, including cardiac muscle, dendritic cells, and endothelial barriers. The GO terms suggest a common theme of modulating signal transduction and cell fate rather than a single, specific function, hence a broad but coherent label that captures signaling regulation across cardiovascular and immune contexts.","confidence":"Medium","size":23,"edges":22,"triangles":0,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0010667","count":5},{"id":"GO:1902634","count":4},{"id":"GO:0032835","count":4},{"id":"GO:0071321","count":4},{"id":"GO:0032486","count":4}]},{"hash":"1317092999266344518","title":"Actin dynamics in endothelial morphogenesis","description":"This cluster is dominated by actin cytoskeleton-related terms (organization, remodeling, crosslinking, cortical localization) and Rho signaling regulation, along with endothelial morphogenesis terms (cell polarity, sprouting angiogenesis, lumen extension). The convergence of actin regulation with endothelial cell behaviors suggests proteins coordinating actin dynamics to drive endothelial morphogenesis and related cell-shape changes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0046626","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0051666","count":3},{"id":"GO:0071963","count":3}]},{"hash":"1124801697469305461","title":"Cytoskeletal dynamics and cell division","description":"The top GO terms cluster around cytoskeletal remodeling and function (regulation of filopodium assembly, regulation of tubulin deacetylation), mitotic processes (establishment of mitotic spindle orientation, mitochondrion inheritance), and related membrane and developmental activities (plasma membrane repair, somitogenesis, acetylcholine transport). Together they suggest a common theme of cytoskeleton-driven cell division and associated membrane dynamics, with some outliers that may reflect broader signaling roles. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035994","count":4},{"id":"GO:0000132","count":4},{"id":"GO:0000001","count":3},{"id":"GO:0051489","count":3},{"id":"GO:0070493","count":3}]},{"hash":"2164439347090959996","title":"DNA Repair and Cell Cycle Regulation","description":"Based on the strongest signals for DNA repair and mitosis-related processes (DNA repair, mitotic centrosome separation, cell division, transcription regulation), the cluster appears to emphasize genome maintenance and cell-cycle control. Peripheral terms such as nervous system development and inflammatory response suggest additional stress-related signaling, but the core theme centers on genome integrity surveillance and progression through division.","confidence":"Medium","size":23,"edges":98,"triangles":128,"max_degree":18,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0006281","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1946769758263606203","title":"Spliceosome-driven mRNA splicing and transcription termination","description":"The cluster is dominated by GO terms for spliceosome-mediated mRNA splicing, spliceosomal complex assembly, regulation of alternative splicing, and termination of transcription, with supporting terms on mRNA stability under stress and ncRNA-mediated gene silencing, pointing to a cohesive role in RNA processing and transcription regulation.","confidence":"High","size":23,"edges":233,"triangles":1443,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":11},{"id":"GO:0006369","count":11},{"id":"GO:0010610","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10}]},{"hash":"642160830558747453","title":"Cerebellar neurodevelopment and cell cycle regulation","description":"Top GO terms cluster around cerebellar cortex formation, Bergmann glial differentiation, and other cerebellum-specific developmental processes, alongside general cell-cycle and DNA replication terms (kinetochore localization, cyclin-dependent kinase activity regulation, DNA replication). This combination suggests a coherent theme of cerebellar neurodevelopment driven by neural progenitor proliferation and tightly regulated cell division. Confidence: High","confidence":"","size":23,"edges":176,"triangles":652,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048679","count":22},{"id":"GO:0048701","count":22},{"id":"GO:0006260","count":22},{"id":"GO:0008285","count":22},{"id":"GO:0060020","count":22}]},{"hash":"1627990468546599701","title":"Nuclear ubiquitination and chromatin regulation","description":"This cluster is dominated by GO terms related to ubiquitination and ubiquitin-like modifications (histone H2B ubiquitination, polyubiquitination, K63-linked ubiquitination, and neddylation) that are central to nuclear processes such as chromatin remodeling, histone modification, and protein turnover. Additional terms reference cell cycle and development contexts, supporting a central theme of ubiquitin-dependent regulation of nuclear functions. ","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0071894","count":23},{"id":"GO:0070059","count":23},{"id":"GO:0001701","count":23},{"id":"GO:1901044","count":23},{"id":"GO:0045116","count":23}]},{"hash":"1659629905102526013","title":"Actin Cytoskeleton Remodeling in Muscle and Brain","description":"Top GO terms center on actin cytoskeleton organization and muscle/neural development, including postsynaptic actin organization, actin cortical patch assembly, skeletal muscle fiber development/adaptation, and calcium signaling. This suggests a cohesive theme of actin-driven remodeling affecting muscle and brain/nervous system functions, with related cytoskeletal processes also touching platelet dynamics and meiosis as broader contexts. Confidence reflects a clear link to cytoskeletal remodeling, despite a few outlier terms.","confidence":"High","size":23,"edges":35,"triangles":30,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043983","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0000147","count":5},{"id":"GO:0043981","count":5}]},{"hash":"41103933068427085","title":"Spindle assembly and chromosome segregation regulation","description":"The top GO terms converge on mitotic/meiotic spindle function and chromosome segregation, including kinetochore localization, spindle disassembly, and regulation of cyclin-dependent kinase activity and dephosphorylation. This suggests a cohesive role in cell cycle control during mitosis/meiosis, with some peripheral terms (immune signaling, osmotic stress) likely representing broader cellular responses. Overall, the cluster theme centers on spindle dynamics and chromosome segregation.","confidence":"High","size":23,"edges":239,"triangles":1498,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":13},{"id":"GO:0034501","count":13},{"id":"GO:0045736","count":13},{"id":"GO:0051895","count":12},{"id":"GO:0050860","count":12}]},{"hash":"1840589289239898247","title":"ERAD-Linked Ubiquitination and Protein Quality Control","description":"The cluster is dominated by GO terms about ubiquitin-mediated processes (protein deubiquitination, ubiquitin-dependent ERAD, autoubiquitination) and ER-related quality control (maintenance of unfolded proteins in ERAD, ER stress responses). These point to a shared role in identifying and disposing misfolded or damaged proteins via ubiquitin signaling within the ER, i.e., ER-associated degradation and related quality-control pathways. Some terms touch on broader stress responses (mitochondrial fusion regulation, transcriptional regulation), but the strongest signal is ERAD/ubiquitination-based protein quality control.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":17},{"id":"GO:0030433","count":11},{"id":"GO:1904378","count":11},{"id":"GO:0010636","count":10},{"id":"GO:0051865","count":10}]},{"hash":"1861738612803505407","title":"Embryogenesis and Granulocyte Differentiation","description":"The GO terms cluster around developmental processes (multicellular organism development, gastrulation, in utero embryonic development) and immune-lineage differentiation (granulocyte differentiation), with additional cues from calcium transport and stress responses. This suggests a group of proteins linked to development and immune differentiation, though some terms are only loosely connected.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0060992","count":2},{"id":"GO:0019835","count":2},{"id":"GO:0070588","count":2},{"id":"GO:0042135","count":1}]},{"hash":"1481477093793789553","title":"Collagen ECM and Skeletal Development","description":"Dominant terms are collagen fibril organization, cartilage condensation, and skeletal system development, with supporting ECM-related processes (hyaluronan catabolic process and establishment of the blood-nerve barrier). This pattern points to extracellular matrix\u2013driven connective tissue formation and skeletogenesis, with some neural interface ECM roles; overall the cluster centers on collagen/ECM remodeling in skeletal development.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":14},{"id":"GO:0034116","count":14},{"id":"GO:0050728","count":12},{"id":"GO:0007417","count":10},{"id":"GO:0001502","count":10}]},{"hash":"1252557505455952048","title":"Ribosome Biogenesis and Translation","description":"This cluster is enriched for GO terms centered on translation and ribosome biology, including translation, translational termination, ribosomal large subunit assembly/biogenesis, and mitochondrial translation, with additional rRNA processing terms. The coherence of these terms indicates the proteins function primarily in ribosome production and protein synthesis.","confidence":"High","size":23,"edges":250,"triangles":1709,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0046677","count":3},{"id":"GO:0006415","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0070126","count":3}]},{"hash":"2037844100162565131","title":"P450-mediated xenobiotic and retinoic acid metabolism","description":"This cluster is dominated by cytochrome P450-related processes, including epoxygenase P450 pathway, dioxin/dioxin-like compound catabolism, ent-kaurene oxidation, oxidative demethylation, and retinoic acid and vitamin D-related responses. Together these terms point to a core theme of P450-driven metabolism and detoxification of xenobiotics and signaling molecules, with a few outliers (developmental and cell cycle terms) that may reflect broader gene functions or pleiotropy in the set.","confidence":"High","size":23,"edges":17,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":17},{"id":"GO:0070989","count":16},{"id":"GO:0019373","count":16},{"id":"GO:0034653","count":16},{"id":"GO:0010164","count":16}]},{"hash":"1499898887196990192","title":"Cofactor and fatty acid biosynthesis","description":"This cluster prominently features biosynthetic processes for cofactors and essential metabolites (cobalamin, biotin, heme/porphyrin) and fatty acid biosynthesis, pointing to core metabolic enzymes. The presence of a DNA-templated transcription term and regulatory response terms (insulin stimulus, xenobiotic response) also suggests linked transcriptional regulation coordinating metabolism, supporting a metabolic-biosynthesis theme with regulatory aspects.","confidence":"Medium","size":23,"edges":148,"triangles":592,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0009236","count":6},{"id":"GO:0032869","count":6},{"id":"GO:0019518","count":6},{"id":"GO:0009102","count":5}]},{"hash":"578342848895269166","title":"Developmental organogenesis","description":"These proteins cluster around developmental processes: transcription by RNA polymerase II and its regulation, together with diverse organogenesis terms (brain segmentation, rhombomere development, heart and retina/eye development, lung epithelial branching morphogenesis, digestive tract development, and pituitary gland development). The collection suggests a module of factors coordinating embryonic patterning and formation of multiple organs.","confidence":"Medium","size":23,"edges":247,"triangles":1647,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0000122","count":10},{"id":"GO:0035284","count":10},{"id":"GO:0021571","count":10},{"id":"GO:0007507","count":9}]},{"hash":"90637538033289664","title":"Unknown","description":"The top GO terms span detoxification, multiple biosynthetic and catabolic pathways, and diverse signaling and development processes, with no single cohesive function tying all proteins together, suggesting no clear cluster-wide theme.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0017000","count":9},{"id":"GO:1901601","count":8},{"id":"GO:0042952","count":8},{"id":"GO:0009636","count":8}]},{"hash":"2071145515246872701","title":"Unknown","description":"The Top Terms are a mix of stress- and stimulus-response (cAMP, hydrogen peroxide, xenobiotic, peptide hormone) plus unrelated processes (DNA replication, stamen formation, obsolete aging) and protein turnover. With no single cohesive function linking the proteins and no interactions among them, there isn\u2019t a clear functional theme to name the cluster beyond Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0071320","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0051260","count":2}]},{"hash":"1253905548198121441","title":"Inflammation-driven cell migration and cytoskeletal remodeling","description":"This cluster centers on actin filament assembly, cell migration, calcium signaling, endothelial remodeling, chemokine production, and pain-related sensory detection, which together point to inflammatory signaling promoting cell movement and cytoskeletal changes. Some terms like ubiquitination and apoptosis are present but not central to a single cohesive theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0098703","count":3}]},{"hash":"558914630779970744","title":"Developmental signaling and cell adhesion","description":"Top GO terms cluster around developmental processes and cell\u2013cell/epithelial adhesion: Notch signaling, dorsal trunk growth (tracheal development), maintenance of animal organ identity, hemidesmosome assembly, and substrate adhesion\u2013dependent cell spreading. These converge on how cells communicate and adhere during development, giving a coherent theme for the cluster. Some terms (antibiotic biosynthetic process, lipoteichoic acid biosynthetic process) appear to be outliers, likely reflecting dataset noise or mixed origins.","confidence":"Medium","size":23,"edges":77,"triangles":151,"max_degree":10,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0048496","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0042853","count":5}]},{"hash":"1162630428438863597","title":"Embryonic development and organ morphogenesis","description":"The proteins in this cluster are linked by GO terms centered on embryogenesis and tissue morphogenesis, including heart cushion EMT, left-right patterning, placenta/embryonic development, cartilage morphogenesis, and organ-specific development (pancreas, oral cavity). This points to a broad developmental program rather than a single pathway, making \"Embryonic development and organ morphogenesis\" a coherent, representative label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0060707","count":16},{"id":"GO:0060806","count":16}]},{"hash":"1943344221227629557","title":"DNA replication & chromatin modification","description":"This cluster is dominated by GO terms tied to DNA replication and transcription regulation, including Okazaki fragment processing in mitotic DNA replication, cell division, DNA-templated transcription, and histone methylation marks (H3-K79 and H3-K4). Together these point to proteins involved in chromatin-associated regulation during the cell cycle and DNA synthesis, with some peripheral terms relating to trafficking or signaling that appear less central. Confidence: High","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903461","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":3}]},{"hash":"460963864583649397","title":"Mitotic Cell Cycle and Division","description":"The set is dominated by mitosis- and cell-cycle related terms: metaphase/anaphase transition, APC-dependent catabolic process, and the mitotic cell cycle itself, pointing to a cluster centered on cell division regulation. Non-motile cilium assembly can be linked to centrosome/ciliary functions tied to division, while some immune-defense terms appear as noise or broader cellular stress responses. Overall, the core theme is mitosis and cell-cycle progression.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016570","count":7},{"id":"GO:1905515","count":7},{"id":"GO:0051607","count":7},{"id":"GO:1902391","count":7},{"id":"GO:0051301","count":7}]},{"hash":"1274331285218865733","title":"Unknown","description":"The top terms are diverse (phosphorylation, antibiotic response, sporulation, flavin biosynthesis) and include several deprecated GO terms, with no clear single function tying the proteins together. Therefore a specific, representative label cannot be determined.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:2000984","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0098907","count":2}]},{"hash":"1797206138521524978","title":"Neuro-Muscular Development and Motility","description":"The cluster is dominated by GO terms related to neuromuscular control of posture, locomotion, and musculoskeletal movement, plus neurofilament cytoskeleton organization, suggesting a cohesive theme around neural and muscular development and movement; the developmental patterning terms provide broader context but do not outweigh the neuromuscular signal.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045056","count":3},{"id":"GO:0050884","count":3},{"id":"GO:0009952","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060065","count":3}]},{"hash":"560180543163482110","title":"Embryonic organogenesis and tissue morphogenesis","description":"The top GO terms cluster around left-right patterning and various organ development processes\u2014heart (endocardial cushion), placenta/trophic differentiation, cartilage morphogenesis, and pancreatic endocrine development\u2014indicating a cohesive function in embryonic development and tissue differentiation. Some terms relate to basic RNA processing, but they are likely secondary to the main developmental signal.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2}]},{"hash":"1426911257490258657","title":"Ubiquitin-dependent proteolysis in development and immunity","description":"Top terms indicate a core role in ubiquitin-mediated protein degradation (including ERAD and autoubiquitination), with accompanying signals for development and immune processes (skin development, organ morphogenesis, innate and antiviral responses, vitamin D response). This suggests the cluster represents proteins involved in ubiquitin-dependent regulation that influences developmental and immune pathways.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0030433","count":11},{"id":"GO:0007275","count":9},{"id":"GO:0043588","count":9},{"id":"GO:0051607","count":9}]},{"hash":"173841557181303558","title":"Developmental transcription and chromatin regulation","description":"The cluster\u2019s top GO terms center on DNA-templated transcription and histone methylation (chromatin regulation), plus broad developmental processes such as multicellular development, neuron projection development, and skeletal morphogenesis. Additional terms point to regulatory aspects like ubiquitination and GTPase signaling, as well as mitotic spindle assembly, supporting a theme of gene expression control during development and associated cellular processes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000209","count":5},{"id":"GO:0031175","count":5},{"id":"GO:0034729","count":5},{"id":"GO:0051568","count":5}]},{"hash":"466098256541010046","title":"Innate Immune Response and Ubiquitination","description":"This cluster is dominated by innate immune-related GO terms, notably defense response to virus and innate immune response, suggesting antiviral and general immune activity. The strong presence of protein ubiquitination and polyubiquitination terms points to ubiquitin-mediated signaling and protein turnover, which are key in shaping immune responses. Additional terms related to Gram-positive defense and transcriptional regulation may reflect downstream signaling and state changes during immune activation. Overall, the group appears centered on innate immune processes with ubiquitin-regulated signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0043066","count":7},{"id":"GO:0000209","count":7},{"id":"GO:0016567","count":6}]},{"hash":"773021052764248832","title":"Innate immune signaling and ubiquitination","description":"The top GO terms cluster around innate immune response, defense against virus, and protein polyubiquitination, suggesting a core function in immune signaling with ubiquitin-mediated regulation. Additional terms point to intracellular signal transduction and GPCR pathway regulation, which fit a broader signaling theme that can modulate immunity. A few terms imply metabolic or tissue-specific processes (vitamin D response, fat cell differentiation, SA node activity) but they appear peripheral to the central immune-signaling pattern.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0008277","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0098907","count":3}]},{"hash":"307622921931457533","title":"Inflammasome regulation and inflammatory cytokine production","description":"These proteins are enriched for terms tied to inflammasome activity (NLRP3 complex assembly) and its negative regulation, as well as production of inflammatory cytokines (IL-6, IL-1\u03b2, IL-5) and chemokines (MIP-1\u03b1). Additional terms point to responses to lipopolysaccharide and regulatory modulation of NF-kB signaling, linking innate immune sensing to cytokine output. Taken together, the cluster appears to group proteins involved in controlling inflammasome-driven inflammation and cytokine production, with some participation in helper T cell\u2013related immune modulation. The common theme is inflammation regulation rather than a single metabolic pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045409","count":2},{"id":"GO:0035397","count":2},{"id":"GO:1900226","count":2},{"id":"GO:0044546","count":2},{"id":"GO:0071641","count":2}]},{"hash":"706923202259813321","title":"Neuronal secretion and spine plasticity","description":"This cluster centers on neuronal signaling and secretion, highlighted by dense core granule maturation, monoamine transport, and regulation of neurotransmitter secretion. It also features Rac-mediated actin remodeling and spine maintenance/depression, linking secretory processes to activity-dependent synaptic plasticity. Together these terms suggest a coherent theme of neuronal secretory function coupled to synaptic structure and plasticity, despite a few peripheral terms like ER stress or insulin regulation.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0046928","count":2},{"id":"GO:0034316","count":2},{"id":"GO:1990502","count":2}]},{"hash":"1702245789469658728","title":"Innate Immune and Inflammatory Signaling","description":"The top GO terms cluster around responses to pathogens and inflammatory mediators (lipopolysaccharide, virus, TNF, IL-1), pointing to innate immune activation and cytokine signaling. Additional terms about gene expression regulation and kinase activity fit signaling modulation during inflammation, with circadian regulation possibly reflecting immune-circadian interplay. Overall, the cluster appears centered on innate immune and inflammatory signaling pathways.","confidence":"High","size":22,"edges":21,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":9},{"id":"GO:0050729","count":8},{"id":"GO:0045471","count":8},{"id":"GO:0045187","count":8},{"id":"GO:0071356","count":8}]},{"hash":"1295355632121122192","title":"Rho-dependent cytoskeleton remodeling and cell migration","description":"This cluster is dominated by GO terms related to actin cytoskeleton dynamics and protrusion formation (lamellipodium, filopodium, microspike assembly) and regulation of Rho GTPase signaling and related pathways, with additional developmental contexts (midbrain/spinal cord morphogenesis). The shared theme appears to be Rho-mediated cytoskeletal remodeling driving cell movement and adhesion during development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0070373","count":4},{"id":"GO:0043547","count":3},{"id":"GO:1904693","count":3}]},{"hash":"1395437793323752190","title":"Ribosome biogenesis and translation initiation","description":"The cluster\u2019s top GO terms are clearly centered on ribosome biogenesis, formation of the translation preinitiation complex, translation reinitiation, and regulation of translational initiation, indicating proteins involved in ribosome assembly and control of protein synthesis. Supporting terms like ribosomal subunit biogenesis, mRNA export, and cell cycle processes suggest coordination with gene expression and cell proliferation, but the dominant signal is ribosome-related assembly and initiation of translation.","confidence":"High","size":22,"edges":173,"triangles":756,"max_degree":21,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0006446","count":4},{"id":"GO:0042273","count":4}]},{"hash":"1682863032415703626","title":"Peripheral axon guidance and paranodal localization","description":"The top terms cluster around axon guidance and nerve development in the periphery: semaphorin-plexin signaling; branchiomotor neuron axon guidance; sympathetic neuron projection guidance and extension; paranodal junction assembly; localization to juxtaparanode and paranode regions; trigeminal nerve structure; neural crest migration. This supports a coherent theme of guiding axons and organizing nodal/paranodal structures in developing peripheral nerves.","confidence":"High","size":22,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071205","count":9},{"id":"GO:1902287","count":9},{"id":"GO:0021637","count":9},{"id":"GO:0002175","count":9},{"id":"GO:0097491","count":9}]},{"hash":"582281054831168056","title":"Skeletal cartilage development and embryonic differentiation","description":"This cluster centers on processes like chondroblast differentiation, endochondral ossification, cartilage condensation, and related developmental pathways, with supporting signals such as ERK cascade regulation and phosphorylation. While it also touches on broader organ differentiation (endo/mesoderm-derived lineages and inner ear development), the strongest common thread is skeletal cartilage formation and general embryonic tissue differentiation driven by developmental signaling.","confidence":"Medium","size":22,"edges":30,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0060591","count":4},{"id":"GO:0001958","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0001502","count":3}]},{"hash":"1119391271337912075","title":"RNA Pol II/III Transcription Regulation","description":"The top terms cluster around transcription regulation and elongation by RNA polymerase II and III, including snRNA transcription by these polymerases. While a couple of terms touch on differentiation and barrier establishment, the dominant signal is transcriptional control by RNAP II/III, justifying a label focused on transcription regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045945","count":3},{"id":"GO:0048863","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006368","count":2},{"id":"GO:0061028","count":2}]},{"hash":"1069211065198585307","title":"Neuronal receptor trafficking and actin remodeling","description":"The cluster centers on Rac/Rho GTPase signaling, actin filament organization, endocytosis, and transport of neurotransmitter receptors from endosomes to the postsynaptic membrane, aligning with dendritic spine modification and synaptic receptor trafficking. Some terms (e.g., subtelomeric heterochromatin formation) are less connected, but the dominant themes indicate neuronal signaling coupled to cytoskeletal dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0098887","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0035023","count":2}]},{"hash":"1254438757747712537","title":"Immune-Development Signaling","description":"The set is enriched for immune-related GO terms (negative regulation of NK cell chemotaxis, basophil activation, complement activation via the lectin pathway) and inflammatory responses (response to fungal origin, oxidative stress-induced senescence), alongside developmental processes across tissues (cartilage condensation, mesonephric duct development, metanephric proximal tubule development) and regulation of cell adhesion molecule production. This points to proteins involved in coordinating immune/inflammatory signaling with developmental remodeling, rather than a single cohesive pathway.","confidence":"Medium","size":22,"edges":200,"triangles":1024,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000502","count":20},{"id":"GO:0090403","count":18},{"id":"GO:0010572","count":18},{"id":"GO:0071226","count":18},{"id":"GO:0001502","count":18}]},{"hash":"1205881451957021089","title":"Calcium-dependent synaptic vesicle exocytosis","description":"The cluster\u2019s top GO terms converge on calcium-regulated exocytosis, vesicle fusion, and intracellular vesicle trafficking in neurons (including calcium channel clustering, neurotransmitter release, and dendrite extension), pointing to a cohesive role in synaptic vesicle handling and secretion.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050714","count":2},{"id":"GO:0097151","count":2},{"id":"GO:0031340","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0051876","count":2}]},{"hash":"1441930687852774171","title":"Sodium/Potassium Transport and Membrane Potential Regulation","description":"This cluster is dominated by GO terms describing ion transport across the plasma membrane, especially sodium and potassium currents and the maintenance of transmembrane electrochemical gradients, as well as regulation of transporter activity and membrane potential in cardiac cells. The co-occurrence of transmembrane transport, Na+ export, and K+ import terms supports a cohesive theme around ion homeostasis and membrane potential control, with a few peripheral terms (retinol metabolism, Wnt secretion, COPI vesicles) that do not override this primary signal.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0086036","count":5},{"id":"GO:0036376","count":5},{"id":"GO:2000649","count":5},{"id":"GO:1990573","count":5},{"id":"GO:0090662","count":5}]},{"hash":"532063984940993737","title":"Complement System and Innate Immunity","description":"The cluster shows strong enrichment for classical complement activation and innate immune response (GO:0006958, GO:0045087), with proteolysis tied to the complement cascade (GO:0006508) and related immune signaling (e.g., interferon production, cell adhesion). These terms together point to a module centered on innate immune defense mediated by the complement system.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":11},{"id":"GO:0045087","count":9},{"id":"GO:0006508","count":9},{"id":"GO:0072643","count":8},{"id":"GO:0007157","count":8}]},{"hash":"1590286794165723026","title":"Neural development and synaptic plasticity","description":"The top GO terms cluster around nervous system development and function: visual perception, multicellular organism development, myoblast fusion, Schwann cell development, and long-term synaptic potentiation, suggesting roles in neural differentiation, glial support, and synaptic plasticity. Some terms (G2/M transition, mitotic cell cycle) reflect general cell-cycle processes often co-occurring with development or may reflect annotation noise; the abscisic acid signaling term appears to be an outlier from cross-kingdom data. Overall, the dominant theme points to neural development and synaptic regulation.","confidence":"Medium","size":22,"edges":122,"triangles":453,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0007275","count":16},{"id":"GO:0010800","count":16},{"id":"GO:0000086","count":16},{"id":"GO:0007520","count":16}]},{"hash":"733447883149252650","title":"Amino acid metabolism and vitamin biosynthesis","description":"The cluster shows strong representation of amino acid\u2013related processes (L-alanine and L-kynurenine catabolism, glycine and tryptophan biosynthesis/catabolism, pyruvate biosynthesis) and vitamin B6 (pyridoxine) biosynthesis, suggesting a core theme around amino acid metabolism and cofactor biosynthesis. A mitochondrial tRNA thio-modification and cAMP response terms add some signaling and RNA-modification context, but the dominant pattern appears metabolic rather than a single signaling pathway. The Notch signaling term seems to be an outlier relative to the main metabolic themes, so the label captures the majority function of the cluster.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":8},{"id":"GO:0042853","count":8},{"id":"GO:0097053","count":8},{"id":"GO:0017000","count":7},{"id":"GO:0019265","count":6}]},{"hash":"39155471002104856","title":"Developmental signaling and regeneration","description":"This cluster is dominated by terms tied to multicellular organism development and organ regeneration, with a strong emphasis on transcriptional regulation (DNA-templated transcription) and signaling (estrogen response, integrin-mediated signaling). While there are metabolic terms (cholesterol biosynthesis, glucose response) that may support growth, the central theme points to developmental processes and regeneration driven by signaling and gene regulation.","confidence":"Medium","size":22,"edges":161,"triangles":606,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":10},{"id":"GO:0046827","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0043627","count":8}]},{"hash":"2260823126860740855","title":"Dopaminergic Signaling and Drug Response","description":"The cluster is dominated by terms tied to dopamine-based neural signaling and behavioral responses to drugs (dopaminergic synaptic transmission, cocaine/morphine responses), with related pain perception and GPCR-mediated cAMP signaling, suggesting a cohesive role in dopamine-mediated reward/response pathways, with some autonomic/cardiovascular links as part of broader neuromodulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0008542","count":11},{"id":"GO:0048148","count":11}]},{"hash":"1213120407362744456","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"This cluster is dominated by GO terms for ubiquitination pathways (SCF-dependent, K11/K48/K63 linkages, autoubiquitination) and protein degradation via the proteasome, coupled with cell cycle control (mitotic cell cycle, G2/M transition, cell division) and neddylation. The common theme is the regulation of protein stability and turnover during mitosis and cell division, tying ubiquitin/proteasome dynamics to cell cycle progression and early development contexts.","confidence":"High","size":22,"edges":214,"triangles":1236,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":16},{"id":"GO:0070979","count":16},{"id":"GO:0051865","count":14},{"id":"GO:0001701","count":13},{"id":"GO:0000278","count":13}]},{"hash":"1366213231893395168","title":"Chromatin Regulation and Developmental Signaling","description":"Most top GO terms point to chromatin biology\u2014negative regulation of transcription by RNA polymerase II, heterochromatin formation, and localization to chromatin\u2014while other terms reflect developmental processes (EMT, substantia nigra development, differentiation) and signaling (Rho). This suggests the cluster functions primarily in chromatin-mediated transcriptional control with links to developmental pathways.","confidence":"High","size":22,"edges":37,"triangles":11,"max_degree":7,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":17},{"id":"GO:0051290","count":14},{"id":"GO:0030466","count":9},{"id":"GO:0001837","count":8},{"id":"GO:2001015","count":8}]},{"hash":"1975292231240036701","title":"Developmental Migration and Tissue Remodeling","description":"The top GO terms cluster around embryonic development and tissue dynamics: somite development, neuron migration, and metanephric basement membrane development point to developmental patterning, while angiogenesis in wound healing, regulation of cell migration, muscle satellite cell activation, and platelet aggregation reflect tissue remodeling and vascular repair. Oxidant detoxification is a broad, less-specific term that is less central here. Overall, the cluster seems to group developmental and migratory processes tied to musculoskeletal and vascular contexts.","confidence":"Medium","size":22,"edges":115,"triangles":370,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:2000255","count":7},{"id":"GO:0071672","count":7},{"id":"GO:0060055","count":7},{"id":"GO:0097477","count":7}]},{"hash":"231943117168736665","title":"Genome maintenance and RNA surveillance","description":"The top GO terms center on DNA replication and repair (DNA replication, nucleotide-excision repair, SOS response, DNA topological change) and RNA quality control (nonsense-mediated decay). Together they suggest a cluster of nucleic acid metabolism and genome maintenance proteins. A few annotations like hair cell differentiation and hypoxia likely reflect broader stress-related roles or annotation noise.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":11},{"id":"GO:0006268","count":10},{"id":"GO:0009432","count":10},{"id":"GO:0006260","count":9},{"id":"GO:0006265","count":9}]},{"hash":"241427997057316335","title":"RNA processing and translation initiation","description":"The top GO terms cluster around RNA metabolism and control of translation, including mRNA splicing via the spliceosome, splicing regulation, and translation initiation/reinitiation (including viral IRES-related processes). This points to a cohesive theme of RNA processing and regulation of translation. While terms like brain development and monocyte differentiation appear, they likely reflect broader roles of these RNA-related proteins across contexts rather than a single tissue-specific function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0045292","count":9},{"id":"GO:0006378","count":9},{"id":"GO:0048025","count":7}]},{"hash":"1414201924269843839","title":"Androgen-dependent male reproductive development","description":"Dominant terms center on male sex differentiation, prostate development, and steroid hormone receptor assembly, indicating androgen-driven reproductive development; other terms (mitotic cell cycle, ciliogenesis) reflect accompanying cellular processes in proliferating reproductive tissue and cilia-related functions.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0046661","count":7},{"id":"GO:0030850","count":7},{"id":"GO:0006463","count":7},{"id":"GO:0051301","count":7},{"id":"GO:1903546","count":6}]},{"hash":"1390089139861299433","title":"Eye Development and Morphogenesis","description":"This cluster is strongly enriched for eye-related processes (camera-type eye development; embryonic eye morphogenesis) and related morphogenetic pathways, with additional signals for neural, muscle, and gonadal development, suggesting a group of proteins involved in embryonic tissue formation centered on ocular development.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0043010","count":10},{"id":"GO:0006366","count":9},{"id":"GO:0048048","count":9},{"id":"GO:0060441","count":8}]},{"hash":"1206816109314916511","title":"Embryonic development and tissue morphogenesis","description":"This cluster centers on broad developmental processes across multiple tissues and organs, including palate formation, heart-related EMT, left-right patterning, placental and endocrine development, and morphogenesis of cartilage and hair follicles, indicating a cohesive theme of embryonic tissue and organ morphogenesis.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":21},{"id":"GO:0003198","count":20},{"id":"GO:0060972","count":20},{"id":"GO:0060806","count":20},{"id":"GO:0035270","count":20}]},{"hash":"893865633168139509","title":"Quinone Cofactor Biosynthesis","description":"The top GO terms show strong enrichment for biosynthesis of quinone cofactors (menaquinone, phylloquinone, ubiquinone) and links to aerobic respiration, indicating an energy-metabolism focus. Additional terms for biotin and antibiotic biosynthesis, along with various catabolic pathways (valine, phenylacetate) and fatty acid beta-oxidation, point to a broader metabolic module tied to cofactor production and energy generation rather than a single specific function.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0017000","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0009060","count":2},{"id":"GO:0006744","count":2}]},{"hash":"1688483597701361193","title":"Developmental patterning and organogenesis","description":"This cluster centers on embryonic patterning and organ development, with GO terms spanning left/right pattern formation, motor neuron axon guidance, and multiple organogenesis processes (eye, inner ear, dentin/odontogenesis, palate, ureteric bud branching, pancreas, hypothalamus). The inclusion of negative regulation of transcription by RNA Pol II also fits the regulatory aspect of developmental programs.","confidence":"High","size":22,"edges":19,"triangles":0,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060972","count":6},{"id":"GO:0008045","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060021","count":6}]},{"hash":"1750979459105586806","title":"Vertebrate embryonic development and transcription regulation","description":"These proteins cluster around developmental programs across multiple tissues (embryonic development, midbrain, pituitary, gonad, heart morphogenesis) and are enriched for transcriptional control (negative regulation of transcription by RNA Pol II; regulation of DNA-templated transcription). This suggests a cohesive role in coordinating growth and organogenesis via transcriptional regulation, with neuron maturation also represented. While an inflammatory response term is present, the dominant theme remains developmental regulation. ","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0021983","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0032496","count":8}]},{"hash":"2119762512046936785","title":"Carbohydrate, lipid, and retinoid metabolism","description":"The cluster shows strong enrichment for metabolism across sugars (fructose biosynthesis), lipids (fatty acid biosynthesis, prostaglandin metabolism), and retinoids (retinol and retinoic acid metabolism), plus alcohol and detox pathways (ethanol and formaldehyde catabolism), suggesting a broad small-molecule metabolic module rather than a single pathway. Confidence: High","confidence":"","size":22,"edges":229,"triangles":1501,"max_degree":21,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046370","count":15},{"id":"GO:0042572","count":15},{"id":"GO:0006633","count":13},{"id":"GO:0019518","count":12},{"id":"GO:0055114","count":11}]},{"hash":"1480462964731800504","title":"Muscle development and satellite cell activation","description":"This cluster is dominated by terms related to somite development and skeletal muscle satellite cell proliferation/activation, along with associated adhesion processes (hemidesmosome assembly, substrate adhesion-dependent cell spreading). These repeatedly point to muscle progenitor function and muscle formation, with supplementary metabolic and transcription regulation terms. Some terms like antibiotic biosynthetic process and obsolete entries are likely noise, but the core signal aligns with muscle development and satellite cell activity.","confidence":"High","size":22,"edges":184,"triangles":788,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0017000","count":7},{"id":"GO:0031581","count":7},{"id":"GO:0034446","count":7},{"id":"GO:0042572","count":6}]},{"hash":"2164554978292336189","title":"Embryonic morphogenesis and organ development","description":"The top GO terms cluster around developmental and morphogenetic processes across tissues (mesoderm development, left-right pattern formation, endocardial cushion EMT, roof of mouth development, hair follicle morphogenesis). While a few items touch on hepatocyte apoptosis or heat response, the dominant theme is embryogenesis and tissue formation, suggesting a label reflecting embryonic morphogenesis and organ development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1492929811491731313","title":"Unknown","description":"The top terms span sensory perception, cell junctions, nuclear transport, cell cycle regulation, nuclear localization, metabolism, and chromatin dynamics, with no clear, single function dominating. This heterogeneity makes a coherent, specific label unlikely.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0045186","count":2},{"id":"GO:0006405","count":1},{"id":"GO:0046604","count":1},{"id":"GO:0000082","count":1}]},{"hash":"1947020820862065133","title":"Developmental cell adhesion and ossification (BMP)","description":"The top terms emphasize cell\u2013cell adhesion (heterophilic/homophilic), broad developmental processes (multicellular organism development, kidney development), and bone-related ossification with BMP pathway involvement. This points to proteins coordinating tissue morphogenesis and bone maturation through adhesion and BMP signaling, with immune terms likely secondary or pleiotropic. Overall, a developmental/ossification-focused cluster best captures the common theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0007275","count":11},{"id":"GO:0043931","count":11},{"id":"GO:0046718","count":10},{"id":"GO:0006958","count":10}]},{"hash":"1692270735066529333","title":"Embryonic Epithelial and Placental Development","description":"Rationale: The top GO terms cluster around epithelial biology (keratinization) and developmental processes such as epithelial-to-mesenchymal transition in heart/endocardial cushion formation, placental/endocrine system development, and left-right patterning. This suggests a shared role in embryonic epithelial differentiation and placenta formation, with EMT linking epithelial tissues to mesenchymal lineages. General housekeeping processes (RNA Pol II regulation, ribosomal export) are present but secondary, so the dominant theme is embryonic epithelial/placental development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031424","count":9},{"id":"GO:0003198","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060707","count":6}]},{"hash":"1115119634042434231","title":"Innate immune defense and inflammation","description":"This cluster is dominated by GO terms related to innate immunity and inflammatory processes: complement activation (classical and lectin pathways), response to lipopolysaccharide, defense against various pathogens (Gram-positive bacteria, yeast), neutrophil activity, and leukocyte recruitment. Blood coagulation also ties into inflammatory responses. A couple of outliers (midbrain development, transcriptional regulation) may reflect multifunctional proteins or annotation noise, but the primary signal points to innate immune defense and inflammation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":12},{"id":"GO:0006958","count":10},{"id":"GO:0001867","count":10},{"id":"GO:0032496","count":10}]},{"hash":"1873653531954277524","title":"Transmembrane Solute Transporters","description":"All top terms describe transmembrane transport of various solutes, including nitrates, sugars, vitamins, ions, and neurotransmitters. This indicates a cluster of membrane transporter proteins with diverse substrates, potentially including vesicular transport components. Therefore the label 'Transmembrane Solute Transporters' captures the shared function.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":6},{"id":"GO:1900754","count":5},{"id":"GO:0098700","count":5},{"id":"GO:0015757","count":5},{"id":"GO:0015751","count":5}]},{"hash":"1271074441162853032","title":"Actin Cytoskeleton Assembly and Contractility","description":"Top GO terms indicate a cohesive theme around actin dynamics and contractile structures, including actin crosslink formation, terminal web assembly, mitotic spindle assembly, and mitotic contractile ring actin filament bundle assembly, along with regulation of skeletal muscle contraction and muscle atrophy. This points to a common function in actin-based cytoskeletal organization and contractile machinery, spanning mitosis and muscle cells, with some peripheral terms reflecting broader actin roles. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051764","count":4},{"id":"GO:1902896","count":4},{"id":"GO:0030437","count":4},{"id":"GO:0055013","count":4},{"id":"GO:0000742","count":4}]},{"hash":"1451135371979861980","title":"Vesicle trafficking and secretion","description":"The dominant GO terms point to intracellular transport and vesicle cycling\u2014positive regulation of ER exit, endosome-to-plasma membrane transport, and synaptic vesicle clustering\u2014suggesting a vesicle trafficking/secretion theme. A few peripheral terms relate to bone, neuromuscular processes, and immune responses, which may reflect multifunctional roles, but the core signal is membrane trafficking.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070863","count":2},{"id":"GO:0030282","count":1},{"id":"GO:0009607","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0035455","count":1}]},{"hash":"1043829070344044305","title":"Innate immunity and coagulation proteins","description":"The top GO terms are dominated by immune and hemostatic processes: complement activation (classical and lectin pathways), defense against Gram-positive bacteria, neutrophil-mediated killing, and positive regulation of blood coagulation. These converge on innate immune defense and coagulation pathways, suggesting this cluster comprises components involved in immune surveillance and clotting. Some terms about development and ECM remodeling appear, but the strongest signal is immune response and coagulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":11},{"id":"GO:0006958","count":10},{"id":"GO:0030574","count":10},{"id":"GO:0007596","count":10}]},{"hash":"1322913989641135322","title":"Ubiquitin-Driven Antiviral Immunity and NF-kappaB Signaling","description":"Most terms cluster around ubiquitin-mediated protein turnover and signaling in antiviral defense, including ubiquitin-dependent proteolysis, autoubiquitination, K63-linked ubiquitination, and ERAD pathways, combined with innate immune responses and suppression of viral release. The positive regulation of canonical NF-kappaB signaling ties these processes to inflammatory signaling that drives antiviral defenses. Circadian rhythm regulation and LPS signaling appear as modulators rather than core themes, but support a broader integration of immunity with other cellular controls.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051607","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0042752","count":8},{"id":"GO:0051865","count":7}]},{"hash":"404595905393502249","title":"Synaptic Vesicle Trafficking and Actin Remodeling","description":"The top GO terms point to vesicle exocytosis, maturation of synaptic vesicles, and negative regulation of SNARE assembly, together with actin filament bundle assembly. This suggests a core function in synaptic vesicle trafficking and cytoskeletal remodeling, with additional signals for transcription and migration that reflect broader cellular processes but do not override the vesicle/cytoskeleton theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0097284","count":3}]},{"hash":"1327822749372463255","title":"Systemic neuroendocrine and autonomic regulation","description":"These terms point to broad regulation of bodily functions across multiple organ systems: urine volume, circadian rhythm, gastric acid secretion, peristalsis, and vascular tone are governed by neuroendocrine and autonomic signaling. The inclusion of dopamine/adrenergic signaling pathways and systemic blood pressure regulation, along with immune and bone remodeling processes, suggests the cluster reflects general signaling programs coordinating physiology rather than a single pathway or tissue. Therefore, Systemic neuroendocrine and autonomic regulation is an appropriate, high-level label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":20},{"id":"GO:0022410","count":20},{"id":"GO:0001697","count":20},{"id":"GO:0030432","count":20},{"id":"GO:0007211","count":20}]},{"hash":"1049603420668210426","title":"Unknown","description":"The top terms span antiviral defense, innate immunity, chromatin remodeling and transcriptional regulation, neural development (neural fold formation, myelination), and smooth muscle contraction, with no single dominant process and no reported edges among proteins. This dispersion suggests there isn\u2019t a cohesive, unifying function for the cluster to name confidently.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0001842","count":2},{"id":"GO:1901536","count":2},{"id":"GO:0045087","count":2}]},{"hash":"839117575077147215","title":"GABAergic synapse regulation and trafficking","description":"Contains multiple terms tied to GABAergic synaptic transmission, GPCR signaling and internalization, clathrin-mediated endocytosis, and cytoskeletal remodeling (filopodium formation and adhesion-dependent spreading), with supporting hints from mitochondrial fission and small GTPase signaling\u2014together suggesting regulation of inhibitory synapses through receptor trafficking and cytoskeletal dynamics.","confidence":"High","size":21,"edges":49,"triangles":16,"max_degree":15,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":11},{"id":"GO:0045792","count":11},{"id":"GO:0051932","count":11},{"id":"GO:0051489","count":11},{"id":"GO:0046847","count":11}]},{"hash":"481085552285293651","title":"Neural development and axon guidance signaling","description":"The cluster is dominated by GO terms tied to nervous system development and axon-guidance signaling, including brain development, nervous system development, and pathways such as Smoothened and Roundabout signaling. It also features a synaptic vesicle exocytosis regulation term, aligning with neural signaling. A few immune-related terms appear less directly related and may reflect pleiotropy or annotation noise, but the strongest signal centers on neural development and axon guidance. ","confidence":"High","size":21,"edges":158,"triangles":632,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":19},{"id":"GO:0042832","count":19},{"id":"GO:0010796","count":19},{"id":"GO:0031384","count":19},{"id":"GO:2000300","count":19}]},{"hash":"315695183845024966","title":"Immune Cell Adhesion and Migration","description":"The top GO terms span both immune-related processes (innate immune response, regulation of B cell proliferation) and cytoskeletal/membrane remodeling activities (podosome assembly, plasma membrane tubulation, cell spreading, intracellular transport, and ectodomain proteolysis). Together they point to a cluster of proteins involved in immune cell adhesion, migration, and membrane dynamics, rather than a single tight signaling pathway. The lack of edges/triangles suggests these proteins may act in related processes without strong direct interactions in this dataset.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030890","count":5},{"id":"GO:0016477","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0045087","count":3}]},{"hash":"474971652237420045","title":"Unknown","description":"Top terms are diverse, spanning muscle differentiation, extracellular matrix remodeling, extracellular-stimulus\u2013regulated growth, and multiple metabolic pathways, with no clear single function tying the cluster together. None","confidence":"","size":21,"edges":29,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0019628","count":1},{"id":"GO:0019428","count":1},{"id":"GO:0001560","count":1}]},{"hash":"666868733147906947","title":"Neural development and synaptic signaling","description":"These terms cluster around neural development and synaptic function\u2014long-term potentiation, neurogenesis, glutamatergic transmission, and regulation of synaptic plasticity\u2014suggesting proteins involved in forming and modulating neural connections. Some terms on myoblast fusion and sphingolipid biosynthesis reflect membrane remodeling and signaling supportive of neuronal function, reinforcing a neural development/synaptic signaling theme.","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060291","count":12},{"id":"GO:0022008","count":11},{"id":"GO:0009738","count":11},{"id":"GO:0007520","count":11},{"id":"GO:0090153","count":11}]},{"hash":"898863588588760187","title":"Mitotic signaling and endosomal trafficking","description":"This cluster shows strong representation of cell division and mitotic cell cycle terms, alongside endosome transport and membrane-related signaling (including extrinsic apoptotic signaling, phospholipid homeostasis, and immune-related terms like interferon and complement pathways). The combination suggests a theme around coordinated cell-cycle control with receptor signaling and vesicular trafficking, rather than a single isolated function.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0071260","count":5},{"id":"GO:0097192","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0010628","count":4}]},{"hash":"1193458655181277420","title":"Nuclear Transport and Innate Immunity","description":"This cluster shows a strong representation of nuclear transport processes: import/export of proteins and mRNA export (GO:0006606, GO:0006611, GO:0016973, GO:0042307). The concurrent presence of antibacterial humoral response and complement activation terms suggests a role in innate immunity. Other terms like nitrile biosynthesis, carbohydrate phosphorylation, light absorption, and imaginal disc growth are sporadic and may reflect cross-species annotations rather than a single cohesive function. Overall, the dominant signal is nuclear transport with an immune component, so the label is appropriate.","confidence":"Medium","size":21,"edges":23,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0019731","count":5},{"id":"GO:0006606","count":2},{"id":"GO:0080028","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0046835","count":2}]},{"hash":"2097827918568106064","title":"Immune- and Neural Signaling Regulators","description":"The top GO terms indicate signaling across immune and nervous systems (GPCR signaling, adaptive immune response, IL-1 response) plus neural/plasticity-related processes (dendritic spine maintenance, long-term synaptic depression), as well as cell adhesion and insulin signaling. This suggests a set of proteins that broadly regulate signal transduction and cytoskeletal dynamics across diverse contexts rather than a single, cohesive pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0002250","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0008286","count":3}]},{"hash":"950700571094840349","title":"Lipid and Carbohydrate Metabolism","description":"The cluster is enriched for metabolic processes related to lipid and carbohydrate metabolism: steroid biosynthesis, glycogen biosynthesis, and fatty acid beta-oxidation/catabolism, plus liver development. These terms point to energy production and storage pathways, suggesting a metabolic cluster. Some other terms like response to cold or muscle stretch are present but appear peripheral to the core metabolic theme. Confidence: Medium.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009409","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0035994","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0006694","count":3}]},{"hash":"1743366084247885710","title":"Developmental transcriptional regulation and chromatin remodeling","description":"The terms cluster around transcription control (negative regulation and DNA-templated transcription) and chromatin remodeling, together with multiple embryonic organogenesis processes (digestive tract, pancreas, ureteric bud branching, neural crest migration) and related developmental signals, suggesting proteins that coordinate gene expression during development.","confidence":"High","size":21,"edges":147,"triangles":536,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0048557","count":13},{"id":"GO:0090190","count":13},{"id":"GO:0031018","count":13},{"id":"GO:0001755","count":13}]},{"hash":"259916771336506666","title":"Cytoskeleton remodeling and signaling","description":"This cluster centers on actin-based remodeling (lamellipodium assembly) and small GTPase\u2013mediated signaling, with additional links to trafficking (transcytosis) and varied signaling pathways (TGF-beta, estrogen receptor, endothelin). The common theme appears to be cytoskeletal dynamics integrated with signaling networks governing morphology, division, and transport.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0033146","count":2},{"id":"GO:0060670","count":2}]},{"hash":"1146613751671228250","title":"Cardiovascular and neural development","description":"The cluster's GO terms strongly point to embryonic development with a focus on heart formation and left/right asymmetry (mesoderm formation, heart-related proliferation), plus neural development signals (neuron maturation, axon fasciculation) and a general transcriptional program. While there are some broader morphogenesis terms, the dominant pattern is developmental processes linked to cardiovascular and neural lineages.","confidence":"High","size":21,"edges":18,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":2},{"id":"GO:0061371","count":2},{"id":"GO:0014043","count":2},{"id":"GO:0060045","count":2},{"id":"GO:0060044","count":2}]},{"hash":"2168455838476870626","title":"Developmental signaling and mitotic regulation","description":"Based on the top GO terms, the proteins are enriched for developmental processes (neural tube closure, multicellular organism development) and cell division/mitosis (mitotic spindle assembly, mitotic cell cycle), alongside regulation of signaling activities (kinase activity, autophosphorylation, GTPase activity) and mRNA transport. This points to a cohesive theme where developmental signaling and cell-cycle control are coordinated, with hypoxia response appearing as a broader stress-associated cue.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0090307","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0000278","count":6}]},{"hash":"2089984218908161922","title":"Neuromuscular function and motor neuron development","description":"The cluster shows strong enrichment for neuromuscular process regulating posture and locomotory behavior, plus somatic motor neuron differentiation and neurofilament cytoskeleton organization, indicating a core theme of motor neuron biology and neuromuscular function. Ceramide biosynthesis and a few other processes may accompany neuronal metabolism, but the dominant signal is motor neuron development and neuromuscular regulation.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":4},{"id":"GO:0007626","count":2},{"id":"GO:0002943","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0044257","count":2}]},{"hash":"748946736280497920","title":"Dopaminergic signaling and addiction-related neural responses","description":"The cluster shows strong representation of dopaminergic synaptic transmission, behavioral responses to cocaine and morphine, and related neural processes like pain perception and learning, pointing to brain reward pathways and drug-response signaling as the core theme. Some terms (heart development, thermogenesis) are less aligned but do not override the dominant neural-focus terms.","confidence":"High","size":21,"edges":151,"triangles":506,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0008542","count":12},{"id":"GO:0048148","count":12},{"id":"GO:0043278","count":12},{"id":"GO:0002024","count":12}]},{"hash":"1887603493672897804","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":3,"triangles":1,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0030433","count":9},{"id":"GO:1903265","count":9},{"id":"GO:0000209","count":9},{"id":"GO:0016567","count":8}]},{"hash":"654938259844938532","title":"Ubiquitin signaling in proteostasis","description":"This cluster is dominated by GO terms related to ubiquitination and deubiquitination (protein deubiquitination, protein autoubiquitination, ubiquitin-dependent ERAD pathway), ER stress and apoptosis regulation, and vesicle formation, all pointing to protein quality control and stress-response pathways governed by ubiquitin signaling. While mitochondrial fusion regulation and ribosomal subunit assembly appear, the central theme remains proteostasis through ubiquitin-mediated processes. ","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":10},{"id":"GO:0033132","count":10},{"id":"GO:0010636","count":9},{"id":"GO:0051865","count":9},{"id":"GO:1905366","count":9}]},{"hash":"1839617288671799199","title":"Neural development and axon guidance","description":"The top GO terms cluster around nervous system development, axon guidance/axonogenesis, and synaptic potentiation, pointing to roles in neural connectivity and maturation; additional terms for heart and angiogenesis suggest broader developmental signaling but are less central. Overall, the dominant theme is neural development and axon guidance, with moderate confidence.","confidence":"Medium","size":21,"edges":77,"triangles":120,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":8},{"id":"GO:0043303","count":8},{"id":"GO:0032516","count":7},{"id":"GO:0007411","count":7},{"id":"GO:0007399","count":7}]},{"hash":"1975031115060909027","title":"Unknown","description":"The top GO terms span a mix of metabolic biosynthesis ( fatty acid, GMP, cysteine/homocysteine, gluconeogenesis ), ion transport, nuclear import, redox, and even immune-related proliferation. There isn\u2019t a single cohesive function or pathway tying these proteins together, suggesting a heterogeneous cluster rather than a single biological theme.","confidence":"","size":21,"edges":103,"triangles":296,"max_degree":19,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1903830","count":10},{"id":"GO:0070814","count":10},{"id":"GO:0006633","count":10},{"id":"GO:0019343","count":10},{"id":"GO:0006177","count":10}]},{"hash":"1954269134210197601","title":"Cell-Cycle Transcription and DNA Replication Control","description":"Because the top GO terms cluster around G1/S cell-cycle transition, DNA-templated transcription, DNA replication, and transcriptional regulation, the proteins likely function in nuclear control of gene expression during cell-cycle progression and genome maintenance; additional terms suggest regulated proteostasis and stress response integration.","confidence":"High","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":3},{"id":"GO:1903799","count":3}]},{"hash":"2078852938846377162","title":"Embryonic organogenesis and neural crest development","description":"This cluster combines GO terms spanning neural crest\u2013derived craniofacial development (neural crest formation, cranial skeleton morphogenesis, roof of the mouth/palate) with broader embryonic organ development (retina, habenula, endocrine pancreas, ureteric bud) and transcriptional regulation during development, suggesting a general developmental program across tissues.","confidence":"Medium","size":21,"edges":148,"triangles":463,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0060041","count":8},{"id":"GO:0021986","count":8},{"id":"GO:0003309","count":8},{"id":"GO:0090190","count":8}]},{"hash":"397867824247726274","title":"Regulated Embryonic Development and Tissue Morphogenesis","description":"The dominant GO terms describe developmental processes and their regulation across diverse tissues (hair follicles, epithelial\u2013mesenchymal signaling, embryonic development, gland development), pointing to a cluster of proteins coordinating tissue morphogenesis rather than a single pathway. A few terms relate to immune regulation, but the core theme remains developmental regulation and morphogenesis.","confidence":"Medium","size":21,"edges":102,"triangles":282,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0051798","count":18},{"id":"GO:0072016","count":16},{"id":"GO:0002635","count":16},{"id":"GO:0002924","count":16},{"id":"GO:0060738","count":16}]},{"hash":"499930875825427405","title":"Vision and Sensory Development with Drug Responses","description":"This cluster is dominated by GO terms related to visual perception, retina development, visual learning, and broader sensory processing, including pain perception and GABAergic synaptic transmission. The presence of behavioral drug-response terms (cocaine, morphine) suggests modulation of sensory/neural circuits by drugs, reinforcing a theme around vision- and sensory-related neural function and drug responsiveness. While there are outliers touching thermogenesis and heart development, the core signal points to vision and sensory processing with neuromodulatory drug responses.","confidence":"High","size":21,"edges":82,"triangles":96,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0007601","count":14},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13}]},{"hash":"300648636509894852","title":"Dopaminergic Vision Signaling","description":"The cluster centers on neural signaling with strong emphasis on dopaminergic synaptic transmission and visual/opsin pathways (visual learning, opsin signaling), plus cocaine response and GPCR internalization, indicating dopamine- and vision-related signaling dynamics; other terms like heart development are present but less central.","confidence":"High","size":21,"edges":142,"triangles":429,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":20},{"id":"GO:0008542","count":19},{"id":"GO:0048148","count":19},{"id":"GO:0022400","count":19},{"id":"GO:0007507","count":19}]},{"hash":"1623849771877193895","title":"Dopaminergic signaling and drug-response cluster","description":"This cluster is dominated by neural signaling terms related to dopaminergic transmission and drug responses (cocaine, morphine), visual processing, and MAPK/ERK signaling in neurons, suggesting a core theme of neuronal reward and sensory/drug-response pathways. Some outliers (heart development and macrophage chemotaxis) are present but do not outweigh the neural-focused terms. ","confidence":"High","size":21,"edges":175,"triangles":784,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":15},{"id":"GO:0048148","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0001963","count":15},{"id":"GO:0071380","count":15}]},{"hash":"2293049520997944258","title":"Cardiovascular and Dopaminergic Signaling","description":"The cluster centers on GPCR signaling and adenylate cyclase activation, plus dopaminergic synaptic transmission and related behaviors (cocaine response, pain perception, visual learning) along with cardiovascular terms (blood pressure regulation, heart development). This pattern suggests a module where dopaminergic neural signaling interfaces with cardiovascular regulation and related physiological processes.","confidence":"High","size":21,"edges":12,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0019233","count":16}]},{"hash":"28128127267245628","title":"Autonomic Neuroendocrine Regulation of Visceral Physiology","description":"The cluster\u2019s top GO terms center on autonomic and neuroendocrine control of visceral functions: urine volume, gastric acid secretion, peristalsis, circadian rhythm, and vasodilation via catecholamine signaling. Dopamine receptor signaling and octopamine/tyramine pathways further point to neuromodulatory control of these processes. While some terms (bone remodeling, reproductive processes, certain immune-related terms) are broader or peripheral, the core signal is systemic autonomic/neuroendocrine regulation of visceral physiology.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":21},{"id":"GO:0022410","count":21},{"id":"GO:0001697","count":21},{"id":"GO:0030432","count":21},{"id":"GO:0007211","count":21}]},{"hash":"1028270452407505551","title":"Systemic Autonomic and Endocrine Regulation","description":"The cluster groups GO terms that describe control of multiple organ functions\u2014urine volume, circadian sleep/wake cycle, peristalsis, gastric acid secretion, vascular tone via norepinephrine/epinephrine signaling, and dopamine-related pathways\u2014along with hormone- and neuroimmune-regulated processes like bone remodeling, reproduction, and immune differentiation. This points to a broad, organism-wide regulatory network governed by autonomic and endocrine signaling, with some circadian and neuroimmune connections. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":18},{"id":"GO:0022410","count":18},{"id":"GO:0001697","count":18},{"id":"GO:0030432","count":18},{"id":"GO:0007211","count":18}]},{"hash":"151873028307167911","title":"Developmental Regulation and Cell Cycle Control","description":"The top GO terms span multiple developmental processes across tissues (neural differentiation, vasculogenesis, skin/hair placode formation, reproductive tract development) together with regulation of the cell cycle, suggesting a broad developmental regulatory program linked to cell-cycle control rather than a single specific function.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":18},{"id":"GO:1904948","count":16},{"id":"GO:0051561","count":16},{"id":"GO:0022009","count":16},{"id":"GO:0060789","count":16}]},{"hash":"813935184790726375","title":"B cell receptor and Fc receptor signaling cluster","description":"This cluster is dominated by GO terms for B cell receptor signaling and Fc-epsilon receptor signaling, together with adaptive immune response and cytokine regulation (IL-2, TNF). It also includes innate immune response and modulation of T cell activity, indicating a broader immune signaling module centered on humoral responses. The shared theme of B cell\u2013 and Fc receptor\u2013mediated signaling makes this a cohesive B cell\u2013immune signaling cluster.","confidence":"High","size":21,"edges":148,"triangles":560,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":21},{"id":"GO:0038095","count":21},{"id":"GO:0050853","count":21},{"id":"GO:0045087","count":21},{"id":"GO:1900042","count":21}]},{"hash":"1910998680771569853","title":"Ribosome biogenesis and translation","description":"Based on the dominant GO terms, the proteins cluster around ribosome production and protein synthesis: translation, ribosome biogenesis, and maturation/assembly of the small and large ribosomal subunits. Although a couple of development-related terms appear, they are minor compared to the ribosome-related functions, suggesting the cluster largely represents ribosome assembly and function.","confidence":"High","size":21,"edges":177,"triangles":893,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0042254","count":9},{"id":"GO:0000462","count":8},{"id":"GO:0042273","count":7},{"id":"GO:0000463","count":5}]},{"hash":"999026271553325022","title":"Systemic Neuroendocrine Signaling","description":"This cluster\u2019s terms point to signaling that regulates diverse organ functions across the organism\u2014urine volume, circadian rhythms, gastric secretion, gut motility, vascular tone, and various signaling pathways (dopamine/octopamine), as well as immune differentiation, bone remodeling, and reproductive processes. The common thread is broad, integrated physiological regulation via neuroendocrine and signaling pathways, not a single pathway or tissue. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":21},{"id":"GO:0022410","count":21},{"id":"GO:0001697","count":21},{"id":"GO:0030432","count":21},{"id":"GO:0007211","count":21}]},{"hash":"1611825170962309070","title":"Growth Factor\u2013Driven Signaling and Migration","description":"These proteins cluster around cellular signaling responses to multiple stimuli (retinoic acid, M-CSF, insulin, PDGF) with downstream calcium signaling and STAT tyrosine phosphorylation, and include processes like neutrophil chemotaxis and cell migration. The common thread is stimulus-induced signaling that promotes movement and intercellular communication.","confidence":"Medium","size":21,"edges":20,"triangles":4,"max_degree":5,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071300","count":8},{"id":"GO:0036006","count":8},{"id":"GO:0050850","count":8},{"id":"GO:0032869","count":8},{"id":"GO:0042531","count":8}]},{"hash":"1015703232576799274","title":"Unknown","description":"The cluster's top GO terms span neural development, immune signaling, platelet function, mechanosensation, and plant and kidney development. This wide, cross-domain mix lacks a single cohesive biological function, suggesting the cluster does not reflect a common theme.","confidence":"","size":21,"edges":23,"triangles":14,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":21},{"id":"GO:0070527","count":21},{"id":"GO:0035995","count":21},{"id":"GO:2000346","count":21},{"id":"GO:1904948","count":21}]},{"hash":"2024256599555510048","title":"Glycerophospholipid and ether lipid biosynthesis","description":"Most top GO terms are lipid biosynthesis-related, including phosphatidylcholine biosynthesis/remodeling, CDP-diacylglycerol biosynthesis, triglyceride and ether lipid biosynthesis, and platelet activating factor biosynthesis, pointing to a cohesive lipid metabolism cluster. A few terms about mitochondrial ATP synthesis and T cell signaling appear as ancillary links to energy and immune modulation but do not change the lipid-centric theme.","confidence":"High","size":21,"edges":111,"triangles":330,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":7},{"id":"GO:0042775","count":7},{"id":"GO:0008611","count":7},{"id":"GO:0006663","count":7},{"id":"GO:2001246","count":7}]},{"hash":"209600409201988395","title":"Keratinocyte differentiation and skin ECM remodeling","description":"This cluster centers on terms tied to epidermal differentiation (keratinocyte differentiation, Notch processing), extracellular matrix interactions (collagen fibril organization, integrin-mediated adhesion), and inflammatory remodeling (leukocyte migration, TNF response, VEGF signaling), suggesting a theme of skin tissue development/repair and associated inflammatory processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0010042","count":12},{"id":"GO:0007220","count":12},{"id":"GO:0034612","count":12},{"id":"GO:0030216","count":12},{"id":"GO:0030199","count":11}]},{"hash":"2226748030923888124","title":"Neurodevelopmental and tissue morphogenesis","description":"The cluster shows neural development signals (corticospinal tract morphogenesis, neuron cell\u2013cell adhesion, glutamatergic synaptic transmission) alongside broad tissue morphogenesis (ossification, outflow tract, placental development), suggesting proteins involved in developmental patterning and neural connectivity. A few terms relate to immune defense, likely reflecting multifunctionality rather than core cluster function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043931","count":4},{"id":"GO:0021957","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0031664","count":4},{"id":"GO:0060669","count":4}]},{"hash":"1240305769738062899","title":"Developmental transcriptional regulation","description":"This cluster centers on genes involved in orchestrating development across multiple tissues (pituitary gland, retina/eye, lung branching, ureteric bud, osteoblasts) and on transcriptional control by RNA Polymerase II, including negative regulation. The shared theme is regulatory processes that shape organogenesis, rather than a single tissue-specific function.","confidence":"High","size":21,"edges":100,"triangles":129,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0002076","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0060041","count":9}]},{"hash":"1619591964452076083","title":"Unknown","description":"The top GO terms are highly heterogeneous, covering inflammation, multiple developmental processes (blastocyst, mesoderm, heart valve), immune regulation, and cell cycle aspects. There isn\u2019t a single cohesive function that ties these together, so a specific, representative label isn\u2019t supported.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0001824","count":4},{"id":"GO:0031134","count":3},{"id":"GO:0045653","count":3},{"id":"GO:0003199","count":3}]},{"hash":"2113567125383308801","title":"Embryonic organogenesis and patterning","description":"These proteins are enriched for GO terms tied to embryonic development and tissue morphogenesis, including palatogenesis (roof of mouth development), left-right patterning, cartilage formation, and heart-related EMT in endocardial cushions, as well as broader organogenesis such as endocrine system and pancreas development. The presence of transcriptional regulation and mRNA splicing terms suggests regulatory factors coordinating developmental programs. Taken together, the core theme is embryonic organogenesis and patterning rather than a single tissue, hence the label.","confidence":"High","size":21,"edges":31,"triangles":0,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":17},{"id":"GO:0000122","count":17},{"id":"GO:0003198","count":15},{"id":"GO:0035270","count":15},{"id":"GO:0060972","count":15}]},{"hash":"882475840745092291","title":"Neural development and axon guidance","description":"These proteins collectively annotate to neural development and sensory signaling: dopaminergic neuron axon guidance; regulation of PSD-95 clustering; inner ear stereocilium organization; and associated signaling pathways (LDL signaling, STAT phosphorylation), with other terms tied to neural activity and behavior, indicating a theme of neuronal differentiation, axon guidance, and synaptic/sensory organization.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055096","count":21},{"id":"GO:0072307","count":21},{"id":"GO:0048023","count":21},{"id":"GO:0007626","count":21},{"id":"GO:1904938","count":21}]},{"hash":"1999781319614627642","title":"Unknown","description":"The top terms span a highly diverse mix of processes (protein acetylation, various biosynthetic pathways, chromatin/centromere dynamics, plant development, hormone biosynthesis, angiogenesis, and cell cycle) with no clear shared function or biological theme, so there is no coherent label that accurately represents the cluster.","confidence":"","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":19},{"id":"GO:2000025","count":18},{"id":"GO:0019491","count":18},{"id":"GO:0030187","count":18},{"id":"GO:0006348","count":18}]},{"hash":"2205845963584443009","title":"Endosomal trafficking and vesicle sorting","description":"The top GO terms cluster around endocytosis, Golgi-to-endosome and endosome-to-Golgi transport, multivesicular body sorting, and protein targeting to vacuoles, plus actin involvement in endocytosis. Together they indicate a cohesive role in intracellular vesicle trafficking and sorting within the endosomal/vacuolar pathway; incidental terms like female pregnancy do not define the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007565","count":5},{"id":"GO:0006895","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0015032","count":4},{"id":"GO:0000147","count":4}]},{"hash":"2008270859433053208","title":"Ubiquitin-Dependent Regulation of Immune and Circadian Pathways","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes and regulation of ubiquitination, suggesting a central role in protein turnover. Immune development terms (dendritic cell differentiation, pro-T cell differentiation, type 2 immune response) together with circadian rhythm and muscle development terms imply broader regulatory roles, but the ubiquitin-mediated regulation theme is strongest. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0050966","count":6},{"id":"GO:0042748","count":5},{"id":"GO:0048741","count":5},{"id":"GO:1900477","count":5}]},{"hash":"1489453054913873313","title":"SCF-Ubiquitin Proteolysis & Circadian Regulation","description":"This cluster is dominated by ubiquitin-dependent protein catabolic processes (including SCF-dependent ubiquitination) and regulation of circadian rhythm, indicating a core function in tagging proteins for proteasomal degradation and circadian control. The presence of oocyte maturation and synapse assembly terms may reflect broader roles in development, but the strongest, most recurrent signals center on ubiquitin-mediated proteolysis and circadian regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":10},{"id":"GO:0031146","count":7},{"id":"GO:0021678","count":7},{"id":"GO:0001556","count":6}]},{"hash":"88624532524288455","title":"Rho/Rac GTPase signaling and actin cytoskeleton regulation","description":"The top GO terms point to regulation and negative regulation of Rho and Rac signaling and to actin cytoskeleton organization, with supporting notes on stress fiber control and endothelial tube lumen extension, suggesting a cohesive module of cytoskeletal regulators modulating cell shape and movement.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0035024","count":4},{"id":"GO:0097498","count":4},{"id":"GO:0090334","count":4},{"id":"GO:0007605","count":4}]},{"hash":"1640210688665424841","title":"Cytoskeletal Signaling and Cell Migration","description":"This cluster centers on signaling pathways (MyD88-TLR4, Wnt), mechanical stimulus responses, and processes linked to cytoskeletal dynamics and movement (lamellipodium assembly, cell migration, endosome trafficking), suggesting proteins that couple signaling to migration and cytoskeletal remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0007527","count":4},{"id":"GO:0035660","count":4},{"id":"GO:0016055","count":3},{"id":"GO:0071260","count":3}]},{"hash":"754506439404450851","title":"Actin cytoskeleton remodeling and cell migration","description":"These proteins cluster around actin remodeling processes: lamellipodium and filopodium assembly, actin cytoskeleton organization, and cell migration, with involvement of Rho/Rac/Ras GTPase signaling. This combination points to a module coordinating actin-driven protrusions and motility.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":7},{"id":"GO:0060313","count":6},{"id":"GO:0030036","count":6},{"id":"GO:0090630","count":6},{"id":"GO:0035023","count":6}]},{"hash":"1815773232377225928","title":"Neural Signaling and Sensory Processing","description":"This cluster is dominated by GO terms related to nervous system function: visual learning and visual perception, dopaminergic synaptic transmission, behavioral responses to cocaine, and regulation of ERK signaling, all pointing to neuronal signaling and sensory processing. Other terms like prostaglandin response, macrophage chemotaxis, heart development, and urine volume appear less central, likely representing pleiotropy or broader signaling roles. Overall, the cluster best reflects neural signaling and sensory processing activities.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":21},{"id":"GO:0048148","count":21},{"id":"GO:0007507","count":21},{"id":"GO:0001963","count":21},{"id":"GO:0071380","count":21}]},{"hash":"978875580701091060","title":"Bacterial cell wall glycosylation and polysaccharide biosynthesis","description":"The GO terms are dominated by glycosylation and polysaccharide biosynthesis (including O-linked glycosylation via GalNAc/Ser/Thr, teichoic acid, cellulose, and UDP-glucose\u2013related processes) and by cell wall organization, pointing to a cohesive role in building and decorating the bacterial cell wall with polysaccharide components.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":9},{"id":"GO:0071555","count":9},{"id":"GO:0036108","count":8},{"id":"GO:0030244","count":8},{"id":"GO:0018242","count":8}]},{"hash":"1771180821117893139","title":"Unknown","description":"The Top Terms show a mix of extrinsic apoptotic signaling, various cell cycle processes (mitotic and meiotic), and broad translation/mRNA surveillance (translation, NMD, no-go decay, translation termination). With 0 edges and no single dominant function linking these terms, there isn\u2019t a cohesive theme to name the cluster confidently. Therefore, a safe label is Unknown. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001238","count":1},{"id":"GO:0097191","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0000184","count":1}]},{"hash":"1409449351809690921","title":"Unknown","description":"The top GO terms span very different biological themes (bone differentiation, heart cell communication, epithelial polarity, vitamin D response, plant chloroplast import, placental development, liver apoptosis), with no single shared function or pathway linking the proteins in this cluster; therefore a cohesive label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0001649","count":4},{"id":"GO:0060710","count":4},{"id":"GO:0045038","count":3}]},{"hash":"239311125476505475","title":"Unknown","description":"The Top Terms span innate immune response, antimicrobial signaling, dsRNA response, mechanical signaling, development, cell cycle, apoptosis, and even sporulation, with no single unifying function. The proteins appear to participate in diverse pathways, so a cohesive functional label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0043330","count":3}]},{"hash":"1600430086506072503","title":"Membrane Transport and Junctions","description":"The top GO terms center on membrane transport (xenobiotic, calcium, and ion transmembrane transport) and membrane trafficking (endosome localization), with additional junction- and barrier-related terms (septate junction assembly, glial blood-brain barrier establishment, tracheal system regulation). This suggests a cohesive theme around membrane transport and cell-cell junction organization, even though some terms are organism- or tissue-specific. Confidence in this label is moderate due to some functional diversity among terms.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0070296","count":2},{"id":"GO:0034765","count":2},{"id":"GO:0060857","count":2},{"id":"GO:0035151","count":2}]},{"hash":"887582307247351124","title":"Lens development and eye morphogenesis","description":"The top GO terms are strongly centered on lens and eye formation, notably lens fiber cell differentiation and lens morphogenesis in the camera-type eye, suggesting a theme of vertebrate eye development. Additional terms related to broader multicellular development and cytoskeletal regulation (Rho/GTPase signaling) fit with the morphogenetic processes that shape the lens, though some terms (like mitotic processes and mast cell degranulation) are more general or unrelated, bringing some noise. Overall, the strongest signal points to lens/eye development, justifying this label with moderate confidence.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1485950902431196318","title":"Developmental signaling and cell migration","description":"Top terms indicate involvement in diverse signaling pathways (ERK cascade, PI3K), developmental processes across tissues (nervous system development, axon guidance, kidney development, bone ossification, spermatid development), and immune/cell migration (T cell signaling, mast cell chemotaxis, Roundabout signaling). This suggests a broader theme of signaling networks coordinating development and cell movement across contexts, hence the label. ","confidence":"Medium","size":20,"edges":88,"triangles":87,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0043931","count":7}]},{"hash":"1858944681913247553","title":"Mitochondrial Transport and Metabolic Regulation","description":"This cluster is dominated by GO terms pointing to mitochondria: transport of key metabolites (alpha-ketoglutarate, NAD, ornithine), regulation of mitochondrial membrane permeability, and apoptotic mitochondrial changes, along with insulin/IGF- and nutrient-response signals. The combined pattern suggests a mitochondria-centered metabolic and regulatory theme for these proteins.","confidence":"High","size":20,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1990314","count":14},{"id":"GO:0035435","count":14},{"id":"GO:0008637","count":13},{"id":"GO:0090152","count":13},{"id":"GO:0034198","count":13}]},{"hash":"1487494950221038644","title":"GTPase-driven immune signaling and cytoskeletal remodeling","description":"This cluster is dominated by terms for small GTPase\u2013mediated signal transduction (e.g., Ras pathway), insulin signaling, and immune-related processes (IL-4 production, IL-7 response, NK T cell differentiation) along with cytoskeletal dynamics (lamellipodium assembly, cell spreading). Together these suggest a cohesive theme where GTPase signaling coordinates immune cell activation and actin remodeling, with additional developmental signals that can influence heart and nerve-related processes.","confidence":"High","size":20,"edges":27,"triangles":0,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":18},{"id":"GO:0008286","count":18},{"id":"GO:1900026","count":18},{"id":"GO:0032633","count":18},{"id":"GO:0032287","count":18}]},{"hash":"211635387652938704","title":"Unknown","description":"The top GO terms span several distinct themes (cell adhesion, lipid localization and cholesterol regulation, excretion, mitochondrial dynamics and membrane potential, immune signaling via IL-2, and even ERAD), with no single dominant function tying the proteins together. This makes a precise, cohesive label difficult, so assigning a specific functional name isn\u2019t reliable.","confidence":"","size":20,"edges":43,"triangles":35,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:2000049","count":3},{"id":"GO:0001302","count":3},{"id":"GO:0010876","count":3},{"id":"GO:0007588","count":3},{"id":"GO:1990046","count":3}]},{"hash":"954697080339961088","title":"Unknown","description":"The top terms show a mix of nucleotide catabolism and protein N-linked glycosylation, but they are complemented by unrelated plant reproductive terms (pollen exine formation, anther dehiscence) and a neural development term (substantia nigra development). This lack of a coherent, single-function theme makes it impossible to assign a precise, representative label with confidence.","confidence":"","size":20,"edges":146,"triangles":572,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0071405","count":12},{"id":"GO:0046712","count":12},{"id":"GO:0006487","count":12},{"id":"GO:0046706","count":12},{"id":"GO:0010584","count":12}]},{"hash":"1610382135918461179","title":"Neurodevelopment and immune signaling","description":"This cluster centers on neural development processes (axon fasciculation, synapse assembly, myelination) with concurrent immune/inflammatory signaling (defense against bacteria, TH1 response, inflammatory regulation). The presence of mechanosensory and otolith-related terms suggests sensory system development, indicating proteins involved in neurodevelopment that may also modulate immune responses.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0042088","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0007413","count":6},{"id":"GO:0051965","count":6}]},{"hash":"435896317585492107","title":"Neural development and synaptic function","description":"This cluster is dominated by neural-related GO terms: retina development, memory (short and long-term), neurotransmitter secretion, and regulation of synaptic vesicle endocytosis, all pointing to neuronal development and synaptic signaling. While there is an unrelated kidney development term, the neural theme is strong and representative of the cluster\u2019s function.","confidence":"High","size":20,"edges":107,"triangles":220,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":15},{"id":"GO:0010842","count":13},{"id":"GO:1900242","count":13},{"id":"GO:0007613","count":13},{"id":"GO:0000278","count":13}]},{"hash":"528821072718525230","title":"NF-kappaB signaling and cytoskeletal remodeling","description":"The cluster centers on NF-kappaB regulation and innate immune signaling, with strong ties to cytoskeletal dynamics (actin organization, podosome assembly) and membrane trafficking (GTPase signaling, vesicle loading). This suggests a theme of immune activation intertwined with cytoskeletal remodeling and membrane remodeling, despite one term related to osteoblast fate that is less central to the core functions. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0043123","count":4},{"id":"GO:0097320","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1823864711146848634","title":"Neural development and synaptic plasticity regulation","description":"The set includes terms tied to neuronal synaptic plasticity, neurodegenerative processes (neurofibrillary tangles), and embryonic/retinal development, suggesting a cluster associated with nervous system development and function, with added stress/aging signals. Some terms are peripheral (platelet activation, fungal response) but do not override the main theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":3},{"id":"GO:0090403","count":3},{"id":"GO:1902997","count":3},{"id":"GO:0061304","count":3},{"id":"GO:0010572","count":3}]},{"hash":"485910011155941904","title":"Microtubule-driven spindle dynamics and intracellular transport","description":"The top GO terms cluster around mitotic spindle assembly and elongation, spindle midzone formation, and cytokinesis, with additional terms pointing to nuclear migration, axonemal microtubule depolymerization, and dendritic transport. Together these reflect a core theme of microtubule organization driving both cell division and intracellular trafficking across diverse contexts (cilia/flagella, neurons, and plant cells). The presence of a few broader or cross-kingdom terms likely reflects annotation breadth, but the central signal remains microtubule-based processes.","confidence":"High","size":20,"edges":98,"triangles":297,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":18},{"id":"GO:0060404","count":18},{"id":"GO:0009904","count":18},{"id":"GO:0051255","count":18},{"id":"GO:0000911","count":18}]},{"hash":"937957264641446556","title":"Phytochrome red/far-red light signaling and transcription","description":"The GO terms cluster around red/far-red light phototransduction, light detection, and regulation of DNA-templated transcription, suggesting a phytochrome-like photoreceptor module that couples light sensing (chromophore/tetrapyrrole linkage) to transcriptional regulation.","confidence":"High","size":20,"edges":119,"triangles":320,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000160","count":13},{"id":"GO:0006351","count":13},{"id":"GO:0018298","count":12},{"id":"GO:0010161","count":12},{"id":"GO:0009585","count":12}]},{"hash":"253031409232780808","title":"Mitochondrial Transport and Membrane Dynamics","description":"The cluster's top GO terms center on mitochondria: apoptotic mitochondrial changes, regulation of mitochondrial membrane permeability, mitochondrial membrane fission, and various metabolite transports (alpha-ketoglutarate, NAD, ornithine) across membranes. The presence of stress/energy-related responses (amino acid starvation, insulin stimulus) supports a metabolic context where mitochondrial dynamics govern cellular adaptation and apoptosis. ","confidence":"High","size":20,"edges":18,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":4},{"id":"GO:0090152","count":4},{"id":"GO:0034198","count":4},{"id":"GO:1990314","count":4},{"id":"GO:0015742","count":4}]},{"hash":"601074077394277972","title":"Skin development and immune signaling","description":"This cluster is dominated by terms tied to skin biology: hair follicle morphogenesis, UV-B response, and blood vessel remodeling, pointing to skin development and tissue remodeling. The presence of regulation of transcription and NF-kappaB signaling reinforces a regulatory, immune-responsive theme in skin. A few terms (cerebral cortex development, starch biosynthesis) are outliers, likely due to broad annotations, but do not override the main skin-centric pattern.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060546","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0050832","count":4},{"id":"GO:0021987","count":3},{"id":"GO:0031069","count":3}]},{"hash":"1302249660857082358","title":"Meiosis-associated RNA processing and chromatin dynamics","description":"The top GO terms point to two themes: meiosis-related chromosomal events (homologous chromosome pairing at meiosis, meiotic telomere clustering, meiotic telomere attachment to nuclear envelope) and nuclear RNA processing activities (ribosomal small subunit export from nucleus, box C/D snoRNP assembly, regulation of mRNA splicing), suggesting a label that captures both RNA processing and meiotic chromatin dynamics; some signaling terms appear incidental.","confidence":"Medium","size":20,"edges":19,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":2},{"id":"GO:0048025","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0000492","count":2},{"id":"GO:0018013","count":2}]},{"hash":"183006297832039299","title":"Bone remodeling and ECM degradation","description":"This cluster centers on bone remodeling and extracellular matrix (ECM) turnover, with terms for intramembranous ossification, bone resorption, and ECM/ collagen catabolic processes, plus basement membrane disassembly. Additional signals like thyroid hormone response and proteolytic/neuropeptide catabolism support coordinated remodeling, while T cell\u2013mediated cytotoxicity suggests immune involvement in skeletal processes. Overall, the dominant theme is bone and ECM remodeling rather than a single signaling pathway.","confidence":"Medium","size":20,"edges":118,"triangles":399,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:2000179","count":12},{"id":"GO:0034769","count":12},{"id":"GO:0097067","count":12},{"id":"GO:0001957","count":12},{"id":"GO:0010815","count":12}]},{"hash":"1124175763111582161","title":"Cerebellar neuron development and glutamatergic signaling","description":"The cluster is enriched for cerebellar development terms (Purkinje cell layer formation, dendritic spine morphogenesis) and glutamatergic activity (glutamate secretion), with supporting neural development and signaling terms (neural plate elongation, protein dephosphorylation). This points to a coherent theme of cerebellar neuron maturation and synaptic communication.","confidence":"High","size":20,"edges":166,"triangles":789,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071625","count":10},{"id":"GO:0050821","count":9},{"id":"GO:0022007","count":9},{"id":"GO:2000474","count":9},{"id":"GO:0014047","count":9}]},{"hash":"2010691785420993123","title":"Prostaglandin-GPCR vascular signaling and inflammation","description":"The top GO terms point to cardiovascular regulation (positive regulation of blood pressure, blood coagulation, smooth muscle contraction), GPCR signaling activating adenylate cyclase, prostaglandin response, Rho signaling, and inflammatory cues (response to lipopolysaccharide, pain perception). These together suggest a cluster of proteins coordinating vascular tone and inflammatory signaling via prostaglandin/GPCR pathways, with some metabolic genes (electron transport chain) likely reflecting background cellular activity rather than core function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007596","count":11},{"id":"GO:0032496","count":11}]},{"hash":"1633018522075409706","title":"Spliceosome assembly and mRNA splicing regulation","description":"The cluster is dominated by GO terms for spliceosome-mediated mRNA splicing, including cis-splicing, snRNP and spliceosomal complex assembly, and both positive and negative regulation of splicing, plus mRNA stability under stress\u2014indicating core components of the splicing machinery and its regulation. A few terms touch on translation initiation, but the primary signal is splicing-related. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":13},{"id":"GO:0010610","count":10},{"id":"GO:0048025","count":9},{"id":"GO:0000387","count":8},{"id":"GO:0006378","count":8}]},{"hash":"931950062513208347","title":"Gut motility and metabolic signaling","description":"This cluster centers on digestive tract regulation (peristalsis, gastric acid secretion) and broader systemic signaling (thermogenesis, circadian rhythms, dopamine/octopamine signaling), indicating a cohesive theme of gut function linked to metabolic and neuroendocrine pathways.","confidence":"Medium","size":20,"edges":30,"triangles":6,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0035810","count":15}]},{"hash":"178170642357065228","title":"Neuroendocrine and Autonomic Regulation","description":"The cluster centers on neurotransmitter signaling (dopamine, octopamine/tyramine) and downstream autonomic/endocrine effects across organ systems\u2014circadian rhythm, gut motility, gastric secretion, urine volume, vasodilation/blood pressure, bone remodeling, reproductive processes, and even immune differentiation\u2014indicating a theme of broad physiological regulation by neuroendocrine and autonomic signaling 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:0035810","count":11},{"id":"GO:0022410","count":11},{"id":"GO:0001697","count":11},{"id":"GO:0030432","count":11},{"id":"GO:0007211","count":11}]},{"hash":"1774507134778299272","title":"Endothelial adhesion and cardiovascular morphogenesis","description":"The cluster is dominated by terms tied to endothelial differentiation and heart development, including arterial endothelial cell differentiation, coronary artery morphogenesis, endocardial cushion migration, BMP signaling, and cell-matrix/heterophilic cell\u2013cell adhesion. While immune-related terms (complement activation via the lectin pathway and muramyl dipeptide response) appear, the prevailing theme centers on cardiovascular endothelial function and morphogenesis.","confidence":"High","size":20,"edges":22,"triangles":5,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0001867","count":14},{"id":"GO:1900142","count":13},{"id":"GO:0007160","count":13},{"id":"GO:0044332","count":13}]},{"hash":"790103741584587257","title":"Neural Development and Axon Guidance","description":"The top GO terms point to neural development and axon connectivity, notably forebrain development, fasciculation of sensory neuron axon, and regulation of integrin-mediated cell adhesion, which together suggest a coherent theme of neuronal development and guidance. Other terms reflect broader cellular regulation and stress responses, but the neural-development signals are the most prominent and cohesive for labeling this cluster.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":20},{"id":"GO:0006611","count":20},{"id":"GO:0070059","count":20},{"id":"GO:0090153","count":20},{"id":"GO:0071479","count":20}]},{"hash":"985048088536380626","title":"RNA processing and translation regulation","description":"GO terms cluster around mRNA processing (splicing, export, stability) and downstream translation control (initiation, termination, IRES-dependent initiation, eIF4F assembly), plus regulatory ncRNA-mediated gene silencing. This suggests a cohesive group of proteins involved in post-transcriptional gene expression regulation at both RNA processing and translation stages, including stress response.","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":20},{"id":"GO:0048026","count":12},{"id":"GO:0075525","count":12},{"id":"GO:0075522","count":12},{"id":"GO:0097010","count":12}]},{"hash":"1234317454856791647","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903241","count":20},{"id":"GO:0071894","count":20},{"id":"GO:0000388","count":20},{"id":"GO:0000393","count":20},{"id":"GO:1904570","count":20}]},{"hash":"525443798764132030","title":"Neuronal Development and Cellular Stress Response","description":"Top terms show strong signals for neuron development and dendrite morphogenesis, indicating neural differentiation programs. The co-occurrence of transcriptional regulation, ER-stress\u2013mediated apoptosis, proteostasis, and innate immune/stress responses suggests a theme of neuronal development coupled with cellular stress and protein quality control.","confidence":"Medium","size":20,"edges":30,"triangles":19,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0048666","count":4},{"id":"GO:0032435","count":4},{"id":"GO:0007100","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1561357253924248636","title":"Regulation of Cell Signaling and Division","description":"This cluster is enriched for terms about negative regulation of key signaling pathways (T cell receptor, ERK/MAPK, JAK-STAT), protein dephosphorylation, and processes tied to the cell cycle and mitotic/meiotic events (kinetochore localization, spindle disassembly), pointing to a cohesive theme of coordinating signaling control with cell division and development.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":20},{"id":"GO:0000200","count":20},{"id":"GO:0070373","count":20},{"id":"GO:0035335","count":16},{"id":"GO:0007049","count":16}]},{"hash":"500343382731346868","title":"Vision and cardiac signaling proteins","description":"This cluster is strongly enriched for visual system terms (visual perception, regulation of opsin-mediated signaling) and separately for cardiac-related terms (cardiac muscle contraction, heart development), with a smaller cluster of translation and general metabolism terms likely reflecting background annotation. The convergence on vision and heart signaling suggests a common theme around signaling proteins that may function in both photoreceptor signaling and cardiac regulatory pathways, possibly via shared GTPase-mediated signaling mechanisms.","confidence":"Medium","size":20,"edges":42,"triangles":27,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0022400","count":2},{"id":"GO:0060048","count":2}]},{"hash":"421885293132442092","title":"Steroid Hormone and Xenobiotic Metabolism (P450)","description":"Most terms center on steroid hormone metabolism (testosterone/androgen) and xenobiotic detox via cytochrome P450 pathways (epoxygenase, dioxin, retinoic acid/vitamin D signaling). The uterus development term reflects hormone-regulated tissue biology, while responses to cesium and vitamin D fit detox signaling. Overall, the cluster points to steroid hormone biosynthesis and P450-mediated metabolism.","confidence":"High","size":20,"edges":25,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":7},{"id":"GO:0008209","count":7},{"id":"GO:0060065","count":6},{"id":"GO:0070989","count":5},{"id":"GO:0019373","count":5}]},{"hash":"788388733292359830","title":"Neural development and axonogenesis","description":"The cluster is strongestly characterized by GO terms tied to neural development and axon growth, including lateral motor column neuron migration, midbrain dopaminergic neuron differentiation, peripheral nervous system neuron axonogenesis, and sensory-related detection of muscle stretch. While there are several outlier terms spanning plant development and immune or liver regulation, the dominant signal points to neural development and axonogenesis as the core theme of this cluster.","confidence":"Medium","size":20,"edges":159,"triangles":698,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":16},{"id":"GO:0070527","count":16},{"id":"GO:0035995","count":16},{"id":"GO:2000346","count":16},{"id":"GO:1904948","count":16}]},{"hash":"2066541152036356774","title":"DNA replication and repair with morphogenesis signaling","description":"This cluster is dominated by terms for DNA replication, recombination, and repair, plus RNA-templated DNA biosynthesis, pointing to genome maintenance. Additional terms point to cell morphogenesis and cytoskeletal signaling (Rho pathway, epithelial cell migration), suggesting a link between genome maintenance and developmental/motility processes. The combined theme best fits a module combining DNA maintenance with morphogenesis signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0000902","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0006260","count":2}]},{"hash":"642057801070516609","title":"Developmental Differentiation and Ubiquitin Regulation","description":"This cluster is dominated by GO terms for multicellular organism development, cell differentiation, and transcription, with supporting terms for protein ubiquitination and ERAD-related regulation. The inclusion of forebrain and trophoblast differentiation, alongside mitotic cell cycle and cytokinesis regulation, points to genes involved in developmental programs that are tightly controlled by ubiquitin-mediated regulation and transcriptional control. Overall, the terms cohere around developmental differentiation with regulatory protein turnover.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0030154","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0000278","count":2}]},{"hash":"278451294767332958","title":"Cell Wall Biosynthesis and Morphogenesis","description":"The cluster centers on the construction and organization of cell wall components (cell wall biogenesis/organization, mannoprotein biosynthesis, glycan precursor synthesis) and processes that shape cells (regulation of cell shape, morphogenesis). While some terms like peptidoglycan and lipid A biosynthesis appear, the dominant theme is wall assembly and structural remodeling, especially related to fungal-type cell walls.","confidence":"High","size":20,"edges":122,"triangles":331,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0009272","count":2},{"id":"GO:0009298","count":2},{"id":"GO:0005978","count":2}]},{"hash":"1216115849164134076","title":"Transcriptional Regulation and Immune Response","description":"This cluster combines GO terms for both positive and negative regulation of transcription by RNA polymerase II with immune-related responses (defense against Gram-positive bacteria, response to lipopolysaccharide, and IL-10 production). The recurring transcriptional control terms suggest a core function in gene expression regulation during immune signaling, while developmental terms like trophoblast giant cell differentiation and pancreatic cell development appear less central. Overall, the dominant theme is transcriptional regulation tied to immune response.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0044130","count":6},{"id":"GO:0060707","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0071260","count":5}]},{"hash":"1672197023542602228","title":"Transcriptional Regulation Under Stress","description":"The cluster is dominated by GO terms related to transcription (DNA-templated transcription) and its regulation, with strong signals for hypoxia-related regulation (HIF-1\u03b1 signaling) and circadian control of gene expression, plus responses to xenobiotic stimuli and various developmental processes. While there are diverse roles (elastin metabolism, intestinal maturation, neural development, B cell homeostasis), the common theme is regulation of gene expression through transcription factors and signaling pathways in stress and development contexts.","confidence":"Medium","size":20,"edges":186,"triangles":1072,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051541","count":18},{"id":"GO:0009410","count":18},{"id":"GO:0060574","count":18},{"id":"GO:0021502","count":18},{"id":"GO:0006351","count":18}]},{"hash":"482986158379217498","title":"Craniofacial skeletal and neural development","description":"The top GO terms cluster around embryonic development of skeletal and facial structures (cartilage development; embryonic skeletal system development; roof of mouth development) and neural/brain-related development (midbrain development; pituitary gland development). Transcription regulation terms further support coordinated gene expression during development. A few immune-response terms are present but do not define the core theme. Overall, the set best reflects embryonic craniofacial skeletal and neural development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0051216","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0048706","count":5},{"id":"GO:0050830","count":4}]},{"hash":"2071406355326956388","title":"Vesicle trafficking and secretion","description":"The cluster\u2019s top GO terms are dominated by intracellular vesicle transport and membrane fusion processes, including Golgi-ER retrograde transport, endosome-Golgi trafficking, vesicle fusion with Golgi, vacuole fusion, and triglyceride transport. NK cell degranulation reinforces the secretory vesicle theme. Although there are a few unrelated terms (mitochondrial complex assembly, transcription, dendrite morphogenesis), the prevalent signal points to vesicle trafficking and secretion as the core cluster function.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0050775","count":2},{"id":"GO:0006890","count":2},{"id":"GO:1900483","count":2}]},{"hash":"1354763772893251246","title":"Ubiquitin-Dependent Proteostasis and Chromatin Regulation","description":"Most terms describe ubiquitin-mediated protein turnover (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, ERAD). A substantial subset also points to chromatin- and gene-regulatory contexts (histone catabolic process, dosage compensation, V(D)J recombination), and a regulatory link to signaling through the JNK cascade. This combination suggests a cluster centered on proteostasis via ubiquitination with ancillary roles in chromatin dynamics. Therefore the label Ubiquitin-Dependent Proteostasis and Chromatin Regulation captures the dominant theme while acknowledging the chromatin-related terms.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0046328","count":11},{"id":"GO:0009048","count":10},{"id":"GO:0051865","count":10},{"id":"GO:0016567","count":10}]},{"hash":"1837975230526506297","title":"Neural signaling and sensory processing","description":"The proteins are enriched for neural communication and sensory-related GO terms (GABA signaling, potassium and sodium ion transport, excitatory postsynaptic potential) along with locomotion and sensory perception terms (sound/mechanical stimulus, taste aversion). While there are a few peripheral associations (acrosome reaction, skeletal muscle growth), the dominant theme is neurotransmission and sensory/motor function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":17},{"id":"GO:0007626","count":17},{"id":"GO:0001661","count":17},{"id":"GO:0071805","count":17},{"id":"GO:0060079","count":17}]},{"hash":"35792563845852995","title":"Immune signaling and cytotoxic cell regulation","description":"The proteins are enriched for immune-related processes: cytokine production, interferon type II production, regulation of NK and T cell activity, platelet activation, and complement activation. These common immune signaling themes suggest a cohesive functional cluster centered on immune response modulation, despite a couple of neural development terms that may reflect broader or cross-annotated roles. Confidence: High","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":2},{"id":"GO:0043318","count":2},{"id":"GO:0032609","count":2},{"id":"GO:0090138","count":2},{"id":"GO:0002374","count":2}]},{"hash":"1940879198542686627","title":"Vesicle trafficking and receptor signaling","description":"The terms exocytosis and receptor clustering point to vesicle trafficking and surface receptor organization; plus related signaling terms (Notch regulation, FSH stimulus) support a unifying signaling theme, though some annotations (PHB and LPS biosynthesis) appear unrelated, indicating possible annotation noise.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0043113","count":5},{"id":"GO:0042619","count":5},{"id":"GO:2000821","count":4},{"id":"GO:0009103","count":4}]},{"hash":"949036415101501144","title":"Secretory Trafficking and RNA Processing","description":"The top GO terms span both secretion-related processes (neurotransmitter exocytosis, endocytosis regulation, calcium-dependent exocytosis, and general protein transport) and RNA processing/translation (mRNA splicing via spliceosome, splice-site recognition, and translation initiation). This suggests a cluster of proteins involved in both secretory trafficking and RNA processing/translation machinery, though the linkage is not tightly cohesive. Confidence: Medium.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048792","count":2},{"id":"GO:0045806","count":1},{"id":"GO:0045956","count":1},{"id":"GO:0050715","count":1},{"id":"GO:0015031","count":1}]},{"hash":"301215005735667264","title":"Unknown","description":"The top GO terms are very diverse, spanning development, lipid signaling and metabolism, sperm structure (axoneme and acrosome), enamel mineralization, and iron-sulfur cluster assembly. There is no single cohesive function or pathway tying these proteins together, suggesting no clear shared role for this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0019372","count":1},{"id":"GO:0007288","count":1},{"id":"GO:0050482","count":1},{"id":"GO:0006644","count":1}]},{"hash":"2242931168515826967","title":"Innate immune response and inflammatory signaling","description":"The top GO terms cluster around innate immunity and defense against pathogens (response to LPS, Gram-positive bacteria, dsRNA; innate immune response; cytokine signaling; antiviral defenses), indicating a shared role in immune detection and inflammatory signaling. Some terms touch on apoptosis and kinase regulation, suggesting signaling modulation during immune responses; one odd term about peripheral myelination seems peripheral to the core theme but does not override the main immune-focused pattern.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0050729","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0006469","count":2}]},{"hash":"1217398756741136799","title":"Ubiquitin signaling and transcription regulation","description":"The strongest commonality among terms is ubiquitin signaling, including multiple deubiquitination activities (K48, K63, K11) and ubiquitin-dependent protein catabolic processes, alongside DNA-templated transcription. Some terms suggest related signaling and cytoskeletal roles (Rho signaling, microvillus assembly) or sensory functions, but these are less central to the core theme. Therefore the label reflects the dominant functional axis, with medium confidence.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071108","count":4},{"id":"GO:0070537","count":4},{"id":"GO:0035871","count":4},{"id":"GO:0006511","count":4}]},{"hash":"910353423582541569","title":"Neural NF-kB signaling and membrane repair","description":"The cluster centers on NF-kappaB pathway activity (canonical signaling and regulation) and plasma membrane repair, with supporting terms for oxidative and mechanical stress responses, and neural development/plasticity (synaptic potentiation, brain development). This pattern suggests a neural-focused immune/stress signaling cluster involving membrane remodeling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0007249","count":2}]},{"hash":"2094666188040763303","title":"Developmental signaling and ECM remodeling","description":"The top GO terms cluster around Wnt signaling and developmental processes (midbrain development, amelogenesis, pancreatic cell development) and extracellular matrix remodeling (ECM disassembly, collagen catabolic process). The combination suggests coordinated signaling and tissue remodeling during development, with transcriptional regulation reflecting gene control in these processes. Immune defense terms are present but less central to the cluster\u2019s main theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0016055","count":7},{"id":"GO:0014068","count":5},{"id":"GO:0022617","count":5},{"id":"GO:0030574","count":5}]},{"hash":"987493291953342549","title":"Epithelial cell morphology and barrier development","description":"The strongest signals cluster around epithelial-related structure and barrier functions (hair follicle maturation, microvillus assembly, endothelial intestinal barrier establishment) with supporting processes like vesicle transport along actin filaments and peroxisome inheritance. Some terms are broader signaling pathways (thrombin receptor signaling, non-canonical NF-kappaB, cAMP signaling) that don't fit as neatly, so the overall coherence is modest.","confidence":"Low","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048820","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0042346","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0019933","count":2}]},{"hash":"2174493407071541205","title":"Transmembrane transport of amino acids and solutes","description":"The cluster shows multiple GO terms for transport of amino acids and small solutes across membranes (D-serine, D-alanine, L-arginine, methionine, GABA, carnitine, ammonium) along with osmotic regulation processes (cell volume homeostasis, hypotonic salinity response), pointing to a coherent function as membrane transporters for amino acids and related metabolites.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035826","count":5},{"id":"GO:0042942","count":5},{"id":"GO:0006527","count":5},{"id":"GO:0006884","count":5},{"id":"GO:0071477","count":5}]},{"hash":"1000827052333111294","title":"Unknown","description":"The top GO terms span innate immune signaling (MyD88-dependent TLR signaling and TLR1 signaling), Wnt signalosome assembly, neuronal signaling, chromatin localization, and cell-cycle related processes, indicating a heterogeneous mix with no single dominant function. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002755","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0071169","count":2},{"id":"GO:1904887","count":2},{"id":"GO:0034130","count":2}]},{"hash":"2229068010749589569","title":"Neuromuscular and auditory synaptic signaling","description":"This cluster shows enrichment for neuromuscular control terms (posture, skeletal muscle growth) alongside auditory-related terms (inner ear development, sound perception) and synaptic signaling (cholinergic, GABA) with postsynaptic organization and ion transport, suggesting a theme of neuromuscular\u2013auditory synaptic function rather than a single isolated pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0007271","count":2},{"id":"GO:0048630","count":1},{"id":"GO:0043200","count":1}]},{"hash":"2153048967944706537","title":"Rho GTPase\u2013driven actin remodeling","description":"This cluster is dominated by GO terms for lamellipodium and filopodium assembly, along with activation of small GTPase signaling, which together point to actin cytoskeleton reorganization and cell spreading moderated by Rho family GTPases. Some terms (midbrain morphogenesis, sensory perception) are less connected to cytoskeletal dynamics, but the core signal centers on actin remodeling and GTPase-driven pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":4},{"id":"GO:1900026","count":4},{"id":"GO:1904693","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0046847","count":3}]},{"hash":"2288281187284484221","title":"Developmental and immune signaling in epithelia","description":"This cluster shows enrichment for developmental processes such as salivary gland formation, lung morphogenesis, and hair follicle/proliferation, alongside immune signaling (Th1 response, type II interferon production) and MAPK pathway regulation (ERK/JNK cascades) as well as xenobiotic response. The mix suggests proteins involved in signaling networks that coordinate epithelial development with immune and stress responses rather than a single narrowly defined function.","confidence":"Medium","size":19,"edges":164,"triangles":856,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060661","count":7},{"id":"GO:0043524","count":7},{"id":"GO:0032729","count":7},{"id":"GO:0071338","count":7},{"id":"GO:0042088","count":7}]},{"hash":"389530299612997039","title":"Eph-ephrin signaling in neuronal morphogenesis","description":"The cluster is dominated by GO terms related to ephrin receptor signaling, dendrite morphogenesis, axon extension/axonogenesis regulation, and hippocampus development, all pointing to neuronal projection formation. Additional terms such as JNK/MAPKK pathway components and regulation of protein stability/phosphorylation support signal-driven cytoskeletal remodeling and neuronal differentiation. Together, these terms define a coherent theme of neuronal morphogenesis orchestrated by Eph signaling and MAPK cascades. ","confidence":"High","size":19,"edges":82,"triangles":154,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":13},{"id":"GO:0021766","count":12},{"id":"GO:0046330","count":12},{"id":"GO:0045773","count":12},{"id":"GO:0048813","count":12}]},{"hash":"784658413220546429","title":"Embryonic Development and Tissue Differentiation","description":"The cluster is enriched for GO terms describing differentiation of multiple tissues (brown fat, osteoblasts, neurogenesis, forelimb morphogenesis) and development-related transcription, indicating a shared theme of developmental differentiation; additional terms on circadian rhythm, IL-4 signaling, and lipid biosynthesis reflect broader regulatory and metabolic context but do not outweigh the core developmental signal.","confidence":"High","size":19,"edges":91,"triangles":201,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":8},{"id":"GO:0022008","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0045669","count":6},{"id":"GO:0007623","count":5}]},{"hash":"1644502942824763086","title":"Neuronal development and synapse organization","description":"The top GO terms cluster around neural development and synaptic architecture: neurogenesis, synapse organization, clustering of voltage-gated sodium channels, and localization to the paranode region of axons, all pointing to neuronal differentiation and maturation. While there are additional terms related to angiogenesis and immune processes (apoptotic process, neutrophil clearance, TH2 cytokine production), the dominant signal is neuronal development and synaptic organization, with ion channel clustering supporting functional maturation of neurons. This supports a cohesive theme, though some immune-related terms may reflect broader signaling context.","confidence":"Medium","size":19,"edges":160,"triangles":806,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":12},{"id":"GO:0001525","count":11},{"id":"GO:0045162","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0022008","count":10}]},{"hash":"1971926373550208998","title":"Developmental and Immune Regulation","description":"This cluster combines GO terms spanning development (neurogenesis, vagina development, retinoic acid catabolic process, regulation of germ cell proliferation) with immune-related activity (complement activation, apoptosis) and broader regulatory processes (gene expression, lipid homeostasis). The mix suggests a module where developmental programs are coordinated with immune signaling and cell fate decisions, hence the label.","confidence":"Medium","size":19,"edges":122,"triangles":382,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":14},{"id":"GO:0055091","count":14},{"id":"GO:0006958","count":11},{"id":"GO:0006915","count":11},{"id":"GO:0022008","count":11}]},{"hash":"2038827373561895415","title":"Quinone biosynthesis and fatty acid metabolism","description":"This cluster is enriched for quinone biosynthesis terms (menaquinone and phylloquinone) and fatty acid beta-oxidation, along with several amino acid and aromatic compound catabolic processes. These together point to a core theme of energy metabolism and cofactor (quinone) biosynthesis, with some noise from other annotations like antibiotic biosynthesis and spliceosome-related terms. Overall, the dominant pattern supports a label around quinone production and fatty acid metabolism. ","confidence":"High","size":19,"edges":69,"triangles":220,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0017000","count":13},{"id":"GO:0006574","count":12},{"id":"GO:0009234","count":12},{"id":"GO:0042372","count":12},{"id":"GO:0010124","count":12}]},{"hash":"265003333029285621","title":"Organelle dynamics and cell polarity regulation","description":"The top GO terms cluster around membrane and organelle organization (lysosomal membrane organization, mitochondrial fission), epithelial cell polarity establishment, and cytoskeletal signaling (small GTPase pathways) with ubiquitination, suggesting a shared role in organizing organelles and cell architecture rather than a single pathway. ","confidence":"Medium","size":19,"edges":18,"triangles":2,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097212","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0034379","count":6}]},{"hash":"2001491636790816902","title":"Synaptic signaling and plasticity","description":"The top GO terms are dominated by neuronal synaptic functions (regulation of synaptic vesicle exocytosis, excitatory postsynaptic potential, long-term potentiation), suggesting the cluster centers on synaptic signaling and plasticity. Additional terms point to cytoskeletal regulation (positive regulation of GTPase activity, stress fiber assembly) and migration-related processes, which can support synaptic remodeling but indicate broader functional contexts. Overall, the dominant theme is neuronal synaptic signaling, with secondary cytoskeletal regulatory roles.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0090051","count":2}]},{"hash":"1281469363320043464","title":"Unknown","description":"The GO terms span diverse processes, including stress response, autophagy (lipophagy), hepatocyte apoptosis, RNA export, gland development, immune cytotoxicity, membrane trafficking, and GPCR signaling. There isn\u2019t a single cohesive function that ties these terms together, so a specific, concise label cannot be confidently assigned. ","confidence":"","size":19,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035900","count":19},{"id":"GO:0061724","count":18},{"id":"GO:0097284","count":18},{"id":"GO:0035281","count":18},{"id":"GO:0060661","count":18}]},{"hash":"513009993018156016","title":"Unknown","description":"The GO terms are diverse (phosphorylation/dephosphorylation, viral process, DNA repair, cardiac depolarization, cGMP response, gravitaxis, CO response, Mn transport, morphogenesis) with no obvious single function uniting the cluster. This lack of a coherent theme suggests no specific cluster label beyond Unknown.","confidence":"","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0016032","count":3},{"id":"GO:0016311","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0003151","count":2}]},{"hash":"1287251321095294580","title":"Inflammatory signaling and transcription regulation","description":"This cluster centers on DNA-templated transcription and immune/stress signaling: NF-kappaB pathway regulation, p38 MAPK cascade, LPS response, and transcriptional control genes. While a few tissue-development terms appear, the dominant pattern ties transcriptional regulation to innate inflammatory signaling, suggesting a coherent module of transcription factors and signaling components involved in immune/stress responses.","confidence":"Medium","size":19,"edges":25,"triangles":4,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0060749","count":12},{"id":"GO:0033327","count":12},{"id":"GO:0035726","count":11},{"id":"GO:0043124","count":11}]},{"hash":"1046382255315578557","title":"Transcription Regulation and Cell Cycle Control","description":"These proteins are enriched for DNA-templated transcription and regulation of transcription, along with key cell cycle control terms (G1/S transition, CDK activity). While some terms reference mammary gland development and insulin signaling, the dominant signal is coordinated transcriptional regulation with cell cycle progression, fitting a cohesive cluster around gene expression control during the cell cycle.","confidence":"High","size":19,"edges":12,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000082","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0045737","count":8},{"id":"GO:0060749","count":8}]},{"hash":"1051100474402662888","title":"Adaptive immune activation and T cell costimulation","description":"The cluster is strongly enriched for adaptive immune terms: immunoglobulin production, adaptive immune response, T cell costimulation, and regulation of T cell proliferation, along with related processes like cell-cell adhesion and synapse assembly, which together point to immune cell communication and activation. Innate immunity terms support the broader immune context, while one outlier term (atrial cardiac muscle cell action potential) may reflect annotation noise rather than a core function of the cluster. Overall, the dominant theme is immune activation and T cell signaling.","confidence":"High","size":19,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002377","count":10},{"id":"GO:0086014","count":10},{"id":"GO:0002250","count":8},{"id":"GO:0031295","count":8},{"id":"GO:0051963","count":8}]},{"hash":"786056916737315097","title":"Developmental signaling and cell adhesion","description":"The set centers on developmental processes (heart development; neuronal dendritic spine development and collateral sprouting) and cytoskeletal remodeling via Rho signaling, along with cell\u2013cell adhesion (both homo- and heterophilic). These themes together imply proteins involved in coordinating tissue development with adhesion and cytoskeletal dynamics, though a couple of entries appear irrelevant or obsolete and may reflect annotation noise. ","confidence":"Medium","size":19,"edges":44,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0051301","count":3}]},{"hash":"546091437402794582","title":"Vacuolar and Mitochondrial Transport and Ion Homeostasis","description":"The cluster\u2019s top GO terms center on organelle membrane transport and ion handling, including sodium and proton transmembrane transport, vacuolar acidification and organization, and protein targeting to vacuole, with supporting hints of mitochondrial targeting/translation and copper ion homeostasis. Together these indicate a coherent role in vesicular trafficking and ion balance within vacuolar and mitochondrial compartments, justifying a label around vacuolar/mitochondrial transport and ion homeostasis.","confidence":"High","size":19,"edges":123,"triangles":368,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":3},{"id":"GO:0042777","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0006878","count":2},{"id":"GO:0006623","count":2}]},{"hash":"1541541370637857117","title":"Adaptive immune receptor signaling and hematopoiesis","description":"The cluster is dominated by GO terms for B and T cell receptor signaling and adaptive immune response, indicating lymphocyte receptor signaling. Supporting hematopoietic context comes from megakaryocyte development and Kit signaling, aligning with blood cell lineage development; an outlier like neuron projection development exists but does not override the overall theme of immune receptor signaling tied to hematopoiesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0010863","count":5},{"id":"GO:0031175","count":5},{"id":"GO:0051092","count":4}]},{"hash":"345110141464275364","title":"Dopaminergic Signaling and Visual Perception","description":"The top GO terms center on visual learning, visual perception, and dopaminergic synaptic transmission, with related signaling cascades (ERK) and regulatory processes (GTPase activity). This points to a neural, vision-related, dopamine-driven signaling and plasticity theme, even though a few terms (heart development, macrophage chemotaxis) may reflect pleiotropy rather than core cluster function.","confidence":"Medium","size":19,"edges":166,"triangles":888,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0001963","count":13}]},{"hash":"1724265763441719367","title":"Neuroendocrine and Autonomic Regulation of Physiology","description":"The cluster aggregates GO terms across neural signaling (dopamine, octopamine/tyramine), autonomic regulation (norepinephrine-epinephrine\u2013mediated vasodilation), circadian rhythm, and broad systemic processes (urine volume, peristalsis, gastric acid secretion, bone remodeling, reproduction, T cell differentiation). This pattern points to integrative, neuroendocrine/autonomic control of multiple organ systems, rather than a single, cohesive pathway. Confidence: Medium","confidence":"Medium","size":19,"edges":143,"triangles":591,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":19},{"id":"GO:0022410","count":19},{"id":"GO:0001697","count":19},{"id":"GO:0030432","count":19},{"id":"GO:0007211","count":19}]},{"hash":"1613351417172039304","title":"Cardiovascular GPCR Signaling and Metabolism","description":"This cluster centers on GPCR-mediated signaling, especially adenylate cyclase activation and cAMP pathways, which align with cardiovascular functions such as blood pressure regulation and heart development. The presence of metabolism-related terms (electron transport chain, diet-induced thermogenesis) suggests integrated metabolic signaling alongside cardiovascular roles. Some terms (e.g., saliva secretion) are less connected but can be influenced by broad GPCR signaling. Overall, the common theme is GPCR-driven signaling impacting cardiovascular and metabolic processes.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":11},{"id":"GO:0007190","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0002024","count":9}]},{"hash":"993677183946607396","title":"Unknown","description":"The Top Terms span diverse processes (immune cell differentiation, interferon production, retina development, osteoclast regulation, cyclin-dependent kinase activity, cytokinesis, Rho signaling) with no clear shared function, and the cluster has no edges to connect proteins. There isn\u2019t a coherent theme tying these terms together, so a meaningful specific label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0030183","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0045737","count":2}]},{"hash":"956602935200008006","title":"Autonomic Signaling in Organ Physiology","description":"The top GO terms collectively point to regulation of visceral functions and body-wide physiology via neurotransmitter and neuroendocrine signaling. Examples include urine-volume regulation, circadian rhythm, gastric acid secretion, peristalsis, and vasodilation mediated by norepinephrine/epinephrine, along with dopamine receptor signaling and octopamine/tyramine pathways. A few terms touch on immune, bone, and reproductive processes, which can reflect broader organismal regulation rather than a single cohesive pathway. Overall, the cluster seems to reflect systemic autonomic and neuroendocrine control of organ function rather than a discrete molecular complex.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":19},{"id":"GO:0022410","count":19},{"id":"GO:0001697","count":19},{"id":"GO:0030432","count":19},{"id":"GO:0007211","count":19}]},{"hash":"1069335102501013475","title":"Neuroimmune Signaling and Axon Guidance","description":"This cluster shows strong innate immune activity (complement activation, innate immune response, antigen presentation) together with neuronal development cues (semaphorin-plexin signaling, trigeminal nerve organization, branchiomotor neuron axon guidance). The overlap is consistent with neuroimmune interactions in neural connectivity and synaptic remodeling (e.g., MHC I and complement roles in the nervous system), justifying a label that spans both immune signaling and neural development.","confidence":"High","size":19,"edges":105,"triangles":222,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0043318","count":9},{"id":"GO:1902287","count":9},{"id":"GO:0043303","count":9}]},{"hash":"1356831312176091423","title":"Complement and B cell\u2013driven immunity","description":"Top terms converge on classical complement activation, phagocytosis, innate immune response, B cell activation and receptor signaling, and T cell costimulation, indicating a cluster centered on coordinated humoral and innate immune defense. This supports a cohesive label reflecting both antibody-related and innate immune processes.","confidence":"High","size":19,"edges":38,"triangles":13,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0006910","count":9},{"id":"GO:0050871","count":8},{"id":"GO:0050853","count":8},{"id":"GO:0045087","count":8}]},{"hash":"1962960840932528259","title":"Post-transcriptional mRNA processing and translation regulation","description":"This cluster centers on post-transcriptional control: splicing regulation (via spliceosome, splice site recognition, and both positive/negative regulation of splicing), mRNA stability and export, regulation of polyadenylation, regulatory ncRNA-mediated silencing, and components involved in translation initiation (eIF4F complex assembly) and IRES-dependent viral translation. The GO terms collectively point to coordinated control of mRNA processing and translation, especially under stress conditions.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11},{"id":"GO:0075525","count":10},{"id":"GO:0075522","count":10}]},{"hash":"1862993259620510667","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":40,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":4},{"id":"GO:0006541","count":4},{"id":"GO:0006531","count":4},{"id":"GO:0044208","count":4},{"id":"GO:0042594","count":4}]},{"hash":"1006585049919765753","title":"Unknown","description":"The top GO terms are highly diverse, spanning metabolism (beta-ketoadipate pathway), xenobiotic response, neural development and learning, vascular cell migration/proliferation and growth factor signaling, immune activation, and DNA damage response. There is no single coherent biological process or pathway that consistently ties these terms together, so a specific functional label for the cluster is not justifiable from the available terms.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":5},{"id":"GO:0014912","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0030330","count":3},{"id":"GO:0045576","count":3}]},{"hash":"1364602634266761766","title":"Muscle and neural development","description":"This cluster centers on developmental processes related to muscle and nervous system formation and function, including myoblast fusion, heart development, axonogenesis, and synaptic signaling (excitatory postsynaptic potential, long-term potentiation), suggesting a cohesive role in neuromuscular and cardiac development; a few terms (defense response, cell cycle) may reflect broader or incidental annotations.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0007409","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0007520","count":4}]},{"hash":"2019348071113199434","title":"Proteoglycan GAG Biosynthesis and Sulfation","description":"The cluster is enriched for glycosaminoglycan (GAG) biosynthesis terms, including chondroitin sulfate, heparan sulfate, keratan sulfate, and dermatan sulfate proteoglycan biosynthetic processes, plus associated sulfation and N-acetylglucosamine metabolism. This points to proteins involved in building and modifying proteoglycans rather than other pathways. Therefore the label reflects a cohesive function of GAG-containing proteoglycan synthesis and sulfation.","confidence":"High","size":19,"edges":65,"triangles":53,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":11},{"id":"GO:0015015","count":11},{"id":"GO:0006068","count":10},{"id":"GO:0006477","count":10},{"id":"GO:0042403","count":10}]},{"hash":"314374658847058446","title":"Neural development and antiviral response","description":"Top GO terms include innervation, spinal cord ventral commissure morphogenesis, and motor neuron apoptotic process, indicating neural development and connectivity. At the same time, response to interferon-alpha and negative regulation of viral genome replication/regulation of viral transcription suggest antiviral/immune activity. The cluster appears to combine neural development with neuronal immune signaling, though some terms are generic cellular processes. Thus, a concise label capturing both themes is \"Neural development and antiviral response.\" ","confidence":"Medium","size":19,"edges":36,"triangles":10,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035455","count":11},{"id":"GO:0045071","count":11},{"id":"GO:0097049","count":8},{"id":"GO:0046782","count":8},{"id":"GO:0009636","count":8}]},{"hash":"1015133440043730401","title":"Developmental Signaling and Innate Immunity","description":"The terms show a mix of innate immune responses (defense against Gram-positive bacteria, response to LPS, response to yeast, neutrophil-mediated killing of fungi, blood coagulation) together with developmental and signaling processes (Wnt signaling, multicellular organism growth, midbrain development). This suggests a cluster of proteins that participate in both developmental signaling and innate immune pathways, rather than a single narrowly defined function. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0050830","count":6},{"id":"GO:0044130","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0016055","count":5}]},{"hash":"465100571218986730","title":"Mitotic cell cycle","description":"The top GO terms are dominated by mitosis-related processes (mitotic cell cycle, cell division, APC-dependent catabolic process), suggesting a core theme of cell-cycle control. While several terms point to development (forebrain, lens fiber differentiation, multicellular growth) and there is an ER-stress\u2013related apoptotic signaling term, these seem ancillary to the central mitotic theme. The cluster appears to group proteins with primary involvement in cell-cycle regulation, with some additional roles in development and stress responses, making the label plausible but not exclusively representative.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0070306","count":5},{"id":"GO:0070059","count":4}]},{"hash":"54530507967442410","title":"Redox-driven lipid signaling and biosynthesis","description":"The GO terms show oxidative stress responses (hydrogen peroxide, methylglyoxal), glutathione biosynthesis, and lipid-derived signaling/biosynthesis (steroid hormones, prostaglandin) with signaling modulation (JAK-STAT), suggesting a cluster centered on redox-related signaling and lipid hormone production. Some terms are less aligned (e.g., maternal pregnancy), but the redox and lipid signaling theme is primary.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:1900053","count":19},{"id":"GO:0070301","count":19},{"id":"GO:0046370","count":19},{"id":"GO:0006750","count":19},{"id":"GO:0097238","count":19}]},{"hash":"1955396286880627555","title":"GPCR-cGMP Signaling and Innate Immunity Regulators","description":"This cluster's frequent GO terms emphasize GPCR-linked cGMP signaling and regulation (negative regulation of receptor guanylyl cyclase, cellular response to cGMP), with additional ties to olfactory sensory perception. Immune-related terms such as neutrophil chemotaxis, lipopolysaccharide response, and IL-2 production regulation suggest involvement in innate immune signaling. A few terms about cardiac muscle relaxation and oocyte development point to broader signaling regulation, but the dominant theme is GPCR-cGMP signaling intertwined with immune signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0010754","count":11},{"id":"GO:0071321","count":11},{"id":"GO:0007608","count":11},{"id":"GO:0019933","count":11},{"id":"GO:1901898","count":9}]},{"hash":"1030232928431343873","title":"Eye morphogenesis and embryonic organ development","description":"This cluster is dominated by GO terms related to eye formation\u2014retina development, camera-type eye development, and embryonic eye morphogenesis\u2014alongside broader morphogenetic processes like organ development, suggesting the proteins collectively participate in developmental pathways with a strong emphasis on eye morphogenesis.","confidence":"High","size":19,"edges":166,"triangles":894,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0060041","count":6},{"id":"GO:0035470","count":6},{"id":"GO:0043010","count":5},{"id":"GO:0060441","count":5}]},{"hash":"413467031727525697","title":"Multi-tissue development and differentiation","description":"The top GO terms point to developmental and morphogenetic processes across multiple tissues (heart, skin/hair follicles, keratinocytes, peripheral nervous system, and glial development), with only general cellular processes like protein autophosphorylation and hepatocyte apoptosis. There isn\u2019t a single cohesive pathway, but a common theme of tissue-specific development and differentiation, justifying a broad multi-tissue developmental label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007205","count":3}]},{"hash":"1786877437207817960","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes across multiple tissues (heart, placenta, cartilage, hair follicles, pancreas, left-right patterning, etc.), suggesting these proteins function in broad embryonic development and tissue formation rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0060707","count":9},{"id":"GO:0060806","count":9}]},{"hash":"1885384587759641706","title":"Neural Development and Axon Extension","description":"The dominant GO terms cluster around nervous system development, brain development, and axon/neurite extension (neuron projection development), indicating a coherent theme of neural growth and maturation. A couple of transport-related terms and angiogenesis appear less central, so the core label emphasizes neural development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0048675","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1269484754036297419","title":"Tissue Differentiation and Morphogenesis","description":"The top GO terms cluster around differentiation and morphogenesis across multiple tissues (neural lineages like midbrain dopaminergic and Purkinje cells, nephron tubule differentiation, seed morphogenesis, and cardiac muscle differentiation), with supporting processes such as cell-cell junction organization and regulatory signaling (NFAT, glucocorticoid signaling, miRNA silencing). This points to a broad developmental program governing tissue differentiation rather than a single pathway.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000346","count":17},{"id":"GO:1904948","count":17},{"id":"GO:0048317","count":17},{"id":"GO:2000768","count":17},{"id":"GO:0045216","count":17}]},{"hash":"1335537323450364656","title":"Leukocyte adhesion and lymphocyte activation","description":"This cluster is dominated by GO terms related to immune cell interactions and signaling, including heterophilic/homophilic cell adhesion, immunoglobulin production, B cell activation, TNF production, and regulation of T cell degranulation, with an additional marker for peptidoglycan detection. A bone maturation term appears incidental, but the prevailing pattern points to leukocyte adhesion and immune activation.","confidence":"High","size":19,"edges":19,"triangles":3,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0002377","count":6},{"id":"GO:0043931","count":5},{"id":"GO:0086072","count":5}]},{"hash":"1165636591543141543","title":"ECM remodeling and coagulation","description":"The proteins in this cluster are dominated by extracellular matrix remodeling and coagulation-related processes: collagen catabolic activity, extracellular matrix disassembly, positive regulation of plasminogen activation, fibrinolysis, and blood coagulation. Amelogenesis also points to matrix-associated mineralization. A couple of terms (transcription regulation and axis specification) are less related, but the strongest shared signal among top GO terms is extracellular matrix remodeling coupled with coagulation, suggesting the cluster centers on ECM degradation and coagulation pathways.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0007313","count":5},{"id":"GO:0003323","count":4},{"id":"GO:0051919","count":4},{"id":"GO:0002542","count":4}]},{"hash":"1597152760820925914","title":"Unknown","description":"The top GO terms cover transcriptional regulation by RNA polymerase II, several developmental processes, and various immune/blood-related functions, with no clear, single theme tying them together. The cluster has no edges, suggesting dispersed or noisy annotations rather than a cohesive biological module. Therefore a specific, intuitive label cannot be confidently assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0045944","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0031214","count":5}]},{"hash":"2175756085161669256","title":"Unknown","description":"The top terms span translation initiation, muscle development, metabolism, ubiquitin ligase regulation, SREBP signaling, viral mRNA export, and mitotic spindle assembly, showing no single cohesive theme. With no edges linking proteins, a unified function is not evident.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0007527","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2}]},{"hash":"412463642647323001","title":"Neurotransmitter signaling with circadian and GI roles","description":"This cluster is driven by neural signaling terms: neuropeptide signaling, octopamine/tyramine signaling, PLC-activating dopamine receptor signaling, and related learning or sensory processes (visual learning, pain). The presence of circadian sleep/wake cycle terms and GI-related processes (gastric secretion, peristalsis, urine volume) suggests neuromodulatory control of physiology across brain and gut, with circadian regulation as a unifying theme. The immune term is less connected and may be noise. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":13},{"id":"GO:0008542","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0035810","count":11},{"id":"GO:0022410","count":11}]},{"hash":"55068288893481621","title":"GPCR-Mediated Physiological Regulation","description":"These proteins appear enriched for G-protein coupled receptor (GPCR) signaling and its downstream effects. The top GO terms include GPCR-related signaling pathways such as phospholipase C-activating dopamine receptor signaling and octopamine/tyramine signaling, as well as a broad set of physiological processes influenced by GPCR activity\u2014circadian sleep/wake cycles, urine volume regulation, histamine-induced gastric secretion, peristalsis, and even bone remodeling and immune differentiation. The unifying theme is GPCR-driven signal transduction that modulates diverse physiological functions across tissues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":15},{"id":"GO:0043278","count":14},{"id":"GO:0035810","count":13},{"id":"GO:0022410","count":13},{"id":"GO:0001697","count":13}]},{"hash":"2201725351024066604","title":"Cytoskeletal remodeling and cell migration","description":"This cluster is dominated by GO terms tied to actin-driven structures and movement, such as positive regulation of lamellipodium assembly and lamellipodium morphogenesis, plus neuron projection development and neutrophil extravasation, all pointing to cytoskeletal dynamics enabling migration. ERBB2 signaling and endosome transport further connect signaling and trafficking to motility. Some terms appear as outliers (e.g., prospore membrane formation, visual learning, megakaryocyte development, myelination), but the prevalent theme centers on cytoskeletal remodeling and cell migration.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038128","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0072672","count":2}]},{"hash":"1962456248319695607","title":"Placental development and ECM remodeling","description":"This cluster shows strong enrichment for trophoblast giant cell differentiation, EMT processes linked to embryonic heart development, and extracellular matrix disassembly, pointing to coordinated placental formation and ECM remodeling during development. Transcription-related terms suggest broader developmental regulation, but the dominant theme is placental development and ECM dynamics.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0030574","count":5},{"id":"GO:0022617","count":5},{"id":"GO:0097186","count":5}]},{"hash":"1820007377977368123","title":"Neuronal synaptic plasticity and spine remodeling","description":"The cluster is dominated by GO terms tied to synapse structure and plasticity, including actin crosslinking, dendritic spine morphogenesis, long-term potentiation, and regulation of excitatory postsynaptic potentials, indicating a cohesive theme of neural synaptic remodeling; a couple of terms about heart development and barrier establishment appear as outliers.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0060291","count":2}]},{"hash":"435686706698201490","title":"Autophagy and organelle turnover","description":"The top GO terms center on autophagy processes and organelle degradation, including autophagosome assembly, mitophagy, nucleophagy (piecemeal microautophagy of the nucleus), and Cvt pathway\u2013related targeting to the vacuole/phagophore assembly site, indicating a cohesive autophagy-focused cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":3},{"id":"GO:0034497","count":2},{"id":"GO:0035096","count":2},{"id":"GO:1903955","count":2},{"id":"GO:0034727","count":2}]},{"hash":"363610836928401451","title":"Telomere maintenance and telomerase regulation","description":"The terms cluster around telomere biology: positive regulation of telomere maintenance via telomerase, telomere capping, and localization to telomeres, plus telomere-associated binding. PARP-related ADP-ribosylation also fits with DNA damage response at telomeres. Some GO terms (NF-kappaB regulation, NOD2 signaling, synaptic plasticity) seem less connected and may reflect noise or broader annotation mappings; overall, the theme points to chromosome end maintenance.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0070198","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0070213","count":5}]},{"hash":"29720266135602262","title":"Rho/Rac GTPase\u2013driven actin remodeling","description":"The proteins are dominated by GO terms for actin cytoskeleton dynamics and protrusive structures (filopodium, lamellipodium, podosome) and their regulation by small GTPases (Rho, Ras) with positive regulation of GTPase activity, indicating a cohesive theme of cytoskeleton remodeling and cell motility controlled by Rho/Rac signaling. Some unrelated terms (mitochondrial fission, hepatocyte apoptotic process) are present but less representative of the core cluster function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0071803","count":4}]},{"hash":"286165790784222708","title":"Neural Synapse Localization and Signaling","description":"The top GO terms point to neural and synaptic functions: protein localization to the synapse, receptor clustering, activation of GTPase activity, and regulation of Rho signaling, plus sensory-related terms like vocalization and perception of sound. These collectively suggest a cluster centered on synaptic signaling and neural communication. A few terms (endothelial barrier establishment, dendritic cell apoptotic regulation) are more peripheral and may reflect shared signaling mechanisms rather than core synaptic roles.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0006470","count":10},{"id":"GO:0090557","count":10},{"id":"GO:0035418","count":10},{"id":"GO:0071625","count":10},{"id":"GO:0007605","count":10}]},{"hash":"2224873980022379266","title":"DNA Damage Repair and Cell Cycle Regulation","description":"The terms emphasize DNA repair, replication, and cell-cycle signaling, with oxidative stress response, indicating a DNA damage response and cell-cycle coordination cluster.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070301","count":6},{"id":"GO:0006284","count":6},{"id":"GO:0006261","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0071375","count":5}]},{"hash":"1980189429164177169","title":"Neural development and mitotic cell cycle","description":"This cluster is dominated by GO terms for brain and forebrain development, alongside multiple mitotic processes (DNA-templated transcription, mitotic cell cycle, spindle assembly, chromosome segregation, and preblastoderm mitotic cycle). These together suggest a set of proteins involved in neural development that are tightly integrated with cell division machinery during embryogenesis. Some terms (like ER stress\u2013related apoptosis and Gram-positive defense) are less directly linked and could reflect broader stress or annotation overlap, but the core theme remains neural development coupled with mitosis. ","confidence":"Medium","size":18,"edges":26,"triangles":12,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0030900","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0032466","count":6}]},{"hash":"287133182527459573","title":"Unknown","description":"The top GO terms span many unrelated processes (mitosis, ribosome export, hair follicle morphogenesis, salivary gland development, endosome-Golgi trafficking, angiogenesis, neuron survival). There is no single cohesive function uniting these terms, and the cluster shows no edges, so a meaningful label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0000056","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0060661","count":2}]},{"hash":"2010915918140096561","title":"Embryonic and reproductive development","description":"The top GO terms are dominated by developmental processes across multiple organ systems (vagina development, limb development, chondroblast differentiation, adrenal gland and male gonad development, embryo implantation), indicating a cluster centered on embryonic growth and reproductive organ formation. Some metabolic terms related to cholesterol and bile acid pathways may relate to steroidogenesis supporting development, but the core signal is developmental biology. ","confidence":"Medium","size":18,"edges":25,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042632","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0060068","count":5},{"id":"GO:0070859","count":4},{"id":"GO:0060173","count":4}]},{"hash":"1681027790831475724","title":"Mitochondrial membrane transport and fission","description":"The top terms cluster around mitochondrial membrane processes (transport of metabolites like alpha-ketoglutarate and NAD, and regulation of membrane permeability) and mitochondrial fission, with additional signals pointing to mitochondrial involvement in apoptotic changes and metabolic stress responses (amino acid starvation, IGF/insulin signaling). This supports a cohesive theme of mitochondrial membrane transport and dynamics driving the cluster function.","confidence":"High","size":18,"edges":48,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":4},{"id":"GO:0090152","count":4},{"id":"GO:0034198","count":4},{"id":"GO:1990314","count":4},{"id":"GO:0015742","count":4}]},{"hash":"1744167337015915103","title":"Brown fat lipid metabolism and differentiation","description":"Top GO terms center on lipid handling and brown adipose biology, including cholesterol and phospholipid homeostasis, triglyceride catabolism, and brown fat cell differentiation. Additional signals for xenobiotic response and oxidative stress support a redox-related aspect of adipose metabolism. Some terms like sarcomere organization and complement activation are less connected but may reflect broader cellular or tissue contexts. Overall, the dominant theme is lipid metabolism in brown adipose tissue with related stress responses.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045721","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0019433","count":2}]},{"hash":"928041918281871139","title":"Rho/Rac-Driven Actin Remodeling","description":"The cluster is dominated by GO terms tied to actin cytoskeleton organization, lamellipodium assembly, and Rac/Rho signaling, pointing to a core theme of actin dynamics regulated by Rho-family GTPases. Additional items like actin filament severing and regulation of Ras signaling support a broader signaling context that modulates cytoskeletal remodeling; other terms may reflect related cellular contexts (megakaryocyte development, insulin signaling) where such remodeling is critical.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":4},{"id":"GO:0030032","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0016601","count":2}]},{"hash":"247835602142467477","title":"Microtubule dynamics and spindle assembly","description":"This cluster\u2019s top GO terms point to microtubule-based processes: mitotic spindle assembly/elongation, spindle midzone assembly, cytokinesis, and axonemal MT depolymerization, plus MT-dependent movements like chloroplast accumulation. Additional terms related to stress granule disassembly and neural structural organization can reflect cytoskeletal roles in transport and architecture, suggesting a cohesive theme around microtubule dynamics governing division and intracellular organization.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035617","count":12},{"id":"GO:0090307","count":7},{"id":"GO:0060404","count":7},{"id":"GO:0009904","count":7},{"id":"GO:0051255","count":7}]},{"hash":"1604243299716848983","title":"Vertebrate neural development and organogenesis","description":"The top GO terms indicate strong involvement in neural differentiation (GABAergic interneuron differentiation, motor neuron fate, oligodendrocyte fate, subpallium fate) alongside broader organogenesis processes (bronchiole development, lung vasculature development, endocrine pancreas development, somitogenesis) and wound healing regulation. The inclusion of transcription by RNA polymerase II suggests these proteins function in transcriptional control during development. Overall, the cluster appears to group proteins involved in vertebrate development with emphasis on neural lineage specification and organ formation.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0060435","count":9},{"id":"GO:0021892","count":9},{"id":"GO:0021530","count":9},{"id":"GO:0060163","count":9}]},{"hash":"2304263692349433391","title":"Unknown","description":"The GO terms cover growth regulation (both negative and positive), hormone responses (thyroid and estrogen), immune cell chemotaxis, seed dormancy in plants, fertilization-related processes, and a lipid phosphatase activity. The mix spans diverse organisms and biological contexts, with no clear single theme or pathway connecting the proteins, and there are no network connections to reinforce a cohesive function. Therefore, Unknown with None confidence.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0048633","count":2},{"id":"GO:0046856","count":2}]},{"hash":"498042462500909171","title":"Autonomic neuroendocrine regulation of visceral physiology","description":"The top GO terms cluster around autonomic and neuroendocrine control of organ systems, including urine volume, circadian rhythms, gastric secretion, peristalsis, and vasodilation via catecholamine signaling. The presence of GPCR-linked dopamine signaling and octopamine/tyramine pathways supports a neuroendocrine signaling theme that also touches bone remodeling, reproductive processes, and immune cell differentiation, reflecting broad homeostatic regulation across tissues. ","confidence":"Medium","size":18,"edges":85,"triangles":167,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0001697","count":16},{"id":"GO:0030432","count":16},{"id":"GO:0007211","count":16}]},{"hash":"458361594007545187","title":"Metabolic signaling and autonomic BP regulation","description":"The terms cluster around mitochondrial energy processes (electron transport chain) and GPCR-cAMP signaling that modulates blood pressure, urine volume, and thermogenesis. Additional terms tie to temperature sensation, membrane potential, and circadian rhythms, suggesting these proteins participate in energy-status sensing and nervous-system\u2013mediated homeostasis. Overall, the cluster appears to represent metabolic signaling coordinating cardiovascular and renal regulation and related physiological processes.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0019233","count":12}]},{"hash":"1769097604854011640","title":"Systemic neuroendocrine and autonomic signaling","description":"Top GO terms point to regulation of bodily functions through neuroendocrine and autonomic signaling: urine volume, circadian rhythms, gastric secretion, GI peristalsis, vascular relaxation, and GPCR-mediated signaling pathways such as dopamine and norepinephrine signaling. The presence of terms touching bone remodeling and reproductive processes suggests broader endocrine control across tissues, supporting a label of systemic regulation rather than a single-gene function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":14},{"id":"GO:0022410","count":14},{"id":"GO:0001697","count":14},{"id":"GO:0030432","count":14},{"id":"GO:0007211","count":14}]},{"hash":"114601559671067335","title":"Neural signaling and sensory perception","description":"This cluster\u2019s GO terms cluster around neural communication and sensory processing\u2014dopaminergic synaptic transmission, visual perception and learning, calcium signaling, and ERK cascade\u2014indicating neurons involved in perception, reward, and plasticity. A few terms (heart development, macrophage chemotaxis) appear less central but do not override the dominant neural theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":17},{"id":"GO:0048148","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0001963","count":17},{"id":"GO:0051209","count":17}]},{"hash":"1976808444604306808","title":"Unknown","description":"The top GO terms cover diverse organismal processes: urine volume regulation, circadian rhythm, gastric acid secretion, gut motility, monoamine signaling, dopamine receptor pathways, a specific T cell differentiation pathway, bone remodeling, reproductive processes, and blood pressure\u2013related vasodilation. There isn\u2019t a single cohesive function or pathway tying these together, so a broad Unknown label with None confidence is appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0001697","count":16},{"id":"GO:0030432","count":16},{"id":"GO:0007211","count":16}]},{"hash":"153760173865933325","title":"Immune signaling and developmental regulation","description":"The top GO terms span immune regulation (negative regulation of humoral immune response; negative regulation of mast cell activation) and development-related processes (labyrinthine layer morphogenesis; genitalia development; regulation of estrogen receptor signaling), with additional signaling context (collagen-activated receptor signaling). This combination suggests proteins involved in signaling that intersects immune responses and developmental pathways, rather than a single cohesive function. ","confidence":"Medium","size":18,"edges":144,"triangles":687,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":17},{"id":"GO:0038063","count":15},{"id":"GO:0060670","count":15},{"id":"GO:0048806","count":15},{"id":"GO:0033146","count":15}]},{"hash":"751071895263851369","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":103,"triangles":278,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0021702","count":3},{"id":"GO:0090084","count":3},{"id":"GO:0097428","count":3},{"id":"GO:0030433","count":3}]},{"hash":"741104375039511839","title":"SCF-mediated mitotic exit and protein degradation","description":"The top GO terms cluster around exit from mitosis, G2/M transition, chromosome segregation, and SCF-dependent ubiquitin-proteasome degradation, suggesting a group of proteins involved in mitotic control and ubiquitin-driven protein turnover, with links to chromatin modification and DNA repair processes.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":18},{"id":"GO:0000086","count":18},{"id":"GO:0031146","count":18},{"id":"GO:0016032","count":18},{"id":"GO:0070911","count":18}]},{"hash":"63779969940213878","title":"Cardiac morphogenesis and transcriptional regulation","description":"This cluster is best described by heart development, as the top GO terms include multiple events in cardiac morphogenesis: endocardial cushion morphogenesis, atrial and ventricular septum development, and AV valve morphogenesis. The presence of transcriptional regulation (negative regulation of transcription by RNA Pol II) and protein ubiquitination suggests regulatory control mechanisms active during development, while terms like neural retina development and cellular stress responses (UV-C) may reflect broader regulatory programs rather than a single tissue-specific function. Overall, the dominant theme is cardiac morphogenesis with associated gene regulation processes.","confidence":"Medium","size":18,"edges":49,"triangles":63,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":3},{"id":"GO:0003203","count":3},{"id":"GO:0003407","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0003283","count":3}]},{"hash":"2050160968505042619","title":"Spliceosome Regulation, mRNA Export, and Translation Initiation","description":"The top GO terms cluster around alternative splicing via the spliceosome, splicing regulation and splice-site recognition, plus mRNA export, with a few terms pointing to translation initiation (including viral IRES) and eIF4F assembly. This suggests a cohesive theme of post-transcriptional RNA processing and initiation of translation, with splicing factors and export machinery as core components, and translation-associated elements as related processes.","confidence":"Medium","size":18,"edges":14,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":3},{"id":"GO:0048026","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"2075665080076427509","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":4},{"id":"GO:0038202","count":3},{"id":"GO:1990928","count":3},{"id":"GO:1903608","count":3},{"id":"GO:0072752","count":3}]},{"hash":"2021773649318078962","title":"Stress-Responsive Transcription","description":"The cluster shows a clear pattern of transcription-related activity coupled with diverse stress responses: DNA-templated transcription alongside cellular responses to arsenite, unfolded protein, copper ions, hypobaric hypoxia, and psychosocial stress. This suggests the proteins may participate in transcriptional programs activated by stress. Some outliers (obsolete terms, placenta development) introduce noise, but the core theme remains stress-driven transcriptional activity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:1903936","count":4},{"id":"GO:1900462","count":4},{"id":"GO:0034620","count":4},{"id":"GO:1990910","count":4}]},{"hash":"1731006081195367858","title":"Neural signaling and sensory ion channels","description":"The terms emphasize neural communication via ion channels (sodium/potassium transport), synaptic signaling (GABA, excitatory postsynaptic potential), and sensory processing (sound, mechanosensation), with links to locomotion and learning. This suggests a cluster focused on neural signaling pathways and sensory neuron function, especially relating to hearing and movement.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0007214","count":12},{"id":"GO:0001661","count":12},{"id":"GO:0060079","count":12}]},{"hash":"1017171222169997004","title":"Unknown","description":"The listed GO terms span a wide range of biological processes from chloroplast thylakoid import and plant growth to epithelial polarity, cardiac cell communication, hepatocyte apoptosis, vitamin D response, telomere localization, and broad multicellular development, with no single unifying function or pathway evident across the cluster. Because the terms reflect disparate biology rather than a cohesive theme, a precise functional label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":7},{"id":"GO:0016049","count":7},{"id":"GO:0045038","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0097284","count":6}]},{"hash":"737329757325618396","title":"Vertebrate Development with Immune and Stress Signaling","description":"This cluster shows developmental processes (forebrain development, lens fiber cell differentiation, multicellular organism development) co-occurring with immune/stress-related terms (defense response to Gram-positive bacteria, phagolysosome assembly, ER-stress\u2013induced apoptotic signaling) and TGF-beta\u2013mediated responses, suggesting proteins involved in development that are modulated by immune and cellular stress pathways. The mix points to a broad developmental program intertwined with signaling from immune and stress contexts rather than a single isolated pathway. Confidence in this label is Moderate.","confidence":"Medium","size":18,"edges":30,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0001845","count":4},{"id":"GO:0008285","count":4}]},{"hash":"2266994706206729990","title":"Hypoxia-Responsive Developmental Proliferation Signaling","description":"The top GO terms point to mitotic cell cycle and positive regulation of proliferation, along with cellular response to hypoxia, forebrain development, transcription, and signaling. This pattern suggests a cluster of proteins involved in hypoxia-driven developmental processes and transcriptional/kinase signaling that promotes cell proliferation, rather than a single, narrowly defined pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0071456","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0031954","count":7}]},{"hash":"2061309329474965665","title":"Unknown","description":"The top GO terms span skin keratinization, epithelial polarity, cardiac cell communication, immune differentiation, vitamin D response, and even plant chloroplast protein import, plus generic processes like poly-ADP-ribosylation and apoptosis. This wide, cross-tunctional mix suggests no single, cohesive biological function or pathway defining the cluster, making a precise label unreliable.","confidence":"","size":18,"edges":40,"triangles":30,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":9},{"id":"GO:0097284","count":4},{"id":"GO:0070212","count":3},{"id":"GO:0010923","count":2},{"id":"GO:0045038","count":2}]},{"hash":"2053863992450509343","title":"Cross-tissue developmental processes","description":"The top GO terms include neural development (axon guidance, neuron migration, dopaminergic differentiation), plant development (phloem development, seed morphogenesis), and reproductive development (female gonad development), plus immune and growth regulation terms. This points to a broad theme of development and differentiation spanning multiple tissues, rather than a single specific pathway, so a cross-tissue developmental label best captures the shared function of the cluster.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008045","count":7},{"id":"GO:0008585","count":7},{"id":"GO:0097477","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0035995","count":6}]},{"hash":"1545112159042830473","title":"Embryonic development and morphogenesis","description":"The GO terms cluster around embryogenesis, tissue patterning, and organ morphogenesis across diverse tissues (heart EMT, left-right patterning, palate development, cartilage morphogenesis, placenta and pancreatic development, trophoblast differentiation, endocrine system development), suggesting the proteins function in broad developmental processes rather than a single tissue. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":15},{"id":"GO:0060972","count":15},{"id":"GO:0060806","count":15},{"id":"GO:0035270","count":15},{"id":"GO:0003323","count":15}]},{"hash":"1408071279595829343","title":"Innate immune defense and coagulation","description":"Based on the Top Terms, the proteins are enriched for immune defense functions (defense response to Gram-positive bacteria, response to yeast, neutrophil-mediated killing of fungus, leukocyte tethering/rolling) and coagulation-related processes (blood coagulation, classical pathway activation, fibrinolysis). While a few terms relate to transcription regulation or development, the strongest and most coherent signal is innate immunity combined with coagulation/inflammation, justifying this label.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0007596","count":10},{"id":"GO:0006958","count":10},{"id":"GO:0055123","count":9},{"id":"GO:0030901","count":8}]},{"hash":"705614223350498447","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms tied to ribosome assembly/disassembly, translational initiation, and transcription of rRNA and tRNA (by RNA Pol I and III) as well as maintenance of translational fidelity, pointing clearly to roles in ribosome biogenesis and protein synthesis. Some peripheral terms (retinoic acid response, PDGF signaling, GTPase activation) may reflect broader regulatory connections but do not override the central ribosome/translation theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032790","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0042797","count":2},{"id":"GO:0042790","count":2},{"id":"GO:1990145","count":2}]},{"hash":"1661089335684405561","title":"Innate Immune Activation and NF-kappaB Signaling","description":"The cluster is enriched for innate immune response, complement activation, immunoglobulin production, and regulation of NF-kappaB signaling, indicating a core immune-activation theme. A few other terms (neuronal signaling and development) are present but appear less central, suggesting they represent broader annotations rather than the cluster\u2019s primary function. Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1597689467121879207","title":"Cardiac and immune cell adhesion","description":"The cluster shows strong representation of cell-cell adhesion (homophilic/heterophilic) and immune regulation terms (T cell degranulation, macrophage/NK cell activity, immunoglobulin production), plus some cardiac-specific terms (atrial muscle action potential, AV node). This suggests a theme around adhesion and intercellular signaling at immune and cardiac interfaces.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0086072","count":6},{"id":"GO:0043318","count":6},{"id":"GO:0051963","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0043031","count":6}]},{"hash":"921193101507881687","title":"Embryonic organ development and morphogenesis","description":"This cluster's top GO terms largely point to developmental processes across multiple organs (pancreas, kidney, lens, placenta) and morphogenetic events (left-right patterning, EMT in heart formation), suggesting a broad theme of embryonic organogenesis rather than a single specific function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0003198","count":3}]},{"hash":"90691791099580206","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitination and proteolysis (ubiquitin-dependent protein catabolic process, protein ubiquitination, protein polyubiquitination), indicating the proteins in this cluster participate in tagging substrates for degradation. While other terms touch on transcriptional regulation and signaling, the strongest and most frequent signals point to ubiquitin-mediated protein turnover.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0016567","count":5},{"id":"GO:0000209","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0043066","count":4}]},{"hash":"1783245906981356329","title":"Ubiquitin-Proteasome\u2013Mediated Degradation and Circadian Regulation","description":"The GO terms point strongly to ubiquitin-dependent protein catabolism, including SCF-dependent and polyubiquitination processes, indicating a core involvement of the ubiquitin-proteasome system. The inclusion of circadian rhythm regulation, along with mentions of oocyte maturation and cell-cycle\u2013related signaling, suggests that this cluster reflects ubiquitin-mediated proteolysis shaping timing, cell cycle, and developmental processes. Some terms related to synapse assembly and DNA damage signaling illustrate broader ubiquitin signaling roles but don\u2019t override the central theme. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":10},{"id":"GO:0031146","count":10},{"id":"GO:1903378","count":8},{"id":"GO:0000209","count":8}]},{"hash":"835370287473599225","title":"Neural development and axon guidance","description":"The cluster is dominated by GO terms related to nervous system development and axon pathfinding, including semaphorin-plexin signaling, sensory neuron axon fasciculation, trigeminal nerve organization, and branchiomotor neuron axon guidance. While there are a few broader developmental terms (limb bud formation, salivary gland branching), the strongest signals point to neural development and axon guidance as the unifying theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048485","count":3},{"id":"GO:0097155","count":2},{"id":"GO:0060666","count":2},{"id":"GO:0007169","count":2},{"id":"GO:0043087","count":2}]},{"hash":"527768592013313065","title":"Immune signaling and defense responses","description":"The cluster is dominated by GO terms related to immune function: defense response to Gram-positive bacteria, cellular response to lipopolysaccharide, positive regulation of dendritic cell differentiation, and B cell receptor signaling. These strongly suggest an immune-related core. The presence of non-immune terms (kidney development, hair follicle morphogenesis, skeletal muscle fiber development, taste perception, zinc response) likely reflects annotation pleiotropy or broader roles of some proteins. Overall, the dominant immune-related terms support labeling this cluster as an immune signaling/defense group with moderate confidence due to some heterogeneity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0001580","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0010043","count":2}]},{"hash":"330293190494819884","title":"Unknown","description":"GO terms span transcription regulation, muscle and notochord development, innate immune signaling, calcium signaling, and behavior regulation, with no evident shared pathway among the proteins. The cluster has no edges connecting members, making a cohesive functional theme unlikely.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0007527","count":5},{"id":"GO:0035660","count":5},{"id":"GO:2000822","count":3},{"id":"GO:1902498","count":3}]},{"hash":"103432696073627109","title":"Developmental signaling and morphogenesis","description":"Top GO terms indicate involvement in diverse developmental processes across tissues (myoblast fusion, kidney and nervous system development, spermatid development, ossification) and in key signaling pathways (Rho, ERK cascade, Hedgehog Smoothened, Roundabout). This suggests a cluster of proteins participating in broad developmental signaling networks that guide morphogenesis. ","confidence":"High","size":17,"edges":131,"triangles":611,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0007520","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0002551","count":9},{"id":"GO:0001822","count":9}]},{"hash":"328021133818776301","title":"Neurite outgrowth and cytoskeletal remodeling","description":"These proteins cluster around actin cytoskeleton remodeling, Rac signaling, and neurite morphogenesis (axon extension and dendrite formation), indicating a coherent theme of cytoskeletal dynamics driving neurite growth. Endocytosis and phospholipid homeostasis terms further support coordinated membrane trafficking essential for growth and remodeling.","confidence":"High","size":17,"edges":90,"triangles":225,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":7},{"id":"GO:0055091","count":7},{"id":"GO:0035900","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0034260","count":5}]},{"hash":"2219690993330458868","title":"Neural signaling and synapse development","description":"The top terms cluster around neuronal development and synaptic organization: neurogenesis and synapse assembly, with supporting signaling processes such as Rho regulation, phosphatidylinositol signaling, and endocytosis relevant to neuronal signaling. While some terms (vagina development, ABA signaling) come from other contexts, the dominant theme among the majority of GO terms points to neural development and synaptic function, suggesting this cluster reflects neural signaling pathways and synapse formation. Confidence may be tempered by the presence of outlier terms, but the central theme appears coherent.","confidence":"Medium","size":17,"edges":127,"triangles":563,"max_degree":16,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":8},{"id":"GO:0035023","count":8},{"id":"GO:0007416","count":7},{"id":"GO:0032024","count":7},{"id":"GO:0048015","count":6}]},{"hash":"1959599717167696132","title":"Neural development and synaptic plasticity","description":"The cluster centers on nervous system development, CNS development, dendritic spine morphogenesis, and long-term synaptic potentiation, plus regulators of calcium-dependent exocytosis and ERK signaling, and axon guidance/Signaling pathways (ROBO and Smoothened). This combination points to neuronal differentiation, synapse formation, and activity-dependent synaptic strengthening. A single kidney development term appears incidental and does not define the group.","confidence":"High","size":17,"edges":112,"triangles":378,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0033138","count":3}]},{"hash":"1977821511184732443","title":"Redox Homeostasis and Oxidative Stress Response","description":"Based on the top GO terms, the cluster is dominated by redox-related functions: oxidation-reduction processes, redox homeostasis, and cellular oxidant detoxification, plus cellular responses to oxidative stress. While there are a few regulatory or viral-process terms that appear, they likely reflect ancillary regulatory annotations rather than defining the cluster\u2019s core function. The overall theme is maintaining redox balance and defending against oxidative damage.","confidence":"High","size":17,"edges":24,"triangles":8,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0045454","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0034599","count":6},{"id":"GO:0006662","count":6}]},{"hash":"1560968929973949349","title":"Adipocyte lipid metabolism and innate immune signaling","description":"The cluster's top GO terms center on lipid regulation in adipocytes\u2014fat cell differentiation, cholesterol and triglyceride homeostasis, and PPAR signaling\u2014along with innate immune responses such as cellular response to LPS and TLR9 signaling. Developmental terms like heart and male gonad are present but less representative, so the label emphasizes lipid metabolism in adipocytes with innate immune signaling.","confidence":"Medium","size":17,"edges":25,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0042632","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0007601","count":3}]},{"hash":"292888804611883374","title":"ESCRT-driven membrane remodeling and vesicle trafficking","description":"The GO terms emphasize ESCRT-mediated membrane processes: viral budding via host ESCRT, intralumenal vesicle formation, abscission, endosome transport regulation, nuclear membrane reassembly, and exit from mitosis. Together these suggest a coherent role in ESCRT-dependent membrane scission and vesicle trafficking. A few terms (lens transparency maintenance, septum digestion after cytokinesis) are less clearly related but do not override the dominant ESCRT pattern.","confidence":"High","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":"protein folding","top_go_terms":[{"id":"GO:0039702","count":4},{"id":"GO:0036438","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0031468","count":4},{"id":"GO:1902187","count":4}]},{"hash":"2040277857876710563","title":"Rho/Ral GTPase signaling with ER\u2013Golgi trafficking","description":"The top GO terms point to small GTPase signaling (Rho and Ral) and activation of GTPase activity, coupled with vesicle trafficking in the secretory pathway (ER to Golgi and secretory granule localization). This implies a coherent role in regulating cytoskeletal dynamics and secretion, with broader signals that can influence morphogenesis in tissues such as midbrain and hair follicles.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0032252","count":3},{"id":"GO:0032485","count":3},{"id":"GO:1904693","count":3},{"id":"GO:0090630","count":3}]},{"hash":"872763738022839228","title":"Cardiac actin cytoskeleton remodeling","description":"The cluster shows strong enrichment for actin organization (actin crosslink formation, actin filament bundle assembly) and heart development, pointing to a role in cardiac muscle cytoskeleton remodeling. Other terms relate to phosphorylation signaling and stress responses but do not outweigh the central actin/heart theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035508","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0051764","count":2}]},{"hash":"109012552661883822","title":"Adaptive Immune Signaling and Development","description":"This cluster centers on adaptive immune signaling terms (adaptive immune response, B cell receptor signaling, IL-2 production) and immune-related pathways, with additional entries pointing to broader signaling (PI3K/PLC/Rho) and developmental processes (heart, uterus, neuron projection development). The mix suggests proteins involved in immune signaling with downstream links to development and growth pathways, rather than a single narrowly defined function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0060065","count":4}]},{"hash":"2280489388265101704","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":122,"triangles":500,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0031119","count":5},{"id":"GO:1990481","count":5},{"id":"GO:0031120","count":5},{"id":"GO:0042254","count":4}]},{"hash":"2175108726950239384","title":"Microtubule-driven cell division and neuronal migration","description":"This cluster centers on microtubule and spindle-related processes: FtsZ-dependent cytokinesis, spindle pole body duplication, microtubule nucleation, and overall cell cycle/cell division. The presence of terms like neuron migration and mechanosensation suggests involvement of cytoskeletal dynamics in neuron movement and mechanotransduction, but the strongest common theme is microtubule organization governing division and structural remodeling. A few terms (e.g., interleukin-4 response) are less directly linked but may reflect broader signaling contexts that converge on cytoskeletal regulation.","confidence":"Medium","size":17,"edges":72,"triangles":170,"max_degree":11,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0043093","count":11},{"id":"GO:1903087","count":11},{"id":"GO:0001764","count":11},{"id":"GO:0007020","count":11},{"id":"GO:0071353","count":11}]},{"hash":"199003390803028975","title":"Neural development and translational control","description":"The cluster includes strong signals for translation and RNA processing (GO:0006412, GO:0006364, mRNA cleavage) alongside neural development-related terms (spinal cord ventral commissure morphogenesis, motor neuron apoptotic process). This suggests a group of proteins involved in RNA-based regulation of gene expression during neural development and neuronal maintenance, with additional regulatory signaling aspects (e.g., negative regulation of protein kinase activity). Hence, a label focusing on neural development intertwined with translational control best fits the data.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0097049","count":5},{"id":"GO:0046782","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0021965","count":5}]},{"hash":"911741002767906142","title":"Protein Synthesis and RNA Processing","description":"The top GO terms are dominated by translation and rRNA processing, with additional hints of RNA metabolism and protein regulation. While there are outlier terms related to neuronal development and antiviral transcription, the strongest shared theme across the cluster centers on protein synthesis and RNA maturation components, suggesting these proteins collectively participate in translation and ribosome biogenesis rather than a single developmental or antiviral pathway.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0009636","count":7},{"id":"GO:0045071","count":7},{"id":"GO:0097049","count":5},{"id":"GO:0046782","count":5}]},{"hash":"2210351965243156940","title":"Neural development and axon guidance","description":"The cluster is dominated by GO terms tied to neuronal development, including positive regulation of synapse assembly, axon extension and guidance, and neuronal migration (e.g., tangential migration to the olfactory bulb and retinal ganglion cell axon guidance). While there are ancillary terms like response to cortisol and regulation of chemokine signaling, the recurring theme is neural differentiation, migration, and establishment of synaptic connections. This makes a cohesive label of Neural development and axon guidance appropriate and representative.","confidence":"High","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019800","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0061364","count":6},{"id":"GO:0022028","count":6},{"id":"GO:0070100","count":6}]},{"hash":"1559871260376241630","title":"Developmental Transcriptional Regulation","description":"The cluster centers on transcriptional control and chromatin remodeling (negative regulation of RNAP II, chromatin remodeling, transcription initiation) alongside several development-related processes (endodermal fate, trachea cartilage, gonad and gland development). This points to a common theme of regulating gene expression during developmental programs across multiple lineages.","confidence":"High","size":17,"edges":32,"triangles":32,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0043044","count":12},{"id":"GO:0006351","count":11},{"id":"GO:0045654","count":10},{"id":"GO:0070384","count":9}]},{"hash":"1745661891217669727","title":"Dopaminergic Signaling and Cardiovascular Regulation","description":"The top GO terms point to dopaminergic synaptic transmission and related neural signaling (pain perception, cocaine response, adenylate cyclase activation), suggesting a dopamine-driven neural pathway. Additional terms cover cardiovascular and inflammatory modulation (heart development, blood pressure, prostaglandin response, macrophage chemotaxis), indicating an integrated neuro-immune and cardiovascular regulatory theme. Thus, the cluster centers on dopamine-related neural signaling with connected cardiovascular and inflammatory regulation.","confidence":"Medium","size":17,"edges":20,"triangles":4,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0008542","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0007190","count":13},{"id":"GO:0002024","count":13}]},{"hash":"1070940169405979086","title":"Systemic Physiological Regulation and Signaling","description":"The top GO terms cover a range of organism-wide regulatory processes, including immune response to lipopolysaccharide, circadian rhythm, and multiple organ functions (gut motility like peristalsis, gastric acid secretion, urine volume), as well as diverse signaling pathways (dopamine receptor signaling, octopamine/tyramine signaling), plus bone remodeling and reproductive processes. This suggests a broad theme of systemic homeostasis and signaling rather than a single cohesive pathway, so a general label like \u201cSystemic Physiological Regulation and Signaling\u201d fits. However, the terms are quite diverse, giving only moderate confidence in a tight, specific function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":17},{"id":"GO:0035810","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0001697","count":16},{"id":"GO:0030432","count":16}]},{"hash":"911372987000009592","title":"Innate and Adaptive Immune Signaling","description":"The top GO terms point to both innate (innate immune response, defense against virus) and adaptive (adaptive immune response, B cell receptor signaling, Fc-epsilon receptor signaling) immune functions. NF-kappaB signaling components and IL-2 production regulation indicate T cell activation and cytokine signaling, suggesting a cluster of proteins involved in broad immune receptor signaling and coordination across immune arms.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0051092","count":7},{"id":"GO:0051607","count":6},{"id":"GO:0002250","count":5},{"id":"GO:0046007","count":5}]},{"hash":"1904846955564426248","title":"Diverse solute transporters","description":"GO terms center on transmembrane transport of nitrite, nitrate, sugars, vitamins, and related substrates, plus neurotransmitter loading into synaptic vesicles, suggesting a cluster of membrane transport proteins with broad substrate specificity.","confidence":"High","size":17,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":7},{"id":"GO:0071805","count":6},{"id":"GO:1904659","count":5},{"id":"GO:1900754","count":5},{"id":"GO:0015706","count":5}]},{"hash":"1534415681082373898","title":"Membrane transport of nucleosides and ions","description":"The top GO terms center on transmembrane transport of nucleosides (cytidine, purine, pyrimidine) and inorganic ions (chloride, bicarbonate, L-aspartate), plus related processes like regulation of membrane potential and intracellular pH. This points to a cohesive function: proteins facilitating transport across membranes for nucleosides and ions, with a possible ancillary link to membrane potential regulation, rather than any single enzymatic or structural role. Sperm capacitation appears but is not central to the overall theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015861","count":2},{"id":"GO:0055072","count":2},{"id":"GO:0015860","count":2},{"id":"GO:0015864","count":2},{"id":"GO:1902476","count":1}]},{"hash":"21799725660001806","title":"Unknown","description":"This cluster's GO terms span diverse physiological processes across nervous, endocrine, digestive, immune, skeletal, and reproductive systems. Because there isn't a single, shared biological function tying all terms together, a specific functional label cannot be confidently assigned beyond Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":15},{"id":"GO:0022410","count":15},{"id":"GO:0001697","count":15},{"id":"GO:0030432","count":15},{"id":"GO:0007211","count":15}]},{"hash":"674255394035063909","title":"Neuronal synaptic signaling and plasticity","description":"The cluster is dominated by GO terms related to neurons and synapses\u2014short-term memory, excitatory postsynaptic potentials, long-term synaptic potentiation, and calcium ion transport\u2014which point to synaptic transmission and plasticity in neural circuits. While a few terms (e.g., development) appear, the core theme centers on neuronal signaling and plasticity.","confidence":"High","size":17,"edges":23,"triangles":0,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006490","count":5},{"id":"GO:0007614","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0002027","count":4}]},{"hash":"138825717831378912","title":"Autonomic GI and Cardiovascular Signaling","description":"The dominant GO terms point to autonomic/neuroendocrine control of gut and cardiovascular functions: regulation of urine volume, circadian rhythms, gastric acid secretion, peristalsis, and neurotransmitter signaling (dopamine, octopamine/tyramine, norepinephrine/epinephrine) influencing vasodilation and blood pressure. A few outliers pertain to immune and skeletal processes, but the core theme is autonomic regulation of GI and vascular physiology.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":17},{"id":"GO:0022410","count":17},{"id":"GO:0001697","count":17},{"id":"GO:0030432","count":17},{"id":"GO:0007211","count":17}]},{"hash":"1095516834483790261","title":"Bacterial fatty acid and menaquinone biosynthesis","description":"The cluster is dominated by fatty-acid metabolism terms (long-, very long-, medium-, and long-chain fatty-acyl-CoA metabolic processes) and fatty acid biosynthesis, plus menaquinone biosynthetic process, pointing to lipid metabolism linked to bacterial energy pathways. Additional signals like pyruvate fermentation to acetate and nonribosomal peptide amino acid activation may reflect broader bacterial metabolic capabilities, but the core theme centers on lipid/quinone biosynthesis. ","confidence":"Medium","size":17,"edges":64,"triangles":97,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":9},{"id":"GO:0000038","count":6},{"id":"GO:0043041","count":6},{"id":"GO:0009698","count":6},{"id":"GO:0036112","count":6}]},{"hash":"2251845345593353487","title":"Synapse formation and neural signaling","description":"The top GO terms are dominated by neural-related processes: paranodal junction assembly, synapse organization, transmission of nerve impulse, receptor internalization, and related signaling pathways (including integrin signaling). These collectively point to neural connectivity and synaptic function as the central theme of the cluster, with a few outlier terms (e.g., T cell costimulation, symbiont entry) that are less representative. Overall, the label captures the primary function suggested by the strongest terms.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030913","count":6},{"id":"GO:0031295","count":5},{"id":"GO:0031623","count":5},{"id":"GO:0050808","count":5},{"id":"GO:0019226","count":5}]},{"hash":"1700756017448228270","title":"Unknown","description":"The top GO terms span apoptosis (liver and myeloid), pain response, epithelial polarity, cell migration, GPCR signaling, vitamin D response, chloroplast protein import, and broad multicellular/cardiac signaling, with no single coherent function uniting the proteins. This makes a specific, informative label unlikely.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":7},{"id":"GO:0090162","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0033028","count":6}]},{"hash":"700184804487272439","title":"Ribosome biogenesis and translation regulation","description":"The cluster centers on ribosome biogenesis, translation initiation, and mRNA transport, with TORC1 signaling and serine dephosphorylation affecting protein synthesis. Additional terms point to transcription and ER-Golgi vesicle trafficking, all tied to growth-related protein production and processing.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0001731","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0042254","count":4}]},{"hash":"709786128076535761","title":"Metabolism, transport, and transcription","description":"The top GO terms point to several distinct metabolic processes (L-serine biosynthesis, oxaloacetate metabolism, L-alanine catabolism, cobalamin biosynthesis, stilbene catabolic process) as well as copper ion transport and regulatory/processing activities (DNA-templated transcription, epoxygenase P450 pathway, response to testosterone). This suggests a cluster encompassing diverse metabolic and transport functions with some regulatory and xenobiotic-processing roles, rather than a single coherent pathway. Confidence: Medium","confidence":"","size":17,"edges":19,"triangles":14,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006564","count":4},{"id":"GO:0006107","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042853","count":4},{"id":"GO:0009236","count":4}]},{"hash":"1609937220246842540","title":"Unfolded Protein Response (ER Stress)","description":"The cluster is centered on PERK-mediated unfolded protein response and ER-stress\u2013driven transcriptional programs, as shown by GO:0036499 and related terms. The prominence of RNA polymerase II transcription under ER stress, alongside signals for immune-related processes (IL-4 response, MHC II biosynthesis) and ER-stress\u2013linked apoptosis, suggests a cohesive ER stress response network that coordinates sensing, transcriptional activation, and cell fate decisions during UPR.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036499","count":10},{"id":"GO:0006990","count":8},{"id":"GO:1990440","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0071353","count":8}]},{"hash":"85388611143597054","title":"Developmental transcription and chromatin remodeling","description":"This cluster centers on DNA-templated transcription and nucleosome assembly, with supporting links to developmental processes (hippocampus and mesoderm formation) and neuron maturation regulation, suggesting a role in controlling gene expression via chromatin structure during development. Additional associations with immune signaling and viral processes may reflect broader regulatory networks but do not override the core transcriptional/chromatin theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0021766","count":3},{"id":"GO:0019284","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0046638","count":2}]},{"hash":"1084232101032650661","title":"Eye development and photoreceptor differentiation","description":"These proteins are enriched for terms directly tied to vision, especially visual perception and camera-type eye photoreceptor cell differentiation, suggesting a cluster centered on retina development and photoreceptor function. Additional terms related to junction assembly, cell motility regulation, lysosome localization, and signaling modulation may reflect supporting processes in retinal cellular organization, trafficking, and signaling. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0030913","count":7},{"id":"GO:0090528","count":6},{"id":"GO:2001046","count":6},{"id":"GO:0006958","count":5}]},{"hash":"152804911380563510","title":"Embryonic organogenesis and neural development","description":"This cluster is enriched for GO terms tied to developmental processes across multiple organs (heart, palate/roof of mouth, cranial skeleton, uterus) and neural development (neuron migration, regulation of neuronal apoptosis) as well as pattern specification, indicating a cohesive role in embryonic morphogenesis and organogenesis.","confidence":"High","size":17,"edges":27,"triangles":10,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001759","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0048701","count":6},{"id":"GO:0043524","count":6}]},{"hash":"1279614961777278569","title":"Embryonic organogenesis and neural development","description":"Top GO terms indicate broad involvement in developmental processes across multiple organs (retina, heart, lung, digestive tract) and neural patterning (neuron migration, axon guidance), suggesting a cohesive cluster of proteins functioning in embryonic organogenesis and neural development.","confidence":"High","size":17,"edges":36,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0048701","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1225450471565138362","title":"Embryonic Eye and Lens Morphogenesis","description":"Dominant terms point to embryonic ocular development\u2014eye morphogenesis, camera-type eye development, lens epithelial proliferation, and in utero embryonic development\u2014suggesting the cluster is primarily about eye and lens formation during embryogenesis; other GO terms reflect broader transcriptional regulation and morphogenesis that accompany development.","confidence":"High","size":17,"edges":27,"triangles":4,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0048048","count":7},{"id":"GO:0001701","count":6},{"id":"GO:2001111","count":6},{"id":"GO:0043010","count":6}]},{"hash":"812277152329680400","title":"Epithelial differentiation and systemic signaling","description":"This cluster centers on keratinization and hair cycle (epidermal/follicle differentiation) and includes epithelial-associated immune differentiation (intraepithelial T cells), plus a set of broader neuroendocrine/visceral processes (gastric secretion, peristalsis, circadian rhythm, urine volume, dopamine/octopamine signaling). The shared theme appears to be regulation of epithelial tissue development/remodeling together with systemic signaling across organ systems, rather than a single, narrow function. ","confidence":"Medium","size":17,"edges":119,"triangles":465,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031424","count":12},{"id":"GO:0042633","count":12},{"id":"GO:0035810","count":3},{"id":"GO:0022410","count":3},{"id":"GO:0001697","count":3}]},{"hash":"571636477263261119","title":"Cardiac and neural development","description":"The strongest GO terms center on developmental processes, notably heart-related development (cardiac ventricle development, regulation of cardiac conduction) and brain region development (substantia nigra development), with supporting signals for broader multicellular development and transcriptional activity. The mix of related and unrelated terms suggests a developmental cluster biased toward cardiac and neural tissues, with some annotation noise from ubiquitous processes like ubiquinone biosynthesis and DNA-templated transcription.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903779","count":2},{"id":"GO:0003231","count":2},{"id":"GO:0042135","count":2},{"id":"GO:0006744","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1813981139524418181","title":"Neural development and immune signaling","description":"These proteins show a dual theme: nervous system development and synapse assembly, plus immune processes including complement activation, innate and B cell signaling, and phagocytosis. Frequent cell-adhesion terms (homophilic/heterophilic) suggest involvement of adhesion molecules that mediate neural connections and immune cell interactions, supporting a neural-immune adhesion and signaling role. The combination is coherent but not narrowly specific to one function, hence a moderate confidence.","confidence":"Medium","size":17,"edges":56,"triangles":53,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0043931","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0007156","count":10},{"id":"GO:0051965","count":10}]},{"hash":"1088039399377064245","title":"Rac/Rho-mediated actin remodeling","description":"The top GO terms cluster around Rac signaling and the assembly of actin-based protrusions (lamellipodium and filopodium), highlighting actin cytoskeleton remodeling and cell motility. Positive regulation of Rho signaling reinforces this actin-dynamics theme, while other terms touch on related aspects of cytoskeletal organization and cellular differentiation. Overall, the proteins appear to function together in Rac/Rho-driven actin remodeling and protrusion formation, with some ancillary links to ciliogenesis and cell division processes that tie back to cytoskeletal control. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0046847","count":2},{"id":"GO:1903251","count":1},{"id":"GO:0098535","count":1}]},{"hash":"1904731528579710146","title":"Ubiquitin-mediated immune regulation","description":"The cluster is dominated by GO terms tied to ubiquitination (protein ubiquitination; ubiquitin-dependent protein catabolic process; protein autoubiquitination) and immune functions (defense response to virus; innate immune response; T cell homeostasis), suggesting a theme of ubiquitin-regulated signaling in immunity. While terms like response to vitamin D and dosage compensation are present, they appear peripheral to the core signal of ubiquitin-driven immune regulation, potentially reflecting broader regulatory roles or annotation noise. Overall, the data point to a cohesive function around ubiquitin-mediated control of immune responses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":8},{"id":"GO:0016567","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0043029","count":7},{"id":"GO:0051607","count":6}]},{"hash":"312578116327908626","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around heart cushion EMT, left-right patterning, placental and endocrine development, pancreatic and cartilage morphogenesis, palate formation, and mesoderm development, indicating a broad role in embryogenesis and tissue morphogenesis rather than a single pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":17},{"id":"GO:0060972","count":17},{"id":"GO:0060806","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0003323","count":17}]},{"hash":"751735199692403112","title":"Neural development and synapse organization","description":"This cluster is dominated by terms related to nervous system development and synaptic architecture (synapse organization, peripheral nervous system development, myelination) and signaling pathways that influence neural development (smoothened signaling). While there are a few outliers like angiogenesis and germ cell death, the strongest signal points to neural development and synaptic function as the core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050808","count":4},{"id":"GO:0007422","count":4},{"id":"GO:0007224","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0035234","count":4}]},{"hash":"350772074877512286","title":"Sensory perception and cardiovascular signaling","description":"The top GO terms cluster around sensory modalities (visual perception, phototransduction, smell) and cardiovascular function (cardiac muscle contraction, regulation of heart rate), suggesting the proteins in this cluster participate in both sensory signaling and heart-related regulation. Some auxiliary terms (aerotaxis, sarcomere organization) are related but not dominant, supporting a combined theme rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0060048","count":4},{"id":"GO:0010754","count":3},{"id":"GO:1904753","count":3},{"id":"GO:0007602","count":3}]},{"hash":"156169911855615394","title":"Circadian-Linked Ubiquitination and Antiviral Immunity","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes and ubiquitination, together with circadian rhythm regulation and innate antiviral/defense responses (plus related muscle development and vitamin D signaling), suggesting a common theme where ubiquitin turnover modulates circadian control and antiviral immunity in muscle-related contexts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0016567","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0033280","count":5}]},{"hash":"910604581045064148","title":"RNA processing and transcription regulation","description":"The top terms point to RNA maturation (SSU-rRNA processing) and RNA modification (guanine-N7 methylation), indicating a core role in RNA metabolism. Additional terms touch on transcription regulation and chromatin-related methylation, suggesting broader gene expression control. A few other terms relate to vesicle trafficking and signaling, which may be peripheral or reflect multifunctional proteins in the cluster. Overall, RNA processing and transcription regulation best tie the dominant signals together.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0035023","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0001881","count":1}]},{"hash":"1540390912568525914","title":"Neural development and axon guidance","description":"This cluster is dominated by neuron-related processes: neuron cell\u2013cell adhesion, fasciculation of sensory neuron axons, and dendritic spine morphogenesis, plus associated signaling like PI3K/AKT and receptor tyrosine kinase pathways. While a few terms touch on immune or reproductive processes, the common thread across the top GO terms points to neuronal differentiation, axon pathfinding, and synaptic maturation.","confidence":"Medium","size":16,"edges":95,"triangles":293,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001779","count":6},{"id":"GO:0043491","count":6},{"id":"GO:0048671","count":5},{"id":"GO:0060035","count":5},{"id":"GO:0060997","count":5}]},{"hash":"1651592892425510730","title":"ER-Golgi trafficking and cytoskeleton dynamics","description":"The GO terms point to core secretory pathway activities (ER membrane fusion, ER/Golgi organization) and cytoskeletal coordination (microtubule depolymerization, protein complex assembly), with hints of cytokine-related secretory functions (IL-18 production, IL-2 regulation). This suggests a cluster centered on ER\u2013Golgi trafficking and cytoskeleton regulation linked to protein secretion and immune signaling.","confidence":"Medium","size":16,"edges":32,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016320","count":6},{"id":"GO:0007030","count":6},{"id":"GO:0051260","count":6},{"id":"GO:0042832","count":5},{"id":"GO:1900025","count":5}]},{"hash":"2132046085985384820","title":"Developmental signaling and metabolic stress responses","description":"This cluster contains GO terms spanning development (heart, nervous, skeletal) and signaling pathways (Rho signaling, exocytosis) as well as cellular stress responses (glucose stimulus, amino acid starvation, dsRNA response). The common thread is coordination of development with broad signaling and stress-responsive processes, rather than a single specific function.","confidence":"Medium","size":16,"edges":100,"triangles":359,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071333","count":12},{"id":"GO:0043330","count":12},{"id":"GO:0007507","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0007124","count":9}]},{"hash":"524765562459132513","title":"Golgi trafficking and autophagy regulation","description":"This cluster\u2019s GO terms cluster around Golgi organization, protein retention in the Golgi, multivesicular body (MVB) assembly, and exosomal/vesicle trafficking, together with macroautophagy. While cell division terms appear, the dominant pattern is a coordinated Golgi- and endosome-associated vesicle trafficking and autophagy program.","confidence":"High","size":16,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0016236","count":5},{"id":"GO:0045053","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0048013","count":4}]},{"hash":"304595584391418387","title":"Diverse Transmembrane Transporters","description":"The top GO terms indicate transport across membranes for a wide range of substrates (nitrate/nitrite, galactose, arabinose, sialic acid, vitamins, 4-hydroxyphenylacetate, potassium, and neurotransmitter loading into vesicles). This points to a cluster of membrane transporter proteins with diverse substrates rather than a single enzymatic pathway, making \"Diverse Transmembrane Transporters\" an intuitive, representative label.","confidence":"High","size":16,"edges":19,"triangles":4,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":12},{"id":"GO:0015706","count":12},{"id":"GO:0098700","count":12},{"id":"GO:0015757","count":12},{"id":"GO:0015751","count":12}]},{"hash":"1004811317093122613","title":"Neuronal mitochondrial transport and synaptic regulation","description":"This cluster centers on functions related to mitochondrial transport in neurons (anterograde dendritic/axonal), regulation of synaptic transmission, and neurotrophin production, with additional hints of neuronal differentiation and mitochondrial organization. The repeated motifs of directional mitochondrial movement and synaptic signaling suggest a cohesive theme around neuronal organelle trafficking and synaptic maintenance.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902430","count":5},{"id":"GO:0031587","count":4},{"id":"GO:0032230","count":4},{"id":"GO:1902513","count":4},{"id":"GO:0098972","count":4}]},{"hash":"1100459611824975027","title":"Collagen Synthesis and Cartilage/Bone Morphogenesis","description":"The top GO terms cluster around collagen biosynthesis/organization and skeletal tissue formation (cartilage condensation, intramembranous ossification, cartilage development in bone morphogenesis), with supporting skin and vascular morphogenesis terms. This points to an extracellular matrix\u2013driven program for collagen remodeling underpinning cartilage and bone development, justifying the label. ","confidence":"High","size":16,"edges":96,"triangles":338,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0071230","count":3}]},{"hash":"1136846082114374117","title":"TLR-driven innate immune signaling and cytokine regulation","description":"The top GO terms cluster around Toll-like receptor signaling (TLR2/7/8), defense against Gram-positive bacteria, regulation of cytokine and chemokine production, and GPCR signaling, all pointing to innate immune sensing and downstream inflammatory responses. Negative regulation of protein kinase activity likely reflects feedback control within these signaling pathways. A few terms (e.g., neuron maturation) are less connected and may reflect broader or off-target annotations, but the dominant theme is TLR-mediated innate immunity and cytokine regulation.","confidence":"Medium","size":16,"edges":22,"triangles":9,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":12},{"id":"GO:0050830","count":10},{"id":"GO:0050707","count":10},{"id":"GO:0034158","count":10},{"id":"GO:0032722","count":10}]},{"hash":"985338972301414402","title":"Unknown","description":"The top GO terms are highly diverse: translational attenuation, chemotaxis, regulation of interferon signaling, actin rod assembly, salt-stress response, virion attachment, otolith tethering, and other obsolete terms. There isn\u2019t a single cohesive biological theme tying these functions together, suggesting the cluster does not reflect one clear, interpretable biology. Therefore, I cannot assign a meaningful, specific name beyond Unknown.","confidence":"","size":16,"edges":24,"triangles":4,"max_degree":10,"top_function":"protein folding","top_go_terms":[{"id":"GO:0009386","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0060334","count":3},{"id":"GO:0051973","count":3},{"id":"GO:1901389","count":3}]},{"hash":"2180392813116586394","title":"Ubiquitin- and SUMO-regulated proteostasis","description":"This cluster is enriched for GO terms related to ubiquitination, deubiquitination, autoubiquitination, and sumoylation, plus an ER-associated degradation pathway hint, all pointing to protein quality control and degradation. Additional terms on mitochondrial fusion regulation and ER-stress\u2013related signaling suggest broader involvement in stress responses and organelle dynamics, with ribosome assembly and transcription regulation appearing as supportive or secondary themes. Overall, the dominant function center is ubiquitin/SUMO-mediated proteostasis and related quality-control pathways.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0016925","count":6},{"id":"GO:0010636","count":5},{"id":"GO:0051865","count":5}]},{"hash":"1098333315021908259","title":"RNA splicing and translation regulation","description":"The cluster is enriched for post-transcriptional RNA processing and export (spliceosome-mediated splicing, splice site recognition, mRNA export, splicing regulation) and translation control (eIF4F complex assembly, IRES-driven initiation), with stress-related mRNA stability. The viral translation terms align with translation initiation mechanisms, supporting a cohesive role in RNA processing and translation regulation.","confidence":"High","size":16,"edges":66,"triangles":125,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":13},{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0075525","count":10},{"id":"GO:0075522","count":10}]},{"hash":"799992857634847472","title":"ER Stress Response and Proteostasis","description":"This cluster is dominated by GO terms tied to endoplasmic reticulum\u2013associated processes: protein folding in the ER, response to unfolded protein, and translation regulation during ER stress, plus redox homeostasis linked to proteostasis; together they point to an ER stress proteostasis module. A few terms are obsolete or less related (e.g., spermatogenesis, mitochondrial targeting), but the core signal is ER proteostasis. ","confidence":"Medium","size":16,"edges":42,"triangles":44,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":10},{"id":"GO:0034975","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0090084","count":9},{"id":"GO:0006986","count":7}]},{"hash":"1042811248513243948","title":"Dopaminergic signaling and autonomic regulation","description":"The top GO terms emphasize dopamine-related neural signaling (synaptic transmission, dopaminergic; GPCR-AC signaling) and physiological control (blood pressure, urine volume, circadian rhythm, thermogenesis, pain, temperature response). This suggests a coordinated theme of neural signaling modulating autonomic and metabolic homeostasis, with energy-related terms providing context for neural activity. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0002024","count":11}]},{"hash":"1472203262589461780","title":"Neuroendocrine regulation of visceral physiology","description":"These terms converge on signaling and regulatory processes that control visceral physiology and organismal homeostasis. The prominent terms include regulation of urine volume, gastric acid secretion, peristalsis, vasodilation and blood pressure, as well as neural hormonal signaling pathways (dopamine receptor signaling, octopamine/tyramine signaling) and circadian rhythm regulation. While a couple of terms touch unrelated areas (bone remodeling, reproductive processes, T cell differentiation), the dominant theme is neuroendocrine and autonomic control of gut motility, renal function, vascular tone, and circadian/behavioral rhythms.","confidence":"Medium","size":16,"edges":58,"triangles":86,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0001697","count":16},{"id":"GO:0030432","count":16},{"id":"GO:0007211","count":16}]},{"hash":"125960436089810659","title":"Systemic Neuroendocrine Regulation","description":"GO terms indicate autonomic and endocrine control of multiple organs: urine volume, circadian rhythm, gastric acid secretion, peristalsis, monoamine signaling, vasodilation, bone remodeling, reproduction, and gut-associated T cell differentiation. This pattern suggests a common theme of systemic homeostasis governed by neuroendocrine and autonomic signaling, not a single process.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0001697","count":16},{"id":"GO:0030432","count":16},{"id":"GO:0007211","count":16}]},{"hash":"154635779269785371","title":"Vertebrate Development and Transcription Regulation","description":"The top GO terms center on DNA-templated transcription and its regulation, paired with tissue development processes (cornea, bone, Sertoli cell development) and responses to TGF-beta and heparin, suggesting a set of proteins involved in transcriptional control during vertebrate organogenesis and tissue differentiation. Obsolete glycosylation terms are likely background annotations and do not define the core theme. Overall, the cluster seems to reflect developmental transcriptional regulation guiding organ development.","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0071504","count":2},{"id":"GO:0061303","count":2},{"id":"GO:0060348","count":2}]},{"hash":"1532640702395910394","title":"Cell cycle regulation and proteasomal degradation","description":"The cluster centers on cell division and mitotic cycle with enrichment for proliferation, along with several ubiquitin-proteasome\u2013related pathways (SCF-dependent protein degradation), and links to apoptotic processes and TGF-beta signaling, suggesting coordinated control of cell cycle progression by protein turnover. This makes \"cell cycle regulation and proteasomal degradation\" a concise, representative label.","confidence":"High","size":16,"edges":27,"triangles":14,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007568","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0000278","count":3}]},{"hash":"2124202755319834270","title":"Hair follicle morphogenesis and keratinization","description":"Several top GO terms converge on skin/hair biology: keratinocyte migration, hair follicle morphogenesis, hair cycle, and keratinization, suggesting the cluster comprises proteins involved in hair and epidermal differentiation and turnover. Although there are a few terms related to neural or cardiac processes, the strongest shared theme among the majority of terms is hair follicle development and keratinocyte dynamics.","confidence":"Medium","size":16,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0060020","count":5},{"id":"GO:0072201","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0048936","count":5},{"id":"GO:0051546","count":5}]},{"hash":"2008009250067116842","title":"Chromosome segregation and nuclear transport","description":"The cluster\u2019s top GO terms cluster around mitotic processes (mitotic cell cycle, kinetochore localization) and nuclear-cytoplasmic transport (ribosomal subunit export from the nucleus), with additional signals for transcriptional regulation and GTPase activity modulation. This points to a theme centered on chromosome handling during cell division and associated nuclear transport/regulatory activities, though some peripheral terms add noise. Overall, a label focusing on chromosome segregation and nuclear transport fits best, with moderate confidence due to some functional diversity beyond core mitosis. ","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0006656","count":4}]},{"hash":"2136193014061465222","title":"Developmental Regulation and Stress-Response Genes","description":"The cluster features neural development terms (forebrain development, neural tube closure) and broader multicellular development, alongside stress-related responses (ER-stress\u2013induced apoptosis, defense against Gram-positive bacteria, cadmium ion response) and general transcription/cell-cycle processes (DNA-templated transcription, mitotic cell cycle). This points to a group of genes involved in developmental regulation that also participate in various stress responses and transcriptional control, rather than a single, cohesive pathway.","confidence":"Medium","size":16,"edges":50,"triangles":84,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":13},{"id":"GO:0070059","count":13},{"id":"GO:0030900","count":13},{"id":"GO:0007275","count":13},{"id":"GO:0001843","count":13}]},{"hash":"1921705159679247961","title":"General Catabolic Metabolism","description":"The GO terms are dominated by catabolic processes across diverse substrates (lipids such as monoacylglycerol, diacylglycerol, triglyceride, phosphatidylserine; cellulose; chlorophyll), suggesting proteins in this cluster broadly participate in breaking down various biomolecules rather than a single pathway. A regulatory term and an obsolete term are less informative for the main theme. High confidence that this label captures the cluster\u2019s function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":4},{"id":"GO:2000124","count":3},{"id":"GO:0052651","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0006660","count":3}]},{"hash":"34850599126639539","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":45,"triangles":56,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":7},{"id":"GO:0071847","count":6},{"id":"GO:1903753","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0048541","count":6}]},{"hash":"2006788936928949647","title":"Cerebellar development and neural signaling regulation","description":"Dominant signals point to cerebellar development (cerebellar cortex formation, Bergmann glial differentiation) with neural signaling pathways (insulin receptor signaling, ERK cascade regulation, axon regeneration). Some terms relate to cell cycle control and immune signaling, likely reflecting shared signaling networks rather than a single tissue-specific function. Overall, label as cerebellar development and neural signaling regulation.","confidence":"Medium","size":16,"edges":114,"triangles":483,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":12},{"id":"GO:0045736","count":12},{"id":"GO:0048679","count":11},{"id":"GO:0008285","count":11},{"id":"GO:0060020","count":11}]},{"hash":"1360531195640240448","title":"Neural crest\u2013driven craniofacial and retinal development","description":"The GO terms show a common theme of developmental processes in neural crest\u2013derived tissues and craniofacial structures (neural crest formation, cranial skeleton morphogenesis, roof of the mouth, retina development) together with transcriptional regulation by RNA polymerase II, suggesting a coherent module of developmentally oriented genes with regulatory roles.","confidence":"Medium","size":16,"edges":98,"triangles":327,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0060041","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0002076","count":7},{"id":"GO:0002087","count":7}]},{"hash":"1924662683946198627","title":"Eye and brain development","description":"This cluster is enriched for developmental processes, especially ocular and neural tissues, with terms such as lens fiber cell differentiation, cornea and retina development, forebrain development, and brain development. Additional terms like odontogenesis and heart development suggest broader embryonic organogenesis, but the strongest, most cohesive signal centers on eye and neural morphogenesis. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0061303","count":2}]},{"hash":"788426355568464781","title":"Biosynthesis of lipids, pigments, and hormones","description":"The cluster is dominated by biosynthetic/metabolic GO terms, including estrogen biosynthesis, retinal and melanin biosynthesis, very long-chain fatty acid biosynthesis, tetrahydrobiopterin and poly-hydroxybutyrate biosynthesis, pointing to a core theme of diverse biosynthetic pathways. Some other terms about responses exist but do not override the clear biosynthesis signal.","confidence":"Medium","size":16,"edges":101,"triangles":334,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":16},{"id":"GO:0031427","count":13},{"id":"GO:0006703","count":13},{"id":"GO:0006729","count":13},{"id":"GO:0030324","count":13}]},{"hash":"204994513712570678","title":"Phospholipid Remodeling and Eicosanoid Biosynthesis","description":"The terms show a strong emphasis on remodeling of phospholipids across several classes (phosphatidic acid, phosphatidylserine, phosphatidylcholine, phosphatidylinositol, phosphatidylethanolamine) and on leukotriene (an eicosanoid) biosynthesis, pointing to a cluster of proteins involved in lipid remodeling and lipid-mediated signaling. The presence of defense-related terms suggests a link to immune responses that are often driven by lipid mediators, reinforcing a theme of lipid metabolism connected to inflammation and defense. Therefore, a concise label capturing lipid remodeling and inflammatory lipid signaling is appropriate.","confidence":"Medium","size":16,"edges":16,"triangles":1,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006654","count":5},{"id":"GO:0045740","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0019370","count":4},{"id":"GO:0036150","count":4}]},{"hash":"485622580676844138","title":"Neural development and Schwann cell dynamics","description":"The cluster\u2019s terms cluster around neural development and glial-axonal biology: somatic motor neuron differentiation, neurofilament cytoskeleton organization, and Schwann cell migration/axon regeneration, along with ceramide biosynthesis that can relate to membrane lipids in neurons and glia. A couple of outliers (e.g., T cell costimulation, protein catabolic process) are present but do not define the main theme, which is neural development and Schwann cell/axonal dynamics.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0044257","count":1},{"id":"GO:0001306","count":1},{"id":"GO:0060052","count":1}]},{"hash":"502544264718086378","title":"Endothelial barrier, coagulation, and complement activation","description":"The cluster is dominated by GO terms for establishing the endothelial barrier, blood coagulation, and complement activation (classical and lectin pathways), pointing to a vascular-immune function at the endothelium. Additional terms like collagen catabolic process and defense against Gram-positive bacteria support ECM remodeling and innate defense at the vascular interface. Some developmental terms appear but do not override the central vascular-immune theme. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903142","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0030574","count":8}]},{"hash":"76796965277811437","title":"Embryonic morphogenesis and organ development","description":"This cluster centers on developmental and organogenesis processes, including endocardial cushion formation (heart), hair follicle morphogenesis (skin), palate roof development, left-right pattern formation, and trophoblast differentiation, indicating coordinated tissue morphogenesis across multiple organs. The presence of transcriptional regulation terms further supports a role in developmental gene expression control. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0060707","count":3},{"id":"GO:1903026","count":3}]},{"hash":"2298720306681932570","title":"Retroviral life cycle and host interaction","description":"This cluster centers on processes characteristic of retroviral replication and host interaction: viral budding via the ESCRT pathway, virion assembly, viral release, DNA integration, and proviral latency, which together map to the retroviral life cycle. Additional GO terms point to host immune modulation (dendritic cell differentiation, Fc-epsilon receptor signaling) and core RNA-processing activities (snRNP assembly, miRNA catabolic process) that can be co-opted or affected during viral infection. Although there are a few non-viral RNA-processing terms, the prominent viral lifecycle terms provide a coherent overarching theme of virus-host interplay.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001199","count":2},{"id":"GO:0038095","count":2},{"id":"GO:0039702","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0010587","count":1}]},{"hash":"2061589632219441911","title":"Platelet and erythrocyte maturation with oxidative stress response","description":"This cluster\u2019s top GO terms cluster around hemostasis (platelet aggregation, blood coagulation) and erythrocyte maturation/differentiation, with additional emphasis on oxidative stress responses (response to hydrogen peroxide, hydrogen peroxide catabolic process). A few linked processes like receptor-mediated endocytosis and fibroblast migration regulation are present but secondary. The core theme suggests hematopoietic/vascular functions plus ROS handling, justifying the label.","confidence":"Medium","size":15,"edges":76,"triangles":196,"max_degree":14,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0031444","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0043353","count":6},{"id":"GO:0042542","count":6}]},{"hash":"1393584316422859133","title":"Redox and nucleotide metabolism cluster","description":"The top GO terms mainly point to redox homeostasis and oxidation-reduction processes, glycolytic metabolism, and nucleotide/nucleoside metabolism (uridine biosynthesis, UMP salvage, cytosine metabolism) plus RNA editing, suggesting a cluster centered on central metabolism and nucleic acid processing; a few outliers like antibiotic response and neuron projection development are present but less representative.","confidence":"Medium","size":15,"edges":39,"triangles":36,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0010976","count":4},{"id":"GO:0009972","count":4}]},{"hash":"977909545842064648","title":"TLR-NF-kB innate immune signaling","description":"The cluster is dominated by GO terms for Toll-like receptor signaling (TLR2 and TLR4) and positive regulation of canonical NF-kappaB signaling, pointing to innate immune responses to infection. The remaining terms (zona pellucida penetration, acrosome reaction, neural development) are less coherent with this theme and may reflect annotation noise or multifunctionality, but the strongest signal is innate immune signaling.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0034134","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0034142","count":3},{"id":"GO:0007341","count":3}]},{"hash":"1845212508052110329","title":"Neuronal vesicle trafficking and calcium signaling","description":"The terms cluster around intracellular transport between ER and Golgi and vesicle fusion, together with neural signaling processes such as myelination, long-term potentiation, and calcium-dependent pathways (calcineurin-NFAT, ryanodine receptor regulation). This pattern suggests proteins coordinating vesicle trafficking and calcium-mediated signaling in neural contexts, with a few broader cell-cycle or muscle-related terms contributing to overall pathway connectivity.","confidence":"Medium","size":15,"edges":15,"triangles":1,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0042144","count":6},{"id":"GO:0022011","count":5},{"id":"GO:0006468","count":5},{"id":"GO:0000278","count":5}]},{"hash":"1033336254141142625","title":"Mitochondrial tRNA aminoacylation and translation","description":"This cluster is dominated by mitochondrial tRNA aminoacylation (lysyl, aspartyl, asparaginyl) and translation terms, plus tRNA wobble modification, indicating a unified role in mitochondrial protein synthesis; a DNA repair term is a minor outlier.","confidence":"High","size":15,"edges":16,"triangles":3,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070154","count":6},{"id":"GO:0006412","count":6},{"id":"GO:0070145","count":6},{"id":"GO:0072581","count":6},{"id":"GO:0070146","count":6}]},{"hash":"1020598560088374725","title":"Signaling-driven cytoskeletal remodeling and migration","description":"The top terms cluster around signaling pathways (TGF-beta, GH receptor, Rho) that regulate cytoskeletal dynamics (actin remodeling, stress fibers) and cell migration (keratinocytes), with some stimulus-response entries (LPS). This suggests a cohesive theme of how signaling cues drive cytoskeletal changes to enable movement, despite a few divergent terms. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0051045","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0051497","count":5},{"id":"GO:0021744","count":5}]},{"hash":"1454006094703833072","title":"Mitochondrial stress response and apoptosis control","description":"The GO terms cluster around mitochondria (mitochondrial respiratory chain assembly; negative regulation of cytochrome c release) and apoptosis in liver and neurons, with accompanying stress-responsive signaling (hypoxia, xenobiotics, erythropoietin) and ERK/MAPK modulation, plus proton transport tied to energy production. This combination suggests a mitochondria-centered stress response that regulates cell survival versus apoptosis.","confidence":"High","size":15,"edges":53,"triangles":83,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":4},{"id":"GO:0000060","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0035690","count":3},{"id":"GO:1902600","count":3}]},{"hash":"2202917657644794793","title":"Rho/Rac-Regulated Actin Cytoskeleton","description":"The top GO terms cluster around regulation of Rho and Rac signaling and actin cytoskeleton organization, suggesting proteins in this group modulate cytoskeletal remodeling. Negative regulation terms support the presence of inhibitors within this pathway, while terms like Golgi localization may reflect related trafficking processes that interact with the cytoskeleton. Overall, the core theme is cytoskeletal dynamics governed by Rho/Rac signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0035024","count":2},{"id":"GO:0051683","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0006376","count":1}]},{"hash":"740007409745803977","title":"Regulated signaling and exocytosis","description":"The top terms cluster around signaling pathway regulation (phosphorylation, MAPKK, ephrin signaling), vesicle trafficking and secretion (protein export from nucleus, calcium-dependent exocytosis), and cytoskeletal/adhesion dynamics (dendrite morphogenesis, focal adhesion assembly). This suggests a core theme of coordinated signaling that controls exocytosis and cell morphology across diverse cell types, rather than a single, narrowly defined process.","confidence":"Medium","size":15,"edges":8,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":10},{"id":"GO:0046827","count":10},{"id":"GO:0000186","count":9},{"id":"GO:0043304","count":9},{"id":"GO:0048813","count":9}]},{"hash":"2203019859786713123","title":"Organelle dynamics and vesicle trafficking","description":"The top GO terms center on membrane and organelle remodeling, with vesicle docking/tethering in exocytosis and mitochondrial fusion/regulation pointing to dynamic membrane/organelle processes. Tubulin deacetylation regulation adds a cytoskeletal angle, while bone development and somitogenesis reflect developmental contexts where such dynamics are essential. Overall, the cluster seems linked by themes of organelle/membrane dynamics and cytoskeletal remodeling rather than a single precise pathway, so a broad label capturing trafficking and organelle dynamics fits best.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0090522","count":2},{"id":"GO:0000379","count":1},{"id":"GO:0090502","count":1}]},{"hash":"1007245279466042216","title":"Forebrain development and neuroimmune signaling","description":"The top GO terms are strongly neural: forebrain development and layer formation in the cerebral cortex, indicating a primary neural developmental theme. Immune-related terms (T/B cell signaling, nitric oxide response) appear as secondary associations, suggesting some cross-talk or pleiotropy but not defining the core cluster. Thus, the label emphasizes neural development with contextual immune signaling, capturing the dominant pattern.","confidence":"Medium","size":15,"edges":51,"triangles":73,"max_degree":13,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030900","count":15},{"id":"GO:0071732","count":15},{"id":"GO:0050798","count":15},{"id":"GO:0050853","count":15},{"id":"GO:0007257","count":15}]},{"hash":"175665330030126943","title":"Redox-regulated mitochondrial signaling","description":"The top GO terms point to oxidative stress response and mitochondrial respiration (cellular response to hydrogen peroxide, oxidation-reduction, and mitochondrial electron transport), suggesting a redox-regulated, energy-centric theme. Additional terms like protein autophosphorylation and nucleotide biosynthesis hint at broader signaling and metabolic activity, but the dominant pattern ties redox signaling to mitochondrial function.","confidence":"Medium","size":15,"edges":102,"triangles":417,"max_degree":14,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0070301","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0006122","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0060416","count":4}]},{"hash":"2294073602934029332","title":"Central Carbon Metabolism and NADPH Regeneration","description":"The cluster is dominated by core energy and redox-related pathways, including glycolysis, the TCA cycle, and NADPH regeneration, with supporting entries in glutathione, folate, and amino-acid metabolism. This pattern indicates a cohesive module of central carbon metabolism and cellular redox balance rather than a single pathway, hence a broad metabolic theme.","confidence":"Medium","size":15,"edges":45,"triangles":50,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":8},{"id":"GO:0006096","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0006103","count":5},{"id":"GO:0061732","count":4}]},{"hash":"1054120614415939493","title":"Dopaminergic and octopaminergic GPCR signaling","description":"This cluster is dominated by GO terms for dopamine receptor signaling and signaling through related GPCR pathways (dopaminergic synaptic transmission; phospholipase C-activating dopamine receptor signaling) and octopamine/tyramine pathways, with supporting terms tied to autonomic regulation (blood pressure, urine volume) and rhythmic/digestive processes (circadian cycle, peristalsis, gastric acid secretion). The electron transport chain term appears ancillary, but the recurring catecholamine signaling terms suggest a cohesive theme around catecholamine GPCR signaling and associated autonomic functions. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0001963","count":9},{"id":"GO:0035810","count":8}]},{"hash":"582944832866034053","title":"Dopaminergic Signaling and Visual Processing","description":"This cluster shows strong enrichment for dopaminergic synaptic transmission, visual perception and visual learning, and cocaine-related behavioral responses, with supporting involvement of ERK signaling. While some terms like heart development, saliva secretion, and macrophage chemotaxis appear, the dominant theme is dopamine- and vision-related neural signaling and sensory processing, suggesting proteins function together in neural pathways rather than a single non-neural process. ","confidence":"Medium","size":15,"edges":37,"triangles":16,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0071380","count":13}]},{"hash":"1162599877971067110","title":"Thermogenesis and GPCR-Mediated Signaling","description":"This cluster centers on diet-induced thermogenesis and temperature response, linked to GPCR signaling that activates adenylate cyclase, as well as energy metabolism suggested by the electron transport chain. The inclusion of circadian and autonomic-regulatory terms (sleep/wake cycle, blood pressure, urine volume) points to a broader metabolic-regulatory network influenced by signaling pathways. Some terms like pain perception or gastric acid secretion are less directly connected, likely reflecting broader physiological signaling roles rather than a single cohesive pathway.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0007190","count":7},{"id":"GO:0045777","count":7}]},{"hash":"305040090625438883","title":"Dopamine GPCR signaling and prostaglandin response","description":"Top terms indicate a core theme of GPCR-mediated signaling, particularly dopamine receptor pathways (adenylate cyclase-activating and PLC-activating) and cellular responses to prostaglandin E stimulus, suggesting a neuroendocrine signaling focus. Additional terms touch on vascular regulation (norepinephrine-epinephrine\u2013mediated vasodilation) and reproductive biology, implying broader physiological effects downstream of these signaling cascades. The cluster is best described by its signaling-centric nature rather than a single specific function, hence this label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071380","count":11},{"id":"GO:0007191","count":11},{"id":"GO:0008283","count":11},{"id":"GO:0060158","count":10},{"id":"GO:0002305","count":10}]},{"hash":"1384384257376031657","title":"Autonomic signaling and gut motility","description":"The top GO terms cluster around autonomic and neuroendocrine regulation of organ function, especially gut motility (peristalsis, urine volume, gastric secretion), circadian regulation, and vascular tone via neurotransmitter signaling (dopamine, norepinephrine, octopamine/tyramine, histamine). Some terms (immune differentiation, bone remodeling, reproductive process) are broader outliers, but the core pattern points to integrative autonomic control of physiology.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":15},{"id":"GO:0022410","count":15},{"id":"GO:0001697","count":15},{"id":"GO:0030432","count":15},{"id":"GO:0007211","count":15}]},{"hash":"2243848609844575028","title":"Musculoskeletal and craniofacial differentiation","description":"The top GO terms point to differentiation programs across multiple lineages (bone/osteoblasts, skeletal muscle, myoblasts, melanocytes) and craniofacial development (outflow tract morphogenesis, roof of the mouth), with supporting roles for calcium signaling and transcriptional regulation, indicating a cluster of proteins involved in developmental differentiation in musculoskeletal and craniofacial contexts.","confidence":"Medium","size":15,"edges":99,"triangles":392,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045669","count":10},{"id":"GO:0003151","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0035690","count":9},{"id":"GO:0071277","count":9}]},{"hash":"1564044205524800546","title":"Autonomic Neuroendocrine Regulation","description":"The top GO terms largely point to physiological regulation mediated by the autonomic nervous system and hormonal signaling: urine volume, circadian sleep/wake cycles, gastric acid secretion, peristalsis, dopamine/biogenic amine signaling, and norepinephrine-epinephrine\u2013driven vasodilation. While some terms (bone remodeling, reproductive processes, certain immune cell differentiations) are broader physiological processes, the dominant theme is systemic homeostasis governed by neuroendocrine signaling. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":15},{"id":"GO:0022410","count":15},{"id":"GO:0001697","count":15},{"id":"GO:0030432","count":15},{"id":"GO:0007211","count":15}]},{"hash":"1076402953617865171","title":"Inflammation and coagulation with vascular responses","description":"This cluster centers on inflammatory and coagulation processes and vascular regulation. Key terms include blood coagulation, immune and inflammatory responses, response to lipopolysaccharide, pain perception, and vasoconstriction, along with GPCR signaling and calcium mobilization that influence smooth muscle. Together they suggest a coordinated inflammatory/hemostatic response that modulates vascular tone; bone remodeling appears incidental.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0051281","count":9},{"id":"GO:0046849","count":8},{"id":"GO:0045745","count":8}]},{"hash":"2171031956300530503","title":"Immunological synapse and T cell activation","description":"Based on the top GO terms, the cluster centers on immune signaling and T cell\u2013mediated responses: regulation of IL-2 and IL-4 production, negative regulation of activated T cell proliferation, T cell costimulation, and NK cell\u2013mediated cytotoxicity, along with regulation of synapse assembly and protein localization to cell junctions. While a few terms (lens morphogenesis, spermatid development, virion attachment) are less directly aligned, the dominant theme is immunological signaling and T cell activation, suggesting these proteins function together in immune response coordination. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046814","count":4},{"id":"GO:1902414","count":4},{"id":"GO:0007286","count":4},{"id":"GO:0002860","count":4},{"id":"GO:0051963","count":4}]},{"hash":"293822232917015146","title":"Ribosome Biogenesis and Mitochondrial Function","description":"This cluster is dominated by translation- and ribosome-related terms (translation, negative regulation of translation, ribosomal large subunit assembly) and includes terms for Fe-S cluster biosynthesis and mitochondrial respiratory chain/complex I assembly, suggesting a cohesive group involved in protein synthesis and mitochondrial energy metabolism. Some terms (brain development, nitrogen fixation, cAMP response) are peripheral, but do not override the core theme. ","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0017148","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0009399","count":2},{"id":"GO:0016226","count":2}]},{"hash":"1917628308543639814","title":"Transcriptional regulation and RNA processing","description":"The set is enriched for transcription and RNA processing functions: DNA-templated transcription, transcription termination regulation, transcription antitermination, pre-miRNA processing, and miRNA catabolic processes, plus CRD-mediated mRNA stabilization. Together these terms point to a module that controls gene expression at both transcriptional and post-transcriptional levels, with some context-specific roles in development and immune-related biosynthesis.","confidence":"Medium","size":15,"edges":55,"triangles":95,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0010587","count":5},{"id":"GO:1902219","count":5},{"id":"GO:0070934","count":5},{"id":"GO:0031564","count":5}]},{"hash":"1824440523993941039","title":"Mg2+-linked biosynthesis and transport","description":"The cluster shows clear enrichment for magnesium ion transmembrane transport and magnesium ion homeostasis, paired with several biosynthetic processes (fatty acid, GMP, hydrogen sulfide, L-cysteine biosynthesis, and L-homocysteine catabolism). This combination suggests proteins involved in Mg2+-dependent metabolic pathways and Mg2+ regulation. Peripheral terms like lymphocyte proliferation and nuclear import may reflect broader cellular roles, but the core theme centers on Mg2+-associated metabolism and ion homeostasis.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1903830","count":6},{"id":"GO:0070814","count":6},{"id":"GO:0006633","count":6},{"id":"GO:0019343","count":6},{"id":"GO:0010960","count":6}]},{"hash":"820904247821237796","title":"Skin lipid synthesis and CNS myelin maintenance","description":"This cluster centers on lipid metabolism: sphingolipid and fatty acid biosynthesis, cholesterol esterification, and sebaceous gland differentiation, with an additional link to CNS myelin maintenance. The shared theme is lipid biosynthesis/signaling relevant to skin barrier function and nervous system myelin.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":6},{"id":"GO:0001949","count":6},{"id":"GO:0006675","count":6},{"id":"GO:0010873","count":6},{"id":"GO:0046512","count":6}]},{"hash":"1505313826216572143","title":"mRNA splicing and translation initiation regulation","description":"The GO terms cluster around mRNA processing (spliceosome, splice site recognition, mRNA export) and translation initiation control (eIF4F complex assembly, IRES-dependent initiation), with additional regulatory RNA silencing. This suggests a coherent module coordinating RNA maturation with translational regulation, including some viral translation mechanisms.","confidence":"High","size":15,"edges":54,"triangles":98,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0075525","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0097010","count":6},{"id":"GO:0006376","count":6}]},{"hash":"844528003631327451","title":"Embryonic Development and Neural Patterning","description":"This cluster centers on diverse embryonic patterning and organogenesis processes (anterior/posterior axis specification, organ induction, wing-disc patterning, skeletal morphogenesis) with strong ties to neural development (forebrain/olfactory bulb, axon guidance, synapse assembly) and transcriptional regulation, suggesting a cohesive role in developmental gene regulation and neural wiring.","confidence":"High","size":15,"edges":22,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048190","count":3},{"id":"GO:0003281","count":2},{"id":"GO:0021772","count":2},{"id":"GO:0008595","count":2},{"id":"GO:0048705","count":2}]},{"hash":"156930191896520123","title":"Vesicle trafficking and mitotic signaling","description":"Top GO terms cluster around vesicle-mediated transport, mitotic processes (cell cycle and spindle assembly), and signaling regulation (GTPase activity, GPCR acetylcholine receptor signaling). This pattern suggests proteins involved in intracellular trafficking coupled to cell division signaling, though some terms touch on tissue-specific roles. Therefore the label reflects a coherent theme of vesicle trafficking with cell-cycle signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016192","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0031954","count":2}]},{"hash":"118392170613832574","title":"DNA Damage Response and Homologous Recombination","description":"The cluster is dominated by GO terms tied to DNA damage response, homologous recombination, and replication-associated repair (e.g., DNA strand invasion, reciprocal meiotic recombination, replication fork processing, sister chromatid exchange repair) as well as responses to DNA-damaging agents (X-ray, camptothecin, hydroxyurea). Spermatid development aligns with meiotic processes, supporting a unifying theme around meiosis-associated recombination and DNA repair.","confidence":"High","size":15,"edges":103,"triangles":429,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007286","count":7},{"id":"GO:0009636","count":6},{"id":"GO:0010165","count":6},{"id":"GO:0007131","count":6},{"id":"GO:0042148","count":6}]},{"hash":"419829832160365350","title":"Unknown","description":"The top terms cover mitosis, development, inflammation, NF-kB signaling, hypoxia, and DNA replication, with no single unifying function. This spread suggests multiple unrelated processes rather than a cohesive cluster function. Therefore, a unique, specific label is not supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006954","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0030900","count":4}]},{"hash":"151517292188009326","title":"Negative regulation of signaling and cell cycle processes","description":"This cluster is dominated by GO terms describing inhibition of signaling pathways (negative regulation of T cell receptor signaling and ERK cascades), dephosphorylation of tyrosine residues, negative control of CDK activity, and mitotic checkpoint signaling. Additional terms touching on focal adhesion and inflammatory responses fit the theme of broad regulatory control of signaling and cell division. Taken together, the proteins likely function as phosphatases or inhibitors that dampen signaling and coordinate cell cycle events, with some involvement in development.","confidence":"High","size":15,"edges":97,"triangles":365,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0070373","count":11},{"id":"GO:0034501","count":10},{"id":"GO:0045736","count":10}]},{"hash":"2287301310042918741","title":"Cerebellar neuron and Bergmann glia development","description":"Top GO terms indicate cerebellar development (cerebellar cortex formation, Bergmann glial cell differentiation, neuron development) and axon regeneration, with supporting roles for insulin signaling and integrin-mediated adhesion in neural organization. A few immune-related terms may reflect annotation noise rather than a core theme. Overall, the cluster centers on cerebellar neuron\u2013glia development and circuit formation.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048679","count":10},{"id":"GO:0008285","count":10},{"id":"GO:0060020","count":10},{"id":"GO:0008286","count":10},{"id":"GO:0021697","count":10}]},{"hash":"1362314454485829313","title":"Notch-Regulated Developmental Processes","description":"The top GO terms point to diverse developmental roles across tissues (intestinal epithelium, imaginal discs, ovarian follicles, hypochord, meiosis) with a clear emphasis on Notch signaling regulation, suggesting the proteins function together in development via Notch-mediated pathways.","confidence":"High","size":15,"edges":86,"triangles":268,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060576","count":6},{"id":"GO:0075015","count":5},{"id":"GO:0036011","count":5},{"id":"GO:0002315","count":5},{"id":"GO:0007143","count":5}]},{"hash":"1039627817663698735","title":"Cell stress and transport regulation","description":"This cluster is dominated by membrane and chemical transport terms (vitamin and xenobiotic transmembrane transport) and nuclear-cytoplasmic transport (protein export from nucleus), together with multiple stress-response terms (ER stress\u2013related apoptotic signaling, cellular response to ionizing radiation) and immune defense context. Additional terms point to membrane lipid metabolism (sphingolipid biosynthesis) and epigenetic regulation (CpG island methylation), suggesting a broader theme of stress response coupled with transport and gene expression modulation. DNA replication and cell size regulation appear as peripheral notes rather than core drivers of the cluster\u2019s function.","confidence":"Medium","size":15,"edges":32,"triangles":16,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0050830","count":5},{"id":"GO:0006611","count":5}]},{"hash":"1036135453105435477","title":"Diverse metabolite biosynthesis","description":"The top GO terms span multiple biosynthetic processes across different metabolite classes (estrogen biosynthesis, tetrahydrobiopterin, melanin, very long-chain fatty acids, retinal metabolism, tropane alkaloids, etc.), suggesting the cluster centers on diverse metabolite production rather than a single pathway. A few non-biosynthesis terms appear but do not dominate. ","confidence":"Medium","size":15,"edges":20,"triangles":17,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031427","count":10},{"id":"GO:0006703","count":10},{"id":"GO:0006729","count":10},{"id":"GO:0030324","count":10},{"id":"GO:0042574","count":10}]},{"hash":"849709770806898221","title":"P450-driven xenobiotic and hormone metabolism","description":"The terms cluster around oxidative metabolism mediated by cytochrome P450 enzymes, including epoxygenase P450 pathway, oxidative demethylation, retinoic acid catabolic process, vitamin D response, dioxin catabolic process, and ent-kaurene oxidation. This pattern points to a shared function in P450-catalyzed oxidation of xenobiotics and endogenous signaling molecules; some presentation of development or cell-cycle terms may reflect downstream hormone-related effects. ","confidence":"High","size":15,"edges":19,"triangles":7,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070989","count":7},{"id":"GO:0019373","count":7},{"id":"GO:0034653","count":7},{"id":"GO:0010164","count":7},{"id":"GO:0033280","count":7}]},{"hash":"673537728363935375","title":"Embryonic eye morphogenesis and patterning","description":"Top GO terms show strong emphasis on eye development (retina development, camera-type eye development, embryonic eye morphogenesis) and left/right patterning, indicating a cluster of genes involved in embryonic eye formation and early organismal patterning. Additional terms for lung morphogenesis and osteoblast development reflect broader developmental roles, but the central theme remains eye morphogenesis and embryonic patterning.","confidence":"High","size":15,"edges":102,"triangles":417,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0060041","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0002076","count":5}]},{"hash":"913433116454533079","title":"Angiogenic ECM remodeling and inflammation","description":"The cluster is enriched for GO terms tied to sprouting angiogenesis, cell-matrix and heterophilic cell-cell adhesion, hyaluronan biosynthesis, mechanotransduction, and inflammatory response, including complement activation. This points to coordinated vascular sprouting with ECM remodeling and immune involvement; a thyroid hormone generation term appears less connected and may reflect broader tissue context.","confidence":"High","size":15,"edges":26,"triangles":15,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090050","count":10},{"id":"GO:0006590","count":10},{"id":"GO:0007160","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0001867","count":10}]},{"hash":"1146234399237873262","title":"Mitochondrial membrane dynamics and metabolite transport","description":"This cluster centers on mitochondrial membrane processes (fission, permeability) and transport of key metabolites (alpha-ketoglutarate, NAD), with additional signals related to nutrient stress and insulin/glucose\u2013related responses. The recurring theme is mitochondrial membrane dynamics linked to metabolite transport and energy/nutrient signaling, justifying the label.","confidence":"High","size":15,"edges":75,"triangles":173,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":14},{"id":"GO:0090152","count":14},{"id":"GO:0034198","count":14},{"id":"GO:1990314","count":14},{"id":"GO:0015742","count":14}]},{"hash":"1668178700696700612","title":"Cell signaling and cytoskeleton regulation","description":"This cluster combines GO terms focused on regulation of signaling pathways (LPS signaling, Wnt), ubiquitination control (autoubiquitination and K63-linked ubiquitination), and cytoskeletal or mitotic processes (spindle and microspike assembly), plus related cellular outcomes (apoptosis, T cell activation, axon regeneration). The common thread appears to be regulatory roles in signaling and structural remodeling rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:1902498","count":2},{"id":"GO:0031666","count":2},{"id":"GO:1900044","count":2},{"id":"GO:0050798","count":2}]},{"hash":"1590064646484277138","title":"Coagulation and complement-mediated innate defense","description":"The cluster is enriched for blood coagulation and classical complement activation, alongside innate immune responses such as defense against Gram-positive bacteria, neutrophil-mediated killing, and leukocyte recruitment. This combination suggests a functional module where coagulation, complement, and neutrophil-driven defense coordinate during innate immune responses to infection, with some regulatory signals like IL-8 suppression.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0050830","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0030901","count":4}]},{"hash":"1354202408446960520","title":"Developmental ECM remodeling and EMT","description":"These GO terms point to processes in embryonic tissue morphogenesis, including somite development, collagen fibril organization, epithelial-to-mesenchymal transition, endothelial migration, and integrin signaling, all indicating extracellular matrix remodeling and changes in cell adhesion during development. While lipoprotein transport and receptor-mediated endocytosis are broader cellular processes present in the cluster, the dominant signal is ECM-associated development and tissue remodeling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0061053","count":15},{"id":"GO:0042953","count":15},{"id":"GO:2000483","count":15},{"id":"GO:0043542","count":15},{"id":"GO:0030199","count":15}]},{"hash":"197771998177951373","title":"Unknown","description":"The top GO terms span diverse and seemingly unrelated processes across plant and animal biology (chloroplast import, epithelial polarity, hepatocyte apoptosis, vitamin D response, cardiac signaling, dendritic cell differentiation, telomere localization, immune signaling), with no clear shared function or pathway. The cluster has no edges or cohesive connectivity, suggesting annotations are disparate rather than a single functional module. Therefore, Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045038","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0044707","count":2}]},{"hash":"1703477305276494674","title":"DNA Replication and Telomere Maintenance","description":"The top GO terms are dominated by DNA replication processes (initiation, strand elongation, RNA-templated DNA synthesis, premeiotic replication) and telomere maintenance via recombination, pointing to a core function in genome duplication and telomere upkeep. Other terms like membrane protein ectodomain proteolysis and broad catalytic activity regulation appear peripheral to this main theme. Thus, the label reflects the predominant function of the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006509","count":2},{"id":"GO:0043085","count":2},{"id":"GO:0000722","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0006271","count":1}]},{"hash":"908803039747924320","title":"Skeletal muscle contraction and cytoskeleton regulation","description":"This cluster's GO terms center on regulation of skeletal muscle contraction (calcium handling, contraction regulation, and atrophy) and cytoskeletal dynamics (actin crosslinking, spindle/contractile ring actin assembly). The dominant theme ties cytoskeletal remodeling to muscle function, with a few potentially unrelated terms likely representing noise.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":2},{"id":"GO:0007182","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0031664","count":2},{"id":"GO:0090307","count":1}]},{"hash":"1449342086889466564","title":"B cell activation and antibody production","description":"The cluster is enriched for immunoglobulin production, positive regulation of B cell activation, and adaptive immune response, suggesting a core role in B cell\u2013mediated antibody responses and cytokine signaling; a few terms related to neural conduction and cell adhesion may reflect multifunctional proteins but do not dominate the signal.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002377","count":7},{"id":"GO:0019226","count":6},{"id":"GO:2000649","count":6},{"id":"GO:0086072","count":5},{"id":"GO:0042511","count":5}]},{"hash":"1050853135529292173","title":"Neuronal excitability and signaling","description":"The prominent GO terms cluster around ion transport (sodium and potassium channels), membrane depolarization, and excitatory postsynaptic potentials, which together underpin neuronal signaling and action potential generation. Inclusion of auditory sensory detection (sound-related mechanosensation) and ERK cascade modulation aligns with synaptic signaling and plasticity. A few immune-related terms are present but appear peripheral to the main neuronal theme, supporting a primary focus on neuronal excitability and signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051899","count":3}]},{"hash":"1819929939186913034","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0000209","count":7},{"id":"GO:0002635","count":5},{"id":"GO:0001782","count":5},{"id":"GO:0070534","count":5}]},{"hash":"650148036454538302","title":"Cerebral neural development and progenitor proliferation","description":"The top GO terms center on brain development, notably cerebral cortex development, and regulation of neural progenitor cell proliferation, suggesting a neural development-focused cluster. Apoptotic processes and responses to toxic substances further indicate cellular regulation during development and stress. Several terms are marked obsolete, which may reflect outdated annotations, but the core theme appears to be neural development and its regulation rather than a unrelated process.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0009636","count":2}]},{"hash":"627885683711140933","title":"Ubiquitin-regulated innate antiviral immunity","description":"Most prominent signals are ubiquitination-related processes (protein ubiquitination; ubiquitin-dependent protein catabolic process) alongside antiviral/innate immune responses (defense response to virus; innate immune response). This suggests a cluster of proteins involved in ubiquitin-mediated regulation of innate immunity and antiviral defense. Some terms reference mechanotransduction or cardiac function, which may reflect broader regulatory roles or annotation noise, but do not define a cohesive theme. Overall, the strongest common function appears to be ubiquitin-dependent control of immune signaling and antiviral defense.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043066","count":5},{"id":"GO:0033280","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0071260","count":4}]},{"hash":"2093553297743730284","title":"Actin Cytoskeleton Remodeling in Development","description":"The cluster is dominated by actin-related terms (Arp2/3-mediated nucleation, actin polymerization, sarcomere organization) and development-related processes (heart development, neuron projection development, multicellular organism development), suggesting a group of proteins coordinating actin dynamics during morphogenesis and tissue-specific structure formation, including muscle-like organization and cell adhesion. Some terms are broad or obsolete, but the core theme centers on actin remodeling in developmental contexts.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007507","count":2}]},{"hash":"683362820940558849","title":"Neural and Cardiovascular Signaling","description":"The top GO terms point to regulatory signaling roles, including neural processes (positive regulation of synapse assembly) and broad signaling pathways (protein tyrosine kinase activity, PI3K signaling), together with cardiovascular-related functions (blood pressure regulation, cardiac conduction, endothelial migration, gap junction regulation). This pattern suggests a cluster of proteins involved in signaling networks that coordinate neural and cardiovascular functions.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0061098","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0046676","count":2},{"id":"GO:1903598","count":2}]},{"hash":"477472590473957947","title":"Neurodevelopment and gland morphogenesis signaling","description":"TheGO terms highlight nervous system development and morphogenesis of glands like submandibular/salivary glands, with additional signals for angiogenesis and broader multicellular development. Positive regulation of ERK cascade and canonical Wnt signaling point to active developmental signaling coordinating cell proliferation, differentiation, and tissue formation. Overall, the cluster appears to reflect developmental signaling programs underlying neurodevelopment and gland/organ morphogenesis.","confidence":"Medium","size":14,"edges":58,"triangles":107,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0070374","count":9},{"id":"GO:0090263","count":9},{"id":"GO:0031532","count":9},{"id":"GO:0007275","count":9}]},{"hash":"1872666523649660950","title":"Neuronal morphogenesis and synaptic plasticity regulation","description":"This cluster centers on neuronal development and plasticity, with terms for neuron morphogenesis, cerebellar Purkinje cell layer morphogenesis, and regulation of long-term neuronal synaptic plasticity. It also includes Rho GTPase signaling and endosome-to-lysosome transport, pointing to cytoskeletal remodeling and intracellular trafficking that support neuronal connectivity and remodeling.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0043547","count":2}]},{"hash":"418145318587350184","title":"Stress-Responsive ERK and VEGF Signaling","description":"The terms point to stress-activated signaling pathways, including positive regulation of the ERK1/ERK2 cascade and VEGF receptor signaling, along with cellular responses to hypoxia, xenobiotics, and oxidative stress, suggesting a group of proteins involved in stress-induced signaling and survival. ","confidence":"Medium","size":14,"edges":13,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0036091","count":6},{"id":"GO:0043524","count":5},{"id":"GO:0000060","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0035690","count":5}]},{"hash":"1202568404624552935","title":"Unknown","description":"The top GO terms span a wide variety of processes (ubiquitination, lipophagy, hepatocyte apoptosis, miRNA export, salivary gland development, immune cytotoxicity, phospholipase D activity, cell division, endosome-Golgi transport, and GPCR signaling) with no single prevailing theme. This makes it difficult to assign a coherent, specific function label; thus Unknown with no confidence. ","confidence":"","size":14,"edges":75,"triangles":212,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0061724","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0035281","count":6},{"id":"GO:0060661","count":6}]},{"hash":"484127622502638354","title":"RNA Pol II/III Transcription Regulation","description":"The cluster is unified by multiple top GO terms related to transcription by RNA polymerase II and III and regulation of transcription elongation; snRNA transcription terms support this theme. Some unrelated terms (synaptonemal complex assembly, endothelial barrier establishment, neural precursor proliferation) are present but appear peripheral and do not define the core function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007130","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0006368","count":1},{"id":"GO:0061028","count":1},{"id":"GO:2000179","count":1}]},{"hash":"860062669258305748","title":"Embryonic Organ Development","description":"The top GO terms span multiple organ systems undergoing embryonic development (eye/midbrain, heart, gonads, lung, peripheral nervous system), plus transcriptional regulation. This suggests a broad theme of embryonic tissue morphogenesis across diverse organs rather than a single pathway, so a general label of embryonic organ development fits.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":10},{"id":"GO:0043010","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0060527","count":6}]},{"hash":"2022426548667740317","title":"Neural crest\u2013driven craniofacial embryonic development","description":"This cluster is dominated by GO terms related to early embryogenesis and neural crest\u2013derived structures, including neural crest formation, inner ear development, cranial skeleton morphogenesis, pharyngeal system development, dorsal spinal cord development, and segmental identity in the thorax. These collectively point to coordinated development of neural crest\u2013derived tissues and craniofacial structures during embryogenesis, with broader organogenesis involvement such as pancreas and heart signaling noted as part of widespread developmental programs.","confidence":"High","size":14,"edges":20,"triangles":11,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048839","count":14},{"id":"GO:0014029","count":13},{"id":"GO:0061312","count":13},{"id":"GO:0060929","count":13},{"id":"GO:0021516","count":13}]},{"hash":"927347556394861829","title":"Vertebrate embryogenesis and neural crest development","description":"The proteins cluster around multiple vertebrate development processes: primitive streak formation, neural crest formation and migration, dorsal spinal cord development, heart development, endocrine pancreas development, and retina/visual perception. This pattern points to a cohesive theme of early vertebrate embryogenesis followed by organogenesis, with neural crest as a key component, reinforced by transcriptional regulation activity. ","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0090009","count":6},{"id":"GO:0090190","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0001755","count":6}]},{"hash":"254392278774346738","title":"Unknown","description":"The top GO terms span muscle and brain development, metabolism (P450 epoxygenase, sugar biosynthesis, dephosphorylation), hormone response, and metal ion transport, indicating a heterogeneous set of functions with no single cohesive theme.","confidence":"","size":14,"edges":80,"triangles":252,"max_degree":13,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0019373","count":3},{"id":"GO:0046380","count":3},{"id":"GO:0016311","count":3}]},{"hash":"248028864009284125","title":"Neuroendocrine and Autonomic Regulation","description":"This cluster shows diverse GO terms tied to signaling and physiological regulation across multiple organ systems, including circadian rhythm, gut motility, urinary volume, gastric acid secretion, vascular tone, and neurotransmitter pathways. The common theme is neuroendocrine/autonomic control of organismal physiology, justifying this label.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":14},{"id":"GO:0022410","count":14},{"id":"GO:0001697","count":14},{"id":"GO:0030432","count":14},{"id":"GO:0007211","count":14}]},{"hash":"300272891337747568","title":"Cadherin-mediated adhesion and mitochondrial regulation","description":"This cluster shows signals for cadherin-mediated cell-cell adhesion and several mitochondrial-related processes (stress-induced mitochondrial fusion, regulation of mitochondrial membrane potential), suggesting a link between adhesion signaling and mitochondrial/metabolic regulation. While some terms are obsolete or broad (lipid localization, cholesterol biosynthesis regulation, excretion, IL-2 production), the strongest cohesive themes are cell adhesion and mitochondrial function, justifying a label focused on these aspects.","confidence":"Medium","size":14,"edges":14,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:2000049","count":2},{"id":"GO:0001302","count":2},{"id":"GO:0010876","count":2},{"id":"GO:0007588","count":2}]},{"hash":"2456189436487476","title":"Membrane Transport and Ion Homeostasis","description":"The top GO terms are dominated by membrane transport and ionic regulation: chloride and bicarbonate transport, oxalate and L-aspartate transport, and regulation of membrane potential along with intracellular pH elevation. This points to a cluster centered on substrate transport across membranes and maintaining ion/pH balance, with additional metabolic notes (oxalate/carnitine catabolism, carbon fixation) that may accompany these proteins. The term sperm capacitation is less consistent with this context and may reflect annotation noise.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033611","count":3},{"id":"GO:0042413","count":3},{"id":"GO:0043427","count":3},{"id":"GO:1902476","count":2},{"id":"GO:0051454","count":2}]},{"hash":"1862844966748179282","title":"Monoaminergic GPCR Signaling Across Organs","description":"Most top terms reference GPCR pathways activated by monoamines (dopamine, histamine, octopamine/tyramine) and their downstream effects, including peristalsis, gastric acid secretion, urine volume, circadian rhythm, bone remodeling, and reproduction. The common thread is monoaminergic GPCR signaling coordinating diverse physiological processes across tissues.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051482","count":13},{"id":"GO:0035810","count":12},{"id":"GO:0022410","count":12},{"id":"GO:0001697","count":12},{"id":"GO:0030432","count":12}]},{"hash":"1544621558996178265","title":"Multisystem Physiological Regulation","description":"The top GO terms cover diverse organ-system processes (urine volume, circadian rhythm, gastric secretion, peristalsis, vascular tone, reproduction, bone remodeling, immune differentiation) and signaling pathways, indicating a broad, systemic regulatory role rather than a single pathway. This supports naming the cluster as multisystem physiological regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":14},{"id":"GO:0022410","count":14},{"id":"GO:0001697","count":14},{"id":"GO:0030432","count":14},{"id":"GO:0007211","count":14}]},{"hash":"54470343360168564","title":"Acute inflammatory response and cytokine regulation","description":"This cluster is dominated by GO terms for acute inflammation and acute-phase response, plus regulation of cytokines (IL-6, IL-8, TNF). The mix of pro- and anti-inflammatory control (positive IL-8, negative IL-6/TNF) and the involvement of glucocorticoid pathways point to an innate immune/inflammatory signaling theme, with some secondary developmental associations. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002438","count":3},{"id":"GO:0010951","count":3},{"id":"GO:0006953","count":3},{"id":"GO:0045777","count":3},{"id":"GO:0032757","count":3}]},{"hash":"1063845349573578763","title":"Chromatin Regulation and Transcriptional Control","description":"Dominant GO terms point to chromatin state control (nucleosome density, heterochromatin maintenance), histone deacetylation, and transcriptional regulation (DNA-templated transcription). A few terms touch cell cycle and angiogenesis, but the strongest signal is epigenetic modulation of gene expression, so this cluster best fits chromatin regulation and transcription control.","confidence":"High","size":14,"edges":82,"triangles":280,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060303","count":13},{"id":"GO:0034983","count":13},{"id":"GO:0045668","count":13},{"id":"GO:0006344","count":13},{"id":"GO:0000183","count":13}]},{"hash":"15004082324313643","title":"Glycosphingolipid biosynthesis and muscle development","description":"The top GO terms cluster around glycosphingolipid biosynthetic processes and lipid/glycosylation activities, alongside several muscle development terms (muscle cell, cardiac muscle, vascular smooth muscle, and muscle organ development, plus swim bladder inflation), suggesting a link between glycan biosynthesis and muscle morphogenesis.","confidence":"High","size":14,"edges":23,"triangles":0,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006688","count":3},{"id":"GO:0030259","count":3},{"id":"GO:0005975","count":3},{"id":"GO:0033580","count":3},{"id":"GO:0008360","count":3}]},{"hash":"1194461884740585574","title":"Neuronal axon guidance and synapse formation","description":"Based on GO terms like motor neuron axon guidance, positive regulation of synapse assembly, and cell-cell adhesion, the cluster is best characterized by neuronal connectivity and synaptogenesis. Additional terms related to apoptosis regulation and mitochondrial fission suggest broader cellular maintenance roles, but the dominant theme centers on neural development and synapse formation.","confidence":"Medium","size":14,"edges":21,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2000352","count":2},{"id":"GO:0008045","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0007156","count":2}]},{"hash":"604710991330788208","title":"Neural adhesion and synaptic signaling with immune regulation","description":"GO terms cluster around cell-cell adhesion (homophilic/heterophilic), synapse assembly and nerve impulse transmission, alongside immune-regulatory roles (negative regulation of macrophage activation, NK cell cytotoxicity, and B cell activation). This pattern suggests proteins mediating neural adhesion and synaptic connectivity while modulating immune responses, potentially at neural-immune interfaces. An outlier term about symbiont entry into host cells may reflect shared adhesion/invasion mechanisms rather than a core function of the cluster.","confidence":"Medium","size":14,"edges":47,"triangles":65,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0086072","count":7},{"id":"GO:0043318","count":7},{"id":"GO:0051963","count":7},{"id":"GO:0019226","count":7},{"id":"GO:0007157","count":7}]},{"hash":"1096309974596419198","title":"mRNA Splicing and Translation Initiation","description":"The top GO terms are dominated by mRNA processing and splicing (splicing via the spliceosome, splice site recognition, and regulation of splicing) with additional signals for mRNA export and translation initiation (including IRES-dependent initiation and eIF4F complex assembly), suggesting the cluster groups proteins involved in RNA processing and the initiation of translation.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":9},{"id":"GO:0045292","count":8},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0075525","count":5}]},{"hash":"268807343409442581","title":"RNA splicing and translation initiation","description":"This cluster is enriched for both mRNA processing (splicing, spliceosome-related activities, splice site recognition) and translation initiation machinery (preinitiation complex formation, EIF4F assembly, translation, IRES-dependent initiation), indicating a module that connects RNA maturation with start of protein synthesis, with some viral translation aspects. ","confidence":"High","size":14,"edges":22,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001825","count":7},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006412","count":6}]},{"hash":"998297607272604406","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The cluster is enriched for GO terms tied to ribosome biosynthesis, rRNA processing, and various aspects of cytoplasmic translation (translation, translational initiation, ribosomal large subunit biogenesis). These consistently point to proteins involved in assembling ribosomes and directing protein synthesis in the cytoplasm. A few stress-related terms (amino acid starvation response, p53-mediated DNA damage signaling) may reflect regulatory links between translation and stress, but do not outweigh the central ribosome/translation theme. Therefore the label captures the core function of this cluster.","confidence":"High","size":14,"edges":27,"triangles":17,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0042254","count":4},{"id":"GO:0002181","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0042273","count":3}]},{"hash":"856614056818678515","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":4},{"id":"GO:0006398","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0010446","count":2},{"id":"GO:0006355","count":2}]},{"hash":"181067395914735268","title":"Mitochondrial metabolism and dynamics","description":"This cluster centers on mitochondrial processes: transport of key metabolites (alpha-ketoglutarate, NAD) across membranes, regulation of membrane permeability, and mitochondrial fission with apoptotic changes, coupled with metabolic signaling related to insulin/IGF and responses to glucose and amino acid starvation. These themes together point to mitochondrial energy metabolism and dynamics as the unifying function of the proteins.","confidence":"High","size":14,"edges":21,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0061179","count":7},{"id":"GO:0008637","count":6},{"id":"GO:0090152","count":6},{"id":"GO:0034198","count":6},{"id":"GO:1990314","count":6}]},{"hash":"51701999516097352","title":"Sugar catabolism and carbohydrate metabolism cluster","description":"Most of the top GO terms point to processing and breakdown of sugars and sugar acids (D-xylose, D-gluconate, L-fucose, D-glucuronate, xylulose, glycerol) and carbohydrate phosphorylation, indicating a shared role in sugar utilization. A couple of terms (cellular response to interleukin-13, quorum sensing) are regulatory in nature and may reflect broader cellular context or annotation noise, but do not negate the core sugar-metabolism theme. Overall, this cluster likely contains proteins involved in carbohydrate catabolic pathways.","confidence":"High","size":14,"edges":12,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":5},{"id":"GO:0006177","count":4},{"id":"GO:0005998","count":3},{"id":"GO:0019563","count":3},{"id":"GO:0042732","count":3}]},{"hash":"1295599581307936338","title":"Innate Immune Defense and Coagulation","description":"The top GO terms cluster around innate immunity and coagulation: complement activation via the lectin pathway, defense against Gram-positive bacteria and fungi/yeast, neutrophil-mediated killing, leukocyte tethering/rolling, and fibrinolysis. These point to a cohesive group of proteins involved in early immune defense and blood coagulation processes, with a couple development-related terms likely incidental. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0055123","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0070947","count":4},{"id":"GO:0050830","count":4}]},{"hash":"97441490295051667","title":"Innate immunity and coagulation","description":"The top GO terms cluster around defense against pathogens (neutrophil-mediated killing of fungus, defense against Gram-positive bacteria, response to yeast) and leukocyte recruitment, with concurrent proteolytic and hemostatic processes (plasminogen activation, fibrinolysis, blood coagulation) suggesting a coordinated innate immune and coagulation/fibrinolysis program. Anomalous midbrain development annotation is likely incidental noise. Thus, a label focusing on innate immune defense intertwined with coagulation is appropriate.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":5},{"id":"GO:0070947","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001878","count":4}]},{"hash":"630638312156592872","title":"Angiogenesis and Inflammatory Signaling in Development","description":"The top GO terms point to coordinated vascular remodeling with inflammation (negative regulation of endothelial proliferation in sprouting angiogenesis; inflammatory response; response to lipopolysaccharide) and prostaglandin metabolism, plus signals like mechanical stimulus response and STAT phosphorylation, suggesting a development-stage program where angiogenesis is tuned by inflammatory signaling. A hepatocyte apoptotic process hints at liver remodeling under stress. Overall, the cluster seems to reflect interplay between angiogenesis regulation and inflammatory signaling during development, with associated stress and apoptotic responses.","confidence":"Medium","size":14,"edges":14,"triangles":0,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:1903588","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0032496","count":6}]},{"hash":"655647010676576547","title":"Chromatin assembly and transcriptional repression","description":"The cluster's top GO terms cluster around chromatin organization and regulation of transcription by RNA polymerase II (negative regulation) and nucleosome assembly, which together point to chromatin-mediated transcriptional control. While some terms touch on development and immune processes, the dominant signal is chromatin-associated gene regulation, suggesting these proteins commonly participate in transcriptional regulation through chromatin structure.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006334","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0031214","count":4},{"id":"GO:0045766","count":4}]},{"hash":"251676413133470939","title":"Vertebrate embryonic craniofacial and organ development","description":"This cluster's GO terms cluster around embryonic development across multiple tissues, especially craniofacial structures (palate, neural crest, cranial skeleton), along with heart, spinal cord, pharyngeal system, and pancreas development, suggesting a general role in vertebrate embryogenesis rather than a single specific pathway.","confidence":"Medium","size":14,"edges":21,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0007519","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0014029","count":6},{"id":"GO:0061312","count":6}]},{"hash":"474171554836080027","title":"Embryonic patterning and organ morphogenesis","description":"The proteins in this cluster are heavily enriched for GO terms tied to developmental patterning and morphogenesis across multiple tissues (left/right patterning, cartilaginous and hair follicle morphogenesis, palate formation, placental/embryonic development, and EMT in heart structures). This suggests a cohesive role in guiding tissue formation and organogenesis rather than a single tissue-specific function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060806","count":14}]},{"hash":"1289259957191173682","title":"Developmental morphogenesis and cell differentiation","description":"The top GO terms point to developmental processes across tissues: skeletal system morphogenesis, palatal/orofacial development, endodermal differentiation, pancreatic cell development, and motor neuron axon fasciculation. Collagen catabolic process supports ECM remodeling during morphogenesis. The presence of transcription and splicing terms reflects gene regulation during development. One term (defense response to Gram-positive bacterium) might be an annotation artifact, but overall the cluster seems unified around developmental differentiation and tissue formation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030574","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0048705","count":3},{"id":"GO:0006351","count":3}]},{"hash":"313989291071971302","title":"Embryonic development and patterning","description":"The top GO terms cluster around embryogenesis, tissue differentiation, and patterning (left-right axis formation, heart cushion/endocardial EMT, placenta and endocrine system development, cartilage morphogenesis, pancreatic beta-cell development, etc.), suggesting a group of proteins involved in early development and organ formation rather than a single pathway.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0035270","count":13},{"id":"GO:0003323","count":13}]},{"hash":"635869116599699771","title":"Drosophila RNA splicing and transcription regulation","description":"The cluster centers on RNA processing and transcription control, with GO terms for spliceosome-mediated mRNA splicing, catalytic steps of splicing, and negative regulation of transcription elongation by RNA polymerase II, plus Drosophila-specific developmental terms (eye-antennal disc development, syncytial blastoderm). This combination suggests a cohesive theme around RNA maturation and transcription regulation during fly development, with a few peripheral associations likely incidental.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034244","count":2},{"id":"GO:0035214","count":1},{"id":"GO:0010555","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0070564","count":1}]},{"hash":"1637974743859654444","title":"Developmental Signaling and ECM Organization","description":"The cluster shows enrichment for extracellular matrix organization, multicellular development, and Wnt/calcium signaling terms, pointing to a theme of signaling processes guiding development and tissue organization. Other terms (transport, xenobiotic response, cell cycle) are present but seem ancillary to the core developmental signaling/ECM pattern, supporting a label focused on development and ECM-related signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0097274","count":2},{"id":"GO:0030198","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2253962753695481678","title":"Immune signaling and cell migration regulation","description":"Based on the top GO terms, these proteins are involved in immune signaling (B cell receptor signaling, IL-10 production, NF-kappaB/ERK cascades) and cellular movement (Rho signaling, endothelial chemotaxis), with hints of hematopoietic differentiation. The common thread is regulatory control over immune signaling and cell motility/differentiation rather than a single, cohesive pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0002318","count":2},{"id":"GO:0050853","count":2},{"id":"GO:2001181","count":2},{"id":"GO:0043552","count":2}]},{"hash":"628958364335413656","title":"Multilineage cell differentiation","description":"The top GO terms cluster around transcriptional regulation and differentiation into multiple lineages (bone, fat, macrophage, erythrocyte) and placental development, suggesting proteins involved in broad lineage commitment rather than a single pathway.","confidence":"Medium","size":13,"edges":67,"triangles":188,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0045669","count":5},{"id":"GO:0070059","count":4},{"id":"GO:0043353","count":4},{"id":"GO:0044324","count":4}]},{"hash":"1708417861068087890","title":"Histone acetylation and actin remodeling","description":"The top GO terms show strong signals for histone H4 acetylation and actin cytoskeleton processes (Arp2/3-mediated nucleation and actin cortical patch assembly), with additional links to muscle and brain development and meiotic chromosome movement. This suggests a theme connecting chromatin modification to cytoskeletal dynamics, represented by proteins that can participate in both nuclear regulation and cytoskeletal remodeling. Therefore, I label this cluster as Histone acetylation and actin remodeling.","confidence":"Medium","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":10},{"id":"GO:0043981","count":10},{"id":"GO:0034314","count":10},{"id":"GO:0043983","count":8},{"id":"GO:0070527","count":8}]},{"hash":"461719172585816601","title":"Neuronal development and dendritic spine remodeling cluster","description":"The GO terms cluster around nervous system development, learning, dendritic spine development, and small GTPase\u2013mediated signaling, with related protein localization. This suggests a group focused on neuronal differentiation and synaptic maturation rather than general metabolism, despite some cell-cycle terms appearing. Therefore, a label centered on neuronal development and spine remodeling fits best.","confidence":"Medium","size":13,"edges":15,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0034629","count":4}]},{"hash":"1637338968052927792","title":"Hair Follicle and Salivary Gland Morphogenesis","description":"The top terms point to development and morphogenesis of ectodermal organs (hair follicles and submandibular salivary gland), with supporting signals from Wnt and phosphatidylinositol pathways and developmental processes like left-right patterning and nervous system development, suggesting a cluster centered on organ morphogenesis and associated signaling.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0060661","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0048015","count":3}]},{"hash":"1765200820965471617","title":"Mitotic Chromosome Cohesion and Condensation","description":"The top GO terms are dominated by mitosis-related processes (sister chromatid cohesion, metaphase chromosome alignment, and chromosome condensation), indicating a cluster centered on mitotic chromosome dynamics. Some terms also touch on ciliogenesis and development, which can be linked to centrosomal function and growth pathways, but the strongest signal is core mitotic machinery.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007064","count":3},{"id":"GO:0035332","count":2},{"id":"GO:0001553","count":2},{"id":"GO:0010761","count":2},{"id":"GO:0060271","count":2}]},{"hash":"98653058671333730","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000070","count":2},{"id":"GO:0048692","count":1},{"id":"GO:0007113","count":1},{"id":"GO:0032876","count":1}]},{"hash":"235563467051104806","title":"Plant meiosis and gene expression control","description":"This cluster uniquely brings together meiosis-specific processes (homologous chromosome pairing at meiosis, chiasma assembly) and embryo sac development, suggesting a plant-reproductive focus. The presence of GO terms for DNA-templated transcription and translational processes (transcription elongation, translational fidelity) indicates a broader theme of regulating gene expression, likely during meiosis and early embryo development in plants. Overall, it seems to group proteins coordinating transcription/translation with meiotic and gametophyte development, albeit with some general expression-related terms. ","confidence":"Medium","size":13,"edges":71,"triangles":217,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1990145","count":1},{"id":"GO:0071479","count":1}]},{"hash":"2229791899184436393","title":"RNA processing and protein synthesis","description":"This cluster is enriched for RNA processing (mRNA splicing via spliceosome) and protein synthesis pathways (translation; ribosome biogenesis). Additional terms related to DNA replication, transcription regulation and the mitotic cell cycle hint at a broader role in nuclear gene expression and cell division. The shared functions center on RNA maturation and the protein production machinery, with supporting cell-cycle control.","confidence":"Medium","size":13,"edges":71,"triangles":221,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000185","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0000902","count":2}]},{"hash":"1665213749618957020","title":"Developmental signaling and morphogenesis","description":"This cluster's top GO terms center on central nervous system development, Purkinje cell migration, multicellular growth, and regulation of the ERK/MAPK cascade, with ECM-related processes such as collagen metabolism and membrane ectodomain proteolysis. Together these terms suggest proteins involved in developmental signaling and tissue morphogenesis, encompassing signaling pathway modulation and extracellular remodeling across multiple tissues.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000187","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0021942","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0070374","count":2}]},{"hash":"2036975411800704357","title":"Neurodevelopment and Axon Guidance","description":"Proteins here are enriched for nervous system development, neurogenesis, axon guidance, myelination, and related processes (including peripheral nervous system development and hedgehog/Smoothened signaling), suggesting a cohesive role in neural development, connectivity, and maturation.","confidence":"High","size":13,"edges":18,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0022008","count":6},{"id":"GO:0051963","count":6},{"id":"GO:0007411","count":6}]},{"hash":"53451621604128931","title":"RNA Pol II Transcription Preinitiation Complex","description":"This cluster is best described by strong signals for transcription initiation by RNA polymerase II, including regulation of RNA Pol II transcription and preinitiation complex assembly, suggesting core transcription machinery components. The other GO terms (kinase activation, neural development, olfactory learning, immune response, lipid biosynthesis) appear ancillary or broad annotations that do not define a single shared function, so the label focuses on the primary transcription initiation role.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0007406","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1997665576872031850","title":"KIT-driven melanocyte and neural migration","description":"This cluster centers on KIT signaling (the Kit signaling pathway) together with melanocyte migration and broader developmental processes. The presence of terms about melanocytes, neural migration (paranode axon localization, olfactory interneuron chemotaxis), and planar polarity suggests a coordinated program of KIT-mediated development and cell movement, likely involving neural crest\u2013derived melanocytes and related neural patterning. Although some terms are broad (multicellular organism development, skeletal system development), their inclusion alongside KIT signaling supports a theme of KIT-driven pigment cell and neural migration during development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0038109","count":7},{"id":"GO:0050830","count":6},{"id":"GO:0097324","count":6}]},{"hash":"1548650287677201263","title":"Embryonic Organogenesis with Innate Immune Signaling","description":"The top GO terms point to developmental processes like cartilage condensation and kidney (mesonephric duct and proximal tubule) development, alongside innate immune activities (complement activation, basophil activation, response to fungal origin). This suggests a cohesive theme around organ morphogenesis that is linked with innate immune signaling.","confidence":"Medium","size":13,"edges":13,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":11},{"id":"GO:0060355","count":11},{"id":"GO:0001867","count":11},{"id":"GO:0051873","count":11},{"id":"GO:0090403","count":10}]},{"hash":"17593626343800286","title":"TGF-\u03b2/BMP Signaling Inhibitors","description":"This cluster is dominated by GO terms for negative regulation of BMP signaling, negative regulation of TGF-\u03b2 receptor signaling, and SMAD complex assembly, plus a cellular response to TGF-\u03b2 stimulus, pointing to proteins that attenuate TGF-\u03b2/BMP signaling. Some terms such as photosystem stoichiometry adjustment and vacuole fusion appear as outliers or cross-species annotations, but the core theme is clear: repression of TGF-\u03b2/BMP pathway activity.","confidence":"Medium","size":13,"edges":28,"triangles":26,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030514","count":9},{"id":"GO:0030512","count":9},{"id":"GO:0010991","count":9},{"id":"GO:0042347","count":7},{"id":"GO:0071560","count":7}]},{"hash":"1246035766205026308","title":"Neural development and cellular stress signaling","description":"Terms point to neural development (forebrain development, axon fasciculation, integrin-mediated adhesion) along with multiple stress-responsive processes (ER stress\u2013induced apoptotic signaling, response to ionizing radiation, sphingolipid biosynthesis regulation, defense response). This combination suggests a theme of brain development coupled with cellular stress pathways, with a few outliers that are less central to the main pattern.","confidence":"Medium","size":13,"edges":30,"triangles":20,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":13},{"id":"GO:0006611","count":13},{"id":"GO:0070059","count":13},{"id":"GO:0090153","count":13},{"id":"GO:0071479","count":13}]},{"hash":"1479084567480989641","title":"Sensory signaling and energy metabolism","description":"This cluster is enriched for GO terms related to signal transduction in response to stimuli (GPCR signaling, GTPase activity regulation, temperature stimulus response, pain perception) and sensory system development (retina development). It also includes an electron transport chain term, suggesting associated energy metabolism, and physiological regulation like blood pressure. Together these terms point to a group of proteins involved in processing sensory signals and modulating cellular energy to support that function.","confidence":"Medium","size":13,"edges":14,"triangles":2,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0060041","count":11},{"id":"GO:0002024","count":11}]},{"hash":"866483724646763192","title":"Adenylate Cyclase-Activating GPCR Signaling","description":"This cluster centers on GPCR-mediated activation of adenylate cyclase, as indicated by high counts for GO:0007190 and GO:0010579, pointing to a cAMP signaling axis. The associated terms span metabolic and homeostatic processes (blood pressure, urine volume, thermogenesis, circadian rhythm) and energy metabolism (electron transport chain), suggesting a theme of GPCR-AC signaling coordinating metabolic and physiological regulation across systems. Confidence: High","confidence":"","size":13,"edges":19,"triangles":3,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0022900","count":11},{"id":"GO:0046541","count":10}]},{"hash":"559395526343430994","title":"Neuroendocrine and autonomic regulation","description":"This cluster's top GO terms span diverse systemic regulatory processes tied to signaling that controls body-wide physiology: neurotransmitter signaling (dopamine receptor signaling, octopamine/tyramine signaling, PLC-activating pathways), autonomic and endocrine-driven effects on blood pressure, GI secretion, peristalsis, and urine volume, as well as circadian rhythm, bone remodeling, reproductive processes, and immune cell differentiation. The common thread is broad, neuroendocrine/autonomic control of organ function and homeostasis, rather than a single tissue-specific function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":13},{"id":"GO:0022410","count":13},{"id":"GO:0001697","count":13},{"id":"GO:0030432","count":13},{"id":"GO:0007211","count":13}]},{"hash":"2017348481403666465","title":"Bacterial carbon-source catabolism","description":"Top terms are dominated by carbon utilization and catabolic processes across substrates (L-fucose, glycerol, glycol, 3-chlorocatechol) plus a general \"carbon utilization\" term, suggesting these proteins participate in diverse bacterial carbon-source breakdown; a couple of terms like transcription antitermination and chromosome segregation are outliers and may reflect annotation noise.","confidence":"Medium","size":13,"edges":51,"triangles":91,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0031564","count":2},{"id":"GO:0007059","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0015976","count":2},{"id":"GO:0071271","count":2}]},{"hash":"2004044603928826309","title":"Cartilage and bone ECM formation","description":"The cluster is dominated by GO terms related to collagen production and organization, cartilage condensation, and bone mineralization, all key features of extracellular matrix (ECM) assembly in skeletal tissues. There are also regulatory terms that suppress angiogenesis and chondrocyte differentiation, aligning with avascular cartilage development and ECM remodeling, plus cell adhesion and heart-associated development terms that can connect to ECM roles in tissue formation. Together, these suggest a cohesive theme of cartilage/bone extracellular matrix formation and skeletal tissue development.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0030282","count":4},{"id":"GO:0032331","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0032964","count":4}]},{"hash":"789092533266950394","title":"Cerebellar synapse formation and plasticity","description":"These proteins show strong links to cerebellar development and synaptic remodeling, with terms for Purkinje cell layer formation, dendritic spine morphogenesis, and positive regulation of synapse structural plasticity, plus glutamate secretion and neural signaling. This points to a function in cerebellar neuron maturation and synaptic plasticity.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0022007","count":12},{"id":"GO:2000474","count":12},{"id":"GO:0014047","count":12},{"id":"GO:0035640","count":12},{"id":"GO:0015879","count":12}]},{"hash":"563430147782939121","title":"Immune cell signaling, adhesion, and phagocytosis","description":"Top GO terms point to communication and contact between immune cells (heterophilic cell-cell adhesion), activation of B cells and their receptors, T cell costimulation, and innate immune responses. Phagocytosis-related terms (recognition and engulfment) and complement activation further indicate microbe handling by phagocytes. Together, these terms describe an immune cluster focused on intercellular signaling, lymphocyte activation, and effector phagocytic processes. The strong representation of both adaptive and innate immunity suggests a cohesive immune response module rather than a metabolic or structural cluster.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0050871","count":8},{"id":"GO:0006910","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0006911","count":8}]},{"hash":"1675713784423291779","title":"Spliceosome-Mediated mRNA Processing and Translation Initiation","description":"The cluster is dominated by GO terms related to mRNA splicing via the spliceosome, splice site recognition, and regulation of splicing, as well as mRNA export and polyadenylation. In addition, there are terms tied to translation initiation and IRES-dependent viral translation, suggesting a link between mRNA maturation/export and initiation of translation. This combination points to a cohesive role in mRNA processing and subsequent translation initiation control.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0048026","count":11},{"id":"GO:0075525","count":11},{"id":"GO:0075522","count":11}]},{"hash":"271176539167537577","title":"Nucleotide metabolism and transcriptional regulation","description":"The top GO terms cluster around nucleotide biosynthesis (cobalamin biosynthetic process, PRPP biosynthetic process, hypoxanthine and nucleoside metabolic processes) and DNA-templated transcription, suggesting a core theme of nucleotide production together with gene expression control. Additional terms like phosphorylation and negative regulation of catalytic activity point to broader metabolic regulation, while insulin response and nervous system development indicate context-specific signaling and developmental roles. Overall, the dominant connection appears to be nucleotide metabolism linked to transcriptional regulation.","confidence":"Medium","size":13,"edges":46,"triangles":43,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":5},{"id":"GO:0032869","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006541","count":4},{"id":"GO:0016310","count":4}]},{"hash":"1456093674302264761","title":"Macrophage Activation and Cytokine Signaling","description":"These proteins primarily relate to innate immune responses, including macrophage activation, defense against bacteria and viruses, and regulation of cytokine production such as IL-6. Despite a few non-immune terms in the top GO terms, the dominant pattern is immune activation and cytokine-mediated signaling.","confidence":"High","size":13,"edges":10,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045944","count":6},{"id":"GO:0006469","count":5},{"id":"GO:0042116","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0010596","count":4}]},{"hash":"1557610343285356748","title":"Translation Machinery and Translational Regulation","description":"Dominant signals are protein synthesis and translation: general translation, mitochondrial translation, translational elongation, and the diphthamide modification of EF-2, along with fidelity maintenance. While glycolysis and TCA cycle terms appear, the strongest theme is ribosome- and translation-associated processes, indicating a cluster of translation machinery and its regulation.","confidence":"High","size":13,"edges":65,"triangles":165,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":5},{"id":"GO:1990145","count":4},{"id":"GO:0006099","count":3},{"id":"GO:0006096","count":3}]},{"hash":"1291665921720299830","title":"RNA methylation and ribosome biogenesis","description":"The cluster is enriched for diverse methylation processes (rRNA, tRNA wobble cytosine, peptidyl-lysine/glycine methylation) and for ribosome biogenesis and LSU rRNA maturation, suggesting a cohesive role in RNA modification and ribosome assembly, with a note of mitochondrial translation regulation. ","confidence":"High","size":13,"edges":21,"triangles":10,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031167","count":9},{"id":"GO:0018013","count":9},{"id":"GO:0018023","count":9},{"id":"GO:0018027","count":9},{"id":"GO:0000183","count":9}]},{"hash":"1054336154156981519","title":"Neural development and cellular stress signaling","description":"The top GO terms point to neural development (forebrain development; fasciculation of sensory neuron axon; regulation of integrin-mediated cell adhesion) alongside broad cellular stress responses (ER stress\u2013triggered apoptotic signaling, response to ionizing radiation, defense responses, sphingolipid biosynthesis regulation, and epigenetic regulation via CpG methylation). This suggests a cluster where neural development processes intersect with stress signaling and lipid/epigenetic regulation, rather than a single classic pathway. Confidence: Medium","confidence":"","size":13,"edges":42,"triangles":54,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":13},{"id":"GO:0006611","count":13},{"id":"GO:0070059","count":13},{"id":"GO:0090153","count":13},{"id":"GO:0071479","count":13}]},{"hash":"139948444397449298","title":"Immune signaling and cell trafficking regulation","description":"Most terms center on cytokine- and immune cell\u2013mediated signaling (IL-12, IL-1) and processes like B cell proliferation and regulation of cell extravasation/receptor internalization, pointing to immune communication and trafficking as the core function. Other signals (GABA, IGF) and developmental terms appear but are less representative.","confidence":"Medium","size":13,"edges":15,"triangles":3,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007214","count":9},{"id":"GO:0001402","count":9},{"id":"GO:0002092","count":9},{"id":"GO:2000438","count":9},{"id":"GO:0060716","count":9}]},{"hash":"1778388491196083158","title":"DNA replication and cell cycle with autophagy","description":"The dominant GO terms are DNA replication and cell cycle processes (DNA replication, leading strand elongation, cell division), indicating core involvement in genome duplication and division. Supporting terms point to proteostasis and autophagy-related pathways (response to misfolded protein, intralumenal vesicle formation, late endosomal microautophagy), suggesting a broader connection between DNA synthesis/cell cycle and protein quality control under stress.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0006406","count":7},{"id":"GO:0030163","count":6},{"id":"GO:0061738","count":6},{"id":"GO:1990171","count":6}]},{"hash":"1767099112924223697","title":"Hydrogen sulfide production via transsulfuration and cysteine biosynthesis","description":"This cluster is enriched for hydrogen sulfide biosynthesis, transsulfuration, and cysteine biosynthesis terms, indicating a core theme of sulfur amino acid metabolism and H2S production; additional serine/threonine metabolism terms align with related amino acid pathways, while the morphine and cyanide terms are tangential.","confidence":"High","size":13,"edges":75,"triangles":254,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":5},{"id":"GO:0019343","count":5},{"id":"GO:0019346","count":5},{"id":"GO:0009088","count":5},{"id":"GO:0006565","count":5}]},{"hash":"1077799081878918846","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":15,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001680","count":2},{"id":"GO:0010139","count":2},{"id":"GO:0042245","count":2},{"id":"GO:0006808","count":2},{"id":"GO:0006203","count":2}]},{"hash":"2265547243799054558","title":"Plant hormone biosynthesis and growth regulation","description":"Dominant terms point to plant hormone biosynthesis (strigolactone) and plant development (secondary shoot formation), suggesting a theme of hormone-driven growth regulation. Supporting terms reflect metabolism and detoxification that can accompany growth under stress, such as the beta-ketoadipate pathway and response to toxic substances. Some terms are obsolete or peripheral, but the core signal centers on plant hormone production shaping development and metabolic adaptation.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":12},{"id":"GO:0055114","count":12},{"id":"GO:1901601","count":9},{"id":"GO:0042952","count":9},{"id":"GO:2000124","count":9}]},{"hash":"1821548864230971206","title":"Neuronal signaling and dendrite morphogenesis","description":"The GO terms cluster around neuronal signaling and synaptic regulation, including long-term potentiation, regulation of synaptic plasticity, ephrin receptor signaling, dendrite morphogenesis, and response to neurotrophic factors, pointing to neuronal connectivity and plasticity as the core theme. Some terms (anoikis, leukocyte chemotaxis, thyroid proliferation) are broader or less central, but do not overturn the main neuronal signal theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":5},{"id":"GO:0060291","count":3},{"id":"GO:0031914","count":3},{"id":"GO:0043276","count":3},{"id":"GO:0048013","count":3}]},{"hash":"1412564199913661677","title":"Neuronal plasticity and metabolic signaling","description":"The top terms center on synaptic plasticity and memory (short-term memory, long-term potentiation), indicating neural signaling and learning-related function. Additionally, insulin secretion, insulin receptor internalization, and glucose transport point to metabolic regulation. While there are broader developmental and vascular terms (angiogenesis, heart rate, digit morphogenesis), the most cohesive theme across the cluster is neural plasticity coupled with metabolic signaling, meriting this label.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":2},{"id":"GO:0035774","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0002027","count":2}]},{"hash":"2101693022181848980","title":"Hair Cycle and Keratinization","description":"The top GO terms point to hair biology, specifically the hair cycle and keratinization, suggesting proteins involved in hair follicle differentiation and keratin filament formation. This cluster likely comprises components of hair structure and follicle development.","confidence":"High","size":13,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":12},{"id":"GO:0031424","count":11}]},{"hash":"2145028990239617949","title":"Retinoid and steroid hormone metabolism","description":"Dominant GO terms center on retinoid metabolism (retinal, retinol) and steroid hormone biosynthesis (testosterone, androgen, estrogen), suggesting a cluster of proteins involved in processing vitamin A derivatives and sex steroid hormones. Additional terms like tetrahydrobiopterin biosynthesis and lung development support a broader metabolic/developmental context, but the clearest shared theme is metabolism of lipid-derived metabolites. ","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0061370","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0008209","count":6}]},{"hash":"883983952325526590","title":"Organ morphogenesis and tissue differentiation","description":"The GO terms point to development and tissue formation across multiple organs (digestive tract, hair follicle, otic placode, blood vessels) and differentiation processes (spermatid nucleus, sex, oligodendrocyte, meiosis), with some apoptotic regulation, suggesting a broad morphogenesis/differentiation program rather than a single tissue-specific pathway.","confidence":"Medium","size":13,"edges":14,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0048546","count":3},{"id":"GO:0007289","count":3},{"id":"GO:1902042","count":3},{"id":"GO:0007548","count":3}]},{"hash":"224102069557505834","title":"Epigenetic regulation of immunoglobulin diversification","description":"This cluster centers on epigenetic control of gene expression and chromatin state, including chromatin modification and RNA polymerase II\u2013focused regulation. It also features immunoglobulin gene diversification processes (somatic hypermutation and IgA isotype switching), suggesting a B cell\u2013specific epigenetic program for antibody gene diversification. A few terms like atrial septum morphogenesis are unrelated, but the core theme remains epigenetic regulation of gene expression tied to antibody gene diversification.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":5,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0006349","count":7},{"id":"GO:1903025","count":5},{"id":"GO:0043045","count":5},{"id":"GO:0048298","count":5},{"id":"GO:0051573","count":5}]},{"hash":"76170735996031704","title":"T cell development and Fas-mediated apoptosis","description":"This cluster's GO terms cluster around T cell development and apoptotic signaling via death receptors (negative thymic T cell selection, peripheral T cell tolerance induction, regulation of Fas signaling, extrinsic apoptotic signaling pathway). The presence of interferon response suggests broader immune activation. Some terms related to neural development and behavior may be incidental, but the dominant theme is immune cell maturation and death receptor\u2013driven apoptosis.","confidence":"Medium","size":13,"edges":19,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0006978","count":3},{"id":"GO:0010596","count":3},{"id":"GO:1902041","count":3},{"id":"GO:0034340","count":3}]},{"hash":"1227943414175901439","title":"Embryonic patterning and morphogenesis","description":"The top GO terms cluster around embryonic development and tissue patterning: left-right pattern formation, trophoblast giant cell differentiation, cartilage morphogenesis, endocardial cushion EMT, placenta and pancreatic endocrine system development. While a few general cellular processes appear, the dominant theme is developmental patterning and morphogenesis across tissues.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":13},{"id":"GO:0060707","count":13},{"id":"GO:1903026","count":13},{"id":"GO:0000055","count":13},{"id":"GO:0060536","count":13}]},{"hash":"487137721548213281","title":"Embryogenesis and organ morphogenesis","description":"The terms cluster around broad developmental processes across multiple tissues, including heart development (EMT in endocardial cushion), endocrine system formation, left\u2013right patterning, placental and pancreatic cell development, cartilage and hair follicle morphogenesis, and palate formation. This points to a general embryonic development and tissue morphogenesis theme rather than a single tissue-specific pathway, making this label appropriate and descriptive.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":13},{"id":"GO:0035270","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060707","count":13},{"id":"GO:0060806","count":13}]},{"hash":"157481016076116009","title":"GPCR Signaling in Physiology","description":"The top GO terms are dominated by GPCR-related signaling (including receptor transactivation by GPCR pathways and dopamine/octopamine signaling) and downstream PLC activation, tied to diverse physiological processes such as urine volume regulation, circadian rhythm, gut motility, histamine-induced acid secretion, and reproductive/immune remodeling. This suggests a unifying theme of GPCR-mediated regulation across tissues, despite the multi-tissue terms.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":11},{"id":"GO:0035810","count":10},{"id":"GO:0022410","count":10},{"id":"GO:0001697","count":10},{"id":"GO:0030432","count":10}]},{"hash":"1090038594519624572","title":"Heart development and endothelial differentiation","description":"The top GO terms center on cardiac morphogenesis, venous endothelial differentiation, and Notch signaling related to heart-field proliferation, along with a cellular response to mechanical stimulus and epithelial polarity\u2014collectively pointing to cardiovascular development and vascular formation. A few terms (chloroplast thylakoid protein import, adipocyte differentiation, hepatocyte apoptotic processes) seem peripheral or cross-domain noise, but the dominant signal supports heart/vasculature development and signaling pathways governing cardiogenesis.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003213","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0071901","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0060843","count":6}]},{"hash":"671554371082891447","title":"Cytoskeletal regulation and immune signaling","description":"Despite a small edge count, the proteins are annotated with GO terms spanning cytoskeletal dynamics (actin depolymerization; mitotic spindle assembly; septum digestion after cytokinesis), signal regulation (negative regulation of protein tyrosine kinase activity), and innate immune responses (cellular response to lipopolysaccharide; defense response to Gram-positive bacterium; IL-2 production). The mix suggests a cluster where core functions center on cytoskeletal remodeling in cell division and associated signaling, with additional immune-related roles. Therefore, Cytoskeletal regulation and immune signaling is a concise label that captures the predominant themes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061099","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0000920","count":2},{"id":"GO:0030042","count":2}]},{"hash":"1717632232466270781","title":"Neuronal development and Rho/GTPase signaling","description":"This cluster is characterized by GO terms centered on brain development and signaling through GTPases (Rho/Ras), including regulation of GTPase activity and Rho signaling, alongside cytoskeletal dynamics (barbed-end actin capping) and intracellular trafficking (ER-to-Golgi transport), as well as responses to TGF-beta and IP3 biosynthesis. These together suggest a theme of neuronal development driven by cytoskeletal remodeling and signal transduction pathways, rather than a single, isolated function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0050731","count":4}]},{"hash":"198368402330378572","title":"Signaling and Cytoskeletal Dynamics","description":"This cluster maps to GO terms spanning signaling cascades (Rho signaling, phosphatidylinositol signaling, anti-apoptotic signaling), and cytoskeletal regulation (actin and microtubule dynamics, morphogenesis of vessels and neurons), plus related processes like insulin secretion and xenobiotic response. The common theme appears to be proteins that propagate signals to control cytoskeletal remodeling and morphogenic behavior, rather than a single narrowly defined process.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001240","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0030073","count":2},{"id":"GO:0032725","count":2},{"id":"GO:0050774","count":2}]},{"hash":"1067458257825885632","title":"Developmental growth and mitotic processes","description":"This cluster centers on organ and organismal development (brain and kidney development; multicellular growth) alongside mitotic machinery (cell division, mitotic spindle assembly, mitotic cell cycle). It also includes signals and trafficking components (smoothened signaling, COPII vesicle budding) that can link development with cellular proliferation and transport. Overall, the GO terms point to development coupled with cell cycle and related signaling pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007224","count":3},{"id":"GO:2000785","count":3}]},{"hash":"1667013264464560770","title":"B cell immune signaling and antigen presentation","description":"This cluster centers on B cell\u2013related functions: germinal center regulation, B cell homeostasis, NF-kappaB signaling, MHC class I biosynthesis, and ubiquitination processes, with antiviral defense and chromatin/gene-silencing regulation, suggesting coordinated B cell activation and antigen processing.","confidence":"High","size":12,"edges":20,"triangles":0,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:2000653","count":8},{"id":"GO:0002635","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0033280","count":8},{"id":"GO:0001782","count":8}]},{"hash":"1765432585653830193","title":"GTPase-driven signaling and cell migration","description":"This cluster centers on small GTPase\u2013mediated signaling and receptor tyrosine kinase pathways (EGFR, insulin), together with processes for establishing polarity and reorganizing the cytoskeleton (lamellipodium assembly, cell spreading, epithelial polarity). The combination points to a cohesive theme of signaling cascades that regulate cytoskeletal dynamics and cell migration, with a few immune-related or specialized functions present but not dominant.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":9},{"id":"GO:0090162","count":8},{"id":"GO:0007173","count":8},{"id":"GO:0008286","count":8},{"id":"GO:1900026","count":8}]},{"hash":"1675455808677317981","title":"Heart development and arterial endothelial differentiation","description":"The top terms concentrate on cardiac morphogenesis, including embryonic heart tube formation and atrium formation, plus arterial endothelial differentiation, with integrin-mediated adhesion supporting tissue morphogenesis. Other terms (astrocyte differentiation, lithium response, Notch signaling) are less central, suggesting some secondary associations. This justifies labeling the cluster as heart development and vascular differentiation.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":12},{"id":"GO:2001038","count":12},{"id":"GO:0090403","count":11},{"id":"GO:0071285","count":11},{"id":"GO:0035481","count":11}]},{"hash":"712040091603508408","title":"Ribosome Biogenesis and Translation","description":"The cluster shows enrichment for ribosome biogenesis, ribosomal subunit export from the nucleus, and cytoplasmic translation, indicating a module focused on ribosome assembly and protein synthesis. While there are cell cycle/division terms present, the strongest signals are for ribosome-related processes, suggesting the cluster mainly represents ribosome biogenesis/translation with possible links to cell cycle control.","confidence":"Medium","size":12,"edges":13,"triangles":0,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0034498","count":4},{"id":"GO:1901001","count":4},{"id":"GO:1903833","count":4}]},{"hash":"996937645484236737","title":"Cell Cycle Control and Epithelial Polarity","description":"This cluster is dominated by core cell cycle terms (cell cycle, exit from mitosis, cell division) and epithelial polarity/adhesion terms, with supporting signals from Wnt pathway regulation and GTPase activity, plus ubiquitin-mediated protein turnover. While there are additional immune-related terms, the strongest signal ties to coordinating cell proliferation with cell polarity and adhesion, justifying a label centered on cell cycle control and epithelial polarity.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0006915","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0090263","count":3}]},{"hash":"772406352019856007","title":"GTPase-driven synaptic plasticity and ubiquitination regulation","description":"The top GO terms cluster around neuronal signaling and synaptic remodeling: small GTPase-mediated signal transduction, dendritic spine morphogenesis, and positive regulation of synapse structural plasticity. Ubiquitination (including K63-linked) points to post-translational control of signaling at synapses, while insulin signaling and adhesion-related processes fit within broader neuronal signaling and connectivity. Although a couple terms (heart development, fear response) are broader, the dominant signal is synaptic plasticity and its regulation by GTPases and ubiquitination.","confidence":"High","size":12,"edges":22,"triangles":11,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:2000822","count":8},{"id":"GO:1902498","count":8},{"id":"GO:0007264","count":8},{"id":"GO:0060997","count":8}]},{"hash":"584280973770276481","title":"Developmental morphogenesis signaling","description":"The top GO terms point to organismal development and tissue formation (nervous system development, organ induction, multicellular organism development, ossification) while also highlighting cytoskeletal remodeling and signaling pathways (actin/sarcomere organization, GTPase regulation, MAPKKK cascade via FGF signaling). This suggests a cohesive theme of developmental morphogenesis and the signaling that drives it, rather than a single specialized process.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0007026","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0031532","count":3}]},{"hash":"92503542023028907","title":"Neural development and axon guidance","description":"This cluster centers on nervous system development, neuronal migration, and axon guidance signaling, including Roundabout/Slit signaling, paranode axon localization, and downstream ERK and STAT pathways, with a dopamine-responsive context; together these terms point to neural development and guidance processes.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0070374","count":8},{"id":"GO:1903351","count":7}]},{"hash":"2113886319905681506","title":"Membrane dynamics and vesicle trafficking","description":"The top GO terms point to membrane-related processes: endoplasmic reticulum membrane organization, presynaptic dense core vesicle exocytosis, regulation of protein localization to phagocytic vesicles, and myoblast fusion (which involves membrane fusion and trafficking). Sphingolipid biosynthesis also ties to membrane composition. The other terms (ABA signaling, transcription by RNA Pol I, mRNA export, protein autoprocessing, T cell proliferation) are less central but could reflect broader regulatory roles or cross-species contexts. Overall, the cluster seems centered on membrane dynamics and vesicle trafficking.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":10,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0009738","count":3},{"id":"GO:0090158","count":3},{"id":"GO:0045943","count":3},{"id":"GO:0016540","count":3},{"id":"GO:0007520","count":3}]},{"hash":"326465375007567897","title":"Innate and Humoral Immunity","description":"The GO terms show complement activation (classical pathway), innate immune response, defense against Gram-positive bacteria, inflammatory signaling, phagocytosis, B cell activation, BCR signaling, and humoral immunity driven by immunoglobulins, pointing to a cluster of both innate defense and adaptive humoral functions; a non-immune term (somite development) is likely unrelated noise.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0050830","count":6},{"id":"GO:0002438","count":5},{"id":"GO:0050871","count":5}]},{"hash":"1930919627212541439","title":"Splicing Regulation and Translation Initiation","description":"This cluster centers on mRNA processing and handling, with many terms tied to spliceosome-mediated regulation of splicing, splice site recognition, and mRNA export. It also includes components involved in translation initiation (eIF4F complex assembly) and viral translation mechanisms, suggesting a theme of mRNA maturation and export coupled with translation control. ","confidence":"Medium","size":12,"edges":43,"triangles":79,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0075525","count":12},{"id":"GO:0075522","count":12},{"id":"GO:0097010","count":12},{"id":"GO:0006376","count":12}]},{"hash":"709973985975085441","title":"Neuroendocrine signaling and axon guidance","description":"The listed GO terms cluster around neuropeptide signaling and neuronal development, including dopaminergic neuron axon guidance, corticotropin and growth hormone secretion, and signaling pathway regulation (Rho). Planar polarity and organ identity terms provide broader developmental context, while electron transport and sucrose response reflect metabolic and sensory responsiveness. Overall, the strongest cohesive theme is neuropeptide signaling coupled with neural wiring/axon guidance, justifying this label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":2},{"id":"GO:0035025","count":2},{"id":"GO:0060124","count":2},{"id":"GO:1904938","count":2},{"id":"GO:0048496","count":2}]},{"hash":"1048239297452603932","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0039702","count":2},{"id":"GO:0010587","count":2},{"id":"GO:0019076","count":2}]},{"hash":"759403686489676887","title":"Ribosome biogenesis and cell cycle","description":"The strongest signals are ribosome biogenesis and cytoplasmic translation, tied to cell division and cell cycle, which together suggest a core role in protein synthesis linked to cell-cycle progression. Additional terms point to some organelle trafficking (Golgi to lysosome, regulation of Golgi) and mitochondrial fission, but these appear secondary or peripheral to the main theme. Overall, the cluster seems centered on proteins involved in making ribosomes and driving cell-cycle\u2013related growth.","confidence":"Medium","size":12,"edges":17,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0042254","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0090160","count":2}]},{"hash":"1784365536347020669","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":63,"triangles":192,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0010610","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0045292","count":3}]},{"hash":"91229009557814409","title":"Autonomic Neuroendocrine Regulation of Physiology","description":"The terms cluster around broad, organism-wide regulation of bodily functions via signaling pathways, including autonomic/neuroendocrine signaling (dopamine, norepinephrine, octopamine/tyramine), gut motility and secretion, circadian rhythms, kidney function (urine volume), vascular tone, as well as bone remodeling, reproduction, and immune differentiation. This suggests a general theme of systemic homeostasis and organ-level regulation rather than a single, specific pathway. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":12},{"id":"GO:0022410","count":12},{"id":"GO:0001697","count":12},{"id":"GO:0030432","count":12},{"id":"GO:0007211","count":12}]},{"hash":"450342434435899793","title":"Immune signaling inhibition and ERK/MAPK regulation","description":"The cluster is dominated by GO terms for negative regulation of immune signaling (T cell receptor signaling, humoral immune response, macrophage differentiation) and negative regulation of the ERK1/ERK2 cascade, along with related signaling (ERBB2) and cell\u2013cell adhesion. This points to a cohesive set of proteins that dampen immune signaling and MAPK activity while engaging in adhesion-related or growth-related pathways.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":12},{"id":"GO:0000200","count":12},{"id":"GO:0070373","count":12},{"id":"GO:0045650","count":8},{"id":"GO:0002924","count":8}]},{"hash":"2196333428239532311","title":"RNA processing and translation machinery","description":"This cluster is enriched for translation, tRNA processing, rRNA maturation, and spliceosome/snRNP assembly terms, implying a core theme of RNA metabolism and ribosome/spliceosome\u2013related functions; peripheral terms like hair cycle or stress response are less defining.","confidence":"High","size":12,"edges":63,"triangles":193,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0008033","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0042633","count":2},{"id":"GO:0000245","count":2}]},{"hash":"974074381611994486","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":54,"triangles":130,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090084","count":7},{"id":"GO:0097428","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0031204","count":7},{"id":"GO:0006458","count":7}]},{"hash":"1264215651269107676","title":"Clathrin-mediated endocytosis and vesicle trafficking","description":"The top GO terms point strongly to membrane trafficking processes: clathrin-dependent endocytosis, intracellular protein transport, and synaptic vesicle coating. While other terms (splicing, G-protein assembly, tRNA biosynthesis, visual perception) are present, the predominant signal is vesicle transport and endocytosis, suggesting this cluster centers on vesicle dynamics and membrane trafficking functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0072583","count":5},{"id":"GO:0006886","count":4},{"id":"GO:0016183","count":4},{"id":"GO:0000398","count":1},{"id":"GO:2000059","count":1}]},{"hash":"1043823741976752871","title":"Endothelial cell development and redox regulation","description":"The cluster is dominated by endothelial-related processes: endothelial cell development, angiogenesis in wound healing, regulation of endothelial cell migration, and vasodilation, pointing to a vascular development program. The presence of cellular oxidant detoxification and redox homeostasis terms suggests redox regulation modulates this vascular function, aligning redox signaling with angiogenic activity. Some metabolism-related terms (triglyceride metabolism, skeletal muscle fiber development) appear but seem less central to the core vascular/redox theme.","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":8},{"id":"GO:0045454","count":6},{"id":"GO:0043535","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0042311","count":4}]},{"hash":"933685969980264206","title":"Antiviral defense and host-virus signaling","description":"GO terms cluster around antiviral defense and host\u2013virus interactions (defense response to virus, suppression of viral release by host, negative regulation of viral transcription) and innate signaling (regulation of LPS signaling, K63-linked ubiquitination). Vitamin D response and apoptosis likely relate to immune modulation and cell fate during infection, while a couple of terms (corticospinal tract morphogenesis, antibiotic biosynthetic process) appear as noise.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006370","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0021957","count":3},{"id":"GO:0051607","count":3}]},{"hash":"431629656792684838","title":"Organelle Import and Energy Metabolism in Plants","description":"These proteins cluster around targeting and import into chloroplasts and mitochondria (e.g., chloroplast stroma import, mitochondrial matrix import, mitochondrial inner membrane insertion) and their roles in energy metabolism, including photosynthesis light reactions and the electron transport chain. The combination of organelle import terms with energy-production terms suggests a cohesive theme of organelle-targeted proteins supporting energy metabolism in plant cells. ","confidence":"High","size":12,"edges":63,"triangles":193,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019684","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0045039","count":2}]},{"hash":"728728382555809328","title":"Immune receptor signaling and cytoskeletal regulation","description":"This cluster centers on signaling pathways (T cell receptor, ephrin receptor, ERK cascades) and cytoskeletal/adhesion processes (focal adhesion, actin dynamics), suggesting proteins involved in immune signaling and cell movement/adhesion. The presence of mitotic cell cycle terms adds some breadth, but the dominant theme fits immune signal transduction with cytoskeletal control.","confidence":"Medium","size":12,"edges":8,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043304","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0048013","count":9},{"id":"GO:0051893","count":9},{"id":"GO:0070374","count":9}]},{"hash":"1326307428336497138","title":"Amino acid and ion transmembrane transport","description":"GO terms indicate multiple transmembrane transport activities for amino acids (D-serine, D-alanine, methionine, L-arginine) and ions (rubidium, ammonium), along with processes tied to membrane transport like cell volume homeostasis and hypotonic salinity response. This suggests a cohesive theme of solute movement and osmoregulation across membranes, characteristic of transport proteins. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035826","count":2},{"id":"GO:0042942","count":2},{"id":"GO:0006527","count":2},{"id":"GO:0006884","count":2},{"id":"GO:0071477","count":2}]},{"hash":"1483494809467214545","title":"Integrin signaling and cytoskeletal remodeling","description":"The cluster centers on integrin activation and adhesion-related processes (substrate spreading, negative regulation of integrin-mediated adhesion), along with lamellipodium assembly and clathrin-dependent endocytosis, indicating coordinated control of cell adhesion and actin dynamics. Hyaluronan metabolism hints at ECM remodeling, with a minor note of immune activation present but not defining. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002291","count":7},{"id":"GO:0030212","count":7},{"id":"GO:0048009","count":6},{"id":"GO:0030259","count":6},{"id":"GO:0000266","count":6}]},{"hash":"2080304944882711656","title":"Mitochondrial structure and protein import","description":"The cluster is dominated by GO terms related to mitochondria: protein import into the intermembrane space, cristae formation, calcium ion homeostasis, and intracellular distribution of mitochondria, indicating a core theme of mitochondrial architecture and function. Some translation- and ribosome-related terms appear but are likely reflecting general cellular maintenance rather than central activity of this cluster.","confidence":"High","size":12,"edges":18,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0045041","count":3},{"id":"GO:0042407","count":3},{"id":"GO:0051560","count":3},{"id":"GO:0048312","count":3}]},{"hash":"572566679695250217","title":"Neuronal mitochondrial and ciliary regulation","description":"The cluster centers on mitochondria and cilia-related processes (mitochondrial protein import, regulation of mitophagy, ROS regulation) and neural signaling (neuron-neuron synaptic transmission), with supporting terms in ion transport and development. The cohesive theme appears to be how mitochondrial and ciliary dynamics influence neural function and homeostasis, even though there are some broader developmental terms included. ","confidence":"Medium","size":12,"edges":10,"triangles":3,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:1902017","count":3},{"id":"GO:1903146","count":3},{"id":"GO:0007612","count":3},{"id":"GO:0006820","count":3}]},{"hash":"166620996444424162","title":"Translation and tRNA aminoacylation (mitochondrial & cytosolic)","description":"Top GO terms are dominated by translation-related processes and tRNA charging in both cytosol and mitochondria, including cytoplasmic translation, mitochondrial threonyl- and seryl-tRNA aminoacylation, and various aminoacyl-tRNA biosynthesis steps. A smaller set of terms (DNA biosynthesis, embryonic development) appear less coherently tied to this core function, suggesting they are background annotations. Overall, the cluster reflects a cohesive translation/translation-associated machinery in both cellular compartments.","confidence":"High","size":12,"edges":19,"triangles":8,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0006433","count":2},{"id":"GO:0070159","count":2},{"id":"GO:0097056","count":2}]},{"hash":"681692945220192611","title":"NF-kappaB-driven inflammation, autophagy, and angiogenesis","description":"This cluster is dominated by NF-kappaB\u2013related signaling and inflammatory responses, including positive regulation of canonical NF-kappaB activity, LPS-mediated signaling, and anti-apoptotic processes. It also includes autophagy regulation and angiogenesis, pointing to coordinated immune activation with vascular remodeling. The bicellular tight junction term suggests barrier modulation in inflamed tissues, while ion transport terms are minimal. Overall, the theme is NF-kappaB\u2013driven inflammation linked to autophagy and angiogenesis.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0010508","count":3},{"id":"GO:0070830","count":3}]},{"hash":"685244897600237944","title":"Neuronal signaling and lipid metabolism","description":"The cluster centers on nervous system functions: serotonin uptake and secretion, and regulation of glycinergic synaptic transmission, plus perineurial glial growth, which together point to neural signaling and glial support. It also includes lipid- and lipid-derived metabolism terms such as prostaglandin metabolism and ascaroside biosynthesis, along with fatty acid beta-oxidation and leucine transport, suggesting metabolic processes that can modulate neural activity. While a couple of terms (transcription antitermination, proteolysis) are less obviously linked, the dominant theme appears to be neural signaling with metabolic context.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904070","count":3},{"id":"GO:0006693","count":3},{"id":"GO:0033540","count":3},{"id":"GO:0031564","count":2},{"id":"GO:0006508","count":2}]},{"hash":"950029525297105678","title":"Mitotic and ER-Golgi Trafficking Proteins","description":"The cluster prominently features mitosis/cell cycle terms (mitotic cell cycle, APC-dependent catabolic process, DNA-templated transcription) alongside vesicle transport between the endoplasmic reticulum and Golgi, suggesting a set of proteins with roles in both cell division and the secretory pathway. Some nodes also touch on transcription and stress-related responses, but the strongest recurring themes are mitotic processes and intracellular trafficking, making this a plausible, if not perfectly cohesive, functional group.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2279221145372438868","title":"Ubiquitination-Driven Protein Degradation and Immune Signaling","description":"Based on the prevalence of ubiquitination-related GO terms (protein ubiquitination, ubiquitin-dependent ERAD, ubiquitin-dependent protein catabolic process, autoubiquitination) together with immune signaling terms (adaptive immune response, negative regulation of RIG-I signaling), this cluster appears to group proteins involved in ubiquitin tagging and degradation that modulate antiviral immune pathways. The presence of Wnt receptor catabolic process and growth regulation terms suggests broader roles in receptor turnover and growth control as well. Overall, the core theme is the ubiquitin-proteasome system influencing immune signaling and protein turnover.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0039536","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0002250","count":6}]},{"hash":"740441606287399233","title":"Inflammation and coagulation with leukocyte recruitment","description":"The cluster is dominated by terms linking innate immune defense (neutrophil-mediated killing of fungus, defense against Gram-positive bacteria, response to yeast) with leukocyte tethering/rolling and with processes in coagulation and fibrinolysis (plasminogen activation, blood coagulation). This points to a cohesive theme of inflammatory response coupled to coagulation/tissue remodeling, despite a couple of outliers (midbrain development, transcription regulation). Overall, the proteins likely function in coordinated immune-inflammatory and hemostatic processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0070947","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001878","count":4}]},{"hash":"1111740944113510688","title":"Systemic GPCR Signaling and Calcium Release","description":"The cluster is enriched for GO terms centered on GPCR-mediated signaling and downstream calcium release (e.g., PLC-activating dopamine receptor signaling and release of sequestered calcium into cytosol), with additional terms spanning urinary regulation, gut motility, circadian rhythm, gastric acid secretion, bone remodeling, reproduction, and immune cell differentiation. This suggests a common thread of GPCR-driven signaling pathways that converge on cytosolic Ca2+ across multiple tissues, making the label \"Systemic GPCR Signaling and Calcium Release\" appropriate, though the breadth across systems means the theme is broad rather than narrowly tissue-specific.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":9},{"id":"GO:0035810","count":8},{"id":"GO:0022410","count":8},{"id":"GO:0001697","count":8},{"id":"GO:0030432","count":8}]},{"hash":"1531843606565519703","title":"Glycan biosynthesis and cell surface processes","description":"The top GO terms emphasize glycan and protein glycosylation pathways (arabinogalactan protein metabolism, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis, O-linked glycosylation via hydroxyproline) and mucilage/seed coat polysaccharide biosynthesis, pointing to extracellular matrix and cell surface modification. Related terms about root hair development and maintenance of polarity/adhesion of epithelial cells further suggest roles in cell surface organization and tissue morphogenesis. Although some terms are species-specific developmental events, the unifying theme appears to be glycan assembly and glycoprotein function in extracellular spaces. Therefore, this cluster is best labeled as glycan biosynthesis and cell surface processes.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0030311","count":2},{"id":"GO:0042248","count":2}]},{"hash":"81724807024062342","title":"Eye development and photoreceptor differentiation","description":"Based on the top GO terms, the cluster is dominated by eye-related processes, especially visual perception and camera-type eye photoreceptor cell differentiation, which together point to retina development and photoreceptor specification. Additional terms about ion gradients and membrane dynamics align with photoreceptor physiology, while a couple of unrelated terms (Sertoli cell proliferation, myelination) appear incidental. Overall, the strongest signal is retina/photoreceptor\u2013related, giving a plausible, cohesive theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060011","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0010039","count":2},{"id":"GO:0010248","count":2}]},{"hash":"1673053404893812165","title":"Immune signaling and antiviral defense","description":"The cluster is enriched for innate and adaptive immune terms (innate immune response, defense response to virus, B cell receptor signaling) and spleen development, suggesting immune signaling and antiviral defense as the core function; some terms such as ubiquitin-dependent protein catabolic process and regulation of apoptosis indicate regulation of signaling and cell fate within immune contexts, while vitamin D response and neuronal/plasticity terms may reflect broader regulatory roles or annotation overlaps.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0048536","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0098907","count":3}]},{"hash":"1058869174242434422","title":"Ubiquitin-dependent proteolysis and regulation","description":"The top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process; negative regulation of protein ubiquitination; K33-linked ubiquitination), suggesting a core theme of ubiquitin-mediated protein turnover and signaling. The other terms hint tissue-specific contexts (muscle, kidney, B cell signaling), but ubiquitin regulation remains the shared thread across the cluster.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0048741","count":5},{"id":"GO:0031397","count":5},{"id":"GO:0072156","count":5},{"id":"GO:0050853","count":5}]},{"hash":"395978520109160871","title":"Membrane remodeling and vesicle trafficking","description":"The cluster is dominated by membrane- and trafficking-related functions: myoblast fusion (membrane fusion), plasma membrane repair, ER membrane organization, sphingolipid biosynthesis (membrane composition), and regulation of Rho signaling (cytoskeleton-membrane dynamics), plus protein localization to phagocytic vesicles. While a couple of terms (abscisic acid signaling, T cell proliferation) are less directly connected, the overall pattern points to coordinated membrane remodeling and vesicle trafficking as the cluster\u2019s core theme.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0001778","count":7},{"id":"GO:0009738","count":6},{"id":"GO:0090158","count":6}]},{"hash":"2102774243981072114","title":"Developmental signaling and morphogenesis","description":"This cluster is characterized by signaling pathways (ERK1/ERK2 cascade, PKB/AKT activation) and processes tied to cell growth, differentiation, and tissue morphogenesis across multiple lineages (myoblast differentiation, cartilage condensation, fibroblast proliferation, metanephric tubule morphogenesis, lymph vessel morphogenesis). While innate immune response appears among the terms, the shared theme appears to be developmentally regulated signaling guiding growth and tissue patterning. ","confidence":"Medium","size":11,"edges":13,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0032148","count":3},{"id":"GO:0046326","count":3},{"id":"GO:0045445","count":3},{"id":"GO:0070371","count":3}]},{"hash":"1615498347779814379","title":"Immune cell chemotaxis and signaling","description":"The cluster shows enrichment in immune-related processes: monocyte chemotaxis, T cell costimulation, defense against Gram-positive bacteria, and paracrine signaling, along with positive regulation of PI3K/AKT signaling. These together point to proteins involved in immune cell recruitment and intercellular communication during inflammatory responses. Some broader terms like amino acid stimulus and xenobiotic response are present but do not obscure the dominant immune signaling theme. Confidence: Medium","confidence":"Medium","size":11,"edges":13,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002548","count":4},{"id":"GO:0031295","count":4},{"id":"GO:0050930","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0038001","count":3}]},{"hash":"350563464661102159","title":"Ubiquitin-ERAD Proteostasis in Development","description":"Top terms center on ubiquitin-mediated ERAD, autoubiquitination, and aggresome assembly, pointing to a proteostasis/quality-control function. The concurrent emphasis on heart, skin, dendrite, and multicellular development indicates these proteostasis components are linked to developmental processes and tissue formation. Together, the cluster seems to represent proteins involved in ubiquitin-dependent proteostasis with developmental roles.","confidence":"Medium","size":11,"edges":18,"triangles":9,"max_degree":9,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0050773","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0070842","count":5}]},{"hash":"180833415364595090","title":"Radial glial development and forebrain differentiation","description":"The cluster is dominated by GO terms related to radial glial scaffold formation and forebrain radial glial differentiation, indicating a core neural development function. It also includes related signaling pathways (Smoothened/SHH and ERK cascade) and general developmental processes, suggesting the proteins collectively participate in early neural development with broader developmental roles.","confidence":"High","size":11,"edges":21,"triangles":14,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021943","count":8},{"id":"GO:0021861","count":8},{"id":"GO:0051301","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0002551","count":7}]},{"hash":"1737402765548338788","title":"Neuronal Energy Metabolism and Oxidative Stress","description":"Based on the top GO terms, the cluster centers on core metabolic pathways (glycolysis, TCA cycle, mitochondrial electron transport) and oxidative stress/ xenobiotic responses, with several development terms pointing to neural contexts (substantia nigra, pituitary). This suggests a theme of neuronal energy metabolism linked to redox stress handling, despite some broader developmental annotations.","confidence":"Medium","size":11,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0001957","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0021762","count":2}]},{"hash":"2150020305366144490","title":"Neuronal signaling and development","description":"These terms cluster around signaling networks with a strong emphasis on neural function\u2014long-term synaptic potentiation, excitatory postsynaptic potential, and ephrin receptor signaling\u2014while also touching on related developmental pathways (Wnt, PDGF receptor signaling) and heart development. The presence of some non-neural terms (innate immune response, T cell signaling, heart development) suggests broader signaling roles, but the dominant theme is neural signaling and synaptic plasticity, justifying this label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0050852","count":4}]},{"hash":"1759251217416667002","title":"Sarcomere organization and cardiac muscle contraction","description":"The top GO terms are dominated by sarcomere-related functions and cardiac muscle contraction (GO:0045214, GO:0060048), including positive and negative regulation of sarcomere organization. While other terms like visual perception and phototransduction appear, the prevailing signal points to proteins involved in the sarcomere and heart muscle contraction, with some annotations possibly reflecting multifunctional proteins or cross-context annotations. This makes a focused label around sarcomere dynamics in cardiac muscle most representative.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":10},{"id":"GO:0045214","count":10},{"id":"GO:0007601","count":9},{"id":"GO:0007602","count":9},{"id":"GO:0007399","count":9}]},{"hash":"1335110019620026888","title":"Ribosome biogenesis and translation during the cell cycle","description":"This cluster\u2019s top GO terms cluster around ribosome biogenesis, ribosome export from the nucleus, cytoplasmic translation, and tRNA modification, all key components of ribosome assembly and function. The concurrent enrichment for cell cycle and cell division terms (cell cycle, cell division, and cell septum assembly) suggests these ribosome-associated processes are coordinated with cell proliferation, justifying a label that emphasizes both ribosome biology and its link to the cell cycle.","confidence":"High","size":11,"edges":16,"triangles":0,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0000055","count":10},{"id":"GO:0007049","count":10},{"id":"GO:1901001","count":8},{"id":"GO:1903833","count":8}]},{"hash":"1941471347116667023","title":"Unknown","description":"The top GO terms are very diverse, including somitogenesis, chromatin/heterochromatin formation, acetylcholine transport and cholinergic synaptic transmission, calcium channel regulation, platelet formation, protein complex stability, and even host-mediated viral transcription activation. With no evident shared pathway and no edges connecting members, there isn't a clear unifying function for the cluster. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001756","count":2},{"id":"GO:0090043","count":2},{"id":"GO:0015870","count":2},{"id":"GO:0043923","count":2},{"id":"GO:0032224","count":2}]},{"hash":"1608338957267328622","title":"Cytoskeleton remodeling and adhesion signaling","description":"Most terms describe signaling pathways that control the actin cytoskeleton and membrane dynamics: small GTPase-mediated signaling, podosome assembly, and plasma membrane tubulation, plus positive regulation of substrate adhesion-dependent cell spreading. Additional terms point to extracellular signaling (endothelin, nitric oxide, cholecystokinin, insulin) that influence cytoskeletal remodeling and adhesion. A few terms related to translation initiation and ER stress are less central but may reflect broader integrated stress or growth signaling. ","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903676","count":10},{"id":"GO:0007264","count":10},{"id":"GO:1990859","count":10},{"id":"GO:1903912","count":10},{"id":"GO:0071800","count":10}]},{"hash":"792116171836464203","title":"Endothelial Tight Junctions and Transcytosis","description":"The cluster is dominated by terms tied to endothelial barrier formation, tight junction assembly, transcytosis, and vesicle trafficking (e.g., bicellular tight junction assembly, transcytosis, intralumenal vesicle formation, establishment of endothelial barrier), with supporting signals from ephrin receptor pathways and membrane raft polarization that relate to endothelial cell junctions and polarity. A couple of nuclear processes appear but do not define the core theme. ","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0045056","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1068177090208480586","title":"Cardiac Development and Morphogenesis","description":"This cluster is strongly enriched for GO terms related to heart formation and cardiovascular development, including embryonic heart tube formation, atrial formation, outflow tract morphogenesis, arterial endothelial differentiation, and cardiac neural crest cell migration. These collectively point to a cohesive theme of heart development and morphogenesis, with a few less-specific terms (e.g., stress responses) present but not defining. ","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":11},{"id":"GO:0071285","count":11},{"id":"GO:0035481","count":11},{"id":"GO:0033627","count":11},{"id":"GO:0007540","count":11}]},{"hash":"1080295616001066580","title":"Adhesion and immune activation cluster","description":"The top GO terms are dominated by cell adhesion (extravasation, cell-matrix and heterotypic adhesion) and immune-related pathways (integrin signaling, coagulation, complement activation, T cell activation), suggesting proteins in this cluster function together in adhesion-mediated vascular and immune signaling. Some terms appear unrelated (chlorophyll biosynthesis, dendrite regeneration) and may be incidental noise, but the core theme centers on adhesion and immune activation.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0045123","count":6},{"id":"GO:0007161","count":6},{"id":"GO:0034113","count":6},{"id":"GO:0035987","count":6},{"id":"GO:0007229","count":6}]},{"hash":"463440412795755065","title":"Embryogenesis and cell differentiation","description":"Top GO terms indicate embryonic development and lineage differentiation (in utero embryonic development, gastrulation, granulocyte differentiation) and growth regulation (positive regulation of stem cell proliferation, positive regulation of cell size). The dopamine catabolic process and response to ethanol add neural context, but the dominant signal is developmental differentiation.","confidence":"High","size":11,"edges":38,"triangles":67,"max_degree":10,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042135","count":11},{"id":"GO:0001701","count":11},{"id":"GO:0030851","count":11},{"id":"GO:0007369","count":11},{"id":"GO:2000648","count":11}]},{"hash":"1348828779635397536","title":"Neuroendocrine and Autonomic Signaling","description":"The terms cluster around signaling pathways that regulate broad physiological functions across tissues\u2014dopamine, norepinephrine, and octopamine/tyramine signaling; circadian rhythm; GI secretion and motility; vascular regulation; and systemic physiological processes\u2014pointing to a cohesive theme of neuroendocrine/autonomic regulation rather than a single tissue-specific function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":11},{"id":"GO:0022410","count":11},{"id":"GO:0001697","count":11},{"id":"GO:0030432","count":11},{"id":"GO:0007211","count":11}]},{"hash":"1995400975978441779","title":"Autonomic and neuroendocrine regulation","description":"The prominent GO terms point to systemic control of bodily functions via neuroendocrine and autonomic signaling, including urine volume, circadian rhythms, gastric acid secretion, GI motility, and vasodilation through adrenergic/dopaminergic pathways. While a few terms (bone remodeling, reproductive processes, certain immune-related functions) are broader, the shared theme is body-wide homeostatic regulation rather than a single molecular function. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":11},{"id":"GO:0022410","count":11},{"id":"GO:0001697","count":11},{"id":"GO:0030432","count":11},{"id":"GO:0007211","count":11}]},{"hash":"59621842561218942","title":"Immune receptor signaling and ubiquitination","description":"The top GO terms center on adaptive immune signaling, including B cell receptor and T cell receptor signaling, and the adaptive immune response, with supporting notes on ubiquitination and related regulatory processes (calcium release, interferon signaling, and TGF-beta responses). This suggests a core theme of immune receptor\u2013mediated signaling and its regulation via ubiquitination.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0050852","count":7}]},{"hash":"343180963636498835","title":"Unknown","description":"There are no shared GO terms or interactions to define a functional theme (no edges, no terms), so no specific label can be assigned beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"477070235366413522","title":"Lipid signaling and metabolic regulation in development","description":"This cluster centers on lipid-related signaling and metabolism (PPAR signaling, bile acid signaling, fatty acid oxidation, fat cell differentiation) with supporting inflammatory and signaling pathways (p38 MAPK, IL-17 production), and it also touches on developmental contexts (embryonic development, heart cell fate, spermathecum morphogenesis). The recurring themes are lipid metabolism and nuclear receptor\u2013mediated signaling intertwined with development and immune signaling, justifying a label focused on lipid signaling and metabolic regulation within developmental contexts.","confidence":"Medium","size":11,"edges":22,"triangles":12,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038066","count":11},{"id":"GO:0038185","count":11},{"id":"GO:0001701","count":11},{"id":"GO:0035053","count":11},{"id":"GO:0035357","count":11}]},{"hash":"1468207338561633512","title":"Developmental ECM Remodeling and Cartilage Formation","description":"The cluster is enriched for extracellular matrix organization (collagen fibril organization), hyaluronan turnover, and tissue morphogenesis (cartilage condensation, CNS/hippocampus development), plus adhesion processes and vascular-nerve interface formation, suggesting a cohesive role in ECM-driven development of cartilage and neural tissues.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034116","count":8},{"id":"GO:0030199","count":8},{"id":"GO:0021766","count":6},{"id":"GO:0008065","count":6},{"id":"GO:0030214","count":6}]},{"hash":"499725199784597898","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":50,"triangles":126,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":9},{"id":"GO:1903241","count":7},{"id":"GO:0071894","count":7},{"id":"GO:0000388","count":7},{"id":"GO:0000393","count":7}]},{"hash":"371107324021641137","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":45,"triangles":98,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903241","count":11},{"id":"GO:0071894","count":11},{"id":"GO:0000388","count":11},{"id":"GO:0000393","count":11},{"id":"GO:1904570","count":11}]},{"hash":"1390505102205548731","title":"Developmental signaling and cell cycle regulation","description":"These proteins point to a module where cell-cycle control (positive regulation of CDK activity, cell division) intersects with core developmental signaling (Wnt, ephrin receptor signaling) and morphogenesis processes (lens fiber morphogenesis, angiogenesis). The acetylation term hints at epigenetic regulation during differentiation, while xenobiotic and stress responses appear as broader cellular context. Overall, the cluster seems to coordinate proliferation, signaling, and tissue morphogenesis, with potential emphasis on ocular and neural development.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0018003","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0035690","count":2}]},{"hash":"861478738394951266","title":"Biosynthesis and RNA processing","description":"The cluster shows multiple biosynthetic processes (cobalamin, antibiotic, ubiquinone, phosphatidylcholine) together with RNA-related activities (rRNA methylation, rRNA modification, mRNA capping, ribosomal small subunit export, and transcription regulation by RNA polymerase II). This combination suggests proteins involved in both metabolite biosynthesis and RNA metabolism, indicating a dual, but not tightly unified, functional theme.","confidence":"Medium","size":11,"edges":24,"triangles":21,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0031167","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0006370","count":5}]},{"hash":"1583699451991666627","title":"Innate immune response and xenophagy","description":"The top GO terms point strongly to innate immunity and pathogen handling: xenophagy (autophagic response to intracellular pathogens), dsRNA response, IFN-\u03b2 production, and general innate immune signaling, plus defense against bacteria. A coherent interpretation is that this cluster reflects host defense mechanisms combining pathogen sensing with selective autophagy, i.e., xenophagy, and antiviral/innate immune signaling. Some terms about nuclear export or cell cycle appear less related and may reflect broader cellular roles or annotation noise, but the dominant theme is innate immune defense and xenophagy.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1904417","count":9},{"id":"GO:0031663","count":9},{"id":"GO:0045359","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0046827","count":9}]},{"hash":"1755617254044472586","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Regulation","description":"This cluster is dominated by ubiquitin-dependent protein catabolic processes and SCF-dependent proteasomal degradation, pointing to a core function in ubiquitin-mediated protein turnover. The inclusion of mitotic G1 checkpoint signaling and regulation of cell proliferation supports a link to cell cycle control, with additional terms like oocyte maturation and synapse assembly suggesting broader developmental roles tied to ubiquitin signaling.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0001556","count":4},{"id":"GO:0060386","count":4}]},{"hash":"1604696034013747766","title":"Lipid transport and inflammatory signaling","description":"The top GO terms cluster around lipid handling and transport\u2014cholesterol efflux, triglyceride transport, and very-low-density lipoprotein remodeling\u2014as well as surfactant homeostasis. Immune-related terms\u2014positive regulation of chemokine and TNF production\u2014suggest concurrent regulation of inflammatory signaling. Together these point to a functional group centered on lipid metabolism with cross-talk to immune responses.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045919","count":2},{"id":"GO:1902305","count":2},{"id":"GO:0030317","count":2},{"id":"GO:1900229","count":2},{"id":"GO:0010875","count":2}]},{"hash":"1447474938088137151","title":"Cell Cycle and DNA Replication/Repair","description":"The top GO terms cluster around mitosis and genome maintenance: DNA replication, DNA repair, mitotic cell cycle, G1/S transition, and kinetochore localization, indicating a cohesive role in chromosome duplication and segregation. While there are also terms linked to neuronal development and stress responses (cocaine/cadmium exposure, Schwann cell development), the strongest and most frequent signals point to cell-cycle progression and genome integrity.","confidence":"High","size":11,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0034501","count":11},{"id":"GO:0042220","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0000278","count":10}]},{"hash":"1172276178533697301","title":"Neural development and axon guidance","description":"The top GO terms point to neural development and axon pathfinding, with forebrain development and fasciculation of sensory neuron axons highlighting neural wiring. Regulation of integrin-mediated cell adhesion also fits neuronal migration and axon guidance, while sphingolipid biosynthesis and ER-stress\u2013related pathways can support neural membrane biology and stress responses. Overall, the dominant theme appears to be neural development and axon guidance, despite some broader or unrelated terms in the set.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":11},{"id":"GO:0006611","count":11},{"id":"GO:0070059","count":11},{"id":"GO:0090153","count":11},{"id":"GO:0071479","count":11}]},{"hash":"1479157229200628586","title":"Developmental morphogenesis","description":"The proteins are linked to tissue and organ formation across diverse lineages (mouth roof, cartilage, hair follicles, placenta, pancreas, heart EMT, left-right patterning, endocrine development), indicating a broad morphogenetic/developmental program rather than a single tissue function.","confidence":"High","size":11,"edges":11,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060707","count":6}]},{"hash":"2034905111855758246","title":"Organ morphogenesis and tissue differentiation","description":"The top GO terms center on development and morphogenesis across several organ systems\u2014airway cartilage (bronchus/trachea), lung smooth muscle, cardiac ventricle formation, skeletal muscle differentiation, and embryonic digestive tract morphogenesis\u2014plus branching morphogenesis in kidney and TGF-\u03b2\u2013related transcriptional responses. This suggests a shared theme of organ/tissue morphogenesis and developmental regulation, rather than a single specific pathway, justifying the label. ","confidence":"High","size":11,"edges":42,"triangles":78,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060532","count":8},{"id":"GO:0061145","count":8},{"id":"GO:0071864","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0060534","count":8}]},{"hash":"1316711193761829570","title":"Ubiquitin-Dependent Protein Turnover and Histone Modification","description":"The GO terms are dominated by ubiquitin-dependent protein catabolic process and histone-related modifications (histone catabolic process; H4-K20 methylation; H4-K16 acetylation), along with protein autoubiquitination and related regulation. The presence of dosage compensation by X inactivation and V(D)J recombination suggests chromatin remodeling contexts where ubiquitin signaling governs chromatin accessibility and gene regulation; overall the cluster points to ubiquitin-mediated protein turnover coupled with chromatin modification.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0009048","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0090073","count":5},{"id":"GO:0070512","count":5}]},{"hash":"276063947583302910","title":"Mitochondrial transport and fission regulation","description":"This cluster centers on mitochondrial functions: membrane permeability regulation, fission, and transport of key metabolites such as alpha-ketoglutarate and NAD. It also includes nutrient and growth signaling responses (amino acid starvation, IGF/insulin-related glucose response), which tie to mitochondrial energy metabolism. Together, these terms suggest a shared role in mitochondrial transport and dynamic remodeling.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":11},{"id":"GO:0090152","count":11},{"id":"GO:0034198","count":11},{"id":"GO:1990314","count":11},{"id":"GO:0015742","count":11}]},{"hash":"927493973536776612","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues (palate, hair follicles, left-right patterning, placenta, pancreatic beta cells, endocrine development), suggesting a shared theme of embryonic development and organ/tissue morphogenesis rather than a single molecular function.","confidence":"High","size":11,"edges":13,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0000122","count":9},{"id":"GO:0003198","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0031069","count":8}]},{"hash":"1465203555287637685","title":"Inositol phosphate and nucleotide metabolism","description":"The GO terms cluster around inositol phosphate biosynthesis/metabolism and purine nucleobase metabolism, with related dephosphorylation and phosphate starvation responses, suggesting a phosphate-containing metabolite/signaling module. While some terms touch on stress responses, the core theme is metabolism of inositol phosphates and nucleotides.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":2},{"id":"GO:0010909","count":2},{"id":"GO:0071454","count":2},{"id":"GO:0051516","count":2},{"id":"GO:2001311","count":2}]},{"hash":"389214300825859805","title":"Ribosome Biogenesis and rRNA Processing","description":"Most of the top terms describe ribosome biogenesis and rRNA maturation (5.8S, SSU/LSU rRNA), ribosomal subunit biogenesis, and nucleolus organization, with secondary links to cytoplasmic translation. This suggests the proteins function together in ribosome assembly and rRNA processing, justifying a label around ribosome production.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0000466","count":2},{"id":"GO:2000232","count":2},{"id":"GO:0007000","count":2},{"id":"GO:0000463","count":2}]},{"hash":"663628531281349150","title":"Cardiac Development and Conduction","description":"GO terms point to heart development and cardiac function: outflow tract morphogenesis, AV node and atrial cardiomyocyte action potential regulation, calcium handling for contraction, and regulation of the force of heart contraction, with supporting multicellular development context.","confidence":"High","size":11,"edges":18,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0003151","count":4},{"id":"GO:0010881","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007190","count":4}]},{"hash":"106952833658475804","title":"Vesicle trafficking and secretory pathway","description":"The top GO terms cluster around intracellular transport, including intracellular protein transport, ER-to-Golgi vesicle transport, and synaptic vesicle budding, pointing to a vesicle trafficking/secretory role. Other terms touch on adhesion signaling and apoptosis, but the strongest signal is for transport processes within the secretory pathway, justifying this label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000811","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0002291","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0016185","count":2}]},{"hash":"815124508403268237","title":"Cerebellar neuronal development and synaptic signaling","description":"The top GO terms center on brain development and neural connectivity, notably cerebellar structures (Purkinje cell layer formation) and dendritic spine morphogenesis, as well as synaptic activity (glutamate secretion) and neuromodulation (opioid signaling). Behavioral terms like vocalization and exploration further point to neural function. Collectively, they describe cerebellar development and associated synaptic signaling processes.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0071625","count":11},{"id":"GO:0022007","count":10},{"id":"GO:2000474","count":10},{"id":"GO:0014047","count":10},{"id":"GO:0035640","count":10}]},{"hash":"608502348796910886","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The cluster is dominated by ubiquitin-related turnover: ubiquitination, autoubiquitination, and proteasomal degradation terms (with histone ubiquitination as a related aspect). Some peripheral terms involve TNF signaling regulation and muscle/ vitamin D\u2013related biology, but the core signal is the ubiquitin-proteasome system governing protein catabolism.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0033280","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0085020","count":3},{"id":"GO:1903265","count":3}]},{"hash":"1076825269611693677","title":"mRNA Deadenylation and Decapping","description":"The top GO terms are dominated by nuclear-transcribed mRNA deadenylation, poly(A) tail shortening, and deadenylation-dependent decapping and decay, along with miRNA-mediated post-transcriptional silencing. This points to a coherent theme of post-transcriptional regulation of gene expression via mRNA decay pathways, with a few ancillary immune-regulatory terms that are less central to the core function. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":2},{"id":"GO:0045657","count":2},{"id":"GO:0000290","count":2},{"id":"GO:0000288","count":2},{"id":"GO:0010667","count":2}]},{"hash":"402193696988386425","title":"Synaptic plasticity and memory signaling","description":"The terms point to neural signaling and plasticity, with multiple entries tied to synaptic depression, EPSPs, memory, and GABAergic signaling. The amphetamine response aligns with neuromodulatory regulation of synapses. A few terms related to transport and respiration are peripheral to the main theme, but the dominant signal is synaptic signaling and memory.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0007616","count":3},{"id":"GO:0008360","count":2}]},{"hash":"2207234333838071822","title":"Lipid signaling and metabolism","description":"The cluster is dominated by GO terms tied to lipid biology \u2014 response to fatty acid, cholesterol homeostasis, prostaglandin biosynthesis, brown fat cell differentiation, and vitamin D response \u2014 indicating a core theme of lipid metabolism and lipid-mediated signaling. The presence of additional developmental terms (retina morphogenesis, Notch signaling, endothelial differentiation) suggests these proteins may intersect lipid signaling with developmental pathways, but the lipid/metabolic connections are the strongest common thread. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":4},{"id":"GO:0006469","count":4},{"id":"GO:0050873","count":3},{"id":"GO:0042632","count":3},{"id":"GO:0001516","count":3}]},{"hash":"1504999966985339210","title":"Neural development and axon guidance","description":"The cluster is dominated by terms tied to neural development and axon pathfinding, including neuron\u2013neuron adhesion, axon fasciculation, dendritic spine morphogenesis, and developmental processes like notochord-related development. While there are a few immune-related terms, the recurring theme centers on neuronal growth, connectivity, and signaling, suggesting a coherent neural development/axon guidance function for this protein set.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":4},{"id":"GO:0060035","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0032729","count":4},{"id":"GO:0007158","count":4}]},{"hash":"305114171018446282","title":"Neuronal development and synapse formation","description":"The top GO terms are dominated by neural processes: dendritic spine morphogenesis, neuron cell-cell adhesion, fasciculation of sensory neuron axons, and cell surface receptor tyrosine kinase signaling, indicating roles in neuronal morphogenesis, connectivity, and synapse formation. Some terms such as notochord development, ovulation cycle, NK cell differentiation, and TLR9 pathway regulation appear less central and may reflect broader developmental signaling or dataset noise, but the core pattern supports a neural development/synapse theme.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":7},{"id":"GO:0060035","count":7},{"id":"GO:0060997","count":7},{"id":"GO:0007158","count":7},{"id":"GO:0097155","count":7}]},{"hash":"617499277432458627","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009416","count":3},{"id":"GO:0002526","count":3},{"id":"GO:0045007","count":3},{"id":"GO:0033158","count":3},{"id":"GO:0007568","count":3}]},{"hash":"125999049044878360","title":"Embryonic development and organ morphogenesis","description":"Most GO terms describe embryonic development and organ morphogenesis across multiple tissues (eye, heart, cartilage, gonads, glands). This pattern suggests the cluster reflects general developmental programs governing multiple organ formation rather than a single tissue-specific function.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060528","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0001701","count":5},{"id":"GO:0060038","count":5},{"id":"GO:0055010","count":5}]},{"hash":"566678614584404546","title":"Plant proteostasis and chromosome maintenance","description":"The cluster is driven by ubiquitin-dependent protein catabolic processes and proteasome assembly, pointing to proteostasis. It also includes terms related to chromosome dynamics, such as regulation of mitotic chromosome condensation, kinetochore localization, and nonhomologous end joining repair, suggesting a link to chromosome maintenance during cell division. Plant-specific terms like stamen formation and chlorophyll biosynthesis hint at a plant context, but the shared theme appears to be protein turnover coupled with chromosome maintenance and cell-cycle regulation in plants.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048455","count":2},{"id":"GO:0015995","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0006893","count":1}]},{"hash":"1206230520083693173","title":"Neural development and axon guidance","description":"The top GO terms cluster around neuronal development, including regulation of Rho signaling, synapse organization/assembly, axonal fasciculation, chemotactic guidance (chemorepulsion in interneuron migration), and Robo signaling, all indicative of neural migration and connectivity establishment. Myelination and related neural differentiation terms further support a neural-context theme, with a few peripheral terms (otolith morphogenesis, angiogenesis) likely reflecting broader developmental pathways. Overall, the cluster appears tied to neural development and circuit formation.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0050808","count":7},{"id":"GO:0021836","count":6},{"id":"GO:0007413","count":6},{"id":"GO:0051965","count":6}]},{"hash":"1911368806501155476","title":"Neuronal development and vesicle trafficking","description":"This cluster is dominated by GO terms related to nervous system development (GO:0007399), negative regulation of axonogenesis (GO:0050771), endocytosis (GO:0006897), and Rab protein signal transduction (GO:0032482), collectively pointing to roles in neuronal differentiation and vesicle trafficking essential for axon growth and synaptic function. Additional terms about amino acid biosynthesis and metal ion import may reflect broader metabolic context, but do not outweigh the neuron- and trafficking-focused signals.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006897","count":2},{"id":"GO:0050771","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1853056075566016839","title":"Cardiac morphogenesis and atrial formation","description":"The top GO terms are centered on embryonic heart development, including embryonic heart tube formation, atrial formation, and arterial endothelial differentiation, with supporting notes on integrin-mediated adhesion relevant to tissue morphogenesis. While some terms are less specific (e.g., Notch signaling, lithium response), the overall signal points to cardiac development and morphogenesis.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":9},{"id":"GO:0045668","count":9},{"id":"GO:0090403","count":8},{"id":"GO:0071285","count":8},{"id":"GO:0035481","count":8}]},{"hash":"536677184504879422","title":"Cytoskeletal dynamics and microtubule transport","description":"The cluster centers on GO terms tied to microtubule-based processes: mitotic spindle assembly/elongation, spindle midzone assembly, and cytokinesis (cell plate formation) indicate spindle/cytokinesis machinery; axonemal microtubule depolymerization and dendritic transport of receptor complexes point to microtubule-driven intracellular transport in neurons; integrin regulation ties to cytoskeletal organization; chloroplast movement and root development reflect cytoskeletal roles in organelle positioning and plant morphogenesis. Taken together, these terms suggest a cohesive theme of cytoskeletal dynamics and microtubule-driven transport across diverse cell types. ","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0060404","count":5},{"id":"GO:0009904","count":5},{"id":"GO:0051255","count":5},{"id":"GO:0000911","count":5}]},{"hash":"1505382045179043922","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0090084","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0031204","count":2}]},{"hash":"2203581089891452193","title":"Unknown","description":"The top GO terms span a wide range of unrelated biological areas (neuroscience, plant chlorophyll biosynthesis and stamen formation, fat cell differentiation, transport, proteasome/ubiquitin pathways, and behavioral responses), with no clear shared function or pathway tying the proteins together. The edge information shows no interactions, reinforcing the lack of a cohesive theme. Therefore there is no defensible single function cluster to label beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031914","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0015995","count":2},{"id":"GO:0048455","count":2},{"id":"GO:0006821","count":2}]},{"hash":"209294918402514222","title":"ER-Golgi trafficking and calcium regulation","description":"The cluster is dominated by terms for intracellular transport within the secretory pathway (ER to Golgi, ER exit sites, intracellular transport) and for regulation of calcium ion concentrations in the ER and mitochondria, with some related proton transport. Developmental terms like limb development and osteoblast differentiation appear as secondary associations, but the core theme ties to secretory pathway trafficking and calcium homeostasis.","confidence":"Medium","size":10,"edges":11,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060173","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0032471","count":1},{"id":"GO:0070973","count":1},{"id":"GO:1903071","count":1}]},{"hash":"1979532258651757047","title":"Growth-regulation and stress-induced apoptosis signaling","description":"This cluster centers on signaling pathways that govern cell proliferation and survival under stress: hippo signaling, Wnt pathway modulation, and negative regulation of cardiac muscle cell proliferation. It also includes intrinsic apoptotic pathways linked to ER stress, as well as sphingolipid-related signaling and responses to ionizing radiation. Keratinocyte differentiation and defense against Gram-positive bacteria appear as contextual or ancillary processes, but the dominant theme is growth-control coupled with stress-induced apoptosis.","confidence":"Medium","size":10,"edges":38,"triangles":76,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0060044","count":10},{"id":"GO:0035329","count":10},{"id":"GO:0030216","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0090263","count":10}]},{"hash":"289921346870826943","title":"Small Molecule Transporters","description":"The set is enriched for transmembrane transport terms covering vitamins (biotin, pantothenate), sugars (D-glucose), inositol, and ions (sodium), indicating membrane transporter proteins that move a variety of small molecules across membranes; a few energy-related and peroxisomal autophagy terms are present but peripheral. Therefore this cluster likely represents small-molecule transporters.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":2},{"id":"GO:0008292","count":2},{"id":"GO:0071436","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0015798","count":2}]},{"hash":"1650510254883057351","title":"Mitochondrial-vacuolar transport and ion homeostasis","description":"The top GO terms cluster around organelle membranes and trafficking: proton-driven ATP synthesis and proton transmembrane transport point to mitochondrial energetics; vacuolar acidification, organization, and protein targeting to the vacuole indicate vacuolar function; copper and sodium ion homeostasis highlight intracellular ion regulation; and lipid biosynthesis hints at membrane biogenesis. Together, these suggest a coherent theme of membrane transport and organelle trafficking between mitochondria and vacuoles with ion homeostasis.","confidence":"Medium","size":10,"edges":28,"triangles":35,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042777","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0006814","count":3},{"id":"GO:0006623","count":3}]},{"hash":"202683905100725140","title":"Dopaminergic Visual Processing and Reward","description":"This cluster is dominated by GO terms tying dopamine signaling (dopaminergic synaptic transmission, behavioral response to cocaine) with visual processing (visual learning, visual perception) and related ERK cascade regulation, suggesting a theme around dopamine-driven visual/reward pathways. Additional terms touch on prostaglandin signaling, immune cell chemotaxis, and kidney/heart functions, which may reflect broader expression patterns or multifunctionality of the proteins. Overall, the most coherent interpretation centers on dopamine-mediated signaling intertwined with visual processing and reward.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0001963","count":8},{"id":"GO:0071380","count":8}]},{"hash":"1668354051836535261","title":"Thermoregulation and GI/Neuroendocrine Signaling","description":"The top GO terms cluster around temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus), circadian rhythm, GI functions (peristalsis, histamine-induced gastric acid secretion, urine volume), and various signaling pathways (dopamine receptor signaling, octopamine/tyramine signaling). This points to a broader theme of autonomic and neuroendocrine regulation of physiology rather than a single molecular function, making a label that reflects regulatory thermogenesis and gut/neuroendocrine signaling appropriate. One immune term is a bit of an outlier, but the overall pattern is regulatory in nature.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0035810","count":6},{"id":"GO:0022410","count":6}]},{"hash":"2196670424814047988","title":"Vertebrate organogenesis","description":"Most terms are developmental in nature\u2014craniofacial development, heart/endocardial cushion EMT, hair follicle morphogenesis, left-right patterning, endocrine system development, and trophoblast differentiation\u2014covering vertebrate organogenesis and tissue patterning. The signal is a broad developmental theme rather than a specific pathway, so this label reflects the cluster well.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0000122","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0031069","count":5}]},{"hash":"2295539224115655478","title":"Smooth muscle cell signaling and growth","description":"This cluster centers on GO terms for smooth muscle cell proliferation, migration, and anti-apoptotic regulation, linked with PI3K/AKT and ERK signaling cascades. Although a few terms touch on ion transport and other signals, the strongest theme is regulation and signaling of smooth muscle cell growth and behavior.","confidence":"High","size":10,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0048661","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0014911","count":2},{"id":"GO:0014068","count":2}]},{"hash":"1979331937980940552","title":"Nervous system signaling and muscle development","description":"The top GO terms cluster around neural signaling (neurotransmitter secretion, sympathetic nervous system development) and muscle development (smooth muscle tissue development, SA node action potential regulation), suggesting a shared theme of neural/muscular signaling and development. Some terms (hypoxia, apoptosis, pain) are broader stress responses that can accompany these processes, but do not override the central neural-muscular theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3}]},{"hash":"1978285536157594216","title":"Embryonic Organ Morphogenesis","description":"These proteins are enriched for GO terms describing morphogenesis and development across diverse organs\u2014prostate, heart, hindlimb, eye, placenta, and brain structures like habenula\u2014plus related signaling (estrogen receptor pathway). The shared theme is embryonic organogenesis across multiple tissues.","confidence":"High","size":10,"edges":19,"triangles":23,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060527","count":10},{"id":"GO:0030520","count":10},{"id":"GO:0008584","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0021986","count":10}]},{"hash":"317811287995600360","title":"Calcium-dependent muscle development and EMT signaling","description":"The Top Terms cluster around calcium signaling and muscle/heart development: positive regulation of calcineurin-NFAT signaling, diaphragm contraction, myoblast fusion, outflow tract morphogenesis, EMT, and mitochondrial calcium ion concentration, plus actin crosslink formation. These point to a coherent theme of Ca2+-driven regulation of muscle differentiation, cardiac morphogenesis, and related cytoskeletal changes, with EMT reflecting developmental transitions. The plant ABA pathway appears peripheral to this core theme, contributing little to the main connection. Overall, a calcium-centered muscle/heart development and EMT function.","confidence":"Medium","size":10,"edges":37,"triangles":77,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009738","count":9},{"id":"GO:0060056","count":9},{"id":"GO:0051764","count":9},{"id":"GO:0051561","count":9},{"id":"GO:0002086","count":9}]},{"hash":"349695653084929312","title":"Systemic Physiological Regulation","description":"These proteins span diverse but related physiological regulation processes across organs, including autonomic/neuroendocrine signaling (dopamine/octopamine pathways and norepinephrine-epinephrine\u2013mediated vasodilation), GI motility and secretion, circadian rhythms, urine volume, bone remodeling, reproduction, and immune differentiation. The common thread is broad systemic homeostasis and inter-organ signaling rather than a single, specific function, so the label Systemic Physiological Regulation reflects the cluster's overall theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":10},{"id":"GO:0022410","count":10},{"id":"GO:0001697","count":10},{"id":"GO:0030432","count":10},{"id":"GO:0007211","count":10}]},{"hash":"1270436134171307763","title":"Stress-Responsive Translation Regulation","description":"Top GO terms include cytoplasmic translational initiation and regulation of translational initiation, phosphorylation, and cellular responses to nitric oxide, amino acid starvation, and ethylene. Together these point to a core theme of coordinating protein synthesis with signaling and stress responses, across diverse contexts. While coenzyme A biosynthesis and oligodendrocyte development appear among terms, they are less central to a single cohesive function, so the dominant signal is translation control linked to cellular stress signaling.","confidence":"Medium","size":10,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0071732","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0019284","count":2}]},{"hash":"1900861918436492701","title":"RNA processing and translation initiation regulation","description":"The terms cluster around mRNA processing steps (polyadenylation, splicing with splice site recognition, and export) and translation initiation (eIF4F complex assembly and IRES-dependent initiation), with additional regulatory RNA silencing. This suggests a cohesive group of proteins involved in RNA maturation, export, and control of translation. Confidence: High","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0048026","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"1344732166590156796","title":"Kidney development and ureteric bud elongation","description":"Top terms center on kidney development and ureteric bud elongation, with regulation of Wnt signaling supporting branching and morphogenesis. Some terms (liver development, fear response, cellulose catabolic process) appear as noise, but the kidney-related terms predominate. Thus the cluster is best described as Kidney development and ureteric bud elongation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0050796","count":2},{"id":"GO:0030245","count":2},{"id":"GO:0061296","count":2},{"id":"GO:1900212","count":2}]},{"hash":"1819593877583120773","title":"Muscle fiber formation and cytoskeletal organization","description":"The cluster is dominated by GO terms related to skeletal muscle fiber development, diaphragm contraction, myoblast fusion, actin crosslink formation, and myosin II filament assembly, all pointing to muscle fiber formation and cytoskeletal dynamics as the central theme. A few terms (short-term memory, abscisic acid signaling, metanephric development) appear unrelated and may reflect annotation noise, but the core signal supports muscle/cytoskeleton biology.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048741","count":6},{"id":"GO:0009738","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0002086","count":4},{"id":"GO:0007520","count":4}]},{"hash":"449957215973440486","title":"Neuronal development and sensory signaling","description":"The top GO terms are dominated by nervous system development, dopaminergic neuron axon guidance, sensory perception of sound, and regulation of synaptic components (PSD95 clustering), pointing to a cohesive theme of neural development and sensory signaling. Some outliers exist (melanin biosynthesis, LDL signaling, follicle cell microvilli) but the central pattern centers on neurons and synapses.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048023","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0055096","count":3}]},{"hash":"1874957798332700271","title":"Cross-tissue Development","description":"The top terms include several distinct developmental processes (face development, nucleus accumbens development, ureter maturation), which point to a general developmental theme across tissues. However, there are also disparate metabolic and signaling terms (ethanol catabolic process, L-proline biosynthesis, response to cAMP), making the cluster functionally heterogeneous. This supports a developmental emphasis with moderate confidence.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060324","count":10},{"id":"GO:0007584","count":10},{"id":"GO:0019544","count":10},{"id":"GO:0021768","count":10},{"id":"GO:1901023","count":10}]},{"hash":"843629838011535928","title":"Neural development and cell migration","description":"This cluster is dominated by terms related to nervous system development, especially midbrain dopaminergic neuron differentiation, and CNS vasculogenesis, along with cell migration and GTPase-regulated movement. While there are also broader developmental and cell-cycle terms, the strongest signal points to neural differentiation and the coordinated cell movement typical of developmental processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0006607","count":8},{"id":"GO:1904948","count":7},{"id":"GO:0051561","count":7}]},{"hash":"825162251020713817","title":"Endothelial Sprouting Angiogenesis and Adhesion","description":"The terms cluster around endothelial-driven sprouting angiogenesis, with regulation of endothelial proliferation and migration during angiogenic remodeling, and multiple adhesion-related processes (integrin-mediated, cell-substrate and heterophilic adhesion). Inflammatory responses and lipopolysaccharide signaling accompany this remodeling, and hyaluronan biosynthesis points to ECM changes supporting new vessel growth. This combination best fits a coherent theme of endothelial angiogenesis with adhesion and inflammatory signaling.","confidence":"High","size":10,"edges":11,"triangles":2,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:1903588","count":7},{"id":"GO:0006954","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0032496","count":7}]},{"hash":"1755844993774109547","title":"Craniofacial and neural crest development","description":"The cluster\u2019s top GO terms cluster around craniofacial morphogenesis (roof of mouth/palate, cranial skeleton), neural crest formation, and related embryonic patterning (pharyngeal system, dorsal spinal cord, thorax identity), with some broader developmental terms such as BMP-related heart development and pancreas development. This suggests the proteins are enriched for pathways involved in craniofacial and neural crest\u2013derived structures during early development, justifying the label. ","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0014029","count":8},{"id":"GO:0061312","count":8},{"id":"GO:0060929","count":8}]},{"hash":"1920814018388151766","title":"Immune differentiation and inflammatory regulation","description":"This cluster centers on controlling immune cell development (myeloid and lymphocyte differentiation) and dampening inflammatory responses, with additional links to antibody isotype switching and signaling/modification processes (kinase activity, ubiquitination). The common thread is immune system modulation rather than a single enzymatic function, justifying a label focused on immune regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0046944","count":1},{"id":"GO:0048302","count":1},{"id":"GO:0002761","count":1},{"id":"GO:0031398","count":1}]},{"hash":"1903477708969438468","title":"Integrin-mediated adhesion and actin cytoskeleton regulation","description":"The top GO terms point to integrin-mediated cell adhesion regulation, integrin activation, and multiple aspects of actin cytoskeleton dynamics (cortical actin organization, stress fiber and filopodium assembly), suggesting the cluster groups proteins involved in focal adhesion signaling and cytoskeletal remodeling, with supporting roles in protein binding and signal complex assembly.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033628","count":3},{"id":"GO:0051492","count":3},{"id":"GO:0033622","count":3},{"id":"GO:0030866","count":3},{"id":"GO:0031532","count":3}]},{"hash":"1726536718743944120","title":"Leukotriene synthesis and phospholipid remodeling","description":"The GO terms cluster around lipid metabolism and inflammatory mediators (leukotriene biosynthesis and remodeling of PS/PC/PI/phosphatidic acid) with accompanying innate immune responses, suggesting a functional module in inflammation linked to lipid remodeling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0019370","count":3},{"id":"GO:0045740","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0036150","count":2}]},{"hash":"1327963290025613001","title":"Diverse solute transmembrane transporters","description":"The GO terms point to membrane transport across a wide range of substrates, including ions (sodium, potassium), sugars (galactose, arabinose), nitrite/nitrate, xenobiotics, and even a vesicular neurotransmitter transporter function, indicating a cluster of transporter proteins with broad substrate specificity rather than a single, unified pathway.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0098700","count":1},{"id":"GO:0015757","count":1},{"id":"GO:1900754","count":1}]},{"hash":"1296272254168353204","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":12,"triangles":3,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003151","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0048143","count":4},{"id":"GO:0001569","count":4},{"id":"GO:0006468","count":4}]},{"hash":"240563616672959740","title":"Acute inflammatory signaling and leukocyte chemotaxis","description":"The GO terms point to an inflammatory program: acute-phase response, NF-\u03baB signaling via I-kappaB phosphorylation, IL-1 production, and robust chemotaxis by macrophages, neutrophils, and lymphocytes, plus antibacterial humoral response. Together these indicate a coordinated inflammatory response with immune cell recruitment.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006953","count":3},{"id":"GO:0007252","count":2},{"id":"GO:0050716","count":2},{"id":"GO:0048246","count":2},{"id":"GO:0007204","count":2}]},{"hash":"1283019409447584249","title":"Chitin metabolism and cell wall remodeling","description":"This cluster is dominated by GO terms related to chitin metabolism (chitin catabolic process, cellular response to chitin) and cell wall dynamics (cell wall macromolecule catabolic process, cell wall organization). Together they point to remodeling or turnover of the cell wall, likely in a chitin-rich context such as fungi, with supporting signals of cytoskeletal regulation (regulation of cell shape, positive regulation of GTPase activity) that accompany such remodeling. Some oxidative stress\u2013related terms appear as ancillary stress-response associations. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071919","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071323","count":1},{"id":"GO:0008360","count":1},{"id":"GO:1902083","count":1}]},{"hash":"1212742500789428404","title":"Neurodevelopmental Signaling and Axon Guidance","description":"The Top Terms emphasize nervous system and kidney development, Hedgehog (Smoothened) signaling, Robo (Roundabout) axon guidance, ERK cascade regulation, and calcium-dependent exocytosis\u2014all pointing to coordinated developmental signaling, especially in neural development and axon guidance. While some terms touch other processes, the central theme is signaling networks guiding development and neural connectivity.","confidence":"Medium","size":9,"edges":23,"triangles":22,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0007224","count":8},{"id":"GO:0045956","count":7},{"id":"GO:0070374","count":7}]},{"hash":"1917818726556044859","title":"GTPase-driven actin remodeling","description":"This cluster centers on small GTPase signaling (Ras-related) and cytoskeletal dynamics, with terms for lamellipodium and microspike assembly, as well as negative regulation of Ras and membrane tubulation. Together these suggest coordinated actin remodeling and cell motility governed by GTPase pathways, with additional signaling context from growth factors and cytokines that can modulate these processes. Overall, the common theme is cytoskeleton rearrangement controlled by GTPase signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":6},{"id":"GO:1903526","count":6},{"id":"GO:0048009","count":6},{"id":"GO:0032633","count":6},{"id":"GO:0007375","count":6}]},{"hash":"503588247164944091","title":"Neural development and axon growth with ER-stress-induced apoptosis","description":"The terms cluster around nervous system development and forebrain development, with emphasis on axon extension, and include apoptosis and ER-stress\u2013related signaling, plus phosphorylation regulation. This points to a coherent theme of neural development and axon growth that can be shaped by stress-induced apoptotic pathways, with some ancillary roles in angiogenesis and immune defense.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0045773","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0006915","count":5}]},{"hash":"1506929068690097667","title":"Ribosome biogenesis and cell cycle","description":"The cluster is enriched with ribosome-related terms (ribosome biogenesis, cytoplasmic translation, ribosomal large subunit export from nucleus, tRNA modification) and cell division/ cell cycle terms (cell division, cell cycle, cell septum assembly), pointing to a cohesive role in ribosome production and protein synthesis linked to cell growth and division. Stress-response terms appear minor in comparison.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:1901001","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0090529","count":3}]},{"hash":"2005935088354666129","title":"Neuronal vesicle trafficking and SNARE-mediated exocytosis","description":"The cluster is dominated by GO terms for vesicle transport between ER and Golgi, Golgi organization (ribbon formation and disassembly), SNARE complex assembly, and exocytic insertion of neurotransmitter receptors, all central to synaptic vesicle trafficking and postsynaptic receptor regulation, which underpins long-term potentiation. A minor outlier is cornified envelope assembly, but the overall signature points to neuronal secretory pathways and receptor trafficking governing synaptic strength.","confidence":"High","size":9,"edges":25,"triangles":36,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060291","count":9},{"id":"GO:0048280","count":9},{"id":"GO:0090161","count":9},{"id":"GO:0098967","count":9},{"id":"GO:0006888","count":9}]},{"hash":"205893976183565410","title":"Multi-tissue development and cell fate specification","description":"The GO terms span development across neural and non-neural tissues (neuronal differentiation, oligodendrocyte fate, pancreas development, prostate development, gonad development) and include transcription by RNA polymerase II, indicating a broad program of developmental differentiation and lineage specification rather than a single tissue-specific function. Confidence: Medium","confidence":"","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0060435","count":4},{"id":"GO:0021892","count":4},{"id":"GO:0021530","count":4},{"id":"GO:0021983","count":4}]},{"hash":"112742349260485355","title":"Immune activation and developmental signaling","description":"This cluster is dominated by immune-related terms (positive regulation of membrane attack complex activation, regulation of integrin activation, positive regulation of platelet activation, complement receptor signaling) as well as signals connected to vascular and neural development (cell migration in sprouting angiogenesis, cerebellar Purkinje cell layer development, in utero embryonic development) and neural-related behavior (vocalization). The proteins likely participate in immune activation pathways with concurrent roles in developmental signaling affecting neurovascular development, hence a label emphasizing both immune activation and development. ","confidence":"Medium","size":9,"edges":30,"triangles":51,"max_degree":8,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":8},{"id":"GO:0033623","count":7},{"id":"GO:0090050","count":7},{"id":"GO:0010572","count":7},{"id":"GO:0021680","count":7}]},{"hash":"412813869723435938","title":"Actin Cytoskeleton Remodeling in Muscle and Neurons","description":"The GO terms cluster around actin cytoskeleton organization and remodeling, including postsynaptic actin, cortical patch assembly, and skeletal muscle fiber development/adaptation; calcium response and platelet-related terms further reflect cytoskeletal dynamics across tissues, supporting a common theme of actin remodeling.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043983","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0000147","count":5},{"id":"GO:0043981","count":5}]},{"hash":"1355549141789205481","title":"Fungal Mating and Cell Wall Synthesis","description":"This cluster centers on fungal-specific functions, notably karyogamy (mating) and beta-glucan\u2013dependent cell wall biosynthesis, with supporting cellular processes like DNA replication and protein targeting to membranes. The combination suggests a theme of fungal growth, mating, and cell wall construction, even though some terms reflect general cellular maintenance. ","confidence":"Medium","size":9,"edges":12,"triangles":10,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0070880","count":5},{"id":"GO:0090084","count":5}]},{"hash":"51725715345727891","title":"Ubiquitination and Proteasome Regulation","description":"This cluster shows strong signals for ubiquitination (including K63-linked) and polyubiquitination, plus neddylation, all linked to proteasomal degradation and chromatin regulation (histone ubiquitination). Additional terms touch on cell-cycle processes (mitotic spindle elongation) and stress-induced apoptosis, which can be connected to ubiquitin signaling. Some terms relate to development or immune signaling, likely annotation noise, but the core pattern points to ubiquitin- and proteasome-mediated protein regulation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0071894","count":9},{"id":"GO:0070059","count":9},{"id":"GO:0001701","count":9},{"id":"GO:1901044","count":9},{"id":"GO:0045116","count":9}]},{"hash":"114073674085117568","title":"Unknown","description":"The top GO terms span ion transport, neural and cardiac development, stress and signaling responses, and even gravity/plant-related traits, with no single coherent biological theme tying them together. The lack of shared processes across terms suggests the cluster does not represent a specific, interpretable function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006813","count":9},{"id":"GO:0090403","count":8},{"id":"GO:1904948","count":8},{"id":"GO:0003151","count":8},{"id":"GO:0098912","count":8}]},{"hash":"1100931899253061358","title":"Biogenic amine signaling and visceral regulation","description":"This cluster centers on actions of biogenic amines (dopamine, norepinephrine/epinephrine, histamine, octopamine) in governing autonomic and endocrine control of organ systems\u2014urine volume, gastric secretion, peristalsis, and vascular tone\u2014along with circadian regulation of physiology. While a few terms touch on immune and reproductive processes, the strongest signal is neuroendocrine signaling modulating visceral functions.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":8},{"id":"GO:0022410","count":8},{"id":"GO:0001697","count":8},{"id":"GO:0030432","count":8},{"id":"GO:0007211","count":8}]},{"hash":"1039596941801388585","title":"TLR/NLRP3-driven innate immune signaling","description":"Most terms cluster around innate immune recognition of bacterial components: detection of lipopolysaccharide, cellular responses to lipopolysaccharide, and MyD88-dependent Toll-like receptor signaling, together with positive regulation of the NLRP3 inflammasome. While there are a couple of terms related to kidney development and collagen organization that could reflect annotation noise or multi-function proteins, the dominant theme is LPS/TLR sensing and inflammasome activation in defense against bacteria.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0032497","count":2},{"id":"GO:0072287","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0030199","count":2}]},{"hash":"2099863842443385652","title":"Unknown","description":"The Top Terms span kidney development, calcium signaling/cardiac hypertrophy, lipoprotein and lipid metabolism, and cell-matrix adhesion, with no single clear theme linking all terms. This scattered mix suggests the cluster does not represent a cohesive, specific function.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060315","count":2},{"id":"GO:0035502","count":2},{"id":"GO:0072205","count":2},{"id":"GO:0042994","count":2},{"id":"GO:1903244","count":2}]},{"hash":"2115492236374315663","title":"Neuronal Development and Microtubule Regulation","description":"These GO terms cluster around neuronal development and cytoskeleton dynamics, including neuron and dentate gyrus development, thigmotaxis, regulation of microtubule organization, and alpha-tubulin acetylation. Also present are signaling-related terms (GTPase activation, integrin activation, cAMP signaling) linked to neurite outgrowth and neuronal maturation. Together, they point to a group of proteins involved in neuronal differentiation and cytoskeletal remodeling.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0043950","count":2},{"id":"GO:0033625","count":2},{"id":"GO:0071929","count":2}]},{"hash":"159822900687654334","title":"Small GTPase signaling and immune regulation","description":"This cluster centers on signaling pathways governed by small GTPases (Ras, Rho) and their downstream effectors, including integrin signaling and cytoskeletal remodeling (stress fibers). The presence of terms for negative regulation of Ras and T cell receptor signaling, alongside immune-related cues (IL-4 production, IL-7 response) and growth signaling (IGF receptor), suggests a cohesive theme of GTPase-driven signaling with immune and growth regulatory roles.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046580","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0007229","count":7},{"id":"GO:0007264","count":6},{"id":"GO:0050860","count":6}]},{"hash":"856376028515194552","title":"Immune signaling and cytoskeletal remodeling","description":"Based on the top GO terms, the proteins are enriched for B cell receptor signaling, innate and adaptive immune responses, and T cell\u2013related activation (e.g., activated T cell proliferation, JUN phosphorylation). Also, several terms point to membrane remodeling and actin dynamics (lamellipodium assembly, plasma membrane tubulation), suggesting these proteins participate in immune cell activation and cytoskeletal reorganization during immune responses. The combination of receptor signaling and cytoskeletal changes supports a cohesive theme of immune signaling coupled with actin remodeling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0002250","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0097320","count":3}]},{"hash":"813666983668549530","title":"B cell activation and innate immune response","description":"This cluster is dominated by terms for B cell activation, B cell receptor signaling, and classical complement activation, plus innate immune processes like phagocytosis. Together they imply proteins function in adaptive immune activation with concurrent innate defense, centering on B-cell\u2013related immunity, with a few terms suggesting broader immune interactions.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050871","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0006911","count":7}]},{"hash":"2260067600119996313","title":"Wnt signaling in embryonic development","description":"The cluster centers on embryonic development and tissue growth, with terms for forebrain development, neural tube closure, and male gonad development, plus positive regulation of canonical Wnt signaling. The presence of small GTPase\u2013mediated signaling and broader growth/homeostasis terms supports a cohesive theme of developmental signaling and morphogenesis regulated by Wnt pathways.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0048873","count":3},{"id":"GO:0045671","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0001843","count":3}]},{"hash":"171737347747390688","title":"Protein folding and secretion with host interaction","description":"The cluster is driven by protein processing terms: protein folding (GO:0006457), peptidyl-prolyl isomerization (GO:0000413), and positive regulation of protein secretion (GO:0050714). There are also hints of interactions with host or symbiont contexts (viral release GO:0019076; symbiont entry into host GO:0030260). While some terms (e.g., sepal formation, lipid droplet organization) are unrelated noise, the strongest common theme ties to protein maturation and trafficking, potentially linked to host-associated processes.","confidence":"Medium","size":9,"edges":15,"triangles":11,"max_degree":7,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":6},{"id":"GO:0050714","count":5},{"id":"GO:0000413","count":5},{"id":"GO:2000276","count":5},{"id":"GO:0019076","count":5}]},{"hash":"717697715134515597","title":"Spliceosome and mRNA Processing","description":"Most terms point to mRNA splicing via spliceosome and related RNA processing steps (splice-site recognition, RNA splicing, mRNA export), with some regulation of splicing terms. A few entries relate to viral translation initiation, but these likely reflect broader RNA processing links rather than a separate pathway. Thus the cluster appears to represent components of the splicing machinery and associated mRNA processing factors.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0048026","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"1977062493355411093","title":"Calcium signaling in development and muscle","description":"The set includes GO terms centered on calcium regulation (mitochondrial Ca2+ concentration, ryanodine receptor channel activity, calcineurin-NFAT signaling), muscle contraction (diaphragm contraction), actin cytoskeleton remodeling (actin crosslink formation), and developmental processes (EMT, neural crest formation). This points to a cohesive theme of calcium-dependent signaling guiding muscle function and developmental transitions, hence the chosen label.","confidence":"High","size":9,"edges":10,"triangles":2,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":4},{"id":"GO:0009738","count":3},{"id":"GO:0051764","count":3},{"id":"GO:0014029","count":3},{"id":"GO:0051561","count":3}]},{"hash":"1433122539667557783","title":"Histone modification and chromatin organization","description":"Top GO terms are dominated by chromatin-related processes: histone methylation (H3K4, H3K27), nucleosome assembly, and heterochromatin organization. Additional terms bring in protein localization to chromatin and nuclear processes, supporting a coherent chromatin-modifying/regulatory cluster. The strong connectivity among these proteins further supports this functional grouping.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":8},{"id":"GO:0097298","count":8},{"id":"GO:0080182","count":8},{"id":"GO:0098532","count":8},{"id":"GO:0006334","count":8}]},{"hash":"808427458192005527","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0061621","count":2},{"id":"GO:0006002","count":2},{"id":"GO:0005980","count":2},{"id":"GO:0093001","count":2}]},{"hash":"554513606235284459","title":"ER-Golgi trafficking and cytokinesis factors","description":"The top GO terms point to secretory pathway activities (ER membrane fusion, Golgi retention) and cell division/cytokinesis (cell division, cell septum assembly). Additional terms about ribosome export and tRNA modification suggest general cellular machinery, but the recurring themes center on intracellular trafficking through the ER-Golgi system and division-related processes. This combination best fits a high-level label capturing both trafficking and cytokinesis roles.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0016320","count":3},{"id":"GO:0045053","count":3},{"id":"GO:0000747","count":3}]},{"hash":"272526754308936391","title":"Diverse Biosynthesis","description":"This cluster shows enrichment for various biosynthetic and metabolic processes\u2014poly-hydroxybutyrate, very long-chain fatty acids, melanin, retinal metabolism, estrogen biosynthesis, and tetrahydrobiopterin biosynthesis\u2014plus developmental and response terms. The terms cover multiple distinct biosynthetic pathways with no single shared function, suggesting the proteins contribute to several separate biosynthetic activities rather than one cohesive pathway. Therefore, a concise label like \u201cDiverse Biosynthesis\u201d fits these proteins.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042619","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0031427","count":2},{"id":"GO:0006703","count":2},{"id":"GO:0006729","count":2}]},{"hash":"1403031644990764997","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071318","count":3},{"id":"GO:0051968","count":3},{"id":"GO:0046050","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0031247","count":2}]},{"hash":"251533957962433867","title":"Developmental Differentiation and Gene Regulation","description":"The top GO terms cluster around multicellular development and tissue-specific differentiation (pancreatic, lens, gonad) along with core gene expression processes (DNA-templated transcription, RNA modification). While some terms are general cellular processes (cell division, ERAD), the prominent emphasis on developmental differentiation supports a label that captures both development and transcriptional regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0070059","count":3}]},{"hash":"955483446784504553","title":"Folate One-Carbon Metabolism and Redox Homeostasis","description":"This cluster is dominated by GO terms tied to folate-dependent one-carbon metabolism (tetrahydrofolate interconversion; 10-formyltetrahydrofolate biosynthesis; purine nucleobase biosynthesis) and redox/homeostatic processes (glutathione metabolism; cellular redox homeostasis; oxidant detoxification), suggesting a cohesive role in C1 metabolism and maintenance of cellular redox state.","confidence":"High","size":9,"edges":13,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009113","count":3},{"id":"GO:0035999","count":3},{"id":"GO:0030416","count":2},{"id":"GO:0045454","count":2}]},{"hash":"2094127185313538803","title":"T Cell Activation and ER Protein Trafficking","description":"The cluster centers on immune-related processes in T cells (T cell cytokine production, T cell apoptotic process, innate immune response-activating signaling pathway) together with protein handling in the ER (protein retention in ER lumen, protein transport). Although dopamine catabolic process appears, the dominant terms point to a coordinated immune activation state with ER-associated protein trafficking, suggesting a functional module of T cell signaling coupled to the secretory pathway. A few terms are obsolete, which may reflect annotation noise, but the core theme remains coherent.","confidence":"Medium","size":9,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042420","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0070231","count":2}]},{"hash":"1043027507472699272","title":"Unknown","description":"The top GO terms span diverse processes\u2014ubiquitin-dependent proteolysis, actin crosslinking and terminal web assembly, muscle development and axonogenesis, ascospore formation, karyogamy, NF-kappaB signaling, and dosage compensation\u2014across different organisms. There is no single cohesive function linking these terms, suggesting the cluster is functionally heterogeneous or annotation noise. ","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051764","count":2},{"id":"GO:1902896","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0006469","count":2}]},{"hash":"946633662652033888","title":"Ubiquitin-Dependent Protein Degradation","description":"The strongest shared function among the proteins is ubiquitination and ubiquitin-dependent proteolysis, as indicated by GO:0016567, GO:0051865, and GO:0042787. Peripheral terms like vitamin D response and signaling regulation may reflect broader regulatory roles, but the core theme is ubiquitin tagging leading to protein degradation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0033280","count":5},{"id":"GO:0039536","count":5}]},{"hash":"558262474953283941","title":"Innate immunity and ubiquitination","description":"The top terms cluster around innate immune defense and antiviral response (defense response to virus, innate immune response) and protein ubiquitination, which often regulate immune signaling and vesicle trafficking. While a few terms relate to neuronal development or other processes, the dominant signal ties to innate immunity and ubiquitination, suggesting this cluster reflects immune regulation rather than development. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045087","count":2},{"id":"GO:1904948","count":1}]},{"hash":"1788945568911369426","title":"Craniofacial and neural crest development","description":"The terms cluster around craniofacial morphogenesis (roof of mouth development), neural crest formation, pharyngeal system development, and related neural patterning (dorsal spinal cord development), with transcriptional regulation by RNA polymerase II. This suggests a coherent program governing craniofacial/neuronal crest\u2013driven development via transcriptional control.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0021983","count":5},{"id":"GO:0021882","count":5},{"id":"GO:0006366","count":5},{"id":"GO:0000122","count":5}]},{"hash":"1005199026276631251","title":"Unknown","description":"The terms include immune signaling (B cell receptor signaling; activated T cell proliferation), responses to multiple stimuli (nitric oxide; prostaglandin E; VEGF), and development processes (neuron and skeletal muscle development), plus transcription factor phosphorylation (JUN). These represent diverse, non-overlapping functions rather than a single shared role, so a precise, representative label cannot be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0071732","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0010765","count":3}]},{"hash":"145767193676065897","title":"DNA replication and ubiquitin-mediated proteolysis","description":"This cluster centers on core replication processes (DNA replication and initiation) paired with protein turnover via the ubiquitin-proteasome system, indicating coordination of replication with regulated proteolysis. Some development-related terms appear as noise/outliers, but the dominant signal ties replication to proteostasis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043248","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0000727","count":2},{"id":"GO:0032508","count":2}]},{"hash":"2115565256475739449","title":"Tissue Development and Differentiation","description":"The top GO terms point to development and differentiation across multiple tissues (cartilage, pituitary, midbrain dopaminergic neurons, cerebellar Purkinje cells, nephron tubule cells, cardiac muscle) plus related processes like cell-cell junction organization and differentiation signaling. This suggests a general pattern of developmental programs rather than a single pathway or tissue, so a broad label like tissue development and differentiation fits well.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":4},{"id":"GO:0021983","count":4},{"id":"GO:2000346","count":4},{"id":"GO:1904948","count":4},{"id":"GO:0048317","count":4}]},{"hash":"2155442900563182527","title":"Neural development and sensory signaling","description":"This cluster centers on terms related to neuronal axon guidance (dopaminergic neuron axon guidance; planar cell polarity pathway involved in axon guidance), synaptic organization (regulation of PSD95 clustering), and sensory structures (inner ear stereocilium organization; locomotory behavior linked to neural control). Additional terms touch on signaling pathways (STAT phosphorylation; lipoprotein signaling) that commonly intersect neural/sensory development. Despite a few terms outside the nervous system (e.g., nephron differentiation, follicle cell microvilli), the dominant pattern points to neural development and sensory signaling roles.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055096","count":9},{"id":"GO:0072307","count":9},{"id":"GO:0048023","count":9},{"id":"GO:0007626","count":9},{"id":"GO:1904938","count":9}]},{"hash":"353819991454277235","title":"Unknown","description":"The terms cover a wide range including lipid signaling, nephron/epithelial differentiation, melanin production, locomotion, planar polarity in axon guidance, PSD-95 clustering, dopaminergic axon guidance, microvillus length, STAT phosphorylation, and stereocilium organization\u2014scattered across neuronal, sensory, and epithelial processes with no clear, single theme. The lack of edges among members supports a non-cohesive cluster, so I label it Unknown with None confidence. ","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055096","count":9},{"id":"GO:0072307","count":9},{"id":"GO:0048023","count":9},{"id":"GO:0007626","count":9},{"id":"GO:1904938","count":9}]},{"hash":"1285311071781045504","title":"Morphogenesis and cell migration regulators","description":"The prominent GO terms are morphogenesis across tissues (face morphogenesis, cardiac atrium morphogenesis, midbrain morphogenesis) and regulation of Rho signaling and cell migration, suggesting this cluster comprises proteins that modulate tissue shaping and cytoskeletal dynamics. Other terms relate to transcriptional regulation and immune differentiation, which may be secondary roles or shared regulatory functions, but the strongest signal is developmentally related morphogenesis.","confidence":"High","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0060325","count":3},{"id":"GO:0014911","count":3},{"id":"GO:0060335","count":3}]},{"hash":"2169517487665278869","title":"Glycosaminoglycan biosynthesis and protein sulfation","description":"The dominant GO terms cluster around glycosaminoglycan/proteoglycan biosynthesis (chondroitin sulfate, heparin, keratan sulfate) and tyrosine sulfation of proteins, suggesting a functional unit focused on sulfation modifications and proteoglycan assembly; other terms are less representative.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006015","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0006068","count":2},{"id":"GO:0006477","count":2},{"id":"GO:0030206","count":2}]},{"hash":"784358576124015473","title":"Unknown","description":"The top GO terms cover chromatin regulation, protein ubiquitination, cytoskeletal modification, reproductive development, host\u2013virus interaction, and metabolic signaling, with no single coherent function tying the proteins together. This dispersion suggests no clear shared theme during clustering, so the label Unknown is appropriate.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1905524","count":2},{"id":"GO:0001207","count":2},{"id":"GO:0090043","count":2},{"id":"GO:0031496","count":2},{"id":"GO:1903709","count":2}]},{"hash":"1757026160040711776","title":"Cytoskeleton Remodeling and Cell Polarity","description":"The terms point to actin organization and movement, including actin filament bundle assembly, cell migration, and response to mechanical stimuli, plus establishment of epithelial cell polarity. These strongly indicate a shared role in cytoskeletal dynamics and tissue architecture, with other terms like ubiquitination or telomere maintenance likely representing ancillary or broader annotations.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":8},{"id":"GO:1904355","count":8},{"id":"GO:0090162","count":8},{"id":"GO:0032212","count":8},{"id":"GO:0071260","count":8}]},{"hash":"1831517888548848926","title":"RNA Processing and Translation Initiation","description":"The top GO terms point to RNA metabolism and gene expression control, with multiple entries on mRNA splicing regulation (positive/negative), splice site recognition, and mRNA export, plus translation initiation components (eIF4F complex assembly and IRES-dependent viral translation). This suggests a cohesive cluster centered on RNA processing and regulation of translation, with a few broader context terms (megagametogenesis, viral translation) that do not override the main theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009561","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0097010","count":1}]},{"hash":"262604849872159595","title":"Erythrocyte maturation and blood coagulation","description":"The top GO terms cluster around red blood cell development (enucleate erythrocyte differentiation, erythrocyte maturation) and coagulation/platelet aggregation, suggesting a hematopoietic/hemostatic function. Oxidative stress responses (hydrogen peroxide) also appear, which commonly accompany blood-related processes; a couple of terms (muscle contraction, endocytosis) are less central to the core theme but do not override the hematopoietic/coagulation signal.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031444","count":1},{"id":"GO:0070527","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0043353","count":1},{"id":"GO:0042542","count":1}]},{"hash":"1530268483101250526","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"This cluster is dominated by actin-related processes (crosslinking, filament bundling, barbed-end capping, polymerization-dependent motility) and includes regulators of ruffle formation and cell spreading, plus small GTPase signaling and JUN phosphorylation. Together these terms point to a cohesive module of actin cytoskeleton remodeling driving cell movement and adhesion.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051764","count":8},{"id":"GO:1900029","count":8},{"id":"GO:0051016","count":8},{"id":"GO:0007258","count":8},{"id":"GO:0051017","count":8}]},{"hash":"2291124403862721394","title":"Embryonic Development and Morphogenesis","description":"These terms cluster around broad developmental and morphogenetic processes across multiple tissues (craniofacial skeletal morphogenesis, skeletal system development, endoderm differentiation, organogenesis such as ureteric bud branching, thyroid cell differentiation, gonad development, wound healing). The common theme is embryonic development and formation of various tissues and organs, rather than a single specific function.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0060045","count":4},{"id":"GO:0001658","count":4}]},{"hash":"118301248426981339","title":"Multitissue Development and Organogenesis","description":"These GO terms cluster around development and organ formation across multiple tissues, including neural development (telencephalon development, oligodendrocyte differentiation, synaptic potentiation), craniofacial and nail development, trophoblast migration, cardiac function, and maintenance of organ identity. This suggests a broad developmental theme rather than a single specific pathway, so the label \u201cMultitissue Development and Organogenesis\u201d captures the shared concept. Some terms are general but still fit within the overarching theme.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061450","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0021537","count":1},{"id":"GO:0048496","count":1},{"id":"GO:0007154","count":1}]},{"hash":"353296225936888916","title":"Ubiquitin-dependent protein degradation","description":"This cluster centers on ubiquitination processes (autoubiquitination, K63-linked, monoubiquitination) and ubiquitin\u2011dependent protein catabolic processes, including ERAD, indicating proteins that tag substrates for degradation or regulate signaling via ubiquitin. Some immune signaling terms appear as secondary associations, but the core theme is the ubiquitin-proteasome pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0045087","count":3}]},{"hash":"1693045720237582938","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune differentiation (macrophage foam cells, follicular dendritic cells), chloroplast thylakoid protein import (plants), epithelial polarity, hepatocyte apoptosis, vitamin D response, multicellular organismal processes, cardiac cell communication, chromosome telomere localization, and an obsolete RNA hydrolysis term. With no clear shared function or pathway and no edges among proteins, there isn\u2019t a coherent theme to label; thus Unknown with no confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":3},{"id":"GO:0045038","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1209237653575688811","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0071763","count":1},{"id":"GO:0007029","count":1},{"id":"GO:0090435","count":1},{"id":"GO:0090084","count":1}]},{"hash":"1945213348588229445","title":"Autonomic and Neuroendocrine Signaling","description":"The cluster's GO terms point to broad regulation of physiology through neural and hormonal signaling\u2014circadian rhythms, urinary volume, gastric secretion, peristalsis, and vascular tone via catecholamines, plus dopamine receptor signaling. Immunological and skeletal remodeling terms suggest systemic endocrine cues influencing multiple tissues, supporting a theme of autonomic/neuroendocrine control of body functions.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":5},{"id":"GO:0022410","count":5},{"id":"GO:0001697","count":5},{"id":"GO:0030432","count":5},{"id":"GO:0007211","count":5}]},{"hash":"1642775229765649336","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues\u2014endocardial cushion formation, hair follicle morphogenesis, cartilage morphogenesis, roof of the mouth, placenta-related differentiation, and patterning\u2014pointing to embryogenesis and organ morphogenesis as the shared theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060707","count":4}]},{"hash":"626331115025065191","title":"Zinc homeostasis and antibacterial defense","description":"This cluster is dominated by terms related to zinc ion transport and intracellular zinc homeostasis (zinc import across membranes, detoxification, and homeostasis), with additional signals of antibacterial humoral defense against bacteria. The presence of limb development is likely noise, so the core theme appears to be zinc management with a possible ancillary antimicrobial function.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019731","count":3},{"id":"GO:0050830","count":2},{"id":"GO:0060173","count":1},{"id":"GO:0006830","count":1},{"id":"GO:0044749","count":1}]},{"hash":"2062052672245216995","title":"Cell Cycle and Development with Ubiquitin Regulation","description":"This cluster centers on core cellular and developmental processes: cell division and multicellular development, plus ubiquitin-mediated regulation (polyubiquitination and ERAD), with links to transcription and stress-induced apoptosis. The presence of skin development and ER stress\u2013related terms suggests both tissue-specific growth programs and proteostasis/quality control pathways are represented, indicating a broad but coherent theme around growth, division, and protein regulation. Overall, a moderate level of coherence supports the name, though some terms reflect broader cellular regulation rather than a single pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":4}]},{"hash":"480997660361435619","title":"Transcriptional Regulation and Ubiquitination (Bacteria)","description":"The dominant GO terms center on transcriptional activity (DNA-templated transcription, regulation of transcription) and protein ubiquitination, suggesting a cluster of proteins involved in controlling gene expression and ubiquitin-related processes in bacteria. Other terms related to fatty acid and siderophore biosynthesis appear less consistently, indicating metabolic connections rather than core function. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000083","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0009239","count":1}]},{"hash":"1948713682979474704","title":"Neuronal and Cardiac Development with Exocytosis","description":"The top terms cluster around nervous system and heart development (brain development, nervous system development, heart development) and vesicle-related processes (vesicle fusion, calcium-dependent exocytosis), with a theme of Rho GTPase signaling and regulation of GTPase activity, suggesting coordinated development and secretion dynamics in neural and cardiac contexts. Some terms appear as outliers (plant hormone signaling, pseudohyphal growth), but the dominant signal supports a developmental/vesicle-exocytosis theme.","confidence":"Medium","size":8,"edges":19,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0009789","count":6},{"id":"GO:0006906","count":6}]},{"hash":"707025696310065802","title":"Immune and developmental signaling","description":"This cluster centers on multiple signaling pathways across immunity and development, including T cell receptor signaling, ephrin and Wnt signaling, Hippo signaling, and innate immune responses, plus retinoic acid\u2013mediated cellular responses. The terms do not converge on a single pathway, but collectively point to diverse but related signal transduction roles in immune function and development.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0050852","count":3}]},{"hash":"522281930446693420","title":"Mitosis and actin cytoskeleton remodeling","description":"The terms are dominated by mitotic processes (mitotic spindle assembly; mitotic contractile ring actin filament bundle assembly) and actin dynamics (actin filament depolymerization; actin crosslink formation), indicating a cohesive theme of cytoskeletal remodeling during cell division. Additional terms on cilium assembly and embryonic development suggest broader cytoskeletal roles in development. Overall, the cluster appears to group proteins involved in actin-based structural organization during mitosis and related processes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006351","count":2}]},{"hash":"826028272310935334","title":"Ribosome Biogenesis and rRNA Maturation","description":"The cluster\u2019s top GO terms are centered on ribosomal RNA maturation (SSU and LSU) and ribosomal large subunit biogenesis, including 5.8S and related rRNA maturation processes, which together point to a shared role in ribosome assembly. While a few terms (microtubule movement, spinal cord development, GTPase regulation, and SREBP signaling) appear in the list, they seem unrelated to the dominant ribosome-related signals, suggesting the core function is ribosome biogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007018","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0032933","count":5},{"id":"GO:0000463","count":5}]},{"hash":"829951509209117820","title":"Cell Cycle and Development","description":"The cluster features strong signals for mitosis (sister chromatid cohesion, mitotic cell cycle) and development (multicellular organism and forebrain development), suggesting roles tied to cell division and organismal growth. While there are additional terms related to translation initiation, ER-stress\u2013induced apoptosis, and immune defense, these are less cohesively connected to the core themes, making the dominant pattern around cell-cycle\u2013linked development.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007064","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0006349","count":4}]},{"hash":"308064648335281458","title":"Developmental Signaling and Growth Regulation","description":"The cluster shows a mix of growth, signaling, and developmental terms\u2014cell division and cell cycle hint at proliferation, GPCR signaling and mechanotransduction signal transduction, neuron maturation and GABAergic transmission point to neural development, while kidney size regulation and mitochondrial fission relate to organ growth and energy dynamics. Put together, the common thread is broad developmental signaling guiding growth and differentiation across tissues.","confidence":"Medium","size":8,"edges":11,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007186","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1250256130238251285","title":"Unknown","description":"The top GO terms are highly diverse, including apoptosis regulation, cytoskeletal localization, plant ABA signaling, ER membrane organization, ribosomal transcription, autoprocessing, myoblast fusion, sphingolipid biosynthesis, phagocytic vesicle localization, and T cell proliferation regulation. There is no coherent shared function or pathway linking these proteins, so the cluster is best labeled Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0072699","count":3},{"id":"GO:0009738","count":2},{"id":"GO:0090158","count":2},{"id":"GO:0045943","count":2}]},{"hash":"1734727384504063321","title":"Photoreceptor Cilium Assembly and Cell Cycle","description":"The top GO terms center on photoreceptor biology, especially protein localization to the photoreceptor outer segment and non-motile cilium assembly, pointing to a cilium/retina-focused function. While there are also mitotic cell cycle and cell division terms, which could reflect shared components or annotation overlap with general cell cycle processes, the dominant signal appears to be cilium/outer segment-related activity in photoreceptors. Some stress or immune-related terms seem secondary and less representative of the core function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:1903546","count":3},{"id":"GO:0016570","count":3},{"id":"GO:1905515","count":3}]},{"hash":"369585898296369529","title":"Insulin signaling and cell adhesion dynamics","description":"This cluster centers on insulin receptor and IGF signaling, with accompanying proteins involved in integrin activation, cell spreading, lamellipodium assembly, and clathrin-mediated endocytosis. The presence of mitochondrial fission suggests organelle dynamics linked to signaling. Overall, the common theme is insulin-regulated signaling coordinating cell adhesion and motility.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0043046","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0030259","count":3},{"id":"GO:0000266","count":3}]},{"hash":"1153167613301264166","title":"RNA Pol II Transcription Regulation","description":"Dominant GO terms describe RNA polymerase II transcription processes\u2014elongation, termination, start-site selection, transcription antitermination, and polyadenylation\u2014as well as snoRNA transcription. This points to a cohesive group of proteins involved in transcription regulation and RNA processing, with only two terms representing more distant connections. Therefore, the label \"RNA Pol II Transcription Regulation\" best captures the cluster's function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":2},{"id":"GO:0006368","count":1},{"id":"GO:0030846","count":1},{"id":"GO:1905213","count":1},{"id":"GO:0001174","count":1}]},{"hash":"1271840168997643274","title":"Skeletal and vascular development in embryos","description":"The top GO terms cluster around bone formation (bone mineralization, cartilage condensation) and vascular processes (blood vessel remodeling, sprouting angiogenesis, platelet activation) within developmental contexts (in utero embryonic development, ovulation). This combination points to coordinated skeletogenesis and angiogenesis during embryogenesis and related tissue remodeling, with platelet signaling contributing to vascular changes.","confidence":"High","size":8,"edges":10,"triangles":0,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030282","count":5},{"id":"GO:0014909","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0001974","count":5},{"id":"GO:0030728","count":5}]},{"hash":"1918134452427515748","title":"Glycan and lipid metabolism","description":"The cluster shows multiple GO terms tied to glycan processing (oligosaccharide metabolic process, glycosylceramide metabolic process, protein sialylation) and lipid biosynthesis/processing (leukotriene D4 biosynthetic process), with some representation of glutathione metabolism. While a few terms pertain to unrelated development processes, the strongest cohesive signal centers on glycan modification and lipid-related metabolism.","confidence":"Medium","size":8,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006750","count":2},{"id":"GO:1901750","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0006751","count":2},{"id":"GO:0009311","count":2}]},{"hash":"1764475792736052243","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0002128","count":2},{"id":"GO:0039694","count":2}]},{"hash":"1080805540153178562","title":"Mitochondrial respiration and ATP synthesis","description":"This cluster is enriched for mitochondrial energy production processes, including aerobic respiration, the TCA cycle, mitochondrial electron transport (succinate to ubiquinone and cytochrome c to oxygen), proton transmembrane transport, and proton-motive force\u2013driven ATP synthesis. The presence of cytochrome complex assembly and regulation of cytochrome c release reinforces the focus on mitochondrial oxidative phosphorylation.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0006121","count":2},{"id":"GO:0017004","count":2},{"id":"GO:0070475","count":1}]},{"hash":"1015236799144918017","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The cluster is strongly enriched for ubiquitin-related processes: ubiquitin-dependent protein catabolic processes, monoubiquitination, autoubiquitination, and K63-linked ubiquitination, plus proteasome-mediated degradation. These functions tie into cell-cycle regulation and endopeptidase activity, with signaling context from TNF-mediated signaling and JNK cascade regulation. Mitochondrial fission appears, consistent with ubiquitin-regulated mitochondrial dynamics. Together, this points to a proteostasis-centric module with links to stress signaling and cell-cycle control.","confidence":"High","size":8,"edges":20,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0043161","count":3},{"id":"GO:0010950","count":3},{"id":"GO:0007049","count":2}]},{"hash":"945487915186598460","title":"Innate Immune Response and Leukocyte Activation","description":"Several high-frequency GO terms point to an innate immune/inflammatory module: recognition and phagocytosis, cellular response to fungal origin, lectin pathway complement activation, and basophil/platelet activation. A few development-related terms are present but appear less representative of the cluster\u2019s dominant signal. Overall, the cluster most coherently maps to innate immune activation and leukocyte signaling.","confidence":"Medium","size":8,"edges":25,"triangles":39,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":8},{"id":"GO:0090403","count":7},{"id":"GO:0010572","count":7},{"id":"GO:0071226","count":7},{"id":"GO:0001502","count":7}]},{"hash":"1315528643671778599","title":"Flavonoid glycoside biosynthesis and glycosylation","description":"The top terms cluster around the biosynthesis of flavonoid glycosides (kaempferol/quercetin/cyanidin O-glucosides) and various glycosylation-related biosynthetic processes (dolichol-linked oligosaccharide biosynthesis, glycolipid biosynthesis, lipid glycosylation). This suggests a shared function in glycosylation-linked metabolite production. Some terms like cell division or paranode localization are peripheral and not core to this theme, but the dominant signal is flavonoid glycoside biosynthesis and glycosylation.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0033330","count":6},{"id":"GO:0016999","count":6},{"id":"GO:0033303","count":6},{"id":"GO:0009247","count":6},{"id":"GO:0006488","count":6}]},{"hash":"1655117376508545532","title":"Unknown","description":"The top GO terms span stress responses (cadmium, salt), ubiquitin-related regulation, multiple signaling pathways (Wnt/planar cell polarity, Fc-epsilon receptor), viral processes, and cell-cycle aspects, plus plant immune response terms. This broad, heterogeneous collection lacks a single cohesive function linking the proteins, so the cluster is best labeled Unknown.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":1},{"id":"GO:0009651","count":1},{"id":"GO:0016579","count":1},{"id":"GO:0060071","count":1},{"id":"GO:0051436","count":1}]},{"hash":"764612083114390226","title":"mRNA Splicing and Translation Initiation","description":"This cluster centers on mRNA processing and later steps in gene expression. GO terms indicate spliceosome-mediated mRNA splicing (positive and negative regulation, splice site recognition), mRNA export, and assembly/activation of translation initiation machinery (including preinitiation complex formation, IRES-driven initiation, and eIF4F complex assembly). The combination suggests a link between RNA processing/export and initiation of translation, with some viral translation context represented as well.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0097010","count":5}]},{"hash":"1847241273329998576","title":"RNA transcription termination and RNA processing","description":"The Top Terms converge on RNA polymerase II transcription termination (GO:0006369) and RNA-templated processes, plus related RNA processing activities, suggesting the proteins cluster around transcription termination and RNA maturation. Some terms are obsolete or peripheral (e.g., protein secretion, PPI isomerization), indicating noise, but the core theme is transcription-associated RNA metabolism.","confidence":"Medium","size":8,"edges":20,"triangles":21,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0050714","count":2},{"id":"GO:0000413","count":2}]},{"hash":"1673441895512521026","title":"Ubiquitin-Dependent Control of Cell Cycle and Survival","description":"Top GO terms indicate strong involvement in ubiquitination processes (protein ubiquitination, polyubiquitination) and in negative regulation of apoptosis and transcription, with links to cell cycle regulation and some stem-cell related signaling (intestinal stem cell homeostasis, BMP pathway). This suggests a theme of ubiquitin-mediated regulation of cell fate, survival, and proliferation, though the terms are diverse rather than pointing to one precise pathway.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036335","count":3},{"id":"GO:0048642","count":3},{"id":"GO:0008101","count":3},{"id":"GO:0070236","count":3},{"id":"GO:0016567","count":2}]},{"hash":"218238388114415485","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097428","count":7},{"id":"GO:0051259","count":7},{"id":"GO:0032781","count":7},{"id":"GO:0090084","count":6},{"id":"GO:0031204","count":6}]},{"hash":"559371255339204989","title":"Unknown","description":"The top GO terms span diverse processes (muscle growth, hormone responses, seed dormancy, pronucleus assembly, immune cell chemotaxis, myelin assembly) with no coherent shared function, and the cluster has no edges to link them, making a meaningful, specific label unlikely. Therefore the label is Unknown and the confidence is None.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048633","count":1},{"id":"GO:0046856","count":1},{"id":"GO:0098755","count":1},{"id":"GO:0071391","count":1},{"id":"GO:0046855","count":1}]},{"hash":"213096308667286836","title":"mRNA Splicing and Translation Initiation","description":"This cluster is dominated by GO terms related to post-transcriptional mRNA processing, especially mRNA splicing (spliceosome regulation, splice site recognition) and mRNA export, with additional signals toward polyadenylation regulation. A subset of terms also points to translation initiation (IRES-dependent initiation, eIF4F complex assembly). The strongest, cohesive theme centers on mRNA maturation and processing, with a secondary link to initiation of translation, hence this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0097010","count":4}]},{"hash":"753985056436629781","title":"Actin Cytoskeleton Remodeling and Cell Adhesion","description":"This cluster is dominated by GO terms tied to actin filament organization (crosslink formation, microspike assembly, cortical patch localization) and cell adhesion, plus Rho signaling and polarity processes that drive cell shape and movement. PDGF receptor signaling and ubiquitination regulation may connect to cytoskeletal dynamics and signaling crosstalk. A few terms (IL-2 production, fear response) are broader associations but do not override the core cytoskeletal theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051764","count":5},{"id":"GO:0030035","count":5},{"id":"GO:0051666","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0035023","count":5}]},{"hash":"1770988070755497278","title":"TGF-beta/BMP signaling regulation","description":"The dominant GO terms point to regulatory roles in TGF-beta and BMP signaling, including cellular response to transforming growth factor beta stimulus and negative regulation of BMP signaling, together with dephosphorylation terms (peptidyl-threonine dephosphorylation, protein dephosphorylation). This suggests the cluster comprises phosphatase-related regulators modulating growth-factor signaling, despite some outlier terms.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0042347","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0080005","count":2}]},{"hash":"2189907628912301519","title":"Epigenetic Regulation of Embryogenesis","description":"Top GO terms indicate chromatin-related processes (nucleosome assembly; histone modifications) and several embryonic development pathways (left/right patterning, endocardial cushion EMT, placental and endocrine development). This suggests proteins that regulate gene expression through epigenetic mechanisms during embryogenesis. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006334","count":4},{"id":"GO:0003198","count":3},{"id":"GO:0044648","count":3},{"id":"GO:0035270","count":3},{"id":"GO:1901674","count":3}]},{"hash":"984822883382637909","title":"Mammary epithelial mitosis and proliferation","description":"This set is dominated by mitotic cell cycle terms (G1/S and G2/M transitions, re-entry into mitosis, spindle separation) and microtubule localization, pointing to cell division dynamics in mammary epithelium. The mammary gland epithelial proliferation term reinforces the tissue context. Some terms (insulin signaling regulation, innate immune response) may reflect broader roles of the proteins, but the core theme is mitosis-driven proliferation in mammary cells.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033598","count":7},{"id":"GO:0000082","count":7},{"id":"GO:0046626","count":7},{"id":"GO:2000775","count":7},{"id":"GO:0000086","count":7}]},{"hash":"921502744055839260","title":"Integrin-mediated cell adhesion and epithelial integrity","description":"This cluster is dominated by GO terms for cell-cell adhesion, integrin-mediated adhesion and signaling, and epithelial maintenance (wound healing, epidermal spreading). While a few terms are less central (nephron development, symbiont entry), the shared theme is adhesion and epithelial tissue remodeling, suggesting a cohesive set of proteins involved in cell adhesion and tissue integrity.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0033631","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0072006","count":3}]},{"hash":"879015819985069609","title":"Paranodal Axon Junction and Adhesion Proteins","description":"The cluster is enriched for GO terms involving localization to paranode/juxtaparanode regions, paranodal junction assembly, and cell\u2013cell adhesion (homophilic/heterophilic), plus axon guidance. This points to a cohesive role in organizing paranodal axon junctions and adhesion between neighboring cells, rather than a single enzymatic function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071205","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0002175","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0007156","count":6}]},{"hash":"1534194698623701122","title":"Morphogenesis and immune signaling","description":"The GO terms point to developmental processes (bone development, axonogenesis, otolith morphogenesis) and vascular patterning (negative regulation of angiogenesis, endothelial migration), alongside immune-related activities (defense responses and cytokine regulation). This combination suggests a cluster of proteins coordinating tissue morphogenesis with immune signaling. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0060348","count":6},{"id":"GO:0019800","count":6},{"id":"GO:0007409","count":6},{"id":"GO:0016525","count":6}]},{"hash":"644282917832630450","title":"Synaptic localization and spine morphogenesis","description":"This cluster is dominated by neuronal synapse-related terms: protein localization to synapse, receptor clustering, and dendritic spine morphogenesis, with Rho protein signaling supporting cytoskeletal remodeling during synaptic development. While other terms (ER stress\u2013induced apoptosis, ionizing radiation response, immune defense) are present, the strongest theme centers on synaptic organization and spine maturation.","confidence":"Medium","size":8,"edges":12,"triangles":7,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0035418","count":8},{"id":"GO:0043113","count":8},{"id":"GO:0007266","count":8},{"id":"GO:0008285","count":7},{"id":"GO:0060997","count":7}]},{"hash":"993158792601395318","title":"Brain Fluid Secretion and Ion Transport","description":"The dominant terms point to membrane transport of ions (chloride, bicarbonate, borate) and fluid movement, including cerebrospinal fluid secretion and brain-related morphogenesis, suggesting a shared role in brain fluid homeostasis; one term about trophoblast differentiation is likely irrelevant noise.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:1902476","count":1},{"id":"GO:0010036","count":1},{"id":"GO:0033326","count":1},{"id":"GO:0015701","count":1}]},{"hash":"1732780671227390609","title":"Hair Keratinization and Hair Cycle","description":"The top terms are keratinization and hair cycle, indicating the proteins are involved in hair follicle biology and keratinocyte differentiation, consistent with keratin production and hair follicle cycling.","confidence":"High","size":8,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":8},{"id":"GO:0042633","count":8}]},{"hash":"1999223598724035322","title":"Flavonoid Glycoside Biosynthesis","description":"The dominant GO terms are for biosynthesis of flavonoid glycosides (anthocyanin, kaempferol, quercetin, cyanidin glucosides) plus related glycosylation processes, indicating glycosyltransferases acting on flavonoids and broader glycosylation pathways.","confidence":"High","size":8,"edges":18,"triangles":15,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":6},{"id":"GO:0033330","count":5},{"id":"GO:0016999","count":5},{"id":"GO:0033303","count":5},{"id":"GO:0009247","count":5}]},{"hash":"288618654097052510","title":"B cell signaling and immune responses","description":"The top GO terms point to immune-related functions, especially B cell receptor signaling, adaptive and innate immune responses, and related signaling regulation (tyrosine phosphorylation). Additional terms for ubiquitin-dependent protein turnover, apoptosis, and cytoskeletal dynamics (actin capping) suggest this cluster centers on immune signaling with overlapping roles in protein turnover and cell architecture, consistent with B cell\u2013associated pathways. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0002250","count":2},{"id":"GO:0000747","count":2}]},{"hash":"2182331052527010911","title":"Embryogenesis and organ patterning","description":"The top GO terms point to diverse developmental and organogenesis processes across tissues (left/right patterning, midbrain development, cartilage morphogenesis, pancreas and endocrine system development, placenta/trophoblast differentiation, endocardial cushion EMT), with a general regulatory transcriptional component, indicating a coherent theme of embryonic development and patterning.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0035264","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4}]},{"hash":"733991552261164377","title":"Sperm Capacitation and Ion Transport","description":"The dominant terms point to sperm development and function, including spermatid differentiation, capacitation, and ion/solute transport (bicarbonate, chloride, oxalate, and pH/membrane potential regulation), which together underpin sperm maturation and motility. A couple of terms (transcription regulation and sensory perception of sound) are less directly linked but may reflect broader testis-specific regulation and annotations.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007289","count":3},{"id":"GO:1902476","count":2},{"id":"GO:0051454","count":2},{"id":"GO:0089712","count":2}]},{"hash":"111885512772742617","title":"Developmental cell fate specification and differentiation","description":"The GO terms cluster around tissue- and organ-level development (wing and eye cell fate specification, face development, spermatid differentiation) and related signaling (EGFR ligand maturation). Additional terms related to protein quality control (unfolded protein response) and ER-to-cytosol proteolysis may accompany developmental remodeling. Together these suggest a cohesive theme of development and cellular differentiation rather than a single enzymatic function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032815","count":2},{"id":"GO:1904211","count":2},{"id":"GO:0035311","count":2},{"id":"GO:0048515","count":2},{"id":"GO:0038005","count":2}]},{"hash":"82413325059858604","title":"Prostaglandin-Driven Angiogenesis and Muscle Development","description":"This cluster centers on prostaglandin biosynthesis/signaling, with strong representation of angiogenesis, endothelial/muscle differentiation, and vasodilation (endothelial and myotube development, muscle fiber formation). Lipid metabolism and oxidative stress terms are present but secondary, supporting a prostaglandin-vascular-muscle theme.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042311","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0048741","count":1},{"id":"GO:0010332","count":1}]},{"hash":"887393211512749008","title":"Unknown","description":"The GO terms are highly diverse, spanning immune defense, nuclear protein export, ER-stress\u2013triggered apoptosis, lipid biosynthesis, DNA methylation\u2013mediated gene regulation, neuronal development, axon fasciculation, and integrin-mediated adhesion. Because there isn't a single, coherent biological theme connecting most of these terms, there is no clear functional label for this cluster beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":8},{"id":"GO:0006611","count":8},{"id":"GO:0070059","count":8},{"id":"GO:0090153","count":8},{"id":"GO:0071479","count":8}]},{"hash":"555741038886922293","title":"Unknown","description":"The top GO terms draw from contradictory domains: developmental processes (face development, nucleus accumbens development, ureter maturation) alongside diverse metabolic catabolic/biosynthetic processes (ethanol catabolic process, 4-hydroxyphenylacetate catabolic process, L-proline biosynthetic process) and deprecated terms. There is no single coherent function or pathway that unifies these proteins, so no reliable, representative label emerges.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060324","count":8},{"id":"GO:0007584","count":8},{"id":"GO:0019544","count":8},{"id":"GO:0021768","count":8},{"id":"GO:1901023","count":8}]},{"hash":"622709236152458265","title":"Deubiquitination and ubiquitin recycling","description":"The top GO terms are centered on deubiquitination and ubiquitin turnover, including free ubiquitin chain depolymerization, ubiquitin recycling, various forms of deubiquitination (K48-linked, monoubiquitinated substrates, histone H2A K63-linked), which strongly suggests proteins in this cluster function to edit or remove ubiquitin. Some terms also point to broader regulatory roles (transcription, necroptosis signaling, defense response), which can be downstream consequences of ubiquitin signaling. Overall, the set coalesces around ubiquitin processing, making \"Deubiquitination and ubiquitin recycling\" the most representative label.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010995","count":2},{"id":"GO:0010992","count":2},{"id":"GO:1901026","count":2},{"id":"GO:1900425","count":2},{"id":"GO:0001662","count":2}]},{"hash":"1661010035925623318","title":"Histone Modification Regulators","description":"The top GO terms point to histone modification processes, including acetylation and methylation of histones (e.g., H4-K12, H4-K5, H3-K4, H3-K27) and regulation of histone deacetylase activity, as well as regulation of DNA demethylation. Although several terms are obsolete, the consistent theme is chromatin modification and its regulation, suggesting the proteins function in histone modification machinery. A few terms touching development or immune context (spermatid nucleus differentiation, peripheral T cell tolerance) can reflect chromatin-associated regulation in those processes, reinforcing a chromatin-regulation role rather than a single pathway. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043983","count":1},{"id":"GO:2000791","count":1},{"id":"GO:1901536","count":1},{"id":"GO:0044648","count":1},{"id":"GO:1901726","count":1}]},{"hash":"1370725610209818119","title":"Unknown","description":"The top GO terms span widely different processes across various cell types and even species (epithelial polarity, hepatocyte and myeloid apoptosis, cell migration, oligodendrocyte differentiation, chloroplast protein import, vitamin D response, multicellular organismal processes, and cardiac and dendritic cell differentiation). This lacks a unifying biological function or pathway, suggesting no coherent cluster theme. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0033028","count":4},{"id":"GO:0048709","count":4}]},{"hash":"231228208000597789","title":"Neuronal development and synapse formation","description":"The cluster includes GO terms centered on neuron cell-cell adhesion, dendritic spine morphogenesis, and fasciculation of sensory neuron axons, indicating a shared role in neural development and synapse establishment. Some terms touch immune signaling and reproductive processes, which may reflect pleiotropy or broader roles, but the dominant pattern supports neural differentiation and connectivity.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":5},{"id":"GO:0060035","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0007158","count":5},{"id":"GO:0097155","count":5}]},{"hash":"911593607318298225","title":"T cell activation and cytoskeletal remodeling","description":"The top GO terms collectively point to T cell\u2013specific signaling (TCR\u2013MHC antigen activation, IL-4 production, IL-7 response) while also emphasizing cytoskeletal dynamics and adhesion (integrin signaling, small GTPase signaling, lamellipodium assembly, substrate-adhesion spreading). This suggests a cluster defined by T cell activation processes that are closely linked to actin remodeling and cell movement. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002291","count":4},{"id":"GO:0030212","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0007264","count":4},{"id":"GO:1903526","count":4}]},{"hash":"658943410164428240","title":"Microtubule-based spindle assembly and transport","description":"Most terms describe microtubule-based processes: spindle assembly/elongation, nuclear migration, axonemal/ciliary microtubule dynamics, and intracellular transport. A couple of terms (chloroplast movement, cerebellar granular layer organization) also relate to cytoskeletal organization in different contexts, but the unifying theme is microtubule-driven architecture and movement.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:0060404","count":7},{"id":"GO:0009904","count":7},{"id":"GO:0051255","count":7},{"id":"GO:0000911","count":7}]},{"hash":"486313158755669573","title":"Vesicle trafficking and autophagy regulation","description":"The Top Terms point to vesicle dynamics and autophagy-related processes, such as regulation of vacuole fusion and lipophagy, with supporting signals from small GTPase-mediated pathways. While there are some neuronal development and immune-related terms present, the strongest cohesive theme appears to be vesicle trafficking and autophagy-related regulation.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032889","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0050771","count":7},{"id":"GO:0090307","count":6},{"id":"GO:1904948","count":6}]},{"hash":"387574757746323045","title":"Neutrophil chemotaxis and phagocytosis","description":"The cluster is dominated by GO terms for neutrophil chemotaxis and phagocytosis, with supporting signals for integrin-mediated adhesion, cell spreading, and PI3K/IP3 signaling, all of which point to neutrophil migration toward stimuli followed by engulfment of targets. This cohesive theme best captures the functional essence of the proteins in this group.","confidence":"High","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":4},{"id":"GO:0071404","count":3},{"id":"GO:0036120","count":3},{"id":"GO:0034446","count":3},{"id":"GO:0006909","count":3}]},{"hash":"993707952831688679","title":"Rho GTPase signaling regulators","description":"The top GO terms are dominated by Rho GTPase signaling: positive regulation of GTPase activity, regulation and transduction of Rho signaling, indicating a shared role in controlling Rho pathway activity. Protein stabilization and K63-linked ubiquitination imply these proteins also participate in maintaining or modulating signaling complexes. While other terms touch on transcription and immune cell proliferation, the core common theme appears to be regulation of Rho-mediated signal transduction.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035023","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0050821","count":2},{"id":"GO:0070534","count":2}]},{"hash":"1129877264582905094","title":"Embryonic heart and vascular morphogenesis","description":"The top GO terms center on cardiac development and morphogenesis (embryonic heart tube formation, atrial formation, outflow tract morphogenesis, cardiac neural crest migration, and arterial endothelial differentiation, plus ascending aorta morphogenesis), indicating a cohesive cluster of proteins involved in heart and vascular patterning. A few terms related to oxidative stress and lithium response appear peripheral, but the dominant signal points to embryonic heart formation and vascular development.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":7},{"id":"GO:0071285","count":7},{"id":"GO:0035481","count":7},{"id":"GO:0033627","count":7},{"id":"GO:0007540","count":7}]},{"hash":"423918817831383251","title":"Rac-driven actin remodeling and endocytosis","description":"Based on the presence of Rac protein signal transduction, actin cortical patch assembly, and receptor-mediated endocytosis, the cluster seems centered on Rac-regulated actin cytoskeleton dynamics and membrane trafficking. Other terms point to broader signaling and motility, but the core theme ties to cytoskeletal remodeling linked to endocytosis. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":1},{"id":"GO:2000147","count":1},{"id":"GO:1990314","count":1},{"id":"GO:0010643","count":1},{"id":"GO:1904783","count":1}]},{"hash":"868382047817178445","title":"GTPase signaling and vesicle trafficking","description":"The cluster tops show small GTPase (Rac) signaling, vesicle budding, podosome assembly, and lysosomal membrane organization, all pointing to control of cytoskeleton and membrane dynamics. Epithelial polarity and very-low-density lipoprotein particle assembly further support a membrane/trafficking theme, while hepatocyte apoptotic process and spermatid nucleus differentiation reflect broader cell-state effects rather than core functions.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":3},{"id":"GO:1902647","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0070142","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1828820515654998469","title":"Lipid metabolism and energy signaling","description":"The top GO terms point to lipid biosynthesis (triglyceride, ether lipid, platelet activating factor; also phosphatidylcholine regulation) and mitochondrial ATP synthesis, indicating a core theme around lipid metabolism and energy production. Additional terms (insulin signaling, apoptosis) suggest metabolic signaling and cell fate regulation, while the development and immune terms appear less central to the cluster\u2019s main function.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":3},{"id":"GO:0021587","count":3},{"id":"GO:0008286","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0060065","count":2}]},{"hash":"547073916707783533","title":"Ubiquitin-mediated signaling and development","description":"These terms cluster around ubiquitination processes (K63-linked, autoubiquitination, monoubiquitination, ubiquitin-dependent catabolism) and their regulatory roles in signaling pathways (Wnt, ERK), apoptosis, and development (paraxial mesoderm) with some neural synapse involvement. The common theme is ubiquitin-mediated control of signaling and developmental processes.","confidence":"High","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0070373","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0050808","count":4},{"id":"GO:0048339","count":4}]},{"hash":"484389450291969241","title":"Neuronal development and morphogenesis","description":"The GO terms center on neuronal growth and connectivity\u2014dendrite morphogenesis, axon extension, and synaptic plasticity, with mentions of substantia nigra development\u2014supported by cytoskeletal and mitochondrial organization. Although there are a couple of barrier/junction terms, the predominant theme is neural development and morphogenesis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0043149","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0061028","count":2}]},{"hash":"1284197177354403825","title":"Ciliary Function and Brain Development","description":"These proteins cluster around ciliogenesis and intraciliary transport (cilium assembly; intraciliary transport), which are key for proper Hedgehog signaling and neural development. The terms also highlight brain patterning and regional specification (superior colliculus development, ZLI formation, midbrain dopaminergic neuron differentiation), suggesting a role in brain development linked to ciliary signaling. While some terms are broader regulatory processes, the dominant theme ties ciliogenesis to neural patterning and midbrain/diencephalon development.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1904888","count":2},{"id":"GO:0007224","count":1}]},{"hash":"129847264127931657","title":"Mitotic Chromosome Regulation & Kinetochore Localization","description":"This cluster is dominated by GO terms related to mitosis and chromosome maintenance: negative regulation of mitotic chromosome condensation, regulation of DSB repair via NHEJ, and localization to the kinetochore, plus serine dephosphorylation activities that fine-tune mitotic progression. While some terms touch on signaling (glucocorticoid pathways) and cell adhesion/EMT, the core theme centers on chromosome dynamics during cell division and related DNA repair. The other terms may reflect context-specific roles in cancer biology and cellular responses, but the shared thread remains mitotic control.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1905213","count":7},{"id":"GO:2001034","count":7},{"id":"GO:0034501","count":7},{"id":"GO:0070262","count":7},{"id":"GO:0060316","count":7}]},{"hash":"990617594097806762","title":"Cholinergic GPCR Signaling","description":"Most frequent terms cluster around G protein-coupled receptor signaling and its modulation, including acetylcholine receptor signaling, GPCR desensitization, intracellular signal transduction, GTPase activity, and threonine phosphorylation. Additional terms point to visual perception and cardiac signaling, all tying back to GPCR-mediated pathways. This suggests a cohesive GPCR-centered signaling module with cholinergic and sensory (visual) components and related cardiac regulation. Confidence: High","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":2},{"id":"GO:0002029","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0031914","count":2},{"id":"GO:0010614","count":2}]},{"hash":"358493440497214755","title":"Cell adhesion, migration, and immune signaling","description":"This cluster centers on processes of cell movement and adhesion (fasciculation of axons, integrin-mediated adhesion regulation, melanocyte migration, planar polarity establishment) complemented by immune signaling activities (T and B cell signaling, STAT phosphorylation, VEGF receptor signaling), suggesting a general theme of migration/adhesion coupled with signaling across multiple cell types.","confidence":"Medium","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0097155","count":7},{"id":"GO:0033628","count":7},{"id":"GO:0097324","count":7},{"id":"GO:0046638","count":7},{"id":"GO:0050798","count":7}]},{"hash":"2202032917810599216","title":"Proteoglycan and GAG Biosynthesis","description":"The top GO terms are dominated by dermatan sulfate and chondroitin sulfate proteoglycan biosynthetic processes, pointing to proteoglycan/GAG synthesis and extracellular matrix assembly. Additional terms related to carbohydrate metabolism and ECM organization, plus developmental signaling and ossification regulation, support a cohesive theme of ECM proteoglycan biosynthesis shaping development and mineralization.","confidence":"High","size":7,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050651","count":3},{"id":"GO:0050650","count":3},{"id":"GO:0071555","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0005975","count":2}]},{"hash":"370765521141800458","title":"Multisystem Physiological Regulation","description":"The terms co-occur across diverse systems (urine volume, circadian rhythm, gastric secretion, peristalsis, monoamine signaling, vascular regulation, bone remodeling, reproduction, and immune differentiation), suggesting a common theme of broad regulatory signaling coordinating multiple organs rather than a single pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":7},{"id":"GO:0022410","count":7},{"id":"GO:0001697","count":7},{"id":"GO:0030432","count":7},{"id":"GO:0007211","count":7}]},{"hash":"1533426984410282245","title":"Osteoimmunology signaling cluster","description":"This cluster contains innate immune terms (defense response to Gram-positive bacteria; innate immune response) and bone remodeling terms (bone development; negative regulation of osteoclast differentiation; hematopoietic progenitor cell differentiation), indicating an osteoimmunology\u2013type signal integration; receptor clustering and PDGF receptor signaling suggest growth factor\u2013driven signaling common to immune and skeletal cells.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0001558","count":2}]},{"hash":"2120865695815074070","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0006367","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0045948","count":2}]},{"hash":"1926144290059466042","title":"Unknown","description":"The top GO terms are varied, including metabolism (tetrahydrobiopterin biosynthetic process; L-phenylalanine metabolic process) and transcription-related terms (DNA-templated transcription) alongside terms about protein oligomerization and osteoblast differentiation, with no clear single functional theme or interaction pattern tying the proteins together. This scattered functional profile suggests no cohesive function for the cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048536","count":2},{"id":"GO:0043496","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0006558","count":1},{"id":"GO:0055114","count":1}]},{"hash":"556786096800968202","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0098789","count":4},{"id":"GO:0006398","count":4},{"id":"GO:0048026","count":1},{"id":"GO:0075525","count":1}]},{"hash":"1199521883168748226","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0033611","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0043427","count":1},{"id":"GO:0090669","count":1}]},{"hash":"1340399940180728442","title":"Unknown","description":"The top GO terms span lipophagy, hepatocyte apoptosis, multicellular development, pre-miRNA export, salivary gland formation, IGF signaling, immune cytotoxicity, lipid glycosylation, cell division, and endosome-Golgi transport, with no clear shared function. There are no edges connecting the proteins (Edges: 0), so there isn\u2019t a cohesive pathway or process tying them together. Therefore this cluster is best labeled Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0061724","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0044707","count":4},{"id":"GO:0035281","count":4},{"id":"GO:0060661","count":4}]},{"hash":"157008328021073448","title":"RNA processing and translation initiation regulation","description":"The proteins show strong representation of RNA processing steps (splicing via the spliceosome, splice site recognition, export, and regulation of splicing and polyadenylation) as well as components involved in initiating translation (eIF4F complex assembly, IRES-dependent initiation). This combination points to a cluster focused on post-transcriptional RNA processing and control of translation initiation, rather than a single, narrow process.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"1536798081415006869","title":"Migration and adhesion signaling","description":"This cluster centers on GO terms related to cell movement and adhesion (positive regulation of keratinocyte migration, integrin-mediated signaling, receptor internalization, and protein localization to the plasma membrane) as well as broader developmental and immune-related differentiation signals (dendritic cell, B cell chemotaxis, trophoblast, and radial glial scaffold formation). The common thread appears to be regulation of signaling pathways that coordinate cell migration, adhesion, and differentiation across diverse cell types.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0090004","count":3},{"id":"GO:0051549","count":3},{"id":"GO:0031623","count":3}]},{"hash":"369412768955971861","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0039702","count":1},{"id":"GO:0010587","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0075713","count":1}]},{"hash":"234909086155789667","title":"Inflammatory Stress Response and Immune Activation","description":"This cluster combines stress-related processes (unfolded protein response, hypoxia, oxidant detoxification) with immune/vascular activities (T cell activation and costimulation, endothelial migration, integrin-mediated adhesion). The co-occurrence of these terms suggests a coordinated inflammatory and stress signaling theme affecting immune and vascular functions, even though one plant-related term appears among the set.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0008284","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0033632","count":2}]},{"hash":"1109482836791707166","title":"Plant detoxification and oxidative stress response","description":"The top GO terms mainly point to detoxification of oxidants and responses to toxic substances, indicating a cohesive function in plant defense against oxidative stress. While some terms touch on plant-specific metabolism (strigolactone biosynthesis and secondary shoot formation), the dominant pattern is detoxification and redox-related processes, with supplementary hints of broader plant metabolism.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":3},{"id":"GO:1901601","count":2},{"id":"GO:0042952","count":2},{"id":"GO:0009636","count":2}]},{"hash":"304965756952835161","title":"Protein Ubiquitination","description":"This cluster is centered on ubiquitin-related modifications, with multiple GO terms for ubiquitin linkages (K63, K48, K6, K29) and autoubiquitination, plus related pathways like ubiquitin-dependent ERAD and apoptosis regulation. A couple of terms touch peroxisomal protein import, suggesting involvement of ubiquitin in proteostasis and turnover processes. The shared theme is ubiquitin tagging and regulation of proteins for degradation or signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0070936","count":3},{"id":"GO:0085020","count":2},{"id":"GO:0043524","count":2}]},{"hash":"697708375633908537","title":"Calcium-Dependent Signaling and Cell-Cycle Regulation","description":"The cluster centers on calcium-dependent signaling (regulation of calcineurin-NFAT signaling, peptidyl-serine dephosphorylation) and how such signaling interfaces with broader cellular decisions, including neuronal morphogenesis (negative regulation of dendrite morphogenesis, EMT, response to cocaine) and cell-cycle/mitosis processes (protein localization to kinetochore, mitotic chromosome condensation/DSB repair via NHEJ). Some terms appear as outliers (lipid A biosynthesis), suggesting possible annotation noise, but the core theme ties calcium-regulated phosphatase activity to signaling outcomes affecting morphology and cell-cycle control.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009245","count":3},{"id":"GO:0051531","count":3},{"id":"GO:0050774","count":3},{"id":"GO:1905213","count":2},{"id":"GO:2001034","count":2}]},{"hash":"1070850701153642078","title":"Purine ribonucleoside salvage and nucleoside catabolism","description":"The dominant GO terms point to catabolic and salvage pathways for nucleosides and purine ribonucleosides (guanosine, inosine, uridine, deoxyguanosine, salvage), which supports a nucleotide metabolism theme for this cluster. Some terms like DNA-templated transcription, IL-2 production, and anti-angiogenesis are less directly connected and may reflect broader multifunctionality or annotation noise, but they do not override the main signal. Overall, the cluster appears tied to nucleotide salvage and catabolic processes.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0019284","count":1},{"id":"GO:0006161","count":1},{"id":"GO:0046115","count":1}]},{"hash":"1006425309077568574","title":"Unknown","description":"These terms span multiple, loosely related biological processes (lipopolysaccharide and lipid biosynthesis, various biosynthetic routes like menaquinone, biotin, and adenosine, xenobiotic P450 pathway, hormone response, and divalent metal transport). With no dominant shared function or pathway, there is no cohesive theme to this cluster. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0016311","count":2},{"id":"GO:0046085","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0009102","count":2}]},{"hash":"1581284433948805238","title":"Immune activation and leukocyte trafficking","description":"The top GO terms cluster around T cell activation via TCR-MHC, hyaluronan metabolism, extravasation, coagulation, and complement activation, all pointing to immune response and leukocyte movement through vessels. Some terms (chlorophyll biosynthesis, dendrite regeneration) appear as outliers, suggesting annotation noise. Therefore, a label centered on immune activation and leukocyte trafficking is representative. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002291","count":6},{"id":"GO:0030212","count":6},{"id":"GO:1901998","count":4},{"id":"GO:0010765","count":4},{"id":"GO:0045123","count":3}]},{"hash":"1581115841175038288","title":"Cadherin-mediated adhesion regulation","description":"The top GO terms show positive regulation of cadherin-mediated cell\u2013cell adhesion and regulation of adhesion molecule production, pointing to a cohesive role in modulating cell contacts. While there are ancillary processes in lipid handling, excretion, mitochondrial dynamics, and IL-2 production, the core signal is adhesion regulation.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000049","count":4},{"id":"GO:0001302","count":4},{"id":"GO:0010876","count":4},{"id":"GO:0007588","count":4},{"id":"GO:1990046","count":4}]},{"hash":"2168279873528110644","title":"Embryonic Development Across Tissues","description":"The GO terms point to broad developmental processes across multiple tissues and organs, including neural crest formation, spinal cord development, craniofacial morphogenesis, heart-related BMP signaling, and organogenesis (pancreas, pharyngeal system, bronchioles), suggesting a general embryonic development theme rather than a single function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014029","count":7},{"id":"GO:0061312","count":7},{"id":"GO:0060929","count":7},{"id":"GO:0021516","count":7},{"id":"GO:0060037","count":7}]},{"hash":"1141012732810774052","title":"Embryonic craniofacial development and organogenesis","description":"The top GO terms cluster around neural crest\u2013driven craniofacial patterning (neural crest formation, cranial skeleton morphogenesis, palate development) but also include broad embryonic organ formation (heart, spinal cord, pharyngeal system, pancreas, bronchioles, thorax identity), suggesting a general theme of embryonic development with craniofacial emphasis.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0014029","count":7},{"id":"GO:0061312","count":7},{"id":"GO:0060929","count":7},{"id":"GO:0021516","count":7},{"id":"GO:0060037","count":7}]},{"hash":"863309575075804607","title":"Flavonoid glycoside and anthocyanin biosynthesis","description":"The top GO terms cluster around biosynthesis of flavonoid glycosides and anthocyanin-containing compounds (kaempferol/quercetin/cyanidin glycosides; anthocyanin-containing biosynthesis), with related phenylpropanoid activity such as lignin metabolism. This points to a cohesive function group in plant secondary metabolism focusing on flavonoid glycoside formation and pigment biosynthesis, with a few ancillary terms. Confidence reflects the strong, coherent flavonoid biosynthesis signal.","confidence":"High","size":7,"edges":10,"triangles":6,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0033330","count":6},{"id":"GO:0016999","count":6},{"id":"GO:0033303","count":6},{"id":"GO:0030259","count":6},{"id":"GO:0033485","count":6}]},{"hash":"2280718967019939933","title":"Exosome Biogenesis and Vesicle Trafficking","description":"The top GO terms show a clear focus on exosome assembly and secretion (positive regulation of exosomal secretion; regulation of extracellular exosome assembly) as well as vesicle transport processes (vesicle-mediated transport; protein transport to vacuole via the MVB pathway; protein retention in Golgi). Together these points strongly toward a secretory/endosomal trafficking theme centered on exosome biogenesis and vesicle trafficking, even though a few terms (like sporulation or Toll signaling) are less directly aligned. This makes the label representative, though with some peripheral terms.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031954","count":3},{"id":"GO:0031321","count":2},{"id":"GO:0045743","count":2},{"id":"GO:1903551","count":2},{"id":"GO:1903543","count":2}]},{"hash":"930068507765355255","title":"Unknown","description":"The GO terms span development (osteoblast differentiation, embryonic development), cilium assembly, DNA repair and cell-cycle regulation, and immune diversification (somatic hypermutation and isotype switching). This mix does not point to a single cohesive function or pathway governing the cluster, making a clear, specific label unlikely. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0036297","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0031573","count":1}]},{"hash":"1071680325117011895","title":"Translation machinery and mRNA turnover","description":"This cluster is dominated by translation-related GO terms (translation, initiation, elongation, termination, and both cytoplasmic and mitochondrial translation) and mRNA decay, with inclusion of selenocysteine incorporation, indicating a focus on protein synthesis and RNA processing. A few terms like glial cell proliferation and response to antibiotic appear less central but may reflect broader cellular stress or regulation linked to translation. Overall, the proteins likely participate in the translation apparatus and RNA fate.","confidence":"High","size":7,"edges":16,"triangles":17,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0045901","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0006413","count":4}]},{"hash":"418424851023140353","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"The cluster is dominated by ubiquitin-related processes: ubiquitin-dependent proteolysis, ERAD, and protein ubiquitination, suggesting a core proteostasis module. There are also signals of innate immune activity and antiviral defense (defense response to virus, innate immune response) and oxidative stress response (cellular response to hydrogen peroxide). A few developmental terms appear, but they seem incidental to the central ubiquitin/proteostasis and immune signals.","confidence":"High","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0046548","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0030433","count":3}]},{"hash":"683898684201299461","title":"Meiosis and Spermatogenesis-Related Processes","description":"Most prominent terms center on meiotic processes and spermatogenesis: meiotic chromosome condensation, meiotic cytokinesis, and spermatid differentiation, with G1/S transition also related to cell cycle control. Other terms (lung development, viral process, autophagy regulation, translation) appear only once and do not cohere into a single function, suggesting a core meiosis/spermatogenesis theme with some unrelated annotations. Confidence in this label is moderate given the clear meiotic/spermatogenesis signals but limited by the diverse, sparsely related terms.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010507","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0000289","count":1},{"id":"GO:0030324","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1530475501568651746","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":2},{"id":"GO:0060999","count":1},{"id":"GO:0097484","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0000447","count":1}]},{"hash":"1988829680360912763","title":"Synapse Assembly and Glutamatergic Transmission","description":"The GO terms cluster around neural synapse formation and maintenance, especially postsynaptic membrane organization and neuroligin clustering, along with positive regulation of excitatory postsynaptic potentials and glutamatergic transmission. Additional hints include exosomal secretion/assembly and inner ear stereocilium organization, reflecting synaptic/cochlear specialized signaling, and even vocal learning, all pointing to neural communication and its regulation. Therefore, a crisp label is \"Synapse Assembly and Glutamatergic Transmission.\"","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903553","count":2},{"id":"GO:0060122","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0097118","count":2},{"id":"GO:0051968","count":2}]},{"hash":"1715257612135351813","title":"Unknown","description":"Top GO terms span development (coronary artery morphogenesis, axon extension, Smoothened signaling) and innate immunity (complement activation), plus general cellular processes (protein folding, oligomerization) with no clear single theme, so there is no coherent function uniting the proteins. Unknown is the most appropriate label.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0048842","count":2},{"id":"GO:0045880","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0048632","count":2}]},{"hash":"1943959465077323989","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0090084","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0031204","count":1}]},{"hash":"2233943585907026011","title":"P450 Xenobiotic and Retinoid Metabolism","description":"The top GO terms are dominated by cytochrome P450\u2013related oxidation processes (oxidative demethylation, epoxygenase P450 pathway, ent-kaurene oxidation, dibenzo-p-dioxin catabolic process) and retinoic acid and vitamin D metabolism, all signaling P450-mediated xenobiotic and retinoid processing. A few outliers (cesium response, uterus development) exist, but the core pattern points to P450-driven metabolic reactions. ","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070989","count":3},{"id":"GO:0019373","count":3},{"id":"GO:0034653","count":3},{"id":"GO:0010164","count":3},{"id":"GO:0033280","count":3}]},{"hash":"1866536175143218847","title":"JNK-regulated stress signaling in immunity and apoptosis","description":"This cluster center appears to co-label proteins involved in stress-activated signaling (regulation of JNK cascade), innate immune responses, ubiquitin-dependent proteolysis, and apoptosis. While there are a couple of neuronal plasticity terms (LTP/LTD) present, the strongest connections are to JNK-regulated signaling, protein degradation, and immune/apoptotic processes, suggesting a core theme around stress- and immune-related signaling pathways.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0060291","count":2}]},{"hash":"2061022580396316128","title":"Organ development and tissue repair signaling","description":"The top GO terms point to development across multiple tissues (heart, hippocampus, hemocytes, male gonad) plus wound healing, and signaling responses (TGF-beta, xenobiotic exposure). This suggests a cohesive theme of organ/tissue development coupled with repair and stimulus-response signaling, rather than a single tissue or pathway.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0042060","count":2},{"id":"GO:0042493","count":2}]},{"hash":"923252417440710202","title":"Developmental signaling and cell polarity","description":"This cluster centers on developmental signaling and cell arrangement: negative regulation of canonical Wnt signaling, establishment of planar polarity, photoreceptor cell axon guidance, and germarium-derived oocyte fate, pointing to roles in tissue patterning and cell fate decisions. Ubiquitin-dependent protein catabolic process and mitotic cell cycle terms suggest broader regulatory processes accompanying development, but the core theme appears to be signaling and polarity during development. A few terms are obsolete or unrelated, which may reflect annotation artifacts.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0016575","count":1},{"id":"GO:0035957","count":1},{"id":"GO:0042249","count":1}]},{"hash":"780782691872770825","title":"Unknown","description":"The GO terms span apoptosis, gonadal and neural development, pigmentation, and broader cellular processes with no single cohesive function, and there are no network edges connecting the proteins, suggesting the cluster lacks a unified biological theme.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0090200","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0032464","count":1}]},{"hash":"157702515115414911","title":"Neuronal development and mitosis with ER-Golgi transport","description":"The cluster highlights proliferation and mitotic processes (cell division, mitotic spindle assembly, mitotic cell cycle) together with ER-Golgi vesicle trafficking (COPII budding, ER-to-Golgi and Golgi-to-ER transport) and neural development signals (brain development, neuromuscular balance). This suggests a theme where neural development or function requires coordinated cell division and secretory pathway activity, hence the chosen label.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":5},{"id":"GO:0090307","count":4},{"id":"GO:0090114","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0035264","count":4}]},{"hash":"309884832806270226","title":"Epithelial Polarity and Actin Cytoskeleton Remodeling","description":"These proteins collectively participate in establishing and maintaining epithelial cell polarity while coordinating actin-driven remodeling of the membrane, including endocytosis and ruffle formation; they are linked through small GTPase signaling (Rho family) and ephrin receptor pathways, which regulate cell adhesion, spreading, and cytoskeletal dynamics. The presence of GO terms for actin polymerization, GTPase activity regulation, cell shape/polarity, and endocytosis indicates a cohesive function rather than unrelated processes.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0006897","count":6},{"id":"GO:0034260","count":6},{"id":"GO:0030838","count":6},{"id":"GO:0071963","count":6}]},{"hash":"2184871926878199293","title":"Unknown","description":"The top GO terms come from very different biological contexts (blood coagulation in vertebrates; root hair development in plants; egg chamber follicle adhesion in insects; seed coat mucilage biosynthesis; infection structure formation; diverse glycosylation processes). With no clear unifying function or interaction pattern, there is no coherent theme to assign a more specific label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0048354","count":2},{"id":"GO:0075015","count":2}]},{"hash":"682238413030270788","title":"Vertebrate Development and Transcriptional Regulation","description":"The top GO terms indicate strong emphasis on developmental processes in vertebrates (forebrain development, neural tube closure, skeletal system development, multicellular organism development). Coupled with GO terms for DNA-templated transcription and mitotic cell cycle, the cluster appears linked to developmental programs governed by gene expression control. Some terms like defense against Gram-positive bacteria or ER stress\u2013related apoptosis and cadmium response may reflect general housekeeping or stress responses, but they do not override the dominant developmental theme. Therefore, a concise label focusing on vertebrate development and transcriptional regulation seems representative of the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001501","count":3}]},{"hash":"36259659514503760","title":"Notch Receptor Processing and Membrane Proteolysis","description":"The core terms cluster around membrane protein proteolysis and signaling, notably Notch receptor processing and Notch signaling, plus related amyloid-beta formation from membrane protein processing. Terms for ectodomain and intracellular domain proteolysis reinforce a common mechanism of regulated proteolysis driving signaling. Some other terms appear peripheral to this main theme. ","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033108","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0006509","count":1},{"id":"GO:0007220","count":1},{"id":"GO:0007219","count":1}]},{"hash":"1590568028470840802","title":"ER-Golgi and endosome vesicle trafficking","description":"The top GO terms center on intracellular transport between the ER, Golgi, endosomes, and vacuoles (ER-Golgi transport, retrograde Golgi-ER transport, endocytosis, endosome-to-Golgi/melanosome transport, and protein targeting to vacuole) with additional links to GTPase regulation, which points to a coordinated vesicle trafficking module. Some terms also touch on neuronal development, suggesting a role for these trafficking processes in neurons, such as dendrite development. Overall, the cluster seems to reflect components of the secretory and endocytic vesicle trafficking system.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0034498","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2117631807851647083","title":"mRNA Splicing Factors","description":"The strongest signal in this cluster is GO:0006376 (mRNA splice site recognition) with four proteins, pointing to components involved in RNA processing and splicing. Although a few other terms appear unrelated or noisy (e.g., viral release, sepal formation, symbiont entry), the dominant theme centers on RNA processing rather than a single, cohesive other function. Thus, labeling this cluster as mRNA splicing factors captures the core shared activity among the proteins.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":4},{"id":"GO:0045843","count":4},{"id":"GO:0050714","count":1},{"id":"GO:0000413","count":1},{"id":"GO:2000276","count":1}]},{"hash":"221241486084436956","title":"Mitotic DNA Replication Machinery","description":"These proteins cluster around DNA replication in mitosis, featuring GINS complex assembly, replication initiation and preinitiation complex formation, replication elongation, and repair-associated processes like break-induced replication, pointing to a shared role in assembling and carrying out mitotic DNA replication.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0071165","count":1},{"id":"GO:1902975","count":1},{"id":"GO:1902977","count":1},{"id":"GO:1902969","count":1}]},{"hash":"1939032990755989107","title":"Rho GTPase\u2013driven cytoskeletal remodeling and migration","description":"This cluster is dominated by small GTPase signaling, actin cytoskeleton remodeling (ruffle formation and cell spreading), endocytosis, and adhesion-related signaling, all core to coordinated cell migration and membrane trafficking.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":2},{"id":"GO:0010762","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0097178","count":2}]},{"hash":"273849558843869380","title":"Mitosis and Cell Division Regulation","description":"This cluster's top GO terms center on the mitotic cell cycle, cell division, and mitotic spindle assembly, indicating proteins involved in progression through mitosis and regulation of division. Additional terms like positive regulation of kinase activity and GTPase activity suggest signaling control needed for cell cycle transitions. While some terms (mRNA transport, COPII vesicle budding) are more general secretory pathway processes, they co-occur with cell-cycle-related functions in this set, supporting a theme of coordinated proliferation and mitosis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0031954","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0071902","count":5}]},{"hash":"1850185249873642329","title":"Neural development and neuron migration","description":"The top GO terms cluster around nervous system development, neuron maturation/regulation, and specific neuronal migration (e.g., tangential migration to the olfactory bulb), with additional neural-specific signaling (dopamine receptor signaling) and neuromuscular balance. While there are also terms related to intracellular regulation (ubiquitination, endosome-to-Golgi transport), the dominant theme is neural development and neuron migration, with dopaminergic signaling as a contributing aspect.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903125","count":2},{"id":"GO:0014041","count":2},{"id":"GO:1905279","count":2},{"id":"GO:1902499","count":2},{"id":"GO:2000172","count":2}]},{"hash":"1655120035563757863","title":"Ciliogenesis and neural eye development","description":"This cluster shows strong representation of cilium assembly (GO:0060271) along with retina and forebrain development (GO:0060041, GO:0030900), suggesting the proteins function together in ciliogenesis within neural/eye development contexts. Other terms related to cell proliferation and stress responses are present but do not override the core ciliogenesis-neural development theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0043547","count":3}]},{"hash":"334048678969119771","title":"Neuronal axon guidance and synapse assembly","description":"This cluster is dominated by GO terms related to axon fasciculation and guidance (sensory and motor neurons, retinal ganglion cells) and regulation of synapse assembly, pointing to a core role in neural wiring and synaptogenesis. Additional terms around axon regeneration and tyrosine phosphorylation signaling suggest involvement in neuron signaling pathways and plasticity. Some development terms like angiogenesis and axial mesoderm formation may reflect broader developmental signaling contexts but do not override the neural wiring theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0097155","count":6},{"id":"GO:0042517","count":6},{"id":"GO:0048679","count":6},{"id":"GO:0048320","count":6},{"id":"GO:0031290","count":6}]},{"hash":"2147467464802137506","title":"Angiogenesis and hemostasis","description":"This cluster is driven by GO terms focused on blood coagulation, platelet aggregation, and vascular development (e.g., Tie signaling, glomerulus vasculature development), indicating a shared function in blood vessel formation and clotting. Some muscle development terms appear but are likely secondary to the vascular/coagulation theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072378","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070527","count":1},{"id":"GO:0007165","count":1}]},{"hash":"514690192008542723","title":"NOD1/LPS Innate Immune Signaling","description":"The top GO terms indicate innate immune recognition and signaling in response to bacterial components, especially NOD1 signaling and LPS-mediated pathways, along with peptidoglycan detection. Downstream activity includes NF-\u03baB and JNK cascade regulation, IL-18 response, and regulatory control of these inflammatory signals, with occasional references to broader antiviral defense. Together, these terms suggest a theme of bacterial sensing and inflammatory signal transduction, justifying a label around NOD1/LPS-driven innate immunity.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0070427","count":2},{"id":"GO:0033091","count":2},{"id":"GO:0071224","count":2}]},{"hash":"719584774696488913","title":"Integrin signaling and cell adhesion","description":"These proteins show enrichment for integrin-mediated signaling, cell-matrix and cell-cell adhesion, and related extravasation processes, suggesting a cohesive function in adhesion and migration. Some terms like NF-kappaB regulation are less consistent, but the core theme is adhesion-associated signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045123","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0034113","count":2}]},{"hash":"1276461487972907060","title":"Organogenesis and EMT Regulation","description":"This cluster centers on developmental processes across organs: endodermal fate, pharyngeal system development, ventricular septum formation, ureteric bud formation, and nephron tubule differentiation, plus mesenchymal-to-epithelial transition (EMT). While some terms like macrophage/ T cell development and X-ray response introduce noise, the dominant theme is organogenesis and epithelial\u2013mesenchymal transitions that shape tissues. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045650","count":6},{"id":"GO:0007493","count":6},{"id":"GO:0045061","count":6},{"id":"GO:0060037","count":6},{"id":"GO:0003281","count":6}]},{"hash":"2054810808513262907","title":"Immune signaling regulators","description":"These proteins show enrichment for immune-related regulatory processes: negative regulation of T cell receptor signaling, negative regulation of cytotoxic T cell degranulation, Fc receptor signaling, and positive regulation of chemokine production, indicating a theme of modulating immune cell signaling and communication. Other terms touch on broader signaling (STAT phosphorylation, PI3K signaling) and unrelated areas (angiogenesis, axon localization), but the dominant pattern points to immune signaling regulation. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0086072","count":3},{"id":"GO:0042511","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0043318","count":3}]},{"hash":"2294914442701772739","title":"Fungal cell wall biosynthesis and morphogenesis","description":"This cluster is strongly driven by terms specific to fungal biology, especially fungal-type cell wall beta-glucan biosynthesis and cell morphogenesis, with karyogamy indicating mating/conjugation-related processes in fungi. While there are some general stress-response and protein-targeting terms present, the fungal cell wall synthesis and morphogenesis signals are the most cohesive theme across the top GO terms.","confidence":"High","size":6,"edges":9,"triangles":5,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":4},{"id":"GO:0070880","count":4},{"id":"GO:0090084","count":4},{"id":"GO:1903751","count":4},{"id":"GO:0006880","count":4}]},{"hash":"696209049540217457","title":"Multitissue Developmental Regulation","description":"This cluster shows a pattern of developmental and differentiation processes across various tissues (brain, kidney, skin), with terms like brain development, radial glial differentiation, and metanephric development, alongside signaling and cell junction terms that support morphogenesis. The theme is real but broad, reflecting diverse developmental regulation rather than a single, cohesive pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0043616","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0048023","count":2}]},{"hash":"2115143980488459523","title":"Neural and endothelial junctions and membrane trafficking","description":"These terms cluster around membrane organization, junction formation, and membrane trafficking across neural and vascular contexts. Tight junction assembly, endothelial barrier establishment, transcytosis, and membrane raft polarization point to membrane dynamics that shape neural signaling and barrier integrity, while myelination and synaptic plasticity reflect neuronal membrane specialization. The presence of both neural and vascular related GO terms suggests a shared theme of membrane-associated regulation in neural-vascular interfaces.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050861","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0061028","count":1},{"id":"GO:0048172","count":1},{"id":"GO:0001766","count":1}]},{"hash":"89796141990086188","title":"Neuroendocrine control of secretion and motility","description":"The cluster centers on secretion and GI motility (saliva, gastric acid, peristalsis, urine volume) and is linked by neuromodulatory signaling (dopamine, octopamine/tyramine) and circadian regulation, with some systemic hormonal processes (bone remodeling, reproductive), suggesting a cohesive neuroendocrine theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":6},{"id":"GO:0035810","count":4},{"id":"GO:0022410","count":4},{"id":"GO:0001697","count":4},{"id":"GO:0030432","count":4}]},{"hash":"969261271084346523","title":"Organogenesis and morphogenesis","description":"Based on the GO terms, the cluster centers on tissue and organ development, including multicellular organism development, ossification, and outflow tract morphogenesis, which points to organogenesis. Some terms also touch on cardiac activity and ion transport (calcium/manganese import, membrane depolarization), suggesting signaling and ionic regulation during development. A few outlier terms (gravitaxis, carbon monoxide response) are present, but the dominant theme is developmental biology and morphogenesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0003151","count":2},{"id":"GO:0098912","count":2},{"id":"GO:0071321","count":2}]},{"hash":"1155743341247149412","title":"Systemic physiological regulation","description":"The GO terms point to regulatory signaling across multiple organ systems (nervous, digestive, immune, skeletal, reproductive), including neural processes (visual learning, circadian rhythm), gut activity (urine volume, peristalsis, histamine-induced acid secretion), and various receptor-mediated signaling pathways (dopamine, octopamine/tyramine). This suggests a broad theme of organism-wide regulatory control rather than a single specific function, hence a label of systemic physiological regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":6},{"id":"GO:0035810","count":5},{"id":"GO:0022410","count":5},{"id":"GO:0001697","count":5},{"id":"GO:0030432","count":5}]},{"hash":"1411969327482735981","title":"Innate Immune Activation and Fungal Response","description":"Dominant GO terms point to innate immune signals: positive regulation of platelet activation, basophil activation, lectin pathway complement activation, and cellular response to molecule of fungal origin, suggesting an immune recognition and effector activation theme against fungi. The developmental terms (cartilage condensation, mesonephric duct/metanephric development, lymph vessel morphogenesis) are less clearly connected to the main immune pattern, so the core label emphasizes innate immune activation in response to fungal components.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":6},{"id":"GO:0071226","count":6},{"id":"GO:0090403","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0072177","count":4}]},{"hash":"286103044990214083","title":"Unknown","description":"The top GO terms span diverse biological themes: defense response to Gram-positive bacteria, nuclear protein export, ER-stress\u2013induced apoptotic signaling, sphingolipid biosynthesis regulation, response to ionizing radiation, cell size regulation, epigenetic gene repression, neural axon fasciculation, forebrain development, and integrin-mediated cell adhesion. This mix covers immune response, intracellular transport, stress signaling, lipid metabolism, development, and neural connectivity with no single unifying function. There isn\u2019t a coherent, common biological process binding these proteins, so a concise representative label cannot be confidently assigned.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0006611","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0090153","count":5},{"id":"GO:0071479","count":5}]},{"hash":"765398513874831807","title":"Ubiquitin-dependent protein degradation","description":"The top GO terms are dominated by ubiquitination processes (polyubiquitination, K63- and K48-linked ubiquitination, autoubiquitination) and ubiquitin-dependent protein catabolic process, pointing to roles in tagging substrates for proteolysis or regulating protein turnover. The additional terms hint at context-specific regulatory roles of ubiquitin signaling, such as transcriptional regulation and immune signaling, within this cluster.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0042787","count":3}]},{"hash":"297898181444949619","title":"Integrin-mediated adhesion and signaling","description":"This cluster is dominated by GO terms related to cell adhesion and ECM interaction, such as cellular extravasation, cell-matrix adhesion, heterotypic cell-cell adhesion, and integrin-mediated signaling, pointing to a core function in adhesive interactions and signal transduction through integrins. While some terms reference immune responses or other processes, the common theme centers on adhesion and integrin-driven signaling. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045123","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0034113","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0007229","count":3}]},{"hash":"1092645274221855989","title":"GTPase-driven cell migration and cytoskeletal signaling","description":"The cluster centers on processes like cell migration, lamellipodium assembly, and small GTPase signaling (including Ras), with associated adhesion/spreading and cytoskeletal remodeling, suggesting a cohesive module governing motility and cytoskeletal dynamics; peripheral terms related to development and immune signaling appear ancillary.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0007264","count":3},{"id":"GO:0008286","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0032633","count":3}]},{"hash":"557494923865269464","title":"Spliceosome and RNA processing components","description":"The cluster is dominated by GO terms for spliceosome assembly, snRNP assembly, mRNA splicing via spliceosome, tRNA processing, histone mRNA metabolism, and transcription termination by RNA polymerase II, pointing to core RNA processing machinery. Some terms related to ABA and water deprivation may reflect regulatory context rather than a separate function. Overall, the theme is RNA processing/splicing machinery.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":5},{"id":"GO:0000245","count":5},{"id":"GO:0008033","count":5},{"id":"GO:0000387","count":5},{"id":"GO:0009414","count":5}]},{"hash":"1896054930935849744","title":"Spliceosome-Linked mRNA Regulation and Translation","description":"The top terms center on mRNA splicing regulation via the spliceosome, splice-site recognition, mRNA export, and stress-responsive mRNA stability, plus translation-related terms such as IRES-dependent initiation and 4F complex assembly. This suggests a cohesive theme of post-transcriptional regulation: coordinating RNA processing with translation control, potentially in stress or viral contexts.","confidence":"High","size":6,"edges":9,"triangles":5,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":6},{"id":"GO:0010610","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0075522","count":5}]},{"hash":"1088442428353948295","title":"DNA Replication and Damage Repair","description":"This cluster is driven by GO terms tied to DNA replication (DNA replication, leading strand elongation) and DNA damage response (error-free translesion synthesis, UV-damage excision repair). While oxidative stress and autophagy-related processes appear among the terms, the strongest signals highlight genome maintenance during replication and damage tolerance/repair, with TLS and UV repair pointing to DNA damage handling as the core theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070987","count":5},{"id":"GO:0006272","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0070914","count":5},{"id":"GO:0034599","count":4}]},{"hash":"165602310432256213","title":"Ribosome and Translation Machinery","description":"This cluster is dominated by translation-related GO terms: mitochondrial translational elongation, translation, initiation, selenocysteine incorporation, and translational fidelity, indicating core involvement in ribosome function and protein synthesis. Peripheral terms like RNA decay, chromatin regulation, antibiotic response, and viral replication may reflect broader cellular context but do not override the central translation theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070125","count":5},{"id":"GO:0001514","count":5},{"id":"GO:0006413","count":5},{"id":"GO:0045903","count":5},{"id":"GO:0006412","count":5}]},{"hash":"1832842246636054939","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0006366","count":1},{"id":"GO:0042797","count":1},{"id":"GO:0001172","count":1}]},{"hash":"136535252834673907","title":"Nucleocytoplasmic Transport and Centrosome/Cilium Regulation","description":"The cluster centers on processes involved in moving molecules between nucleus and cytoplasm (ribosomal subunit export, mRNA export, transcription regulation) and coordinating cellular architecture relevant to cell division and ciliogenesis (kinetochore localization, centrosome duplication, astral microtubule organization, intraflagellar transport). This points to a cohesive theme of linking gene expression control with spindle/cilium dynamics, likely via transport and centrosome-associated factors.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0034501","count":3},{"id":"GO:0000056","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0006406","count":3}]},{"hash":"475509590798225979","title":"Unknown","description":"The top GO terms are diverse and mostly unrelated: serine biosynthesis, testosterone response, autophosphorylation, phospholipid dephosphorylation, T-tubule organization, calcium-dependent exocytosis, cadmium transport, and stilbene catabolism, with several obsolete terms. There is no single functional theme that ties these proteins together, so a coherent label cannot be justified.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0033574","count":2},{"id":"GO:1990938","count":2},{"id":"GO:0046839","count":2}]},{"hash":"491760587831124502","title":"Meiosis I spindle assembly and ubiquitin regulation","description":"These terms cluster around oocyte meiosis and spindle dynamics, with strong signals for ubiquitin-dependent proteolysis and ubiquitin-mediated regulation (ubiquitin-dependent protein catabolic process, positive regulation of protein polyubiquitination). The presence of oocyte maturation and spindle assembly in female meiosis I, plus microtubule polymerization and related checkpoints, suggests proteins coordinating meiosis progression and spindle formation through ubiquitin-driven control of protein turnover.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0001556","count":4},{"id":"GO:0060386","count":4},{"id":"GO:0031571","count":4},{"id":"GO:1902916","count":4}]},{"hash":"682254921526006109","title":"Small-molecule and lipid metabolism","description":"The Top Terms center on diverse metabolic processes, including ethanol catabolism, fatty acid biosynthesis, retinoic acid and prostaglandin metabolism, formaldehyde catabolism, and other small-molecule pathways. This pattern points to a role in broad metabolic processing of carbon substrates, especially lipids and related molecules, with one regulatory term likely being incidental noise. Therefore, a concise label capturing the shared function is \"Small-molecule and lipid metabolism.\"","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0046370","count":2},{"id":"GO:0006068","count":2},{"id":"GO:0006693","count":2}]},{"hash":"1439488447632695123","title":"Sulfur Metabolism and Cell-Cycle Regulation","description":"The top GO terms point to sulfur-related pathways (transsulfuration, cysteine modification, molybdopterin cofactor biosynthesis) alongside cell-cycle events (mitotic M phase, G2/M transition, cytokinesis) and developmental processes (oocyte maturation, pseudohyphal growth). This suggests the proteins may link sulfur metabolism and cofactor biosynthesis to regulation of cell division, potentially via pathways like urmylation that connect sulfur trafficking to growth control. Confidence: Medium.","confidence":"","size":6,"edges":9,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019346","count":4},{"id":"GO:0001556","count":3},{"id":"GO:0006071","count":3},{"id":"GO:0006777","count":3},{"id":"GO:0032467","count":3}]},{"hash":"175533684178878855","title":"Nucleotide biosynthesis and ribosome biogenesis","description":"This cluster centers on nucleotide production (DNA biosynthesis, D-ribose metabolism, uridine biosynthesis, PPP) and ribosome-related processes (cytoplasmic translation, ribosome biogenesis, tRNA modification), suggesting a cohesive theme of nucleotide supply feeding protein synthesis and ribosome assembly.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0046109","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0006014","count":1}]},{"hash":"988534995978935328","title":"Neuroimmune signaling and axon regeneration","description":"These proteins show a blend of neural-related functions (axon localization to juxtaparanodal regions, axon extension during regeneration, cell adhesion in neural/conduction nodes) and immune signaling (STAT tyrosine phosphorylation, regulation of T cell signaling, Fc receptor signaling, chemokine production) plus angiogenesis regulation. The common thread is signaling crosstalk between neural and immune/vascular processes, suggesting a module of neuroimmune communication and neural repair.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0086072","count":6},{"id":"GO:0042511","count":6},{"id":"GO:0050860","count":6},{"id":"GO:0043318","count":6},{"id":"GO:0045765","count":6}]},{"hash":"180778068026976913","title":"Unknown","description":"The GO terms are very diverse (NF-kappaB regulation, nucleolus localization, mRNA processing, hepatocyte apoptosis, ossification, actin/cytoskeleton dynamics, protein oligomerization, and pain perception), with no single unifying function apparent for the cluster. Therefore, there isn\u2019t a coherent label that captures the cluster\u2019s biology.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:1902570","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0044707","count":2}]},{"hash":"1384067463149990774","title":"Unknown","description":"The top GO terms span multiple organ development (blood coagulation, retina/eye, heart, liver) and diverse signaling processes (calcium release, ERK cascade) plus an immune response, with no clear single function tying all proteins together.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0007626","count":2}]},{"hash":"1364776091519312244","title":"Calcium-regulated cytoskeletal remodeling and EMT","description":"The terms cluster around calcium signaling (ryanodine receptor regulation, calcineurin\u2013NFAT), cytoskeletal dynamics (actin crosslinking, myosin II filament assembly), and associated cell-shape changes such as epithelial-to-mesenchymal transition and muscle-related contraction. This suggests a consistent theme: calcium-dependent control of the cytoskeleton and morphological transitions.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009738","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0002086","count":2},{"id":"GO:0070886","count":2},{"id":"GO:0001837","count":2}]},{"hash":"645934482906344206","title":"DNA Repair and Immunoglobulin Diversification","description":"The terms point to a core theme of DNA damage response and DNA repair (interstrand cross-link repair, replication fork arrest, DNA damage checkpoints, meiotic and somatic recombination repair) with additional emphasis on immunoglobulin gene diversification processes (somatic hypermutation and class switch recombination). This combination suggests proteins involved in genomic maintenance that also participate in adaptive immune gene diversification in B cells. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036297","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0031573","count":1},{"id":"GO:0048304","count":1},{"id":"GO:0010777","count":1}]},{"hash":"106081655727393014","title":"Embryogenesis and Tissue Patterning","description":"The top GO terms cluster around embryonic development, tissue morphogenesis, and patterning processes (e.g., left/right pattern formation, endocardial EMT in cushion formation, cartilage morphogenesis, placental and pancreatic development, trophoblast differentiation). Although there are a couple of transcription regulation terms and an unexpected behavioral term, the dominant theme is developmental biology and tissue organization, supporting a label focused on embryogenesis and patterning.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2}]},{"hash":"12951663054976152","title":"Neural development and axonogenesis","description":"The represented GO terms are largely about neural development processes: neuron migration in the lateral motor column, peripheral nervous system axonogenesis, and midbrain dopaminergic neuron differentiation, with some sensory-related detection of muscle stretch. Although there are a few outlier terms (plant development and immune regulation), the dominant theme among the terms points to neural development and axon growth, supporting this label.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0035995","count":6},{"id":"GO:2000346","count":6},{"id":"GO:1904948","count":6}]},{"hash":"2221306950923263176","title":"Midbrain neural development and calcium signaling","description":"The top GO terms cluster around brain region formation and neuronal differentiation in the midbrain (e.g., superior colliculus development, zona limitans intrathalamica formation, midbrain dopaminergic neuron differentiation). Additional terms highlight calcium-related processes (mitochondrial calcium, calcium-dependent adhesion) and cytoskeletal/membrane transport relevant to developing neurons, suggesting a theme of brain development tied to calcium signaling and energy regulation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061380","count":5},{"id":"GO:0022006","count":5},{"id":"GO:1904948","count":5},{"id":"GO:0051561","count":5},{"id":"GO:0048496","count":5}]},{"hash":"1766543606805455245","title":"Ubiquitin-mediated immune development","description":"The cluster is dominated by GO terms for protein ubiquitination and autoubiquitination, suggesting roles in ubiquitin-regulated protein turnover. Several terms point to immune system processes (B and T cell proliferation) and embryonic development, with additional stress-response terms (hydrogen peroxide). The strongest, most recurring theme is ubiquitin-dependent regulation intersecting immune signaling and development, justifying a label around ubiquitin-mediated immune development.","confidence":"Medium","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009048","count":6},{"id":"GO:0070301","count":6},{"id":"GO:0039536","count":6},{"id":"GO:0030708","count":6},{"id":"GO:0051865","count":6}]},{"hash":"1889824563437362335","title":"Embryonic organogenesis and patterning","description":"The terms point to multiple embryonic development and morphogenesis processes across tissues, including palate formation, left-right patterning, cartilage morphogenesis, endocardial cushion EMT, placenta development, and endocrine organ development (pancreas). The common thread is coordination of embryonic tissue patterning and organogenesis rather than a single tissue-specific pathway.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4}]},{"hash":"988486444902221973","title":"Embryonic development and morphogenesis","description":"The dominant GO terms point to developmental processes such as epithelial-to-mesenchymal transition in heart cushion formation, left-right patterning, cartilage morphogenesis, placental and pancreatic lineage development, and trophoblast differentiation. This suggests the cluster reflects embryogenesis and tissue morphogenesis. Additional terms about mRNA splicing and ribosome export are likely background cellular processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0003323","count":6}]},{"hash":"1164170577465199758","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0042273","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0006468","count":1}]},{"hash":"1145622525299135189","title":"Developmental Cell Adhesion and Polarity","description":"Several top GO terms point to cell-cell adhesion and junction organization (neuron adhesion, junctions, planar polarity, integrin activation regulation). While some terms refer to tissue-specific processes (melanin biosynthesis, glomerulus development, Purkinje neuron development), the shared theme across the cluster is cellular adhesion and polarity during development and tissue organization.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0048023","count":6},{"id":"GO:0032533","count":6},{"id":"GO:0045216","count":6},{"id":"GO:0060019","count":6},{"id":"GO:0033626","count":6}]},{"hash":"1703123553818466524","title":"Nuclear mRNA and ribosomal subunit export","description":"The proteins in this cluster show strong enrichment for nuclear export/import processes (mRNA export, ribosomal subunit export, hnRNP-related import), as well as transcription regulation and centrosome-related control. This points to a cohesive theme around nuclear transport and RNA handling that intersects with cell cycle regulation, justifying a label centered on nuclear export machinery.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0042176","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0000122","count":4}]},{"hash":"538160953723834024","title":"GTPase Signaling and Cell Migration in Immune Development","description":"The terms cluster around small GTPase\u2013mediated signaling (including Ras), lamellipodium assembly, and cell migration, with additional immune-related signals (interleukin-4 production, interleukin-7 response) and developmental context (heart development, NK T cell differentiation). This suggests a cohesive theme where signal transduction interfaces with cell movement in immune development and related developmental processes.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0008286","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0032633","count":4},{"id":"GO:0098761","count":4}]},{"hash":"1559164412377739637","title":"Cell Junctions and Synapse Assembly","description":"The cluster shows enrichment for synapse-related processes (synaptic vesicle maturation; protein localization to synapse; immunological synapse formation) and for establishing cell\u2013cell interfaces (epithelial cell polarity; endothelial intestinal barrier), suggesting a theme of coordinating vesicle trafficking at intercellular junctions and synapse formation. Some terms (GMP metabolic process, regulation of potassium ion import) are less clearly connected, indicating potential ancillary roles or annotation breadth.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":3},{"id":"GO:0098912","count":3},{"id":"GO:0016188","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0046037","count":3}]},{"hash":"1437693095391301999","title":"Unknown","description":"The terms span temperature-related responses, pain perception, digestion and gut motility, circadian rhythm, and several signaling pathways, plus an immune differentiation term. This broad mix provides no single cohesive function or module linking the proteins, so a precise, representative label isn\u2019t evident.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0035810","count":5},{"id":"GO:0022410","count":5}]},{"hash":"1853282336693120749","title":"Epithelial polarity and adhesion machinery","description":"The terms cluster around epithelial cell architecture: establishing apical/basal polarity, integrin activation, and focal adhesion assembly, coupled with Rho-regulated actin cytoskeleton dynamics and terminal web structure; endosome transport also supports polarity, with intestinal glucose absorption hinting at gut epithelium function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:2000643","count":2},{"id":"GO:1902896","count":2},{"id":"GO:0033622","count":2},{"id":"GO:0035331","count":2}]},{"hash":"2088279786442140169","title":"ABA/JA Plant Hormone Response","description":"This cluster is dominated by GO terms for abscisic acid and jasmonic acid responses, suggesting a cohesive theme around plant hormone signaling and stress responses. While several other terms appear unrelated (e.g., immune or chromatin processes), the strongest and most frequent signals point to ABA/JA\u2013mediated signaling as the core function. Overall, the cluster is best described as an ABA/JA plant hormone response group.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":3},{"id":"GO:0048485","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0045650","count":2},{"id":"GO:0035390","count":2}]},{"hash":"2226441579569018918","title":"Craniofacial and neural development","description":"Several top GO terms converge on embryonic craniofacial and neural morphogenesis: face development, embryonic cranial skeleton morphogenesis, neural tube closure, and CNS development, with planar polarity contributing to tissue organization. While a few terms are more general (e.g., transcription, apoptosis), the dominant signal is coordinated development of head and neural structures. This supports a cohesive role in craniofacial/neural morphogenesis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060324","count":2},{"id":"GO:0051973","count":2},{"id":"GO:0001736","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0048701","count":2}]},{"hash":"242474607006042393","title":"Photoreceptor cilium and outer-segment proteins","description":"This cluster\u2019s top GO terms are dominated by photoreceptor-related localization to the outer segment and non-motile cilium assembly, pointing to a role in retinal cilium/outer-segment biology. The other terms (oxidative stress response, cell cycle, virus response) are more general or obsolete and likely noise, but the ciliary/photoreceptor theme is prominent enough to anchor the label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:1903546","count":6},{"id":"GO:0016570","count":6},{"id":"GO:1905515","count":6},{"id":"GO:0070301","count":6},{"id":"GO:0000278","count":6}]},{"hash":"58071363223277599","title":"Secretory vesicle signaling and platelet activation","description":"This cluster\u2019s GO terms cluster around regulated exocytosis and vesicle trafficking in secretory/immune contexts\u2014acrosome reaction, synaptic vesicle priming, neutrophil degranulation, GPCR internalization\u2014along with platelet activation and signaling. Together these suggest a cohesive theme of secretory vesicle trafficking modulating cell signaling in hematologic and immune processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0060313","count":3}]},{"hash":"1893982076941938098","title":"Axon guidance and neural development","description":"The top GO terms are dominated by nervous system development, axon guidance, and Hedgehog/Robo signaling (Smoothened and Roundabout pathways), pointing to a cluster of proteins involved in neural wiring and neural development. Secondary terms (ossification, kidney development, mast cell chemotaxis, T cell signaling) are less central and may reflect broader roles or annotation noise, but the neural development signal remains strongest.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0035385","count":3},{"id":"GO:0043931","count":2},{"id":"GO:0002551","count":2}]},{"hash":"970545681771409490","title":"Golgi-ER trafficking and oocyte development (Drosophila)","description":"This cluster is dominated by ER-Golgi trafficking terms (ER to Golgi transport, COPI vesicles, Golgi ribbon, ER retention) and oocyte/egg-laying related processes, suggesting a cohesive function in secretory pathway activity that supports oogenesis and maternal axis specification in Drosophila.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042508","count":2},{"id":"GO:0061357","count":1},{"id":"GO:0035964","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0048042","count":1}]},{"hash":"1010057043556421655","title":"Unknown","description":"The top GO terms are highly diverse, spanning behavioral responses (starvation, jump), circadian regulation, spermatogenesis, RNA processing and gene silencing, ATP export, ubiquitin-dependent endocytosis, and protein targeting to membranes. With 0 edges and several obsolete terms, there is no single cohesive function or pathway tying these proteins together, so a meaningful, specific label cannot be assigned beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042595","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0016246","count":1}]},{"hash":"1889917161780719875","title":"Mitotic cycle and developmental morphogenesis with trafficking","description":"The cluster shows enrichment for mitotic cell cycle, cell morphogenesis, and multicellular development terms, including protein localization to centrosomes, suggesting a centriole/mitosis\u2013development axis. Additional terms on translation regulation and ubiquitin-proteasome\u2013dependent protein catabolism imply coordinated control of protein turnover during division and morphogenesis. Endosome-to-lysosome transport terms point to vesicle trafficking functions linked to cellular organization. Together these point to a set of proteins involved in cell division, developmental morphogenesis, and intracellular trafficking.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0045727","count":2}]},{"hash":"1359933174284645848","title":"Endosomal trafficking and vesicle fusion","description":"This cluster clearly centers on membrane trafficking: endosomal transport to the Golgi, endosomal vesicle fusion, and related vesicle dynamics. GPCR signaling and lipophagy terms align with membrane-associated processes, while other terms seem noisier. The dominant theme is vesicle trafficking, especially endosomal dynamics, so the label is a reasonable, but not perfect, fit. ","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061724","count":5},{"id":"GO:0035281","count":5},{"id":"GO:0060661","count":5},{"id":"GO:0097278","count":5},{"id":"GO:0051301","count":5}]},{"hash":"304459243952744753","title":"Unknown","description":"The GO terms are highly diverse\u2014transcription, actin cytoskeleton processes, various signaling pathways, and even muscle/ metabolic terms\u2014without a unifying function or shared interaction pattern, so no cohesive cluster label can be assigned beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0009738","count":1},{"id":"GO:0030050","count":1},{"id":"GO:0090307","count":1}]},{"hash":"117535237972483993","title":"Dopamine/Adrenergic GPCR Signaling","description":"This cluster centers on GPCR-mediated signal transduction, particularly dopamine and adrenergic receptor pathways that activate phospholipase C and adenylate cyclase. The included terms cover GPCR signaling outcomes such as phototransduction, circadian regulation, heart development, and urine volume control, indicating a cohesive theme around GPCR-driven signaling and its broad physiological effects. Confidence: High","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060158","count":5},{"id":"GO:0071880","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0007603","count":5},{"id":"GO:0010513","count":5}]},{"hash":"950116448069883480","title":"Synapse Formation and Neuronal Morphogenesis","description":"The cluster\u2019s top GO terms cluster around synaptic development and neuronal morphology: axon guidance, dendritic spine morphogenesis, synapse organization, subsynaptic reticulum organization, and regulation of Rho signaling. These collectively point to the assembly and shaping of neuronal connections, i.e., synapse formation and neuronal morphogenesis; a few non-neuronal terms are present but less representative. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0050853","count":2},{"id":"GO:0060997","count":2},{"id":"GO:1990255","count":2},{"id":"GO:0035584","count":2}]},{"hash":"657434864470983556","title":"Mitotic Division and ER-Golgi Vesicle Trafficking","description":"The top GO terms are dominated by mitosis and cell cycle-related processes (mitotic spindle assembly, mitotic cell cycle, cell division, cell population proliferation) along with vesicle trafficking between the ER and Golgi (COPII-coated vesicle budding, retrograde vesicle-mediated transport). This suggests a cluster centered on cell proliferation with associated intracellular transport. Some terms like lipophagy and dopaminergic neuron differentiation are peripheral but may reflect broader roles in development; overall the core signal is cell division linked to vesicle trafficking.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1292795266747469565","title":"Organ Development and Angiogenesis","description":"This cluster's top GO terms revolve around organ formation and vascular growth, including kidney development, cardiac conduction regulation, prostate gland development, and angiogenesis, suggesting a common theme of developmental processes and tissue patterning. Although there are also broad terms like nutrient response and signaling, the strongest and recurring signals point to organogenesis and blood vessel formation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0007584","count":2},{"id":"GO:1903779","count":2},{"id":"GO:0001822","count":2}]},{"hash":"359799104230687822","title":"Embryonic organ morphogenesis","description":"The terms cluster around morphogenesis and development across multiple organs during embryogenesis (heart, neural crest, eye, limb, placenta, prostate/gonad, habenula, etc.), suggesting a general theme of embryonic organ formation rather than a single specific process.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060527","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0021986","count":5},{"id":"GO:0001890","count":5}]},{"hash":"2238345578299711427","title":"Endothelial Barrier and Vesicular Trafficking","description":"This cluster is enriched for GO terms related to tight junction assembly, establishment of the endothelial barrier, cell adhesion, transcytosis, endocytosis, and endosome transport, pointing to proteins that coordinate endothelial junctions and vesicular trafficking across the barrier. Some neuronal development terms appear, but the dominant signal supports barrier integrity and vesicular transport in endothelium.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0061028","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1452329593604653558","title":"Ion Transport and Phosphorylation Signaling","description":"The Top Terms show several ion transport processes (calcium, copper, potassium, cadmium), along with dephosphorylation and autophosphorylation indicating phosphorylation-driven signaling, plus related metabolism (epoxygenase P450) and hormonal/cardiac signaling (testosterone response, cardiac hypertrophy regulation). This points to a cluster centered on membrane transport of ions linked to phosphorylation-based signaling and hormone-responsive pathways.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":4},{"id":"GO:0019373","count":4},{"id":"GO:0016311","count":4},{"id":"GO:1903243","count":4},{"id":"GO:0097623","count":4}]},{"hash":"2086434757929498198","title":"Unknown","description":"The GO terms span both intracellular trafficking (Golgi-ER transport, Golgi-to-lysosome transport, protein targeting to lysosome, neurotransmitter receptor internalization) and unrelated processes (meiosis-related assembly/condensation, gravitropism, tRNA clustering, vacuole organization), giving no single cohesive function for the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":1},{"id":"GO:0010032","count":1},{"id":"GO:0007130","count":1},{"id":"GO:0009959","count":1},{"id":"GO:0090160","count":1}]},{"hash":"523331048106642619","title":"Developmental signaling and immune response","description":"This cluster repeatedly highlights both immune-related responses (lipopolysaccharide response, defense against Gram-positive bacteria, Fc receptor signaling) and developmental processes (embryonic cranial skeleton morphogenesis, mesodermal fate specification, melanocyte migration, multicellular development) plus signaling pathways (JNK cascade, FGFR apoptotic signaling). The common theme is signaling events that coordinate immune responses with development, suggesting a role in developmental-immune signaling integration.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0038093","count":3}]},{"hash":"1110555281642225972","title":"Oocyte Meiosis and Spindle Assembly","description":"The dominant GO terms cluster around oocyte maturation, spindle assembly in female meiosis I, and microtubule polymerization, pointing to proteins involved in meiotic spindle organization and oocyte development; while a few terms touch ubiquitination and catabolism, the core signal is meiosis/oocyte maturation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001556","count":5},{"id":"GO:0060386","count":5},{"id":"GO:0031571","count":5},{"id":"GO:1902916","count":5},{"id":"GO:0051436","count":5}]},{"hash":"1298461822933643514","title":"RNA processing and translational regulation","description":"This cluster centers on mRNA maturation and export (spliceosome-mediated splicing, splice site recognition, mRNA export) with both positive and negative regulation signals, plus terms tied to translation initiation and initiation factor complexes (IRES-dependent translation, eIF4F complex assembly). The presence of viral translation terms and ncRNA-mediated gene silencing suggests broader RNA-centered regulation affecting both splicing/processing and translation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0097010","count":5},{"id":"GO:0006376","count":5}]},{"hash":"976883760460427325","title":"Ubiquitin-like Modifications and Degradation","description":"Core terms point to ubiquitin-family modifications (sumoylation, neddylation, autoubiquitination) and degradation pathways (ERAD, mitophagy), suggesting a cluster of proteins involved in proteostasis via ubiquitin-like signaling; some terms are less coherent but the central theme is ubiquitin-mediated regulation.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0045116","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1903265","count":3}]},{"hash":"72683941919348634","title":"Neural visual and dopaminergic signaling","description":"The top GO terms are dominated by neural sensory processing and dopaminergic signaling, including visual learning, retina development, dopaminergic synaptic transmission, pain perception, and cocaine-related behavioral response. This suggests a theme of neural visual/sensory processing and reward-related signaling, with other terms like heart development and macrophage chemotaxis likely reflecting broader signaling connections rather than the core function of the cluster.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0048148","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0001963","count":4}]},{"hash":"2044945104914182516","title":"Xenobiotic and metal transport","description":"The Top Terms are dominated by transport processes across membranes and into organelles (xenobiotic, chloride, lipoprotein, peroxisomal fatty acid import, phytochelatin vacuole import, drug-associated transport), with some metal/chemical response terms (mercury ion, fenofibrate), suggesting a cohesive theme of transporting diverse compounds and ions rather than a single enzymatic activity.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036246","count":5},{"id":"GO:1902476","count":5},{"id":"GO:0042953","count":5},{"id":"GO:0043213","count":5},{"id":"GO:1901557","count":5}]},{"hash":"1007563465899129778","title":"Autonomic neuroendocrine visceral regulation","description":"The GO terms cluster around autonomic and endocrine control of organ systems, including circadian rhythm, gut motility (peristalsis), gastric acid secretion, urine volume, and blood pressure\u2013related vasodilation via catecholamines. Dopamine receptor signaling and octopamine/tyramine pathways link neurotransmitter signaling to systemic physiology. Some terms (bone remodeling, reproduction, T cell differentiation) point to broader systemic coordination, but the core theme centers on neuroendocrine and autonomic regulation of visceral functions.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":5},{"id":"GO:0022410","count":5},{"id":"GO:0001697","count":5},{"id":"GO:0030432","count":5},{"id":"GO:0007211","count":5}]},{"hash":"1855830967884728597","title":"ER Targeting & Secretory Transport","description":"GO terms point to SRP- and Sec-dependent targeting and translocation of proteins to the ER/membrane, ER-to-cytosol transport, and ER-associated degradation/quality control, i.e., the secretory pathway and ER targeting. Some development terms appear incidental and not central to the main theme.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0070843","count":2},{"id":"GO:0043952","count":2},{"id":"GO:0006616","count":2},{"id":"GO:0006620","count":2}]},{"hash":"32787817112340453","title":"Neuroendocrine regulation of gut motility and vascular tone","description":"These terms converge on signaling pathways that regulate autonomic and neuroendocrine control of organ functions, notably gut motility (peristalsis, gastric acid secretion), urine volume, circadian rhythms, and vascular tone (vasodilation via catecholamines). While a few terms touch on immune, bone, or reproductive processes, the dominant pattern is systemic signaling modulating organ physiology.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":5},{"id":"GO:0022410","count":5},{"id":"GO:0001697","count":5},{"id":"GO:0030432","count":5},{"id":"GO:0007211","count":5}]},{"hash":"780471969802075001","title":"Steroid hormone regulation and lactation","description":"These proteins are tied to steroid hormone responses and biosynthesis (e.g., deoxycorticosterone, dehydroepiandrosterone, androstenedione) and to lactation regulation, including positive regulation of androgen secretion. The combination of hormone production, lactation control, and reproductive signaling forms a coherent theme, with additional but secondary links to cell adhesion, fertilization, blood pressure, and nervous system development.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903496","count":2},{"id":"GO:1903488","count":2},{"id":"GO:2000839","count":2},{"id":"GO:0007595","count":2},{"id":"GO:1903456","count":2}]},{"hash":"1398390481294155424","title":"Unknown","description":"The terms are a mix of bacterial biosynthetic processes and various eukaryotic signaling/development terms, with no clear shared function and no edges linking members, so there is no coherent theme to name this cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042619","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009103","count":2},{"id":"GO:1901077","count":1},{"id":"GO:0051764","count":1}]},{"hash":"1659514087498178085","title":"Organogenesis with vascular and immune signals","description":"Top GO terms cluster around organ development (cartilage condensation; mesonephric duct development; metanephric proximal tubule development) and vascular/lymphatic formation (lymph vessel morphogenesis), with additional hints of immune activation (basophil activation; complement activation). This suggests a theme of developmental biology intertwined with vascular and immune processes rather than a single, narrow function. Confidence in this label is Medium.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":5},{"id":"GO:0010572","count":5},{"id":"GO:0071226","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0072177","count":5}]},{"hash":"1435673520114806586","title":"Ubiquitin-Driven Protein Homeostasis","description":"This cluster centers on ubiquitin dynamics (autoubiquitination and deubiquitination) and ER-associated degradation/ER stress responses, pointing to a role in protein quality control and proteostasis. It also includes links to mitochondrial fusion regulation and, less directly, ribosomal subunit assembly and neuronal development, suggesting a broader network coordinating protein turnover, trafficking, and cellular stress responses at the ER/mitochondria interface.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060334","count":5},{"id":"GO:0010636","count":5},{"id":"GO:0043392","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0016579","count":5}]},{"hash":"2185285715961018926","title":"Female reproductive and mammary gland development","description":"These proteins show a cohesive theme around female reproductive development and mammary gland morphogenesis, with GO terms for ovulation, sex differentiation, female gonad development, and mammary gland development. The hepatocyte growth factor signaling term also supports tissue development/morphogenesis, aligning with the reproductive development theme. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035729","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001542","count":2},{"id":"GO:0007548","count":2},{"id":"GO:0030879","count":2}]},{"hash":"115675324085167000","title":"Mitochondrial autophagy and ubiquitin-like modifications","description":"The cluster is dominated by GO terms for mitophagy (autophagy of mitochondrion) and protein post-translational modifications such as ubiquitination, neddylation, and urmylation, pointing to a core function in mitochondrial quality control through autophagy and ubiquitin-like conjugation pathways. Some brain development terms and other less-connected processes appear as noise, but the strongest signal ties to mt-autophagy and ubiquitin-like regulation, suggesting this as the main functional theme of the group.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":3},{"id":"GO:0021764","count":3},{"id":"GO:0006777","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0018192","count":3}]},{"hash":"24605555617942520","title":"Immune receptor signaling and regulation","description":"This cluster is enriched for immune-related signaling terms, including Fc-epsilon receptor signaling, T cell receptor signaling, and both positive and negative regulation of these pathways, plus granzyme B production and interferon regulation. The combination suggests a cohesive theme of immune cell signaling and regulation (adaptive and cytotoxic responses), with a few terms touching on hematopoietic and dendritic lineage regulation that can accompany immune signaling networks.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0010043","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0050860","count":2}]},{"hash":"2044851483403834271","title":"Oxidative stress-driven proteostasis and autophagy","description":"The cluster shows enrichment for oxidative stress response and proteasomal degradation, along with late endosomal microautophagy and inclusion body assembly regulation, suggesting a cohesive theme of protein quality control and turnover under stress. Peroxisome import and SCF complex disassembly in response to cadmium stress further support stress-adaptive proteostasis and organelle maintenance, while ATP metabolism reflects energy needs during these processes.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034599","count":3},{"id":"GO:0010498","count":3},{"id":"GO:0061738","count":3},{"id":"GO:1990171","count":3},{"id":"GO:0034214","count":3}]},{"hash":"1900632980530858656","title":"Leukocyte adhesion and adaptive immune activation","description":"Top GO terms show both cell adhesion (homophilic/heterophilic) and a suite of immune activation processes (adaptive immune response, B cell activation, Fc-epsilon receptor signaling, TNF production, T cell degranulation regulation) plus innate recognition (peptidoglycan detection); together these suggest proteins mediating leukocyte interactions and immune signaling rather than a single metabolic role.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0086072","count":2},{"id":"GO:0043318","count":2}]},{"hash":"914320065692872557","title":"RNA splicing regulation and translation initiation","description":"This cluster is enriched for GO terms related to mRNA splicing (positive/negative regulation, splice site recognition), mRNA export, and components of the translation initiation machinery (eIF4F complex assembly). It also includes regulatory ncRNA-mediated gene silencing and viral IRES-related terms, suggesting a shared theme of post-transcriptional gene expression control and coordination between RNA processing and translation initiation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0097010","count":4}]},{"hash":"365793571346411591","title":"mRNA Splicing and Export Regulation","description":"The cluster shows strong representation of spliceosome-mediated splicing regulation (positive/negative), splice site recognition, and mRNA export from the nucleus, with additional signals of translation initiation factor assembly. These terms together point to a cohesive role in post-transcriptional mRNA processing and export, rather than a single metabolic activity.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2}]},{"hash":"7272289534819764","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":2},{"id":"GO:0034247","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0018189","count":1}]},{"hash":"1569930009901176411","title":"Unknown","description":"The listed GO terms are diverse, including peroxisome autophagy, freezing response, general transport, stem cell homeostasis, muscle development regulation, BMP signaling, T cell death regulation, and tubulin folding. There isn\u2019t a single coherent function or pathway that clearly ties these terms together, so a specific, representative label isn\u2019t supported.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030242","count":2},{"id":"GO:0050826","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0036335","count":1},{"id":"GO:0048642","count":1}]},{"hash":"1494422046507471135","title":"Ubiquitination Regulation & Signaling Modulators","description":"The GO terms cluster around ubiquitin-dependent protein catabolic processes, various forms of ubiquitination (including K63-linked) and autoubiquitination, plus regulation of sumoylation and signaling pathways like JNK and GTPase activity. Although a couple of terms touch on fatty acid biosynthesis or development, the dominant theme is modulation of ubiquitin-mediated protein turnover and downstream signaling. Therefore, the cluster is best described as ubiquitination regulation and signaling modulators.","confidence":"Medium","size":5,"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:0051865","count":2},{"id":"GO:0045723","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1295223268367642870","title":"Brain Development and Synaptic Plasticity Regulation","description":"This cluster is dominated by GO terms related to neuronal function: brain development, regulation of AMPA receptor activity, and regulation of short-term synaptic plasticity, indicating a role in neuronal signaling and synaptic regulation. While there are a few terms pointing to broader signaling pathways (FGFR/TGF-beta/cAMP), the strongest signal centers on brain development and synaptic plasticity.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0040037","count":2},{"id":"GO:0042771","count":2},{"id":"GO:0048172","count":2},{"id":"GO:2000311","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1338188593085184892","title":"Developmental Morphogenesis and Signaling","description":"The GO terms point to tissue development (eye morphogenesis, hemopoiesis, chondrocyte proliferation) and signaling cascades (calcium signaling, NFAT, store-operated calcium channel activity, proteolysis, macrophage fusion), suggesting a broad theme of developmental growth coordinated by signaling rather than a single cohesive functional module.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060216","count":1},{"id":"GO:0048048","count":1},{"id":"GO:0048050","count":1},{"id":"GO:0035988","count":1},{"id":"GO:0035584","count":1}]},{"hash":"1312613936215919252","title":"Unknown","description":"The GO terms in this cluster are highly diverse and largely unrelated (protein folding, secretion regulation, viral host interactions, plant sepal formation, RNA-templated DNA synthesis, obsolete regulatory terms, etc.), with no shared biological theme. Edges are also absent, and some terms are obsolete, suggesting noisy or non-cohesive annotations rather than a common function. Therefore a coherent label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000413","count":2},{"id":"GO:0050714","count":1},{"id":"GO:2000276","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0006278","count":1}]},{"hash":"502540693540988157","title":"Unknown","description":"The top GO terms are scattered across distinct areas (muscle differentiation, various methylation processes, rRNA/rDNA-related chromatin activity, and even circadian rhythm), with no coherent, common function tying the proteins together. Given the lack of a unifying theme and no interaction evidence, I cannot assign a specific, representative label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0031167","count":1},{"id":"GO:0018013","count":1},{"id":"GO:0018023","count":1}]},{"hash":"1104844122861753687","title":"Inflammatory lipid biosynthesis and immune signaling","description":"This cluster centers on lipid biosynthetic pathways (triglycerides, ether lipids, cardiolipin remodeling, CDP-diacylglycerol) and lipid mediator production (platelet activating factor) with immune implications (interleukin-2 production; regulation of T cell activation/survival). A coherent theme is lipid mediator synthesis linked to inflammation and immune signaling, though a couple terms appear less related. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":4},{"id":"GO:0008611","count":4},{"id":"GO:0070970","count":4},{"id":"GO:0006663","count":4},{"id":"GO:0035965","count":4}]},{"hash":"1390115284273521129","title":"Long-chain fatty acid and lipid metabolism","description":"The cluster is best characterized by strong signals for lipid-related processes: very long-chain and long-chain fatty acid metabolism, long-chain fatty-acyl-CoA biosynthesis, and bile acid biosynthesis, with menaquinone biosynthesis adding a broader metabolic context. A few terms point to immune signaling and behavior, which suggests some noise, but the predominant theme is lipid metabolism.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000038","count":2},{"id":"GO:0001676","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0043542","count":1},{"id":"GO:0042110","count":1}]},{"hash":"2077358965311205203","title":"Vertebrate embryonic craniofacial and neural morphogenesis","description":"These terms point to embryonic morphogenesis in vertebrates, especially craniofacial and neural tissues (palate, digits, eye, cortex, pituitary, parathyroid, skeletal). The shared theme is early development and patterning in head and brain regions, with transcriptional regulation indicating coordinated control. Given the lack of protein\u2013protein edges, the label reflects a broad developmental theme rather than a tight functional module.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0023019","count":2},{"id":"GO:0042733","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0021902","count":2}]},{"hash":"1502325085167487780","title":"Glycolysis and Fructose Metabolism","description":"The cluster is dominated by GO terms for canonical glycolysis, gluconeogenesis, and fructose metabolism (fructose catabolic processes and related intermediates), pointing to carbohydrate metabolism and energy production. A single term about V-type ATPase assembly complements this as energy-related context but does not override the main glycolytic theme. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070072","count":2},{"id":"GO:0061624","count":2},{"id":"GO:0061621","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0030388","count":2}]},{"hash":"1312705746044469537","title":"Branched-chain amino acid metabolism","description":"The top GO terms cluster around biosynthesis and catabolism of branched-chain amino acids (valine, leucine, isoleucine) and related amino acid metabolism, suggesting these proteins participate in amino acid synthesis/turnover; additional terms like folic acid biosynthesis and autophosphorylation are less central and may be peripheral annotations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046437","count":1},{"id":"GO:0010817","count":1},{"id":"GO:0009099","count":1},{"id":"GO:0009098","count":1},{"id":"GO:0019478","count":1}]},{"hash":"1863058631236506391","title":"Unknown","description":"The top GO terms are scattered across chromatin-related processes (histone methylation, chromatin localization, P granule organization) and various metabolic and signaling pathways (menaquinone biosynthesis, glycogen/alpha-glucan catabolism, necroptotic process, estrogen receptor signaling). There is no clear, cohesive function or pathway linking the proteins, and the network has no edges, suggesting the annotations do not reflect a single shared role. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0070266","count":2},{"id":"GO:0006015","count":2}]},{"hash":"24476938032410871","title":"Vertebrate neural crest and endocrine development","description":"This cluster centers on vertebrate development, highlighted by neural crest formation and neuronal differentiation (midbrain dopaminergic neurons), together with endocrine patterning (pituitary gland development and growth hormone signaling) and related organogenesis signals (heart development). A lipopolysaccharide response term is present but does not override the dominant developmental theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":3},{"id":"GO:0021983","count":3},{"id":"GO:0032496","count":2},{"id":"GO:2000346","count":2},{"id":"GO:1904948","count":2}]},{"hash":"153321544612173906","title":"Clathrin-Dependent Endocytosis and Vesicle Trafficking","description":"The top terms cluster around endocytosis, clathrin coat assembly, vesicle cargo loading, and transport between endosomes and the Golgi, plus vacuolar targeting, all hallmark features of clathrin-mediated endocytic vesicle trafficking. The inclusion of actin cortical patch assembly supports the cytoskeletal basis of vesicle formation. Note that a couple terms are obsolete, but the overall theme remains cohesive.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":2},{"id":"GO:0000147","count":2},{"id":"GO:1902963","count":2},{"id":"GO:1905445","count":2},{"id":"GO:0072583","count":2}]},{"hash":"2250275255751521008","title":"Ubiquitin-regulated immune signaling (NF-\u03baB/TNF)","description":"The cluster is enriched for ubiquitination processes and immune signaling pathways, notably NF-\u03baB activation, TNF-mediated signaling, and adaptive immune response, with involvement in negative regulation of RIG-I signaling. This points to proteins that govern innate and adaptive immune responses through ubiquitin-mediated regulation of key signaling cascades. Some terms like histone catabolic process and peroxisome import are peripheral but do not change the main theme. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0039536","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0007250","count":3},{"id":"GO:0002250","count":3}]},{"hash":"1887840975398775698","title":"Unknown","description":"The set includes several neural development terms (neuron migration, neuron differentiation, axonogenesis, muscle stretch detection) but also non-neural processes (phloem development, seed morphogenesis, platelet aggregation, nephron tubule differentiation, hepatocyte proliferation regulation), with no clear single function linking all proteins. ","confidence":"","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0097477","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0035995","count":5},{"id":"GO:2000346","count":5},{"id":"GO:1904948","count":5}]},{"hash":"403966458948071807","title":"Dendritic spine actin remodeling","description":"The top GO terms point to modification of the postsynaptic actin cytoskeleton, dendritic spine maintenance, and actin filament polymerization, all indicating actin dynamics as the central theme. Additional terms about ring canal formation in the germline suggest actin-based structures, supporting a broader actin remodeling function across contexts. Confidence: Medium","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098885","count":3},{"id":"GO:0007301","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0097062","count":3},{"id":"GO:0045987","count":3}]},{"hash":"1543605352896605978","title":"Innate immune response and inflammation","description":"Several top GO terms focus on immune defense and inflammatory signaling (defense response to Gram-positive bacteria, classical complement activation, IL-1\u03b2 production), suggesting these proteins participate in innate immunity. Some terms also touch on coagulation and tissue remodeling, but the core pattern across terms is immune defense.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0051919","count":5},{"id":"GO:0045415","count":5},{"id":"GO:0032078","count":5},{"id":"GO:0050720","count":5}]},{"hash":"264868070629414213","title":"Meiosis and germline development","description":"GO terms strongly point to gamete formation (spermatogenesis, oogenesis), meiosis (homologous chromosome pairing at meiosis), and chromatin-related processes (heterochromatin formation, chromatin localization), suggesting a focus on germ cell development and meiotic chromosome regulation. While there are broader developmental terms present, the core theme aligns with meiosis and germline chromatin dynamics.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0010165","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007420","count":2}]},{"hash":"717271865331787464","title":"Craniofacial and neural crest development","description":"The top GO terms are dominated by embryonic craniofacial and neural crest\u2013related development, including roof of mouth development, neural crest formation, pharyngeal system morphogenesis, and embryonic cranial skeleton morphogenesis. Additional terms mention dorsal spinal cord development and heart-related BMP signaling, all pointing to broad early development of head/neck structures and adjacent tissues. The cluster therefore likely represents factors involved in craniofacial patterning and neural crest\u2013driven differentiation.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0014029","count":2},{"id":"GO:0061312","count":2},{"id":"GO:0060929","count":2}]},{"hash":"1946582342034734148","title":"Cofactor and glycan biosynthesis","description":"The top GO terms cluster around diverse biosynthetic processes, including vitamin/cofactor biosynthesis (thiamine, biotin), nucleotide-sugar pathways (GDP-mannose, UDP-N-acetylglucosamine), and glycan-related synthesis (O antigen, glycogen). This pattern suggests a group of proteins involved in broad biosynthetic metabolism of cofactors and sugars, rather than a single focused pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":3},{"id":"GO:0019483","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0009298","count":1}]},{"hash":"1242321353811024684","title":"Flavonoid glycoside biosynthesis","description":"The terms point strongly to flavonoid production and diversification, with multiple GO entries for anthocyanin biosynthesis and flavonol glycoside (kaempferol/quercetin O-glucoside) biosynthesis, plus related glycosylation processes (glycolipid and dolichol-linked oligosaccharide biosynthesis). While a few other metabolic terms appear, the flavonoid/glycosylation theme is the most coherent explanation. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009718","count":3},{"id":"GO:0019835","count":2},{"id":"GO:0033353","count":2},{"id":"GO:0033330","count":2}]},{"hash":"922477574177185121","title":"Ergothioneine biosynthesis from histidine","description":"The top GO terms are dominated by ergothioneine biosynthesis (from histidine via gamma-glutamyl-hercynylcysteine sulfoxide) and related histidine-derived modifications (trimethylhistidine, hercynylcysteine sulfoxide, selenoneine). This suggests the cluster represents enzymes involved in ergothioneine production. A few unrelated terms (CoA biosynthesis, equilibrioception, B cell chemotaxis) may reflect annotation noise.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0052704","count":2},{"id":"GO:0052707","count":2},{"id":"GO:1903253","count":2},{"id":"GO:1903257","count":2},{"id":"GO:1903255","count":2}]},{"hash":"927736659567850467","title":"Unknown","description":"The terms span diverse signaling pathways (cytokinin, insulin receptor-related, MAPKKK cascade) and various metabolic processes (carbohydrate catabolism, tetrapyrrole biosynthesis, one-carbon metabolism) with no clear common function, so there is no cohesive theme to label; Unknown with no confidence.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":1},{"id":"GO:0030245","count":1},{"id":"GO:0019512","count":1},{"id":"GO:0090080","count":1},{"id":"GO:0009736","count":1}]},{"hash":"1192583533201396041","title":"Ribosome assembly and translation control","description":"The cluster shows enrichment for translation-related GO terms (translation, regulation of translation, maturation of LSU-rRNA), indicating a ribosome biogenesis/translation theme; a few antiviral/interferon-related terms are present but less dominant.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0000470","count":1},{"id":"GO:0006417","count":1}]},{"hash":"2243748913478175007","title":"Ribosome Biogenesis and Export","description":"Based on the strongest signals being ribosomal small subunit biogenesis and export from the nucleus, the cluster seems to reflect ribosome assembly and nuclear export processes. The remaining terms are diverse and do not form a coherent alternative theme, suggesting possible annotation noise or multifunctional proteins; however, the ribosome-related terms provide the most coherent core theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0000056","count":1},{"id":"GO:0045793","count":1},{"id":"GO:1904669","count":1}]},{"hash":"1218368575803680971","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":3},{"id":"GO:0006189","count":3},{"id":"GO:0044791","count":3},{"id":"GO:0060416","count":3},{"id":"GO:0006213","count":3}]},{"hash":"1220673783582907752","title":"Diverse transmembrane transporters","description":"The GO terms show transport activities for ions (sodium, potassium), sugars (galactose, arabinose), nitrite/nitrate, xenobiotics, and neurotransmitter loading, indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single, narrow function. This common theme of transmembrane solute transport justifies a label focused on transporter activity across membranes.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0098700","count":1},{"id":"GO:0015757","count":1},{"id":"GO:1900754","count":1}]},{"hash":"279509770591483688","title":"Embryonic development and organogenesis","description":"Top GO terms indicate broad developmental roles across multiple tissues and stages (forebrain development, axis specification, gastrulation, eye/lens formation, heart development, germ cell growth) with signaling pathways (IGF receptor, neurotrophin/TRK) implicated. The common thread is developmental programs guiding organismal patterning and organ formation, rather than a single tissue-specific function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0051386","count":1},{"id":"GO:0002053","count":1},{"id":"GO:0008355","count":1},{"id":"GO:0046619","count":1}]},{"hash":"396702433085941811","title":"Actin dynamics and GTPase signaling","description":"Based on the top GO terms, actin filament polymerization and positive regulation of GTPase activity are the strongest shared themes, pointing to cytoskeletal remodeling and small GTPase\u2013mediated signaling as core cluster functions. The apoptosis term and other terms (immune regulation, receptor signaling, cell polarity) appear as broader regulatory connections, suggesting the cluster centers on signaling pathways that influence cytoskeletal dynamics and cell behavior rather than a single specific process.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0045953","count":2},{"id":"GO:2000822","count":1}]},{"hash":"320136952036241725","title":"Unknown","description":"The GO terms point to a mix of translation and transcription processes along with activities related to retrotransposition and viral genome replication, plus unrelated metabolic terms; there is no single cohesive biological function tying all proteins together, so a precise, representative label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032197","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0001172","count":1}]},{"hash":"792159244030013614","title":"Chromatin Regulation and Transcription Control","description":"The terms predominantly relate to regulation of gene expression via chromatin state (negative regulation of heterochromatin formation, chromatin silencing) and transcription control (RNA polymerase I/II). Some terms touch differentiation and development (skeletal muscle differentiation, heart looping), and signaling modulation. Taken together, the cluster seems best described as chromatin- and transcription-regulatory functions rather than a single signaling or metabolic pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032434","count":1},{"id":"GO:0009788","count":1},{"id":"GO:0061188","count":1},{"id":"GO:0001947","count":1},{"id":"GO:0061186","count":1}]},{"hash":"1145608001414155570","title":"Ubiquitin-Dependent Protein Degradation and DNA Damage Response","description":"Based on the top GO terms, the cluster is enriched for different forms of ubiquitination (autoubiquitination, K63-linked, monoubiquitination) and ubiquitin-dependent protein catabolic processes, indicating proteolysis via ubiquitin pathways. Additional terms referencing regulation of DNA damage checkpoints and, to a lesser extent, DNA damage response, suggest a broader role in stress signaling and genome maintenance that can be tied to ubiquitin-mediated turnover.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0070534","count":2},{"id":"GO:0006513","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1431098180364679028","title":"Ubiquitin-mediated mitosis and neural development","description":"This cluster mixes GO terms tied to ubiquitin pathways (including ubiquitin-dependent ERAD and K11-linked ubiquitination) with cell cycle processes (mitotic cell cycle, anaphase-promoting complex\u2013dependent catabolic process) and neural development (forebrain/brain development, neural tube closure). The combination suggests a set of proteins that regulate protein turnover and quality control, which in turn influences cell division and neural development, rather than a single tight complex. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2293181228173806391","title":"Hair Keratinization","description":"The top GO terms are keratinization and hair cycle, pointing to processes involved in hair follicle keratinocyte differentiation and hair shaft formation. This suggests the cluster comprises proteins linked to hair keratinization biology rather than other unrelated pathways.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":5},{"id":"GO:0042633","count":5}]},{"hash":"1809066741549103162","title":"Developmental transcriptional repression","description":"The cluster\u2019s terms are dominated by negative regulation of transcription and DNA binding (e.g., negative regulation of transcription initiation by RNA Pol II, negative regulation of DNA binding, and negative regulation of protein binding), alongside developmentally relevant pathways and processes (Wnt signaling, CNS development, ureteric bud morphogenesis, and regulation of mesenchymal/smooth muscle proliferation). This points to a cohesive function in modulating gene expression during development. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045657","count":1},{"id":"GO:0001658","count":1},{"id":"GO:0032091","count":1},{"id":"GO:0043392","count":1},{"id":"GO:0072201","count":1}]},{"hash":"123415984280198336","title":"Neural and Visual Development","description":"The top GO terms cluster around nervous system and sensory development, including forebrain, cerebellum, retinal ganglion cell axon guidance, and visual perception, with related axon guidance and motor neuron pathways. This points to a cohesive function in neural and sensory tissue development rather than general cellular processes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0008045","count":3}]},{"hash":"668846471051838236","title":"Drosophila neural development and synaptic organization","description":"Most terms in this cluster point to neural development and synaptic organization in Drosophila: synaptic transmission regulation, postsynaptic density components, axon region protein localization, R8 cell development, and planar polarity establishment. A few terms (tracheal growth, luteolysis) are less connected, but the dominant signal is neuronal connectivity and synapse assembly.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002042","count":3},{"id":"GO:0051968","count":3},{"id":"GO:0035001","count":2},{"id":"GO:0071504","count":2},{"id":"GO:0071205","count":2}]},{"hash":"1355696379510764599","title":"Golgi Glycosylation and Trafficking","description":"The cluster\u2019s terms cluster around glycosylation processes (including N-linked glycosylation) and ER-to-Golgi transport, plus retention of proteins in the Golgi. This points to a shared role in Golgi-based maturation and trafficking of glycoproteins. Some development-related terms are present but do not define the main theme. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0045053","count":1},{"id":"GO:0031505","count":1},{"id":"GO:0007420","count":1}]},{"hash":"336408649350178253","title":"Adaptive immune response and complement activation","description":"The top GO terms cluster around immune responses, especially complement pathways (classical and lectin) and both innate and adaptive immunity, with links to T cell regulation and germinal center processes. This suggests the proteins participate in immune defense centered on complement activation and adaptive immune signaling, despite one outlier term that does not fit the theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0046007","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0001867","count":2}]},{"hash":"22384694186613372","title":"Ciliogenesis and sensory structure development","description":"The top GO terms strongly cluster around cilium assembly and intraciliary transport (including intraciliary transport involved in cilium assembly, motile/non-motile cilium assembly, and related motor activity), with additional development terms such as chaeta development/morphogenesis and wing disc development. This suggests the proteins are linked to cilium-related processes that drive the development of sensory structures (e.g., chaetae/bristles) in Drosophila. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000582","count":2},{"id":"GO:0022416","count":2},{"id":"GO:0048477","count":2},{"id":"GO:1902857","count":2},{"id":"GO:0035735","count":2}]},{"hash":"341567652776525563","title":"Developmental Signaling Across Organs","description":"The GO terms favor organogenesis and development (cartilage condensation, heart development, hippocampus development, hippo signaling), suggesting these proteins coordinate tissue growth and organ formation. While there are odd terms related to immune and drug responses, the overarching theme points to developmental signaling across multiple tissues.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":3},{"id":"GO:0071226","count":3},{"id":"GO:0021766","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0048148","count":2}]},{"hash":"1879122978853145976","title":"Mitotic Division Machinery","description":"Proteins here are enriched for mitosis- and cell-cycle-related terms (cell division, mitotic cell cycle, mitotic spindle assembly, cell population proliferation), with supporting signals from ribosome biogenesis and vesicle trafficking. The dominant theme is mitotic apparatus and division-related growth, so the cluster likely represents components involved in cell division and associated cellular logistics.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1067142185360206147","title":"Cell Division and Development","description":"The strongest signal is mitosis-related processes (mitotic spindle assembly, mitotic cell cycle, cell division), with concomitant developmental terms (retina and brain development, multicellular organism growth) and supporting roles from vesicle trafficking and ribosome biogenesis, suggesting a growth/division themed cluster rather than a single precise function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1648146696652868482","title":"Intracellular vesicle trafficking and autophagy","description":"The GO terms point to diverse vesicle transport processes (ER-to-Golgi, endosome-to-Golgi) and lipophagy, with melanosome assembly reflecting organelle-specific trafficking; together they suggest a cohesive theme of vesicle-based organelle biogenesis and autophagic turnover rather than a single enzyme activity. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903232","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0061724","count":1},{"id":"GO:0097284","count":1},{"id":"GO:0035281","count":1}]},{"hash":"1688948364426488661","title":"Unknown","description":"The Top Terms cover a wide and disparate mix of biological processes (lipophagy, hepatocyte apoptosis, RNA export, gland development, immune cytotoxicity, signaling, translation, cell division, and intracellular trafficking). There is no clear, single functional module or theme tying these terms together, suggesting this cluster may be heterogeneous or represent multiple unrelated processes rather than a cohesive biological function.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061724","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0035281","count":4},{"id":"GO:0060661","count":4},{"id":"GO:0097278","count":4}]},{"hash":"1168142383085712274","title":"Unknown","description":"The top GO terms span very diverse biological processes (neural excitability, chromatin regulation, transcription, plant hormone biosynthesis, miRNA processing) with no clear shared function among the four proteins. Because there is no cohesive theme linking the terms and no edges connecting the proteins, a specific functional label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905150","count":1},{"id":"GO:0090055","count":1},{"id":"GO:0090282","count":1},{"id":"GO:0009190","count":1},{"id":"GO:0021685","count":1}]},{"hash":"957781381412022517","title":"Ubiquitin-Dependent NF-\u03baB/JNK/TNF Signaling Regulation","description":"The top GO terms point to ubiquitin-dependent protein degradation and autoubiquitination, along with regulation of JNK and TNF-mediated signaling and apoptosis, suggesting the cluster centers on ubiquitin-mediated control of inflammatory and stress signaling pathways. Some terms (e.g., dosage compensation) may be less relevant or noise, and the proteins show no detected interactions, but the shared theme remains ubiquitin-regulated signaling and apoptotic regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0009048","count":2},{"id":"GO:0042981","count":2}]},{"hash":"779989565149705214","title":"Hippocampal neuronal development and dendrite/axon morphogenesis","description":"The top GO terms cluster around hippocampus development, dendrite morphogenesis, axon extension/axonogenesis, excitatory synaptic signaling, ephrin receptor signaling, and JNK pathway regulation with associated phosphorylation and protein stability: all point to neuronal differentiation and the growth/maturation of dendrites and axons in hippocampal neurons. An occasional mitotic cell cycle term may reflect incidental annotations, but the dominant theme is neuronal development and synaptic morphology.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0048813","count":4}]},{"hash":"660515200686518478","title":"Ribosome Biogenesis Proteins","description":"The cluster is best characterized by ribosome biogenesis and related translation initiation regulation, as GO:0042254 appears with the highest count (2) and GO:0051764 (positive regulation of cap-dependent translational initiation) also points to translation control. The remaining terms are diverse and sparsely represented, suggesting potential annotation noise beyond a ribosome/translation focus. Therefore, the label reflects the strongest shared signal, with moderate confidence.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:2000822","count":1},{"id":"GO:0048008","count":1},{"id":"GO:1902498","count":1},{"id":"GO:0060670","count":1}]},{"hash":"1868018568352797048","title":"Vesicle trafficking and lipid metabolism","description":"The cluster shows signals for membrane and vesicle biology: presynaptic dense core vesicle exocytosis and synaptic vesicle maturation point to vesicle dynamics, while phosphatidic acid biosynthetic process and regulation of cholesterol metabolism indicate lipid biosynthesis and regulation. Some terms are more divergent (P-body assembly, septin ring organization, fibroblast migration regulation, cortisol biosynthesis), which dampen a single cohesive theme, so the name centers on vesicle trafficking with an emphasis on lipids. Overall, the cluster seems to capture proteins involved in membrane-associated processes and lipid regulation rather than a single specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008272","count":1},{"id":"GO:0010764","count":1},{"id":"GO:2001031","count":1},{"id":"GO:0006654","count":1},{"id":"GO:0032186","count":1}]},{"hash":"1229136939927177304","title":"Embryogenesis-linked cell cycle and ER trafficking","description":"These proteins show enrichment for early embryonic development processes (preblastoderm mitotic cycle, gastrulation), core mitotic activities (spindle assembly, chromosome segregation), and secretory/ER-associated functions (COPII vesicle budding, ERAD). While a defense response term exists, the dominant theme centers on embryogenesis and essential cell-cycle/trafficking machinery, suggesting a cluster of developmental cell-division components tied to the secretory pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0045143","count":3}]},{"hash":"1788169626112014150","title":"Unknown","description":"The top GO terms span diverse processes (neural fear regulation, growth factor signaling, ubiquitination, morphogenesis, estrogen signaling, actin organization, epithelial polarity, cell volume control, translation initiation, and TLR signaling). With only four proteins and no clear shared functional module, there isn\u2019t a coherent theme to assign a specific label with confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000822","count":2},{"id":"GO:0048008","count":2},{"id":"GO:1902498","count":2},{"id":"GO:0060670","count":2},{"id":"GO:0033146","count":2}]},{"hash":"2169275448908406553","title":"Neural and vascular morphogenesis","description":"The terms cluster around development and morphogenesis of neural tissues and blood vessels (axon guidance in branchiomotor and sensory neurons, trigeminal nerve organization, retina vasculature morphogenesis, coronary artery morphogenesis) with supporting signals of limbic system development and cell-matrix adhesion. Some outliers (circadian sleep/wake cycle, endochondral bone growth) suggest broader developmental roles but the strongest theme is neural and vascular tissue formation. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061299","count":1},{"id":"GO:0042748","count":1},{"id":"GO:0003416","count":1},{"id":"GO:0021761","count":1},{"id":"GO:0021785","count":1}]},{"hash":"951118794152371673","title":"Muscle contraction and sarcomere organization","description":"This cluster centers on GO terms tied to skeletal and cardiac muscle function, including muscle filament sliding, sarcomere organization, regulation of contraction (fast/slow fiber transitions, slow-twitch fibers), and heart muscle contraction and morphogenesis. The shared theme is contractile machinery and muscle-type regulation across skeletal and cardiac tissues, with some ischemia-related regulation suggesting performance under stress.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032972","count":1},{"id":"GO:0001980","count":1},{"id":"GO:0003009","count":1},{"id":"GO:0031444","count":1},{"id":"GO:0045214","count":1}]},{"hash":"1796837988979687239","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:2000059","count":1},{"id":"GO:0050821","count":1},{"id":"GO:0071158","count":1},{"id":"GO:0072717","count":1}]},{"hash":"2010499104352291395","title":"NF-kappaB and TNF signaling regulators","description":"The top terms point to NF-kappaB activation and TNF signaling, including regulation of I-kappaB phosphorylation and autoubiquitination, implying these proteins are regulators of the NF-kappaB/TNF pathway.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0090073","count":2}]},{"hash":"229688641943866346","title":"Rac/GTPase-regulated vesicle trafficking and polarity","description":"The top GO terms cluster around small GTPase (Rac) signaling and membrane/ vesicle dynamics, including negative regulation of Rac signaling, small GTPase-mediated signal transduction, synaptic vesicle budding, lysosomal membrane organization, and establishment of epithelial cell polarity. These together suggest a functional theme of GTPase-driven control of trafficking and cytoskeleton dynamics that shape membrane organization and cell polarity, with some lipid signaling and membrane biogenesis context evident in the list. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":3},{"id":"GO:1902647","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0070142","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1215147721796451216","title":"Cerebral cortex and hippocampus development","description":"The top GO terms show strong signals for cerebral cortex development and hippocampus development, indicating a neural development focus; there are other terms related to signaling or stress responses, but they do not override the brain-development theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":3},{"id":"GO:0009190","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0007100","count":3},{"id":"GO:0034446","count":3}]},{"hash":"769378380098241424","title":"Diverse solute transmembrane transporters","description":"The top GO terms are all about transmembrane transport for a wide range of substrates (sugars, nitrite/nitrate, vitamins, ions, etc.), with one note on neurotransmitter loading into synaptic vesicles. This points to a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate class.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0015757","count":3},{"id":"GO:0015751","count":3}]},{"hash":"1745812664584772501","title":"Cell cycle and kinase signaling regulators","description":"The GO terms are dominated by regulation of the mitotic cell cycle and proliferation, along with positive regulation of serine/threonine kinase and GTPase activities, suggesting these proteins modulate signaling pathways that control cell growth and division. While some terms touch on RNA transport or cytoskeletal aspects, the central theme is regulatory control of cell cycle and kinase signaling. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0071902","count":3}]},{"hash":"1856827199294912504","title":"ECM Secretion and Cardiovascular Morphogenesis","description":"The top terms highlight extracellular matrix constituent secretion and morphogenesis of vascular structures (coronary artery and aorta), suggesting the proteins cluster around ECM remodeling in cardiovascular development. Other terms (neural development, immune polarity, metabolic processes) appear ancillary given the small cluster size, so the main theme is ECM-related vascular development.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032876","count":2},{"id":"GO:0070278","count":2},{"id":"GO:0010975","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0090527","count":2}]},{"hash":"845351633042591398","title":"Ubiquitin-Proteasome Mediated Protein Degradation","description":"The top GO terms are dominated by ubiquitin-dependent proteolysis and protein catabolic processes (including ubiquitination and SCF-dependent proteasomal degradation, ERAD pathway). These point to the core function of tagging proteins for destruction via the proteasome. Some developmental terms appear incidental or broad, but the central theme is proteostasis through ubiquitin-proteasome pathways.","confidence":"High","size":4,"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:0007275","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000209","count":2}]},{"hash":"1577357200675900566","title":"Neural and Visual System Development","description":"A set of terms centers on nervous system development, visual perception, and sensory perception, with supporting multicellular development and transcription-related terms, suggesting involvement in the formation and function of neural/visual sensory systems.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0046827","count":4},{"id":"GO:0019233","count":4}]},{"hash":"890462259578763477","title":"Unknown","description":"The terms span embryo development and metabolism (embryogenesis, gastrulation, granulocyte differentiation, and multiple catabolic and mitochondrial processes). They don\u2019t converge on a single clear function, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042135","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0030851","count":1},{"id":"GO:0006562","count":1},{"id":"GO:0007369","count":1}]},{"hash":"2099677691893234886","title":"Autonomic Neuroendocrine Signaling","description":"This cluster centers on GPCR- and monoamine-mediated signaling (dopamine, norepinephrine/epinephrine, octopamine/tyramine) that regulate visceral functions such as urine volume, gut motility, gastric acid secretion, and vascular tone, as well as circadian rhythms. While a few terms like T cell differentiation and bone remodeling are less directly connected, the dominant pattern is autonomic/neuroendocrine control of physiological processes.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":4},{"id":"GO:0022410","count":4},{"id":"GO:0001697","count":4},{"id":"GO:0030432","count":4},{"id":"GO:0007211","count":4}]},{"hash":"2040374704405865180","title":"Neurotransmitter-Driven Systemic Signaling","description":"These terms collectively point to signaling and regulatory processes across multiple tissues, driven by neurotransmitters and hormones (dopamine receptor signaling, octopamine/tyramine signaling, norepinephrine/epinephrine\u2013mediated vasodilation) and extending to gut motility, circadian rhythms, endocrine functions (urine volume, gastric acid secretion, bone remodeling), and reproductive biology. The common thread is system-wide regulation via signaling molecules rather than a single, cohesive pathway, supporting a label of multisystem neuroendocrine signaling with Medium confidence. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":3},{"id":"GO:0022410","count":3},{"id":"GO:0001697","count":3},{"id":"GO:0030432","count":3},{"id":"GO:0007211","count":3}]},{"hash":"1399043615183233988","title":"Unknown","description":"The terms are extremely diverse: heart morphogenesis and atrial depolarization, ion transport (manganese, calcium), optic nerve organization, and various stress responses. There is no single cohesive biological theme or shared pathway among the proteins, and the network has no edges or structure to indicate a connected function. Therefore the cluster is best labeled Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003151","count":4},{"id":"GO:0098912","count":4},{"id":"GO:0071321","count":4},{"id":"GO:0048060","count":4},{"id":"GO:0034465","count":4}]},{"hash":"427357148856225840","title":"Unknown","description":"The Top Terms cover diverse biological ideas: defense response to Gram-positive bacteria, nuclear protein export, ER-stress\u2013triggered apoptosis, sphingolipid biosynthesis, radiation response, cell size regulation, CpG island methylation\u2013mediated gene repression, neuron axon fasciculation, forebrain development, and integrin-mediated adhesion. There isn't a clear shared function or pathway linking these annotations for the four proteins, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0006611","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0090153","count":4},{"id":"GO:0071479","count":4}]},{"hash":"1269743750728196025","title":"Unknown","description":"This cluster shows a broad, incongruent mix of GO terms including immune regulation (positive regulation of B cell differentiation), antibiotic response and beta-lactamase activity, xenobiotic/nylon-related catabolic terms, calcium transport to the ER, auditory/inner ear development, and phosphorylation/dephosphorylation, with no shared pathway or interaction evident (edges 0). Because there is no cohesive functional theme linking the proteins, a single representative label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045579","count":2},{"id":"GO:0046677","count":1},{"id":"GO:0019876","count":1},{"id":"GO:0030655","count":1},{"id":"GO:0033252","count":1}]},{"hash":"1910196261693863717","title":"Cellular stress response and apoptosis signaling","description":"The GO terms cluster around stress response pathways: cellular response to cadmium, cellular response to ionizing radiation, and intrinsic apoptotic signaling in response to ER stress, with sphingolipid biosynthesis regulation also tying into lipid-mediated stress signaling. While a couple of terms (placenta and thymus development) are more developmental and less directly linked to stress, the strongest cohesive theme across the set is cellular stress signaling leading to apoptosis, suggesting these proteins function in stress-induced survival decisions. The cluster is small with a single edge, indicating a loose connection but a plausible shared role in stress responses.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001890","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0000187","count":4},{"id":"GO:0048538","count":4},{"id":"GO:0050830","count":3}]},{"hash":"17876221467891148","title":"Membrane Ion Transporters and pH Regulation","description":"The top GO terms cluster around transport across membranes, including chloride, bicarbonate, aspartate, and oxalate transport, along with regulation of membrane potential and intracellular pH. This strongly suggests the proteins act as membrane transporters influencing ion balance and pH homeostasis; a few outlier terms may reflect broader annotations but do not change the overall theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":2},{"id":"GO:0051454","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0048240","count":2}]},{"hash":"1359545551695572867","title":"Mitochondrial translation and respiration","description":"The top terms cluster around mitochondrial protein synthesis (translation, ribosomal large subunit assembly) and mitochondrial electron transport, suggesting proteins involved in mitochondrial ribosome function and energy metabolism. The developmental terms are likely incidental noise. This supports a cohesive label focused on mitochondrial translation supporting respiration.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0000027","count":1},{"id":"GO:0072358","count":1},{"id":"GO:0061458","count":1}]},{"hash":"709770685225576685","title":"Reproductive vascular development and angiogenesis","description":"The terms cluster around vascular formation and remodeling (sprouting angiogenesis, coronary artery morphogenesis, embryonic development in utero) and hemostasis-related processes (platelet activation), with reproductive contexts (ovulation) linking these processes. This suggests a cohesive theme of vascular development/angiogenesis in reproductive biology, with related signaling like vitamin D and heparin responses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030728","count":4},{"id":"GO:0030282","count":3},{"id":"GO:0090403","count":3},{"id":"GO:1902219","count":3},{"id":"GO:0090050","count":3}]},{"hash":"400741704902012453","title":"Ribosome biogenesis and translation with stress response","description":"The strongest terms are ribosome biogenesis and translation, with oxidative stress response and autophagy annotations also present, plus transcription elongation and DNA biosynthesis signals. Together these indicate a cluster of proteins involved in protein synthesis and gene expression regulation under cellular stress, including metabolic adjustments.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0007062","count":2},{"id":"GO:0071897","count":2}]},{"hash":"1727178038219146829","title":"Antiviral Immune Signaling","description":"The terms point to antiviral immune signaling: defense against virus, RIG-I pathway regulation, ubiquitination, and B cell homeostasis, with some peripheral terms (vitamin D response, cilium, histone turnover) likely reflecting broader regulatory roles. Thus, label as antiviral immune signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:2000653","count":3},{"id":"GO:0002635","count":3},{"id":"GO:0039536","count":3},{"id":"GO:0034198","count":3},{"id":"GO:1905515","count":3}]},{"hash":"1426833344617258486","title":"Ubiquitination in antiviral NF-\u03baB signaling","description":"This cluster centers on ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, K6-linked ubiquitination) and immune signaling pathways (defense response to virus, TNF- and NF-\u03baB\u2013mediated signaling). The co-occurrence of these GO terms suggests proteins in this cluster participate in tagging substrates for degradation and modulating NF-\u03baB/TNF-driven antiviral responses, with histone catabolism potentially linking to chromatin regulation during immune signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0016567","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0007250","count":2}]},{"hash":"1440846313823085429","title":"Neural development and axon guidance","description":"This cluster is dominated by GO terms related to neural development, axon guidance, synapse assembly, and brain region development (e.g., retinal ganglion axon guidance, motor neuron axon guidance, neural tube closure, and superior temporal gyrus development), along with supporting terms like transcription, receptor clustering, and plasma membrane localization. The common theme points to processes governing neuronal connectivity and brain formation, making this label representative of the cluster\u2019s likely function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0008045","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0031290","count":2}]},{"hash":"389096622689397715","title":"Hormone and growth-factor signaling with ECM remodeling","description":"GO terms indicate responses to estradiol, fibroblast growth factor, and vitamin D, pointing to hormone/growth-factor signaling. The concurrent terms for collagen biosynthesis regulation and regulation of cell shape suggest extracellular matrix remodeling and cytoskeletal changes in response to these signals. Additional terms for glucose transport and immune/toxic responses are present but less central to the core theme.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0071392","count":2},{"id":"GO:0044344","count":2},{"id":"GO:2000538","count":1},{"id":"GO:0051607","count":1}]},{"hash":"782383962397693081","title":"B Cell Activation and IL-4/STAT Signaling","description":"The top GO terms indicate adaptive immune response and transitional B cell differentiation, with IL-4 production and tyrosine phosphorylation of STAT, suggesting a B cell\u2013driven activation and cytokine signaling module. While a few terms (transcytosis, forebrain development) are broader or less specific, the dominant theme across the cluster is B cell\u2013related immune signaling and cytokine regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0038063","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0002333","count":2}]},{"hash":"695599555876564279","title":"Immune cell chemotaxis and antiviral defense","description":"Most of the terms relate to immune cell movement and immune defense (B cell and monocyte chemotaxis, defense response to virus, immune complex clearance). Additional terms note vitamin D\u2013mediated immune modulation and extracellular matrix remodeling (collagen biosynthesis) and cell shape regulation, suggesting a cluster centered on immune cell trafficking with some ancillary tissue remodeling signals.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000538","count":1},{"id":"GO:0051607","count":1},{"id":"GO:0009636","count":1},{"id":"GO:2001264","count":1},{"id":"GO:0033280","count":1}]},{"hash":"191905838543011360","title":"Spliceosome Assembly and Activation","description":"The top GO terms center on prespliceosome assembly (U2-type) and multiple spliceosome conformational steps that lead to catalytic activation, including U4/U1 release. This pattern strongly indicates a function in spliceosome assembly and RNA splicing, with other terms like histone ubiquitination or transcription regulation being peripheral annotations. The cluster of four proteins aligns with core splicing machinery components.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903241","count":4},{"id":"GO:0071894","count":4},{"id":"GO:0000388","count":4},{"id":"GO:0000393","count":4},{"id":"GO:1904570","count":4}]},{"hash":"1448004279145081823","title":"APC/C-Dependent Proteolysis in Mitosis","description":"The top GO terms center on ubiquitin-dependent protein degradation, APC/C- and K11-linked ubiquitination, and mitotic cell cycle processes, pointing to a shared role in controlling mitosis via targeted proteolysis. While some stress-related terms appear, they are secondary to the core cell-cycle\u2013regulated degradation theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0000278","count":3}]},{"hash":"281437999739032333","title":"Diverse membrane solute transporters","description":"The top GO terms point to transport across the plasma membrane for a variety of substrates (selenite, xenobiotics, phosphate, nitrate, trehalose, organic cations, etc.), plus related vesicular transport in neurotransmission, indicating a cluster of membrane transporter proteins handling diverse solutes. This supports a label of diverse membrane solute transporters rather than a single-substrate transporter family. ","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904728","count":4},{"id":"GO:0097080","count":4},{"id":"GO:0042908","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006817","count":4}]},{"hash":"934509375282178635","title":"RNA Splicing and Translation Initiation Factors","description":"The GO terms cluster around pre-mRNA splicing (spliceosome regulation, splice site recognition, mRNA export) and translation initiation (eIF4F complex assembly, IRES-dependent initiation, viral termination-reinitiation), suggesting a functional group in RNA processing and translation control, including aspects of viral translation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0006376","count":2}]},{"hash":"515154072249643621","title":"Innate Immune Signaling and Cytoskeletal Dynamics","description":"This cluster combines innate immune terms (defense against Gram-positive bacteria and virus, TLR8 signaling, cytokine production like IL-6) with actin cytoskeleton remodeling terms (actin filament network formation, lamellipodium organization, endothelial migration). The link suggests a coordinated role of immune signaling and cell motility in response to pathogens, with a minor outlier (otolith morphogenesis) that may be incidental. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051639","count":3},{"id":"GO:1902745","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0010596","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1183100120042593939","title":"Unknown","description":"Top GO terms span immune defense, ER-stress\u2013driven apoptosis, nutrient-responsive invasive growth, broad developmental processes, and general transcription/translation machinery, with no single clear shared pathway. With only 4 proteins and no edges, there isn\u2019t a cohesive functional theme linking them, so a safe label is Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0030900","count":3}]},{"hash":"113302989173401437","title":"MAPK signaling and immune regulation","description":"The GO terms point to activation of MAPK pathways, with p38MAPK and ERK cascades and PMA-responsive signaling, indicating MAPK-driven signal transduction. Immune-context terms such as GM-CSF response, IL-2 regulation, and B cell homeostasis suggest the proteins function within immune signaling networks. Overall, the cluster appears to comprise proteins involved in MAPK-mediated immune activation and regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038066","count":2},{"id":"GO:1904628","count":2},{"id":"GO:0070371","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0042386","count":1}]},{"hash":"1878385276767953622","title":"Chromatin regulation via histone modification","description":"This cluster's GO terms cluster around histone modifications (methylation/acetylation), histone ubiquitination, and related chromatin processes (dosage compensation, chromatin remodeling in V(D)J recombination). Despite some obsolete terms, the shared theme is regulation of chromatin state through histone marks and ubiquitin signaling, indicating a chromatin regulation module.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009048","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0070512","count":3},{"id":"GO:0036205","count":3}]},{"hash":"1346318826889472617","title":"Neuronal development and synaptic signaling","description":"The top GO terms are dominated by neural-related processes such as visual perception, presynapse assembly, sensory neuron axon guidance, receptor recycling, and regulation of GTPase activity, suggesting a neuronal development/synaptic function theme. A couple of terms pertain to mitosis, which may reflect shared cellular machinery or annotation noise, but the neural-specific terms provide a coherent overall theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072356","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0042068","count":3},{"id":"GO:0001881","count":3},{"id":"GO:0035330","count":3}]},{"hash":"882629365003962479","title":"Embryonic mitosis and development","description":"Based on the prominence of mitosis-related terms (mitotic spindle assembly, homologous chromosome segregation, preblastoderm mitotic cell cycle) and embryogenesis signals (gastrulation), the cluster appears to center on early embryonic cell division and development. Additional terms referencing COPII vesicle budding and ER stress/ERAD are likely supplementary housekeeping processes during rapid cell cycles, rather than defining the core function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0090307","count":1},{"id":"GO:0050830","count":1},{"id":"GO:0070059","count":1},{"id":"GO:0045143","count":1}]},{"hash":"1843735783768886649","title":"Translation Initiation Complexes","description":"This cluster is dominated by GO terms for assembling translation initiation machinery\u2014formation of translation preinitiation and cytoplasmic translation initiation complexes, plus translation reinitiation (including IRES-dependent viral initiation)\u2014indicating a core theme around cytoplasmic protein synthesis initiation. A few non-specific terms (growth hormone response, GTPase regulation) appear as secondary associations.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0008283","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0060416","count":2}]},{"hash":"117665479390934248","title":"Neural-immune signaling and axon regeneration","description":"The GO terms show a blend of immune modulation (negative regulation of T cell receptor signaling, Fc receptor signaling, chemokine production, regulation of angiogenesis) and neural-specific processes (protein localization to the juxtaparanode region of the axon, axon extension involved in regeneration, AV node cell adhesion). This pattern suggests proteins that participate in neuro-immune communication and axonal regeneration, rather than a single purely immune or purely neural function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0086072","count":3},{"id":"GO:0042511","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0043318","count":3},{"id":"GO:0045765","count":3}]},{"hash":"2219274036886877787","title":"Unknown","description":"The GO terms are diverse and not coherently linked: metabolism (tetrahydrobiopterin biosynthesis, phenylalanine metabolism, pyrimidine catabolic processes), protein oligomerization, and nuclear processes (DNA-templated transcription, chromosome organization) appear without a single common function. This makes it unclear what unified function would define the cluster.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043496","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0006558","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0051289","count":1}]},{"hash":"627089995435023406","title":"Immune signaling and RNA regulation","description":"These proteins cluster around immune regulation (negative regulation of IL-2, B cell homeostasis, germinal center formation) and signaling (p38MAPK cascade). The presence of RNA processing and translation terms (deadenylation-independent decay, snoRNA splicing, cytoplasmic translation) suggests a link between signaling in immune cells and post-transcriptional control of gene expression. The connection is plausible but not definitive given the small cluster size, so I rate confidence as Medium. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002635","count":1},{"id":"GO:0038066","count":1},{"id":"GO:0098789","count":1},{"id":"GO:0045085","count":1},{"id":"GO:0001782","count":1}]},{"hash":"1490801434223010432","title":"Endothelial Signaling and Adhesion","description":"This cluster centers on signals related to vitamin D response and prostaglandin biosynthesis, along with endothelial cell-cell adhesion, pointing to vascular signaling and cell\u2013cell interactions as a unifying theme. The additional terms\u2014phosphorylation, adenosine metabolism, and DNA/RNA-related processes\u2014likely reflect broader housekeeping activities that accompany these signaling pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0071603","count":2},{"id":"GO:0016310","count":1},{"id":"GO:0006195","count":1}]},{"hash":"341013597972590074","title":"Unknown","description":"Top terms span diverse processes including immune defense, nuclear export, ER-stress\u2013induced apoptosis, liver cell apoptosis, sphingolipid regulation, radiation response, cell size, CpG methylation\u2013mediated gene expression, axon fasciculation, and forebrain development. The broad and disparate set of functions suggests there is no single cohesive theme tying the proteins together, so a specific functional label isn\u2019t evident. ","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006611","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0090153","count":3}]},{"hash":"382077279085799214","title":"Small-molecule metabolism and detoxification","description":"The proteins in this cluster are linked to a broad set of small-molecule metabolic and catabolic processes, including fructose biosynthesis, ethanol and formaldehyde catabolism, fatty acid and retinoic acid metabolism, prostaglandin turnover, and related amino-acid catabolic steps. This diversity suggests a general role in processing diverse metabolites rather than a single pathway, so \"Small-molecule metabolism and detoxification\" is the best concise label.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0046370","count":2},{"id":"GO:0006068","count":2},{"id":"GO:0006693","count":2},{"id":"GO:0019518","count":2}]},{"hash":"1464575598122402593","title":"Chloroplast light-response protein import cluster","description":"Based on the prominent GO terms, the set centers on chloroplast biology, especially protein import into the chloroplast thylakoid membrane and response to light stimulus, suggesting a chloroplast-associated, light-responsive function. Several other terms are obsolete or unrelated (e.g., vertebrate circulation and ear morphogenesis), which weakens the overall coherence. Thus the label captures the main theme but with limited confidence due to noisy terms.","confidence":"Low","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":3},{"id":"GO:0060303","count":2},{"id":"GO:0071894","count":2},{"id":"GO:0045038","count":2},{"id":"GO:2000270","count":2}]},{"hash":"450471934780968780","title":"Embryonic patterning and organogenesis","description":"The top GO terms cluster around early development and organ formation\u2014left-right patterning, somite formation, heart-related structures (endocardial cushion EMT, secondary heart field), cartilage morphogenesis, and other embryonic lineage differentiation\u2014indicating a cohesive theme of embryonic patterning and organogenesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":3},{"id":"GO:0003198","count":2},{"id":"GO:0001756","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0051150","count":2}]},{"hash":"937848707093882959","title":"Neural axon guidance and synaptic organization","description":"The GO terms cluster around neuronal development, axon guidance, and synaptic organization (e.g., dopaminergic neuron axon guidance, regulation of PSD95 clustering, and inner ear stereocilium organization), suggesting a nervous-system/sensory focus. Some terms (lipoprotein signaling, melanin biosynthesis) are less directly related, but the dominant theme is neural development and synaptic/sensory structure.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055096","count":3},{"id":"GO:0072307","count":3},{"id":"GO:0048023","count":3},{"id":"GO:0007626","count":3},{"id":"GO:1904938","count":3}]},{"hash":"218038662449040302","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090669","count":2},{"id":"GO:0031119","count":2},{"id":"GO:0031118","count":2},{"id":"GO:1990481","count":2},{"id":"GO:0031120","count":2}]},{"hash":"1736236513881200256","title":"Embryonic craniofacial and neural development","description":"This cluster includes transcription-related GO terms (transcription by RNA polymerase II and regulation of transcription) together with neural crest formation, dorsal spinal cord development, pharyngeal system development, embryonic cranial skeleton morphogenesis, roof of the mouth, and pancreas development. The shared signal is transcriptional regulation guiding embryogenesis, especially craniofacial and neural lineages.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0014029","count":1},{"id":"GO:0061312","count":1},{"id":"GO:0060929","count":1},{"id":"GO:0021516","count":1}]},{"hash":"249118530726005081","title":"Fatty acid metabolism and lipid biosynthesis","description":"Most top GO terms cluster around lipid metabolism, including fatty-acid beta-oxidation, fatty-acyl-CoA biosynthesis, carnitine biosynthesis, and steroid biosynthesis, with supporting signals of energy metabolism and liver-associated regulation. A few terms appear miscellaneous or broader, but the dominant theme is fatty acid metabolism and lipid biosynthesis, justifying this label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006694","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0033539","count":2},{"id":"GO:0051793","count":2},{"id":"GO:0009409","count":2}]},{"hash":"770776009061952896","title":"Unknown","description":"The enriched GO terms span diverse biological areas\u2014from oogenesis and embryo cell cycle regulation to neural growth, balance sensation, calcium signaling, and blood cell differentiation\u2014showing no single shared function or pathway. With no interactions among the proteins, there isn't a coherent theme to label, so a specific functional name cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030713","count":2},{"id":"GO:2000822","count":1},{"id":"GO:0007347","count":1},{"id":"GO:1902498","count":1},{"id":"GO:0002115","count":1}]},{"hash":"330952548089707929","title":"Splicing Regulation and Circadian Gene Expression","description":"The top GO terms cluster around post-transcriptional RNA processing and splicing (mRNA stabilization, positive regulation of mRNA splicing via spliceosome, regulation of alternative mRNA splicing via spliceosome, RNA splicing) and circadian rhythm regulation, with additional hints of transcription initiation and signaling pathways. This suggests the proteins function together in regulating gene expression at the RNA level and linking to circadian timing, rather than a single enzyme activity. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048255","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0000381","count":4},{"id":"GO:2000144","count":4},{"id":"GO:0030521","count":4}]},{"hash":"1840349469841587920","title":"Unknown","description":"The listed GO terms cover diverse biological contexts across different organisms, including nervous system/myelin-related maintenance, skin differentiation, fungal lipid metabolism (ergosterol, MIPC), fatty acid and sphingolipid biosynthesis, mitochondrial inheritance, and nitrogen/NO metabolism. There is no single cohesive process or theme tying these terms together, so a meaningful, specific cluster label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":4},{"id":"GO:0001949","count":4},{"id":"GO:0032443","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0006636","count":4}]},{"hash":"745418151088355758","title":"Secondary metabolite biosynthesis","description":"Based on the top GO terms, most annotations describe biosynthesis of small-molecule metabolites rather than primary cellular processes. The terms include anthocyanin-containing compound biosynthesis, kaempferol and quercetin O-glucoside biosynthesis, and other glycosylation- and lipid-related biosynthetic processes, indicating a cluster of proteins involved in secondary metabolite production (notably flavonoid glycosides) with some general biosynthetic terms also present.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0033330","count":3},{"id":"GO:0016999","count":3},{"id":"GO:0033303","count":3}]},{"hash":"2071563651478327161","title":"Diverse biosynthesis pathways","description":"The GO terms for this cluster span several biosynthetic processes, including chlorophyll and protoporphyrinogen IX (tetrapyrrole) biosynthesis, biotin biosynthesis, antibiotic biosynthesis, and ectoine biosynthesis, among others. This mix suggests the proteins share a general role in assembling diverse metabolites rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0042450","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0010121","count":1}]},{"hash":"1086555661999179617","title":"Development and Morphogenesis","description":"These proteins are annotated with terms linked to development and tissue patterning, including erythrocyte development and morphogenesis of flower and uterus, with some related regulatory processes. Despite some obsolete terms, the unifying theme is developmental progression and morphogenesis, suggesting this cluster centers on developmental biology rather than a specific pathway. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048821","count":3},{"id":"GO:1902459","count":2},{"id":"GO:0048439","count":2},{"id":"GO:1902465","count":2},{"id":"GO:0009741","count":2}]},{"hash":"1376648598942706134","title":"Mitochondrial tRNA charging and translation","description":"The cluster is strongly enriched for mitochondrial tRNA aminoacylation (lysyl-, asparaginyl-, aspartyl-) and translation, indicating involvement in mitochondrial protein synthesis. While some DNA repair and cell-cycle terms appear, the dominant theme is mitochondrial tRNA charging linked to translation.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006430","count":2},{"id":"GO:0070154","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006310","count":2}]},{"hash":"1368850511703670714","title":"Ubiquitin-mediated protein degradation","description":"Top terms show multiple ubiquitination and proteolysis activities (protein ubiquitination, autoubiquitination, K48- and K6-linked ubiquitination, and ubiquitin-dependent protein catabolic process), indicating a cohesive theme of tagging proteins for degradation; a few terms (histone catabolic process, TNF signaling, sensory stimulus) are related peripherally via ubiquitin pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0070936","count":3},{"id":"GO:0085020","count":3}]},{"hash":"924003975455070772","title":"Unknown","description":"Top GO terms are highly diverse, including lipophagy, hepatocyte apoptotic process, pre-miRNA export from nucleus, gland development, complement-dependent cytotoxicity, phospholipase D activation, cell division, endosome-to-Golgi transport, GPCR signaling, and mitochondrial fission. With only three proteins and such a broad, dispersed set of functions, there is no single unifying biological theme that clearly ties these proteins together. Unknown function label is most appropriate.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061724","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0035281","count":3},{"id":"GO:0060661","count":3},{"id":"GO:0097278","count":3}]},{"hash":"2059536799362887144","title":"Rho signaling and membrane remodeling","description":"The Top Terms are dominated by regulation of Rho protein signal transduction, which governs cytoskeletal dynamics, and several membrane-related processes (ER membrane organization, sphingolipid biosynthesis, and protein localization to phagosomes). Myoblast fusion also reflects membrane remodeling during cell fusion, tying signaling to membrane dynamics. A few terms are peripheral (ABA signaling, T cell proliferation), but the core pattern points to signaling interactions coupled with membrane organization and lipid metabolism.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0009738","count":1},{"id":"GO:0090158","count":1},{"id":"GO:0045943","count":1}]},{"hash":"327661019108215863","title":"Neuronal development and axon guidance","description":"The cluster is dominated by neuronal terms: dendritic spine morphogenesis, neuron cell\u2013cell adhesion, and fasciculation of sensory neuron axons, along with growth/communication signaling via receptor tyrosine kinases. While a few terms like notochord development or ovulation appear, they likely reflect broader annotations; the core function suggested is neuronal connectivity and axon guidance.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":3},{"id":"GO:0060035","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0007158","count":3},{"id":"GO:0097155","count":3}]},{"hash":"803965354050769811","title":"Antiviral T cell activation and cytokine regulation","description":"These proteins cluster around immune signaling related to viral defense and T cell activity. The top GO terms emphasize antiviral responses (defense response to virus, cellular response to interferon-alpha), T cell activation, and cytokine regulation (interleukin-10, interleukin-2). The convergence on immune activation and cytokine control suggests a pathway of antiviral T cell\u2013mediated regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032733","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0042110","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0045124","count":2}]},{"hash":"1631626561346197909","title":"Nervous system development and axon guidance","description":"The cluster is strongly enriched for GO terms related to neural development, axon pathfinding, and synapse localization (e.g., axon fasciculation, motor neuron axon guidance, PNS axon regeneration, and protein localization to synapse), indicating a cohesive theme around nervous system development and neuronal connectivity. A single outlier term (nephric duct morphogenesis) likely reflects broader morphogenesis roles or annotation noise.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097155","count":3},{"id":"GO:0097324","count":3},{"id":"GO:0014012","count":3},{"id":"GO:0072178","count":3},{"id":"GO:0035418","count":3}]},{"hash":"906645459695936590","title":"Unknown","description":"The terms span vitamin A metabolism, lipid biosynthesis, immune activation, neural and sensory processes, and germ-cell regulation, with no single shared pathway tying the proteins together; thus no meaningful specific label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034653","count":2},{"id":"GO:2000255","count":2},{"id":"GO:0071285","count":2},{"id":"GO:0006776","count":2},{"id":"GO:0006656","count":2}]},{"hash":"1708295326592042492","title":"Cardiac morphogenesis and heart development","description":"This cluster is dominated by GO terms related to heart formation and morphogenesis, including embryonic heart tube formation, atrial formation, outflow tract morphogenesis, and ascending aorta development, with supporting terms for arterial endothelial differentiation. Although a few terms touch on oxidative stress or unrelated pathways, the central theme is cardiac development and vascular formation during embryogenesis. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":3},{"id":"GO:0071285","count":3},{"id":"GO:0035481","count":3},{"id":"GO:0033627","count":3},{"id":"GO:0007540","count":3}]},{"hash":"1678339217079957477","title":"Chromatin Remodeling and Developmental Transcription Control","description":"This cluster centers on chromatin dynamics (heterochromatin formation, nucleosome mobilization, histone modification/exchange) and transcriptional regulation (transcription initiation, ncRNA-mediated silencing), coupled with developmental patterning signals (segment specification, vegetative-to-reproductive transition, PCP-associated signaling). The common thread is chromatin-based control of gene expression during development.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":2},{"id":"GO:2000096","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0016246","count":2}]},{"hash":"2030693160913906871","title":"Unknown","description":"The top GO terms span diverse, largely unrelated processes (lipophagy, hepatocyte apoptosis, pre-miRNA export, gland development, immune cytotoxicity, phospholipase D activity, cell division, endosome-Golgi transport, GPCR signaling, mitochondrial fission), with no clear shared function tying all proteins together. The lack of a coherent theme and zero edges suggest this cluster is heterogeneous or mislabeled, so a precise, single functional label is not justifiable.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061724","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0035281","count":2},{"id":"GO:0060661","count":2},{"id":"GO:0097278","count":2}]},{"hash":"332098309762451005","title":"Unknown","description":"The GO terms are scattered across development (ciliary and brain morphogenesis), mitosis (spindle assembly, chromosome segregation, preblastoderm cell cycle), vesicle trafficking (COPII budding), apoptosis, immune defense, and generic regulatory processes, with no clear, cohesive function linking the proteins. Given this diversity and lack of network connections, a concise, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061073","count":1},{"id":"GO:0021540","count":1},{"id":"GO:0010923","count":1},{"id":"GO:2000653","count":1},{"id":"GO:0090307","count":1}]},{"hash":"2298422014027052791","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048026","count":1},{"id":"GO:0031442","count":1},{"id":"GO:0048574","count":1}]},{"hash":"845303807057819105","title":"Unknown","description":"The three proteins are linked to a wide and disparate set of GO terms (defense response to Gram-positive bacteria, nuclear export, ER-stress\u2013triggered apoptotic signaling, sphingolipid biosynthesis regulation, radiation response, cell size regulation, CpG methylation\u2013related gene expression, neuron axon fasciculation, forebrain development, and integrin-mediated adhesion). There isn't a clear, single biological theme tying them together, and there are no edges to suggest a shared pathway. Therefore, a generic Unknown label is appropriate with no confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006611","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0090153","count":3},{"id":"GO:0071479","count":3}]},{"hash":"1134413813521846037","title":"Embryonic organogenesis","description":"These terms span development across multiple organs (kidney, pancreas, hair follicles, salivary glands, neural tissue, etc.), pointing to a broad embryonic morphogenesis program rather than a single tissue function. The cluster seems to reflect general organ formation processes during development, rather than a specific pathway.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072163","count":1},{"id":"GO:0060615","count":1},{"id":"GO:0001656","count":1},{"id":"GO:0031069","count":1},{"id":"GO:0060019","count":1}]},{"hash":"429011796526763166","title":"Unknown","description":"GO terms span diverse developmental and differentiation processes (vitellogenesis, oogenesis, spermatogenesis, osteoblast/keratinocyte differentiation) plus immune defense and chromatin localization, with no evident shared pathway or function and no interactions among proteins. Therefore, no coherent cluster label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007296","count":2},{"id":"GO:0071169","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0051290","count":1},{"id":"GO:2000973","count":1}]},{"hash":"9473993868771262","title":"Immune receptor signaling","description":"Dominant GO terms are B cell receptor signaling and negative regulation of humoral immune response, with related tyrosine kinase signaling activities (collagen-activated receptor). This points to an immune signaling core, though a few development or cytoskeletal-related terms appear as secondary associations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0038063","count":1},{"id":"GO:0060670","count":1},{"id":"GO:0048806","count":1}]},{"hash":"653973131299200776","title":"Placental and maternal reproductive development","description":"This cluster\u2019s GO terms predominantly point to reproductive biology and placental formation, including endodermal differentiation, maternal placenta development, and maternal processes involved in parturition. The single term on mitochondrial outer membrane permeabilization suggests a possible link to cellular remodeling or apoptosis, which can occur during placental development. Taken together, the terms suggest a cohesive theme around placental and maternal reproductive development, with a modest contribution from apoptosis-related processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0097345","count":1},{"id":"GO:0001893","count":1},{"id":"GO:1903547","count":1},{"id":"GO:0060137","count":1}]},{"hash":"2161974900653021371","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":2},{"id":"GO:0007014","count":2},{"id":"GO:0061470","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0060546","count":2}]},{"hash":"1612108203512527116","title":"Iron transport and detoxification","description":"The top GO terms are dominated by iron-related processes: siderophore-iron import, iron ion transport, detoxification of iron ion, and intracellular sequestration of iron ion. These point to a common theme of iron homeostasis and handling. Other terms about cell cycle are present but less representative of the cluster\u2019s core function; thus the iron-related theme best captures the shared function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000070","count":1},{"id":"GO:0033214","count":1},{"id":"GO:1990461","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0030261","count":1}]},{"hash":"1878147802345924799","title":"Neural signaling and dendrite morphogenesis","description":"The top GO terms largely point to neuronal signaling and development: ephrin and ERK/MAPK signaling, calcium-dependent exocytosis, dopamine response, and dendrite morphogenesis, suggesting a theme of neural communication and growth. Some outliers (mitotic cell cycle, mast cell degranulation) exist, but the core cluster centers on neural signaling and dendritic development.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":3},{"id":"GO:0043304","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0048013","count":3}]},{"hash":"1266960957619526347","title":"Epigenetic Chromatin Regulation","description":"GO terms are dominated by histone modification and chromatin state regulation (e.g., histone methylation/demethylation, acetylation, heterochromatin formation) with links to spermatid chromatin remodeling and immune tolerance contexts. Although several terms are obsolete, the recurring theme points to epigenetic control of gene expression and chromatin structure, justifying a label centered on chromatin modification and epigenetics. The lack of interactions among proteins suggests a broad, non-pathway-specific role in chromatin regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000791","count":1},{"id":"GO:1901536","count":1},{"id":"GO:0044648","count":1},{"id":"GO:1901726","count":1},{"id":"GO:0007289","count":1}]},{"hash":"2225585326587611696","title":"Neural crest\u2013driven craniofacial morphogenesis","description":"The top GO terms converge on neural crest formation and craniofacial development, with multiple terms for cranial skeleton morphogenesis, facial structures (roof of mouth), and pharyngeal system development, plus related embryonic patterning. This dominant craniofacial/neural crest signal best represents the cluster, despite some broader embryogenesis terms.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014029","count":2},{"id":"GO:0061312","count":2},{"id":"GO:0060929","count":2},{"id":"GO:0021516","count":2},{"id":"GO:0060037","count":2}]},{"hash":"2060677398778947085","title":"Mitotic control, DNA repair, and EMT signaling","description":"These proteins cluster around core mitotic processes (negative regulation of chromosome condensation, kinetochore localization) and DNA repair via nonhomologous end joining, with an additional note of serine dephosphorylation. The presence of EMT and cell\u2013cell adhesion terms, plus glucocorticoid signaling, suggests these proteins also participate in signaling pathways that influence cell phenotype and adhesion. Overall, the set seems to connect cell cycle/damage-response functions with broader signaling/adhesion roles, though the small cluster size introduces uncertainty. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1905213","count":3},{"id":"GO:2001034","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0060316","count":3}]},{"hash":"1543962672972222444","title":"Nucleocytoplasmic transport and nuclear pore organization","description":"Based on the GO terms, the proteins are involved in moving molecules into and out of the nucleus (protein import into nucleus, tRNA export from nucleus), assembling/organizing the nuclear pore, and related nuclear membrane dynamics during mitosis. The oligomerization terms suggest these factors may act within multi-subunit complexes. Overall, the functions point to nucleocytoplasmic transport and pore dynamics as the core theme.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010827","count":1},{"id":"GO:0051290","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0042306","count":1},{"id":"GO:0007077","count":1}]},{"hash":"1835713992328830131","title":"Nucleotide Metabolism and Salvage","description":"The shared GO terms point to nucleotide biosynthesis and salvage pathways (ADP/CDP biosynthesis, purine ribonucleotide interconversion, AMP salvage, nucleoside phosphorylation). Although brain and liver development terms appear, the strongest signal is nucleotide metabolism, suggesting the proteins function in nucleotide biosynthesis/interconversion rather than development. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0046041","count":3},{"id":"GO:0001889","count":3}]},{"hash":"1321536167773598227","title":"Unknown","description":"The terms span immune defense, nucleocytoplasmic transport, ER stress\u2013related apoptosis, sphingolipid biosynthesis regulation, radiation response, cell size and adhesion, CpG methylation\u2013related gene regulation, and neural development, with no single clear theme tying the three proteins together. This makes it impossible to assign a specific, representative function label.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006611","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0090153","count":3},{"id":"GO:0071479","count":3}]},{"hash":"723324211722379736","title":"Unknown","description":"The top GO terms are scattered across protein stabilization, ubiquitination, transcriptional regulation, immune signaling, muscle development and contraction, mRNA export, epithelial differentiation, and even yeast mating projection growth. There isn't a single, cohesive biological theme that clearly ties these terms together for this cluster, suggesting the proteins may be involved in diverse, unrelated processes or a broad regulatory role rather than a focused function.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050821","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0035307","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0046642","count":3}]},{"hash":"269255916333636256","title":"Molybdenum cofactor biosynthesis","description":"The top GO terms are dominated by molybdenum cofactor biosynthetic process and molybdenum incorporation into molybdenum-molybdopterin complex, pointing to a shared role in MoCo assembly for molybdoenzymes; the other terms (receptor clustering and skeletal development) appear incidental noise rather than a unifying function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006777","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0097112","count":2},{"id":"GO:0072579","count":2},{"id":"GO:0032324","count":2}]},{"hash":"62834719681643269","title":"Apoptosis Regulation and Lipid Storage","description":"This cluster's GO terms include multiple apoptotic processes (execution phase of apoptosis, apoptotic DNA fragmentation, thymocyte apoptotic process) alongside lipid storage and triglyceride storage, suggesting a link between cell death regulation and lipid metabolism. Additional terms related to stress responses (response to stilbenoid, temperature homeostasis) may reflect cellular contexts where metabolism and apoptosis intersect. Thus, the label captures a cohesive theme of apoptosis regulation in a metabolic/lipid-storage context.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019915","count":1},{"id":"GO:0070242","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0006309","count":1},{"id":"GO:0035634","count":1}]},{"hash":"33816312294951914","title":"Ion Transport and Calcium Signaling","description":"The GO terms emphasize calcium ion transport (to ER) and calcium-dependent exocytosis, along with other metal ion transports (potassium, copper, cadmium) and related signaling processes, suggesting a module focused on ion homeostasis and calcium signaling rather than a single highly specific function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":2},{"id":"GO:0019373","count":2},{"id":"GO:1903243","count":2},{"id":"GO:0097623","count":2},{"id":"GO:0033574","count":2}]},{"hash":"1120396409441709214","title":"Metal Ion Transport and Dephosphorylation","description":"The top GO terms cluster around metal ion transport (calcium, copper, cadmium) and membrane transport, plus dephosphorylation events (general and phospholipid-specific). This suggests a unifying theme of ion movement coupled with phosphatase signaling, despite some outlier terms related to metabolism or hormone response.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0016311","count":2},{"id":"GO:1903243","count":2},{"id":"GO:0097623","count":2}]},{"hash":"749261235384669938","title":"Autonomic neuroendocrine regulation of visceral functions","description":"This cluster centers on neuroendocrine and autonomic signaling governing visceral physiology: GPCR-mediated pathways influencing urine volume, circadian rhythm, gastric acid secretion, gut motility, and vascular tone (norepinephrine/epinephrine effects, dopamine receptor signaling, octopamine/tyramine signaling). While a couple of terms (immune differentiation, bone remodeling, reproductive processes) are less directly tied, they can be modulated by systemic neuroendocrine cues, supporting a broad theme of neural/hormonal control over organ function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":3},{"id":"GO:0022410","count":3},{"id":"GO:0001697","count":3},{"id":"GO:0030432","count":3},{"id":"GO:0007211","count":3}]},{"hash":"1771967475615322021","title":"Hormone-responsive signaling and ion transport","description":"This cluster includes GO terms for responses to testosterone, estradiol, nicotine, and ischemia, pointing to a general stimulus-response theme. It also features terms on positive regulation of membrane localization and cation/ potassium transport, suggesting involvement in membrane signaling and ion channel activity. The overall signal is a mix of hormone/stimulus responses with ion transport regulation, indicating a cohesive but broad functional group.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0033574","count":3},{"id":"GO:1905965","count":3},{"id":"GO:0002931","count":3},{"id":"GO:0071316","count":3},{"id":"GO:0035220","count":3}]},{"hash":"118778344745284219","title":"Unknown","description":"The GO terms span several unrelated areas (fungal sterol biosynthesis, protein oligomerization, neuronal development and signaling, lipid transport, and metal ion response), and with only three proteins and two edges there is no clear common function tying them together. Therefore a specific, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006696","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0043523","count":1},{"id":"GO:0038003","count":1},{"id":"GO:0007399","count":1}]},{"hash":"2294291549383075048","title":"Unknown","description":"The GO terms are spread across vascular permeability, FGFR signaling, sebaceous gland development, vacuole fusion, and palmitoylation, with no clear single function tying the proteins together. Given only 3 proteins, 2 edges, and no cohesive pathway, there isn't a robust theme to name a specific, representative cluster.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043117","count":1},{"id":"GO:0045743","count":1},{"id":"GO:0048733","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0018230","count":1}]},{"hash":"1415255402039810308","title":"Ion Transport and Calcium Signaling","description":"The GO terms cluster around ion transport across membranes, especially calcium ion transport and calcium-dependent exocytosis, with supporting signals from copper and cadmium transport and related phospholipid dephosphorylation. While epoxygenase P450 pathway and testosterone response terms are present, the strongest common thread is ion movement and calcium signaling, suggesting a membrane transport/signaling focus for these proteins.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903515","count":3},{"id":"GO:0019373","count":3},{"id":"GO:0016311","count":3},{"id":"GO:1903243","count":3},{"id":"GO:0097623","count":3}]},{"hash":"106135584142001682","title":"Transmembrane ion and metabolite transport","description":"The cluster\u2019s top GO terms cluster around transport across membranes for ions (chloride, bicarbonate) and metabolites (L-aspartate, oxalate) and related membrane potential regulation, suggesting a shared function in membrane transport. Some terms are broader physiological contexts, but the core theme remains ion/metabolite transmembrane transport. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":2},{"id":"GO:0051454","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0048240","count":2}]},{"hash":"291606156202203767","title":"Ion transport and membrane potential regulation","description":"This cluster centers on ion movement and membrane potential changes, with GO terms for sodium import, potassium homeostasis/export, and membrane depolarization indicating a shared function in ion transport and excitability. Other terms (thermogenesis, pain, cGMP signaling, morphogenesis) appear ancillary or context-specific.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098719","count":2},{"id":"GO:0002024","count":2},{"id":"GO:0030007","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0071502","count":2}]},{"hash":"1978881698115314092","title":"Adaptive and innate immune activation with antigen presentation","description":"This cluster centers on immune defense processes, including defense against Gram-positive bacteria, IL-17 and IL-1\u03b2 production, T and B cell activation, complement activation, and MHC class I\u2013mediated antigen presentation, suggesting coordinated innate and adaptive immune functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0032620","count":2},{"id":"GO:0050690","count":2},{"id":"GO:0032611","count":2},{"id":"GO:0050871","count":2}]},{"hash":"1506099867726645567","title":"Purine nucleotide metabolism","description":"The dominant GO terms point to nucleotide metabolism, especially purine nucleotide interconversion and various phosphorylation/monophosphate processes (AMP/ADP/ITP, CDP biosynthesis, AMP salvage). A couple of development terms (liver/brain development) appear as outliers and are unlikely to define the cluster\u2019s core function. Taken together, the proteins in this cluster are best described as relating to purine nucleotide metabolism and salvage.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015951","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1289792069244958500","title":"Unknown","description":"The top GO terms span Hedgehog signaling, neuron and heart development, ion transport, cGMP signaling, and even gravitaxis, with no single dominant function across the proteins. Because the terms are scattered rather than cohesive, there isn\u2019t a clear, representative theme to name the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":2},{"id":"GO:0090403","count":1},{"id":"GO:1904948","count":1},{"id":"GO:0003151","count":1},{"id":"GO:0098912","count":1}]},{"hash":"562158383469985597","title":"B cell receptor signaling and adaptive immunity","description":"The GO terms cluster around adaptive immune response, B cell receptor signaling, Fc-epsilon receptor signaling, IL-2 production, and ERK cascade regulation, with additional emphasis on cell\u2013cell adhesion, pointing to proteins involved in B cell activation and downstream signaling that drives immune communication. The CNS development term appears unrelated noise, but the dominant immune-receptor\u2013mediated signaling pattern supports a cohesive B cell\u2013focused immune module.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0038095","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0016337","count":3}]},{"hash":"41087012316647456","title":"Axon guidance and paranodal junctions","description":"This cluster is best described by neural functions, especially axon guidance and nodal region organization. The top terms point to Roundabout signaling (ROBO), paranodal junction assembly, and juxtaparanode localization, all linked to axon pathfinding and node of Ranvier architecture, with supporting links to neural cell adhesion. A few terms are broader (bone development, immune adhesion), but the dominant theme is neuronal adhesion/guidance.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":2},{"id":"GO:0071205","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007157","count":2}]},{"hash":"1088090549103408564","title":"Ubiquitin-mediated Signaling Regulation","description":"The cluster shows terms centered on regulating signaling pathways (positive regulation of Wnt signaling, negative regulation of ERK cascade) and a specific emphasis on K63-linked ubiquitination, suggesting a role in modulating signaling outputs via ubiquitin signals. Additional terms hint at broader regulatory functions in nuclear export and trafficking, implying these proteins may coordinate localization and activity rather than performing a single catalytic task. Overall, the pattern supports a theme of signaling regulation linked to ubiquitin-mediated control, despite some obsolete terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0070373","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0046642","count":2},{"id":"GO:0010793","count":2}]},{"hash":"1407320018306674252","title":"Spliceosome Assembly and Splicing Regulation","description":"The predominance of GO terms related to spliceosome assembly/disassembly and mRNA splicing via the spliceosome (including prespliceosome formation) gives a clear splicing-centric function for this cluster; a few obsolete or peripheral terms appear but do not override the main signal.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000390","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0006301","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903241","count":1}]},{"hash":"734493512273699655","title":"Germ cell and gonadal development","description":"The top GO terms cluster around germ cell formation/migration, oocyte and Sertoli cell development, and regulation of meiosis, with nodal signaling and somitogenesis-related patterning also involved. This points to a cohesive theme of germline and gonadal development during embryogenesis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1900107","count":2},{"id":"GO:1900114","count":2},{"id":"GO:0060903","count":2},{"id":"GO:0046661","count":2},{"id":"GO:2000287","count":2}]},{"hash":"162861754228452418","title":"mRNA Splicing and Export","description":"Most of the top GO terms describe RNA splicing and spliceosome-related processes (mRNA splice site recognition, RNA splicing, positive/negative regulation via spliceosome) and mRNA export from the nucleus, pointing to post-transcriptional RNA processing as the unifying theme. A few terms touch on translation initiation in viral contexts, but they are less representative of the cluster's main function. Therefore, the label emphasizes RNA processing and export.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0006376","count":1}]},{"hash":"237201815319134116","title":"Unknown","description":"The GO terms linked to this cluster span immune defense, ER-stress\u2013related apoptosis, DNA damage/radiation response, epigenetic gene regulation, neural development and axon fasciculation, lipid biosynthesis, and cell adhesion, with no single unifying function emerging across all three proteins. This lack of a cohesive common theme makes a concise, specific cluster label infeasible.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006611","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0090153","count":3},{"id":"GO:0071479","count":3}]},{"hash":"889631997565304473","title":"Actin-dependent vesicle transport and cytoskeletal remodeling","description":"This cluster centers on actin-based processes: vesicle transport along actin filaments, actin nucleation regulation, and cell polarity features like uropod organization and Golgi ribbon remodeling, with additional associations to vesicle processing in phagocytosis and related membrane dynamics. The common theme appears to be cytoskeletal remodeling coupled to vesicle trafficking.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030050","count":2},{"id":"GO:0031585","count":2},{"id":"GO:0032796","count":2},{"id":"GO:0014728","count":2},{"id":"GO:0051127","count":2}]},{"hash":"2034576906679867831","title":"LPS biosynthesis","description":"The top GO terms point to lipopolysaccharide biosynthetic processes and CMP-KDO biosynthesis, which are core steps in assembling the LPS outer membrane in Gram-negative bacteria. Despite a few scattered eukaryotic annotations in the list, the strongest shared function across the terms is LPS/KDO production, supporting a label focused on lipopolysaccharide biosynthesis. Confidence is moderate due to potential annotation noise and small cluster size.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0019294","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0033468","count":1},{"id":"GO:1905213","count":1}]},{"hash":"1968613464019632320","title":"Polyamine biosynthesis and arginine catabolism","description":"The top GO terms are dominated by polyamine biosynthetic processes (putrescine and spermidine synthesis) derived from arginine/ornithine and related arginine catabolism, indicating a shared function in polyamine metabolism across the cluster. Some unrelated terms (kidney development, axon regeneration, trans-Golgi network organization) appear as noise, but the core signal points to polyamine production and amino acid metabolism.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902269","count":2},{"id":"GO:0045312","count":2},{"id":"GO:0009089","count":2},{"id":"GO:0098629","count":2},{"id":"GO:0006527","count":2}]},{"hash":"1436414959303939339","title":"Unknown","description":"The top terms cover a mix of signaling pathway regulation (BMP/TGF-beta, NF-kappaB), post-translational modification (peptidyl-threonine dephosphorylation), and some plant-specific processes (meristem maintenance, photosystem adjustments), with no clear unifying function across the cluster and no interactions between proteins. This heterogeneity makes it hard to assign a cohesive, specific label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":3},{"id":"GO:0080005","count":2},{"id":"GO:0000173","count":2},{"id":"GO:0042006","count":2},{"id":"GO:0042347","count":2}]},{"hash":"1520408647490318411","title":"Unknown","description":"The GO terms are spread across DNA replication/repair (leading strand elongation, HR repair regulation, sister chromatid biorientation), protein quality control and trafficking (misfolded-protein response, late endosomal microautophagy, intralumenal vesicle formation), and RNA processing (mRNA export). There isn\u2019t a single cohesive function linking all three proteins, suggesting annotation noise or context-specific roles, so a specific, representative label isn\u2019t warranted.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010569","count":1},{"id":"GO:0050775","count":1},{"id":"GO:0061738","count":1},{"id":"GO:1990171","count":1},{"id":"GO:0031134","count":1}]},{"hash":"748924977070755031","title":"Cell-Cell Adhesion and Signaling","description":"This cluster centers on cell-cell adhesion and its downstream signaling, with terms like heterophilic cell-cell adhesion, regulation of actin cytoskeleton by cell-cell adhesion, and regulation of synapse assembly. These indicate a cohesive theme around adhesion-mediated communication and cytoskeletal dynamics, despite a few outlier terms that are less related (e.g., ossification, symbiont entry). ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0086072","count":2},{"id":"GO:0043318","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0051963","count":2},{"id":"GO:0090138","count":2}]},{"hash":"1558793755706103163","title":"Drosophila eye development and pigmentation","description":"This cluster is dominated by GO terms tied to eye pigmentation and eye morphogenesis in Drosophila, including positive regulation of melanin biosynthesis, ommatidial rotation, and regulation of eye photoreceptor development. Additional terms about follicle cells and cell junctions fit a broader developmental context, but the eye-related terms are most representative of the cluster\u2019s shared function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048023","count":2},{"id":"GO:0071285","count":2},{"id":"GO:0032533","count":2},{"id":"GO:0016318","count":2},{"id":"GO:0045216","count":2}]},{"hash":"1479260427970699690","title":"Neuronal signaling and axon localization","description":"The strongest signals are neural: neurotransmitter secretion and neuronal action potential propagation, plus protein localization to the juxtaparanode region of the axon, suggesting a theme of neuronal signaling and axonal organization. Some other terms are developmental or non-neuronal, which may reflect broader roles or annotation noise, but the core cluster appears centered on neural signaling and axon-related localization.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:0019227","count":2},{"id":"GO:1903553","count":1},{"id":"GO:0035001","count":1},{"id":"GO:0071504","count":1}]},{"hash":"1087924044360753447","title":"Unknown","description":"The GO terms span mitosis, apoptosis, vesicle trafficking, development, and signaling with no clear shared function connecting the three proteins, and there are no edges among them. Thus no cohesive label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":1},{"id":"GO:0050830","count":1},{"id":"GO:0070059","count":1},{"id":"GO:0045143","count":1},{"id":"GO:0090114","count":1}]},{"hash":"2290694859452762657","title":"Developmental morphogenesis and signaling","description":"The top GO terms point to embryonic and organ development and morphogenesis (forebrain development, branching morphogenesis, genitalia development) and to signaling pathways (TGF-beta stimulus response, collagen receptor signaling, estrogen receptor signaling regulation). This suggests a cluster of proteins involved in developmental signaling and tissue patterning, rather than a single, tightly connected pathway. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0038063","count":1},{"id":"GO:0060670","count":1}]},{"hash":"1180530342955403605","title":"Meiotic DNA Replication and Recombination","description":"The GO terms are dominated by meiotic processes: premeiotic and mitotic DNA replication, reciprocal meiotic recombination, chiasma assembly, and heteroduplex formation, with telomere maintenance and pollen development pointing to meiosis in plants. This coherence suggests the cluster centers on meiosis-specific DNA replication and recombination functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902969","count":1},{"id":"GO:0034502","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0010833","count":1},{"id":"GO:0006279","count":1}]},{"hash":"513801027474826532","title":"Hair Keratinization and Hair Cycle","description":"The top GO terms are keratinization and hair cycle, both central to keratin-rich hair formation and cyclic follicle processes, suggesting the cluster is focused on structural, keratin-related components in hair biology.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":3},{"id":"GO:0042633","count":3}]},{"hash":"1765009787928806727","title":"Developmental differentiation and morphogenesis","description":"These GO terms point to tissue morphogenesis and cell fate specification across diverse lineages (digestive tract, hindgut, endoderm, retina, myoblasts, spermatids, prostate epithelium). The common theme is broad developmental differentiation and morphogenesis rather than a single biochemical pathway, so a general development/morphogenesis label is appropriate.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048546","count":3},{"id":"GO:0060221","count":3},{"id":"GO:0071504","count":3},{"id":"GO:0007289","count":3},{"id":"GO:0007493","count":3}]},{"hash":"1697621646164070759","title":"Ubiquitin-Dependent Protein Degradation","description":"Top terms indicate a central theme of ubiquitin tagging and proteasomal turnover (ERAD and general ubiquitination), with some unrelated pathways appearing as secondary annotations; overall the cluster appears to represent components of the ubiquitin-proteasome system.","confidence":"High","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:0009048","count":2},{"id":"GO:0039536","count":2},{"id":"GO:0030708","count":2}]},{"hash":"1821831206523962381","title":"Craniofacial and neural crest development","description":"These proteins are enriched for embryonic development terms, especially craniofacial morphogenesis (palate/roof of mouth, cranial skeleton) and neural crest formation, with accompanying transcriptional regulation by RNA polymerase II. While there are also terms tied to other organs (spinal cord, heart, pancreas), the strongest signal centers on craniofacial and neural crest developmental processes, suggesting a role in transcriptional control of these pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0014029","count":2},{"id":"GO:0061312","count":2}]},{"hash":"396261095883564165","title":"Embryonic organogenesis and tissue patterning","description":"GO terms indicate broad embryonic development across neural crest, spinal cord, craniofacial structures, pharyngeal system, palate, pancreas, and segmental identity. This cohesive theme suggests the proteins participate in early organogenesis and tissue specification rather than a single precise function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014029","count":2},{"id":"GO:0061312","count":2},{"id":"GO:0060929","count":2},{"id":"GO:0021516","count":2},{"id":"GO:0060037","count":2}]},{"hash":"1813890750168339081","title":"Neuronal axon guidance and synapse organization","description":"The GO terms cluster around nervous system development, axon pathfinding, and synaptic assembly, e.g., dopaminergic neuron axon guidance and regulation of PSD-95 clustering, plus stereocilium organization in sensory cells. While a couple terms touch non-neuronal processes, the strongest signals point to neuronal connectivity and synaptic organization.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055096","count":1},{"id":"GO:0072307","count":1},{"id":"GO:0048023","count":1},{"id":"GO:0007626","count":1},{"id":"GO:1904938","count":1}]},{"hash":"932388195456541826","title":"Embryonic and Tissue Development","description":"This cluster's GO terms cluster around developmental processes across multiple tissues: EMT in endocardial cushion formation, left-right patterning, trophoblast differentiation, skeletal muscle development, and endocrine system development. A circadian rhythm term and a ubiquitination regulation term appear less central but do not override the overall developmental theme. The most representative interpretation is that these proteins participate in embryonic development and tissue differentiation, hence \"Embryonic and Tissue Development\".","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":1},{"id":"GO:0042748","count":1},{"id":"GO:0048741","count":1},{"id":"GO:0035270","count":1},{"id":"GO:1900477","count":1}]},{"hash":"492998355812839806","title":"Immune cell chemotaxis and antiviral defense","description":"The top GO terms point to immune-related functions: defense response to virus, monocyte chemotaxis, and B cell chemotaxis, plus immune complex clearance by monocytes/macrophages. While a few terms (nitrate assimilation, collagen biosynthesis) are less aligned, the dominant signal centers on leukocyte movement and antiviral defense, suggesting these proteins cluster around immune signaling and recruitment. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:2000538","count":1},{"id":"GO:0051607","count":1},{"id":"GO:0009636","count":1},{"id":"GO:2001264","count":1}]},{"hash":"694492651974700143","title":"Diverse biosynthesis pathways","description":"These proteins show multiple biosynthetic annotations (estrogen biosynthesis, tetrahydrobiopterin biosynthesis, very long-chain fatty acid biosynthesis, melanin biosynthesis, retinal metabolism, tropane alkaloid biosynthetic process, poly-hydroxybutyrate biosynthesis), suggesting a shared theme of synthesizing diverse compounds. While a few terms relate to development or responses, the predominant signal is biosynthetic activity, justifying the label. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031427","count":1},{"id":"GO:0006703","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0030324","count":1},{"id":"GO:0042574","count":1}]},{"hash":"689749255578489154","title":"Plastid carbohydrate metabolism","description":"This cluster is driven by GO terms pointing to chloroplast organization and core carbon metabolism, including glycolysis, gluconeogenesis, and the pentose phosphate pathway, as well as glycerol catabolism and transport. The presence of chloroplast-related terms suggests plastid-associated carbon processing and energy pathways, with a minor signal of cold/stress response.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030242","count":1},{"id":"GO:0050826","count":1},{"id":"GO:0006810","count":1},{"id":"GO:0046166","count":1},{"id":"GO:0019563","count":1}]},{"hash":"1831301309536762395","title":"Sterol and lipid biosynthesis","description":"The GO terms show a clear tilt toward sterol and lipid metabolism, including ergosterol and cholesterol biosynthetic processes, ether lipid metabolic process, and sterol oxidation steps. This suggests the proteins in the cluster participate in sterol/lipid biosynthesis and modification. A couple of terms (B cell chemotaxis, sebaceous gland differentiation, CNS myelin maintenance) appear as noise with low support, but the dominant theme is sterol and lipid metabolism.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0080064","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0046485","count":1}]},{"hash":"51220986223715515","title":"Ubiquitination and Deubiquitination","description":"The GO terms show a clear focus on ubiquitin-related post-translational modification, with explicit mentions of protein ubiquitination and K33-linked deubiquitination, plus a general post-translational modification term. Some other terms (morphogenesis, S-layer organization, obsolete glycosylation, and DDR-related terms) appear less related or outdated, suggesting noise in this small cluster. Overall, the core theme is ubiquitin signaling and post-translational modification.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043687","count":1},{"id":"GO:0043686","count":1},{"id":"GO:0006516","count":1},{"id":"GO:0045232","count":1},{"id":"GO:0018279","count":1}]},{"hash":"578742581682249569","title":"Auditory system development and response","description":"The top GO terms are dominated by auditory-related processes: response to auditory stimulus and inner ear receptor cell development, pointing to inner-ear hair cell biology. While other terms describe general cellular processes (endocytosis, Golgi-ER transport, metal ion transport, gradient maintenance), the presence of inner ear development and auditory response terms gives a coherent theme around auditory biology for this cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010996","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0060119","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0033574","count":2}]},{"hash":"1672186896784439656","title":"Triglyceride and phospholipid catabolism","description":"The GO terms indicate a cohesive lipid catabolic theme, with multiple entries for triglyceride breakdown, triglyceride mobilization, and catabolism of phospholipids (phosphatidylcholine and phosphatidylethanolamine), suggesting these proteins participate in lipid mobilization and degradation; a few terms related to metabolic regulation appear as secondary modifiers but do not override the core lipid-catabolic signal.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":2},{"id":"GO:0010898","count":2},{"id":"GO:2000480","count":2},{"id":"GO:0034638","count":2},{"id":"GO:0046338","count":2}]},{"hash":"244404158055769626","title":"Unknown","description":"The top GO terms are highly diverse: CNS myelin maintenance, sebaceous gland differentiation, fungal lipid biosynthesis (ergosterol, sphingolipid), nitrate assimilation, and mitochondrial inheritance, among others. With no clear shared function or pathway across the three proteins and no edges connecting them, there is no coherent theme to link the proteins into a meaningful label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0032443","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0006636","count":3}]},{"hash":"2204594102157307792","title":"Ubiquitin-Proteasome System Regulation","description":"Top terms center on COP9 signalosome assembly, deneddylation, deubiquitination, and proteasome-mediated protein degradation, all core components of ubiquitin-proteasome\u2013driven proteostasis. The remaining terms\u2014related to translation initiation, spliceosome dynamics, mitochondrial fission, and germ-line cyst encapsulation\u2014are less directly tied but may reflect broader cellular remodeling contexts. Overall, the cluster most plausibly represents ubiquitin-proteasome\u2013regulated protein turnover and proteostasis control.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010387","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0000338","count":1},{"id":"GO:0000393","count":1},{"id":"GO:1903894","count":1}]},{"hash":"1525148445416076627","title":"Developmental Morphogenesis Across Tissues","description":"The top GO terms cluster around morphogenesis and developmental processes across multiple tissues (palatal shelf morphogenesis, prostate epithelium morphogenesis, dendritic spine morphogenesis, tracheal/growth processes, muscle activation and neuromuscular junction remodeling, and related developmental regulation). There isn\u2019t a single coherent pathway or organ-specific function, but a broad theme of tissue morphogenesis and developmental regulation, justifying a tissue-spanning morphogenesis label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0014719","count":3},{"id":"GO:0035001","count":3},{"id":"GO:0033690","count":3},{"id":"GO:0032369","count":3},{"id":"GO:0014814","count":3}]},{"hash":"118562083173237482","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097171","count":3},{"id":"GO:0009699","count":3},{"id":"GO:0080110","count":3},{"id":"GO:0006012","count":3},{"id":"GO:0042351","count":3}]},{"hash":"2300567454386424761","title":"Unknown","description":"These proteins show GO terms spanning nutrient response, nitrate catabolism, nitrosative stress, toxic substance response, hormone signaling, iron starvation, a post-translational modification (peptidyl-lysine acetylation), and developmental signaling. The terms do not converge on a single cohesive function or pathway, suggesting no unified role for the cluster.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0043602","count":2},{"id":"GO:0071500","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0071375","count":2}]},{"hash":"940703360137690569","title":"Embryonic development and tissue morphogenesis","description":"These proteins cluster around developmental and morphogenesis processes across tissues, including gonad development, nephron tubule differentiation, neural differentiation (midbrain dopaminergic neurons, Purkinje cells), and cell adhesion/junction organization. The common theme is broad tissue development and structural organization rather than a single pathway, though plant seed morphogenesis appears as an outlier. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":3},{"id":"GO:1900025","count":2},{"id":"GO:2000346","count":2},{"id":"GO:1904948","count":2},{"id":"GO:0048317","count":2}]},{"hash":"1505475307702317036","title":"Unknown","description":"The top terms are scattered across neural development (midbrain dopaminergic neuron differentiation, dendritic spine morphogenesis) and various non-neural developmental processes (vasculogenesis, hair follicle placode formation, oviduct development), plus endosome-lysosome transport and cell cycle regulation, with no clear shared function or connectivity among the three proteins. This broad and diverse set provides no cohesive theme for a specific label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904948","count":1},{"id":"GO:0051561","count":1},{"id":"GO:0008333","count":1},{"id":"GO:0022009","count":1},{"id":"GO:0007050","count":1}]},{"hash":"393478693287245605","title":"Unknown","description":"The GO terms show a scattered mix of neuronal signaling, immune cell chemotaxis, endothelial migration, and general protein localization, with no clear single function tying the proteins together. Given the lack of a cohesive theme for this small cluster, a confident, specific label isn\u2019t supported.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901387","count":2},{"id":"GO:0051290","count":2},{"id":"GO:0043163","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0043542","count":2}]},{"hash":"517764143539762314","title":"Immune and vascular signaling","description":"This cluster\u2019s GO terms point to a range of signaling roles (GPCR signaling, small GTPase pathways, TORC2 signaling, insulin receptor signaling) and regulatory processes (JNK cascade modulation). Immune/hematopoietic functions (B cell homeostasis, platelet activation) and vascular development are also represented, suggesting a general involvement in immune and vascular signaling contexts rather than a single precise pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030845","count":3},{"id":"GO:0050821","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0046329","count":3},{"id":"GO:0007264","count":3}]},{"hash":"1983793229619277820","title":"B cell\u2013mediated antigen presentation and phagocytosis","description":"The cluster is dominated by GO terms for antigen processing and presentation via MHC II and MHC Ib, together with B cell receptor signaling and phagocytosis, plus related defense responses to bacteria. This points to a cohesive role in adaptive immune antigen presentation by B cells and associated phagocytic/inflammatory processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0019886","count":2},{"id":"GO:0050830","count":1},{"id":"GO:0003254","count":1}]},{"hash":"160546417848259818","title":"Aminoacyl-tRNA synthetases","description":"Most represented GO terms are methionyl-, leucyl-, and cysteinyl-tRNA aminoacylation, which are catalyzed by aminoacyl-tRNA synthetases. This points to proteins involved in charging tRNAs for protein synthesis, a core translation function. Other terms (e.g., mycothiol biosynthesis, miscellaneous metabolism) appear as minor annotations and do not define the cluster\u2019s primary theme. High","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":2},{"id":"GO:0006431","count":2},{"id":"GO:0006429","count":2},{"id":"GO:0006423","count":2},{"id":"GO:0009311","count":1}]},{"hash":"328122691919112372","title":"Developmental EMT and Differentiation","description":"Proteins in this cluster are linked to neural crest development, cardiac epithelial-to-mesenchymal transitions, epithelial-to-mesenchymal transition regulation, endothelial proliferation, and smooth muscle differentiation, all pointing to EMT-driven tissue morphogenesis and lineage differentiation during development. While some GO terms refer to general transcription (RNA Pol II/III) and DNA transposition, the dominant shared theme is developmental EMT and differentiation programs.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006384","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0001935","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0014032","count":1}]},{"hash":"1315011537115404722","title":"Glycosylation and glycosphingolipid metabolism","description":"The GO terms are dominated by protein O-linked glycosylation, glycosphingolipid/glycosylceramide metabolism, and related carbohydrate processing terms, plus protein sialylation, indicating a cluster of proteins involved in glycan modification and lipid glycosylation pathways. A single term about negative regulation of JNK cascade is an outlier and does not define the cluster. Overall, the proteins appear connected by glycosylation-related functions.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0006688","count":1},{"id":"GO:0030259","count":1}]},{"hash":"1893970038420869882","title":"Redox regulation and oxidative stress response","description":"The proteins cluster around cellular responses to oxidative stress, redox homeostasis, and deglutathionylation, indicating a shared role in managing redox state. Additional terms about transcriptional regulation by RNA polymerase II and a viral process suggest broader regulatory connections, but the core theme remains redox control and oxidative stress response.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":2},{"id":"GO:0006662","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0033158","count":2},{"id":"GO:0016032","count":2}]},{"hash":"2262482448819627209","title":"Neural signaling and sensory processing","description":"This cluster includes GO terms for GABAergic signaling, dopamine metabolism, morphine response, olfactory learning, taste perception, electrical stimulus response, calcium transport, and intracellular signaling, all pointing to neuronal communication and broad sensory processing roles.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":1},{"id":"GO:0018964","count":1},{"id":"GO:0043576","count":1},{"id":"GO:0035556","count":1},{"id":"GO:0006816","count":1}]},{"hash":"147000225374755249","title":"Unknown","description":"The GO terms are diverse and do not converge on a single shared function: while some terms point to ER-to-Golgi and endosome-to-Golgi transport, many others relate to separate metabolic and biosynthetic processes (cadmium response, NAD+/polyamine biosynthesis, lipoprotein/NAD biosynthesis, oxaloacetate metabolism), giving no coherent theme for a functional cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0046686","count":1},{"id":"GO:0006596","count":1}]}]